Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 162 of 410
Found at i:49496346 original size:46 final size:46
Alignment explanation
Indices: 49496293--49496468 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
49496283 TATTTGGGCA
49496293 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
49496339 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
49496386 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
49496432 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49496469 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:49496448 original size:93 final size:93
Alignment explanation
Indices: 49496289--49496460 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
49496279 GGGATATTTG
* *
49496289 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49496354 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
49496382 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49496447 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
49496461 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:49498850 original size:40 final size:41
Alignment explanation
Indices: 49498765--49498915 Score: 152
Period size: 40 Copynumber: 3.8 Consensus size: 41
49498755 AATTGAATGA
* * * *
49498765 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTGAGACA-TAC
* * *
49498805 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCT-GAGACATAC
*
49498846 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTG-TGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCTGAGACATAC
*
49498885 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
49498916 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 6 0.07
40 79 0.86
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCTGAGACATAC
Found at i:49498929 original size:40 final size:39
Alignment explanation
Indices: 49498802--49498931 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
49498792 ATGCTGGAAA
* *
49498802 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AGTGG
* * ***
49498842 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGTG-AGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATT--TGTGCAGTGG
*
49498882 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-GTGG
49498922 TTATATCCGG
1 TTATATCCGG
49498932 TTATATTCCG
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 4 0.06
39 1 0.01
40 63 0.88
42 4 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAGTGG
Found at i:49498930 original size:80 final size:80
Alignment explanation
Indices: 49498764--49498931 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
49498754 AAATTGAATG
* *
49498764 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
49498829 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
49498844 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTG-TGAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
49498907 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
49498924 ATATCCGG
1 ATATCCGG
49498932 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 6 0.08
80 69 0.92
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:49503955 original size:16 final size:16
Alignment explanation
Indices: 49503936--49503966 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49503926 CTTCTTCACT
49503936 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
49503952 TACTTACTTACTTAA
1 TACTCACTTACTTAA
49503967 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:49503972 original size:20 final size:20
Alignment explanation
Indices: 49503933--49503972 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
49503923 AAACTTCTTC
* *
49503933 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
49503953 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
49503973 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:49504347 original size:54 final size:53
Alignment explanation
Indices: 49504205--49504410 Score: 211
Period size: 54 Copynumber: 3.8 Consensus size: 53
49504195 ATCCTTTTGA
* * *
49504205 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
49504258 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
** *** *
49504312 TAACT-TTCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-A
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
49504364 AACCTTACCAATTGCCATGCCTTGACATGGTCTTCCATGGTATCCTT
1 AA-CTCACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
49504411 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
51 2 0.02
52 4 0.03
53 47 0.37
54 68 0.54
55 6 0.05
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:49511524 original size:16 final size:16
Alignment explanation
Indices: 49511505--49511535 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49511495 CTTCTTCACT
49511505 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
49511521 TACTTACTTACTTAA
1 TACTCACTTACTTAA
49511536 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:49511541 original size:20 final size:20
Alignment explanation
Indices: 49511502--49511541 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
49511492 AAACTTCTTC
* *
49511502 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
49511522 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
49511542 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:49511917 original size:55 final size:53
Alignment explanation
Indices: 49511774--49511979 Score: 198
Period size: 55 Copynumber: 3.8 Consensus size: 53
49511764 ATCCTTTTGA
* * * *
49511774 AACTTACCATTGCTATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
49511827 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
*** *** **
49511881 TAACTTTTCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAAA
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
49511935 AACCTTACCAATTGCCATGCCTTGACATGGTCTTCCATGGTATCC
1 AA-CTCACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCC
49511980 ATAAACCCTA
Statistics
Matches: 125, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 45 0.36
54 7 0.06
55 69 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:49517885 original size:48 final size:48
Alignment explanation
Indices: 49517827--49517959 Score: 142
Period size: 48 Copynumber: 2.8 Consensus size: 48
49517817 GTGTGAATTA
* * *
49517827 TACCTTGATTTAGCTTTGGGCCATGGTATATGTA-TTTCGAAGATGAGT
1 TACCTTGATTTGGCTTTGGGCCATGGTATAGGTACTTT-GAAGATAAGT
*** * **
49517875 TACCTTGATTTGGCTACAGACCATGGTATAGGTACTTTGGGGATAAGT
1 TACCTTGATTTGGCTTTGGGCCATGGTATAGGTACTTTGAAGATAAGT
* * *
49517923 TACCTTGATTTGGCTTTGAGACATGGTATAAGTACTT
1 TACCTTGATTTGGCTTTGGGCCATGGTATAGGTACTT
49517960 ATCGATTGAG
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
48 65 0.96
49 3 0.04
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.38
Consensus pattern (48 bp):
TACCTTGATTTGGCTTTGGGCCATGGTATAGGTACTTTGAAGATAAGT
Found at i:49522198 original size:40 final size:40
Alignment explanation
Indices: 49522118--49522335 Score: 354
Period size: 40 Copynumber: 5.5 Consensus size: 40
49522108 TATTCATGAC
*
49522118 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
49522157 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
49522197 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
49522237 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
49522277 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
49522317 ATCC-GGCTAAAT-CCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
49522336 TACTTGGGTT
Statistics
Matches: 171, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
38 7 0.04
39 30 0.18
40 132 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:49530635 original size:40 final size:40
Alignment explanation
Indices: 49530555--49530773 Score: 300
Period size: 40 Copynumber: 5.5 Consensus size: 40
49530545 TTCGGATGAC
* *
49530555 ATCCGGGCTAAGTCCCGAAGTCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
49530594 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
49530634 ATCCGGGCTAAGTCCCGAAGGCATTTCTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* * *
49530674 ATCCGAGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTAC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
49530714 ATCCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
* *
49530754 ATCC-GGCTAAATCCTGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
49530774 TACTTGGGTT
Statistics
Matches: 161, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
39 36 0.22
40 123 0.76
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:49532369 original size:31 final size:30
Alignment explanation
Indices: 49532310--49532374 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
49532300 GGAACGAGCA
49532310 CAATGAGCTAAAGTTGAGCCAAATCAAGCT
1 CAATGAGCTAAAGTTGAGCCAAATCAAGCT
**
49532340 CAATGAGCTTAAA-TTCGAGCTGAATCAAGCT
1 CAATGAGC-TAAAGTT-GAGCCAAATCAAGCT
49532371 CAAT
1 CAAT
49532375 AGGCTAGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 10 0.32
31 21 0.68
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (30 bp):
CAATGAGCTAAAGTTGAGCCAAATCAAGCT
Found at i:49535396 original size:6 final size:6
Alignment explanation
Indices: 49535385--49535571 Score: 163
Period size: 6 Copynumber: 30.8 Consensus size: 6
49535375 AACCAAAATG
*
49535385 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
49535433 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
49535482 AGAATC AGTAA-C AGAATC AGAATC AGAATT AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
49535530 AGAATT AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
49535572 GTGAATGCAA
Statistics
Matches: 149, Mismatches: 16, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
5 11 0.07
6 125 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:49535400 original size:30 final size:30
Alignment explanation
Indices: 49535364--49535571 Score: 218
Period size: 30 Copynumber: 7.1 Consensus size: 30
49535354 AAGAAACATT
* *
49535364 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
49535394 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
49535424 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
49535454 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
49535485 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* * * *
49535509 ATTAGTATTAGTAACAGAATCAGAATTAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
49535539 ATCAGAATTACGTG-ACAGAATCAGAATCAGA
1 ATCAGAATTA-G-GAACAGAATCAGAATCAGA
49535570 AT
1 AT
49535572 GTGAATGCAA
Statistics
Matches: 152, Mismatches: 14, Indels: 23
0.80 0.07 0.12
Matches are distributed among these distances:
24 21 0.14
27 1 0.01
28 1 0.01
29 1 0.01
30 83 0.55
31 45 0.30
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:49535485 original size:85 final size:85
Alignment explanation
Indices: 49535385--49535571 Score: 338
Period size: 85 Copynumber: 2.2 Consensus size: 85
49535375 AACCAAAATG
49535385 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
49535450 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTGAC
* *
49535470 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATTAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
49535535 TAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
49535555 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
49535572 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:49535726 original size:27 final size:26
Alignment explanation
Indices: 49535689--49535754 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
49535679 AGCATGACTG
*
49535689 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
49535715 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
49535742 CCAGAATCAGATA
1 CCAGAA-CAGATA
49535755 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:49535759 original size:27 final size:27
Alignment explanation
Indices: 49535689--49535762 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
49535679 AGCATGACTG
* *
49535689 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
49535715 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
49535742 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
49535763 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:49535769 original size:27 final size:27
Alignment explanation
Indices: 49535713--49535770 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
49535703 GTGACAGAGT
* * *
49535713 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
49535740 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
49535767 CACC
1 CACC
49535771 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:49536152 original size:27 final size:26
Alignment explanation
Indices: 49536073--49536155 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
49536063 TCGATCGGTC
* * *
49536073 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
49536099 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
49536126 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
49536153 AAC
1 AAC
49536156 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:49536410 original size:27 final size:27
Alignment explanation
Indices: 49536354--49536548 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
49536344 GGGGCAAAAT
* * *
49536354 GGTAATTTTACCC-ACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
49536380 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49536407 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49536434 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
49536461 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49536488 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49536515 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
49536542 AGTAATT
1 GGTAATT
49536549 TCACAATCAA
Statistics
Matches: 146, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 12 0.08
27 134 0.92
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:49536542 original size:54 final size:54
Alignment explanation
Indices: 49536353--49536548 Score: 270
Period size: 54 Copynumber: 3.6 Consensus size: 54
49536343 AGGGGCAAAA
* * *
49536353 TGGTAATTTTACCC-ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTT
*
49536406 TGGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTT
* * *
49536460 TGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTT
** * *
49536514 CAGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATT
49536549 TCACAATCAA
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
53 13 0.10
54 113 0.89
55 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTT
Found at i:49536590 original size:27 final size:27
Alignment explanation
Indices: 49536558--49536879 Score: 410
Period size: 27 Copynumber: 11.9 Consensus size: 27
49536548 TTCACAATCA
49536558 AGGGTAAAACGGTAATTCTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* * *
49536585 AGGGTAAAACGATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* * *
49536612 AGGGTAAACCAGTAATTCTGTAAATTA
1 AGGGTAAAACGGTAATTCTGTAAATTG
* **
49536639 AGGGTAAAACGGTAATTTTACAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
49536666 AGGGTAAAACGGTAATTCTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* *
49536693 AGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* *
49536720 AAGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATTG
** *
49536747 AGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* *
49536774 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* * ** *
49536801 AGGGTAAAACAGTAATTTTAAAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATTG
* *
49536828 AGAGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATTG
*
49536855 AGGGTAAAACGATAATTCTGTAAAT
1 AGGGTAAAACGGTAATTCTGTAAAT
49536880 CGGGAGTACT
Statistics
Matches: 251, Mismatches: 44, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 251 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATTG
Found at i:49538432 original size:13 final size:14
Alignment explanation
Indices: 49538411--49538439 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
49538401 AAAAATTTTA
49538411 TTTATTATATATAT
1 TTTATTATATATAT
49538425 TTTA-TATATATAT
1 TTTATTATATATAT
49538438 TT
1 TT
49538440 GAATTTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTATTATATATAT
Found at i:49543565 original size:53 final size:53
Alignment explanation
Indices: 49543507--49543612 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
49543497 ATATAATGAG
49543507 AAAGAATTTTAACATGAGAAAGATAATAACTATTCTAGATATAACATTTGTAT
1 AAAGAATTTTAACATGAGAAAGATAATAACTATTCTAGATATAACATTTGTAT
49543560 AAAGAATTTTAACATGAGAAAGATAATAACTATTCTAGATATAACATTTGTAT
1 AAAGAATTTTAACATGAGAAAGATAATAACTATTCTAGATATAACATTTGTAT
49543613 GATAAAAATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (53 bp):
AAAGAATTTTAACATGAGAAAGATAATAACTATTCTAGATATAACATTTGTAT
Found at i:49550746 original size:22 final size:22
Alignment explanation
Indices: 49550721--49550766 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
49550711 GAAGCTCAGA
49550721 AAGTCGACGACGAGTTGGCTGC
1 AAGTCGACGACGAGTTGGCTGC
49550743 AAGTCGACGACGAGTTGGCTGC
1 AAGTCGACGACGAGTTGGCTGC
49550765 AA
1 AA
49550767 AACGGGCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.22, G:0.35, T:0.17
Consensus pattern (22 bp):
AAGTCGACGACGAGTTGGCTGC
Found at i:49552803 original size:139 final size:141
Alignment explanation
Indices: 49552602--49552892 Score: 520
Period size: 139 Copynumber: 2.1 Consensus size: 141
49552592 GGTGAGTTAA
*
49552602 ATTCGG-CATGCATGTTGTTTTCCTTGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 ATTCGGCCATGCATGTTGTCTTCCTTGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
49552666 GAGTGAGTTCGAATGTTTAAC-AAAA-GAAATTTTGT-CCATTGAGTTCTTGTTGTTATGTGT-T
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTT-TTATGTGTGT
49552727 GTGTGCATGAGT
130 GTGTGCATGAGT
49552739 ATTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
1 ATTCGGCCATGCATGTTGTCTTCCTT-GTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
49552804 TGAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTTTATGTGTGT
65 TGAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTTTATGTGTGT
49552869 GTGTGCATGAGT
130 GTGTGCATGAGT
49552881 ATTCGGCCATGC
1 ATTCGGCCATGC
49552893 TATAGAATTT
Statistics
Matches: 147, Mismatches: 1, Indels: 7
0.95 0.01 0.05
Matches are distributed among these distances:
137 6 0.04
138 18 0.12
139 60 0.41
140 4 0.03
141 18 0.12
142 41 0.28
ACGTcount: A:0.22, C:0.10, G:0.28, T:0.40
Consensus pattern (141 bp):
ATTCGGCCATGCATGTTGTCTTCCTTGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTTTATGTGTGTG
TGTGCATGAGT
Found at i:49553562 original size:29 final size:29
Alignment explanation
Indices: 49553529--49553611 Score: 148
Period size: 29 Copynumber: 2.9 Consensus size: 29
49553519 GTGACGAGAT
49553529 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
49553558 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
49553587 AGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
49553612 ATACACTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49553618 original size:25 final size:27
Alignment explanation
Indices: 49553531--49553636 Score: 126
Period size: 29 Copynumber: 3.9 Consensus size: 27
49553521 GACGAGATTG
*
49553531 GCACTAAGTGTGCGTGCTGGAAATATA
1 GCACTAAGTGTGCATGCTGGAAATATA
*
49553558 TGGCACTAAGTGTGCGTGCTGGAAATATAA
1 --GCACTAAGTGTGCATGCTGGAAATAT-A
49553588 GGCACTAAGTGTGCATGCTGGAAA-ATA
1 -GCACTAAGTGTGCATGCTGGAAATATA
* *
49553615 -CACTATGTGTGCAAGCTGGAAA
1 GCACTAAGTGTGCATGCTGGAAA
49553637 ATACGGCACT
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
25 20 0.27
27 1 0.01
28 2 0.03
29 49 0.67
30 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (27 bp):
GCACTAAGTGTGCATGCTGGAAATATA
Found at i:49556833 original size:10 final size:10
Alignment explanation
Indices: 49556818--49556843 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
49556808 TCCTTGTGTT
49556818 CATATAAGTC
1 CATATAAGTC
49556828 CATATAAGTC
1 CATATAAGTC
49556838 CATATA
1 CATATA
49556844 TTTCATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (10 bp):
CATATAAGTC
Found at i:49557496 original size:15 final size:16
Alignment explanation
Indices: 49557461--49557498 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
49557451 AAAATTAAAG
49557461 CATAA-AAATTTCACA
1 CATAATAAATTTCACA
49557476 CA-AATAAA-TTCACA
1 CATAATAAATTTCACA
49557490 CATAATAAA
1 CATAATAAA
49557499 CATTCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (16 bp):
CATAATAAATTTCACA
Found at i:49558319 original size:10 final size:10
Alignment explanation
Indices: 49558304--49558328 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
49558294 AGGGTTTAAA
49558304 TAAATGTAAC
1 TAAATGTAAC
49558314 TAAATGTAAC
1 TAAATGTAAC
49558324 TAAAT
1 TAAAT
49558329 ACAATTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (10 bp):
TAAATGTAAC
Found at i:49566684 original size:42 final size:41
Alignment explanation
Indices: 49566557--49566684 Score: 157
Period size: 42 Copynumber: 3.0 Consensus size: 41
49566547 CTCATAGCAC
* * *
49566557 CATACCAATGCCATATCCCAGATATGGTCTTACATGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAATCT
* * * * *
49566598 CATATCGATGCCAATAGCCTAGCTATGGTCTTACACAAAGTCT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACACGAA-TCT
49566641 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACG-AATCT
49566683 CA
1 CA
49566685 CAAAACCCTA
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
41 10 0.14
42 45 0.63
43 16 0.23
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (41 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGAATCT
Found at i:49571764 original size:48 final size:48
Alignment explanation
Indices: 49571708--49571840 Score: 203
Period size: 48 Copynumber: 2.8 Consensus size: 48
49571698 CTCAATCAAT
*
49571708 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTTATCCCCG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCCG
* * * *
49571756 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCCG
* *
49571804 AAATACCTATACCATGGCTCGAAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTA
49571841 TAATTCACAC
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCCG
Found at i:49575599 original size:27 final size:26
Alignment explanation
Indices: 49575555--49575606 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49575545 CTCGCTGCAA
*
49575555 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
49575582 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
49575607 GCAGCTCGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:49583114 original size:2 final size:2
Alignment explanation
Indices: 49583107--49583150 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
49583097 GCTTTGCCAC
49583107 AT AT AT AT AT AT 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
49583149 AT
1 AT
49583151 CTATTCTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49585895 original size:40 final size:38
Alignment explanation
Indices: 49585807--49585987 Score: 143
Period size: 40 Copynumber: 4.6 Consensus size: 38
49585797 AAATTGAATG
* * * *
49585807 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT-T
1 ATATCCGGGCTAAGACCCGAAGGCAA-T-TG-TGCAAGTGT
* * *
49585847 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-G-T
*
49585887 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGT-T
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGT
* * *
49585924 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-GT
* * *
49585963 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
49585988 CTTGGTGCGG
Statistics
Matches: 115, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
37 34 0.30
38 4 0.03
39 5 0.04
40 72 0.63
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGT
Found at i:49585968 original size:77 final size:77
Alignment explanation
Indices: 49585851--49585996 Score: 186
Period size: 77 Copynumber: 1.9 Consensus size: 77
49585841 GAAATTATAA
* * * *
49585851 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
49585916 TGCGAGTTTTAT
66 TGCGAGTTTTAT
* * * * * *
49585928 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ATATCCGGGCTAAGACCCGAAGGCATTC
49585992 GTGCG
65 GTGCG
49585997 GGTTACCATA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
76 1 0.02
77 57 0.98
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.24
Consensus pattern (77 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTTTTAT
Found at i:49594083 original size:40 final size:39
Alignment explanation
Indices: 49593918--49594101 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
49593908 AAATTGAATG
* * *
49593918 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
49593958 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
49593998 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
49594038 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
49594077 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
49594102 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:49594126 original size:80 final size:81
Alignment explanation
Indices: 49593958--49594146 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
49593948 GCTGGAAATT
* * * *
49593958 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
49594023 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
49594039 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
49594102 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
49594118 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
49594147 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:49603058 original size:28 final size:28
Alignment explanation
Indices: 49603026--49603124 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
49603016 GCAATAAGCC
*
49603026 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
49603054 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
49603082 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
49603111 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49603125 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:49608085 original size:15 final size:15
Alignment explanation
Indices: 49608065--49608095 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
49608055 CATTAACTTC
49608065 ATACATTACTCAAAT
1 ATACATTACTCAAAT
49608080 ATACATTACTCAAAT
1 ATACATTACTCAAAT
49608095 A
1 A
49608096 GACCCTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (15 bp):
ATACATTACTCAAAT
Found at i:49610419 original size:80 final size:80
Alignment explanation
Indices: 49610254--49610436 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 80
49610244 GCTGGAAATT
* * *
49610254 ATATCCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGGCTAGATCCGGGCTAAGTCCCGAGGACA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCTAAATCCGGGCTAAGACCCGAGGACA
* * *
49610318 TTTATGCTAGTAGTT
66 TTTATGCAAATAGTG
* * * *
49610333 AAATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGG-
1 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTGGCTAAATCCGGGCTAAGACCCG-AGGA
* *
49610396 CATTTGTGCAAATCGTG
64 CATTTATGCAAATAGTG
* *
49610413 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGTTAAGACCCGAAGGC
49610437 CTTGGTGCGG
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
79 16 0.19
80 66 0.78
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCTAAATCCGGGCTAAGACCCGAGGACA
TTTATGCAAATAGTG
Found at i:49610421 original size:40 final size:40
Alignment explanation
Indices: 49610256--49610406 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
49610246 TGGAAATTAT
* * * * * *
49610256 ATCCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGGCTAG
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
* * *
49610295 ATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAGTTAA
* *
49610335 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
49610375 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
49610407 ATCGTGATAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 14 0.15
40 79 0.82
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
Found at i:49612492 original size:44 final size:45
Alignment explanation
Indices: 49612385--49612496 Score: 156
Period size: 46 Copynumber: 2.5 Consensus size: 45
49612375 CGAGTGCTAT
49612385 TGTAAAACATGTCTGGGACATGCTTCGGCCTCGAGACGTAAGACAG
1 TGTAAAACATGTCTGGGACATGCTTCGGCCTCGAGACGT-AGACAG
* *
49612431 TGTAAAACATGTCTGGGACATGCTTCGGCCTCGAGAGGT-GTCAG
1 TGTAAAACATGTCTGGGACATGCTTCGGCCTCGAGACGTAGACAG
* *
49612475 TGTAAGACCAT-TTTGGGACATG
1 TGTAA-AACATGTCTGGGACATG
49612497 GCATCGACAC
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
44 19 0.31
45 4 0.07
46 38 0.62
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (45 bp):
TGTAAAACATGTCTGGGACATGCTTCGGCCTCGAGACGTAGACAG
Found at i:49615736 original size:40 final size:39
Alignment explanation
Indices: 49615687--49615894 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 39
49615677 TCTTCGGAAT
* *
49615687 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
49615726 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
49615766 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
49615806 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* * *
49615846 TTAGCCCGGATATAATC-ATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTC
49615886 TTAGCCCGG
1 TTAGCCCGG
49615895 GTATCATTCA
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.02
40 140 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:49623923 original size:80 final size:80
Alignment explanation
Indices: 49623839--49623987 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
49623829 TATGGTAACC
* * * *
49623839 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
49623903 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
49623919 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
49623984 CCGG
66 CCGG
49623988 TTATAATTTC
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:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:49623929 original size:40 final size:38
Alignment explanation
Indices: 49623880--49623987 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
49623870 ATCACGATTT
*
49623880 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
49623920 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
49623960 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
49623988 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:49630618 original size:39 final size:40
Alignment explanation
Indices: 49630518--49630700 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
49630508 TCGAATGATG
* * *
49630518 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
49630558 TCCGGACTAGGAT-CCGAAGGCATTCGTGCCAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
*
49630598 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
49630637 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
** *
49630678 -CCGGGCTTCGTCCCGAAAGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
49630701 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 33 0.28
40 75 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:49630682 original size:79 final size:81
Alignment explanation
Indices: 49630518--49630702 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
49630508 TCGAATGATG
* * *
49630518 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
49630582 CGTGCCAGTTAATAAA
66 CGTGCCAGTCAATAAA
* **
49630598 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
* *
49630660 TCGTGCGAGTCACTATAA
65 TCGTGCCAGTCAATA-AA
** *
49630678 -CCGGGCTTCGTCCCGAAAGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49630703 AGCGAGTCGT
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCCAGTCAATAAA
Found at i:49633754 original size:49 final size:49
Alignment explanation
Indices: 49633686--49633808 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
49633676 TACATATATG
*
49633686 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
49633735 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
49633784 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
49633809 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:49633954 original size:37 final size:37
Alignment explanation
Indices: 49633911--49633988 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
49633901 GTTCCGGGCG
49633911 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
49633948 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
49633985 AGAC
1 AGAC
49633989 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:49636067 original size:29 final size:29
Alignment explanation
Indices: 49636029--49636221 Score: 325
Period size: 29 Copynumber: 6.7 Consensus size: 29
49636019 TTCCATTAAC
49636029 CGAGGCACTATGTGTGCGAGATCAGTAAT
1 CGAGGCACTATGTGTGCGAGATCAGTAAT
49636058 CGAGGCACTATGTGTGCGAGATCAGTAAT
1 CGAGGCACTATGTGTGCGAGATCAGTAAT
*
49636087 CGAGGCACTGTGTGTGCGAGATCAGTAAT
1 CGAGGCACTATGTGTGCGAGATCAGTAAT
*
49636116 CGAGGCACTGTGTGTGCGAGATCAGTAAT
1 CGAGGCACTATGTGTGCGAGATCAGTAAT
49636145 CGAGGCACTATGTGTGCGA-ATCAGTAAT
1 CGAGGCACTATGTGTGCGAGATCAGTAAT
*
49636173 TGAGGCACTATGTGTGCGAGATCAGTAAT
1 CGAGGCACTATGTGTGCGAGATCAGTAAT
* * *
49636202 TGAGGCACTGTGTGTACGAG
1 CGAGGCACTATGTGTGCGAG
49636222 TTTTTCAACA
Statistics
Matches: 158, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
28 27 0.17
29 131 0.83
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
CGAGGCACTATGTGTGCGAGATCAGTAAT
Found at i:49636207 original size:115 final size:117
Alignment explanation
Indices: 49636000--49636221 Score: 360
Period size: 115 Copynumber: 1.9 Consensus size: 117
49635990 CGAATGATTA
*
49636000 GAGGCACTGTGTGTGCAAATTCCATTAACCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCA
1 GAGGCACTGTGTGTGCAAATTCCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCA
*
49636065 CTATGTGTGCGAGATCAGTAATCGAGGCACTGTGTGTGCGAGATCAGTAATC
66 CTATGTGTGCGAGATCAGTAATCGAGGCACTGTGTGTACGAGATCAGTAATC
* * *
49636117 GAGGCACTGTGTGTGCGAGA-T-CAGTAATCGAGGCACTATGTGTGCGA-ATCAGTAATTGAGGC
1 GAGGCACTGTGTGTGC-AAATTCCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGC
*
49636179 ACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTACGAG
65 ACTATGTGTGCGAGATCAGTAATCGAGGCACTGTGTGTACGAG
49636222 TTTTTCAACA
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
115 55 0.56
116 24 0.24
117 17 0.17
118 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (117 bp):
GAGGCACTGTGTGTGCAAATTCCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCA
CTATGTGTGCGAGATCAGTAATCGAGGCACTGTGTGTACGAGATCAGTAATC
Found at i:49636803 original size:40 final size:41
Alignment explanation
Indices: 49636705--49636803 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
49636695 TTCGAATGGT
* ** * *
49636705 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
49636746 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGC-AAATCACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCTAAATCACTA-A
49636787 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
49636804 GAACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 20 0.40
41 27 0.54
42 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.24
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
Found at i:49639973 original size:49 final size:49
Alignment explanation
Indices: 49639905--49640027 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
49639895 TACATATATG
*
49639905 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
49639954 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
49640003 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
49640028 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:49640173 original size:37 final size:37
Alignment explanation
Indices: 49640130--49640207 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
49640120 GTTCCGGGCG
49640130 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
49640167 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
49640204 AGAC
1 AGAC
49640208 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:49648968 original size:40 final size:38
Alignment explanation
Indices: 49648890--49649035 Score: 132
Period size: 40 Copynumber: 3.7 Consensus size: 38
49648880 ATGATGTCCG
* * * * *
49648890 GGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACTATATCC
1 GGCTAAGTCCGAAGGCATTCGTGC-GAGTTAATAAATCC
*
49648928 GGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAAATCC
1 GG-CTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCC
* * * * *
49648968 GGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCC
1 GGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCC
*
49649006 GGGTTAAGTCCCGAAGGCATTCGTGCGAGT
1 -GGCTAAGT-CCGAAGGCATTCGTGCGAGT
49649036 CACTATAACC
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
38 28 0.32
39 14 0.16
40 39 0.45
41 6 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (38 bp):
GGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCC
Found at i:49649020 original size:78 final size:78
Alignment explanation
Indices: 49648890--49649035 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 78
49648880 ATGATGTCCG
* * * *
49648890 GGCTAAGTCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTCGTGCG
1 GGCTAAGCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGTGCG
49648955 AGTTAATAAATCC
66 AGTTAATAAATCC
* **
49648968 GGCTAAGCCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTCGTG
1 GGCTAAGCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTCGTG
49649031 CGAGT
64 CGAGT
49649036 CACTATAACC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
77 1 0.02
78 51 0.86
79 7 0.12
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
GGCTAAGCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGTGCG
AGTTAATAAATCC
Found at i:49649048 original size:40 final size:40
Alignment explanation
Indices: 49648938--49649066 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
49648928 GGACTAGGAT
* * *
49648938 CCGAAGGCATTCGTGCGAGTTAATAAATCC-GGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
49648976 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
49649016 CCGAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTT-CGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGG-TTAAGTC
49649056 CCGAAGGCATT
1 CCGAAGGCATT
49649067 TGAGTGAGTC
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
38 26 0.33
39 6 0.08
40 42 0.54
41 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:49664253 original size:19 final size:19
Alignment explanation
Indices: 49664202--49664253 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
49664192 TTCCATAATA
49664202 TTCATA-ACATTTGTTCAT
1 TTCATATACATTTGTTCAT
* * * * *
49664220 ATCAAATATACTTGTTTAT
1 TTCATATACATTTGTTCAT
49664239 TTCATATACATTTGT
1 TTCATATACATTTGT
49664254 CCTTTGCATC
Statistics
Matches: 24, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.50
Consensus pattern (19 bp):
TTCATATACATTTGTTCAT
Found at i:49665845 original size:546 final size:546
Alignment explanation
Indices: 49664813--49665909 Score: 2185
Period size: 546 Copynumber: 2.0 Consensus size: 546
49664803 CAACTTTCGT
49664813 TTTTCCCCAATCCAAATCTGATTTCTTTGGTTCTTGATCTAAACATATTCAAATTAAGCTCATTC
1 TTTTCCCCAATCCAAATCTGATTTCTTTGGTTCTTGATCTAAACATATTCAAATTAAGCTCATTC
49664878 AAACATATTTTCATCCAATTTAGTCCAAAAACACATAAATGGGCAAATTACCATTTTACCCCTGA
66 AAACATATTTTCATCCAATTTAGTCCAAAAACACATAAATGGGCAAATTACCATTTTACCCCTGA
49664943 CATTTACAATTTTTACAATGTAGTCCCTATTGCACAAAACACAAAATACACAAAATTTCAAAGTA
131 CATTTACAATTTTTACAATGTAGTCCCTATTGCACAAAACACAAAATACACAAAATTTCAAAGTA
49665008 CCTATGTCAGGCCGAATGGTACCAGTACCTATACAAGCCCATATATTTCATTAATTTCACATTTT
196 CCTATGTCAGGCCGAATGGTACCAGTACCTATACAAGCCCATATATTTCATTAATTTCACATTTT
49665073 AGTCCCTCAAGTTATTATTTTTGCAATTAAGTACTAATTACTCAAAATCATCAAAAACTCCAATA
261 AGTCCCTCAAGTTATTATTTTTGCAATTAAGTACTAATTACTCAAAATCATCAAAAACTCCAATA
*
49665138 CAAAACATGTTAATCTAAAACATATCTTTCATATTTCATCATCAAACAACAAAAATCACAAGCTA
326 CAAAACATGTTAATCTAAAACATATCTTTCATATTTCATCATCAAACAAAAAAAATCACAAGCTA
49665203 TCAACAATGGCACAACTCAAAATATTCGTCAAAATCAAAAAATAAAGCATGGGTTTTGTAGTACT
391 TCAACAATGGCACAACTCAAAATATTCGTCAAAATCAAAAAATAAAGCATGGGTTTTGTAGTACT
49665268 CCAAGCAACGATCTCAAAAATGTAGAAATTATCAAAAACTGACTAAGAATGAACCTTGATTTTAG
456 CCAAGCAACGATCTCAAAAATGTAGAAATTATCAAAAACTGACTAAGAATGAACCTTGATTTTAG
49665333 CTTGGAAGATGGTCGAACTAGGTTTC
521 CTTGGAAGATGGTCGAACTAGGTTTC
49665359 TTTTCCCCAATCCAAATCTGATTTCTTTGGTTCTTGATCTAAACATATTCAAATTAAGCTCATTC
1 TTTTCCCCAATCCAAATCTGATTTCTTTGGTTCTTGATCTAAACATATTCAAATTAAGCTCATTC
49665424 AAACATATTTTCATCCAATTTAGTCCAAAAACACATAAATGGGCAAATTACCATTTTACCCCTGA
66 AAACATATTTTCATCCAATTTAGTCCAAAAACACATAAATGGGCAAATTACCATTTTACCCCTGA
49665489 CATTTACAATTTTTACAATGTAGTCCCTATTGCACAAAACACAAAATACACAAAATTTCAAAGTA
131 CATTTACAATTTTTACAATGTAGTCCCTATTGCACAAAACACAAAATACACAAAATTTCAAAGTA
49665554 CCTATGTCAGGCCGAATGGTACCAGTACCTATACAAGCCCATATATTTCATTAATTTCACATTTT
196 CCTATGTCAGGCCGAATGGTACCAGTACCTATACAAGCCCATATATTTCATTAATTTCACATTTT
49665619 AGTCCCTCAAGTTATTATTTTTGCAATTAAGTACTAATTACTCAAAATCATCAAAAACTCCAATA
261 AGTCCCTCAAGTTATTATTTTTGCAATTAAGTACTAATTACTCAAAATCATCAAAAACTCCAATA
49665684 CAAAACATGTTAATCTAAAACATATCTTTCATATTTCATCATCAAACAAAAAAAATCACAAGCTA
326 CAAAACATGTTAATCTAAAACATATCTTTCATATTTCATCATCAAACAAAAAAAATCACAAGCTA
49665749 TCAACAATGGCACAACTCAAAATATTCGTCAAAATCAAAAAATAAAGCATGGGTTTTGTAGTACT
391 TCAACAATGGCACAACTCAAAATATTCGTCAAAATCAAAAAATAAAGCATGGGTTTTGTAGTACT
49665814 CCAAGCAACGATCTCAAAAATGTAGAAATTATCAAAAACTGACTAAGAATGAACCTTGATTTTAG
456 CCAAGCAACGATCTCAAAAATGTAGAAATTATCAAAAACTGACTAAGAATGAACCTTGATTTTAG
49665879 CTTGGAAGATGGTCGAACTAGGTTTC
521 CTTGGAAGATGGTCGAACTAGGTTTC
49665905 TTTTC
1 TTTTC
49665910 TTTTCTTTCT
Statistics
Matches: 550, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
546 550 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (546 bp):
TTTTCCCCAATCCAAATCTGATTTCTTTGGTTCTTGATCTAAACATATTCAAATTAAGCTCATTC
AAACATATTTTCATCCAATTTAGTCCAAAAACACATAAATGGGCAAATTACCATTTTACCCCTGA
CATTTACAATTTTTACAATGTAGTCCCTATTGCACAAAACACAAAATACACAAAATTTCAAAGTA
CCTATGTCAGGCCGAATGGTACCAGTACCTATACAAGCCCATATATTTCATTAATTTCACATTTT
AGTCCCTCAAGTTATTATTTTTGCAATTAAGTACTAATTACTCAAAATCATCAAAAACTCCAATA
CAAAACATGTTAATCTAAAACATATCTTTCATATTTCATCATCAAACAAAAAAAATCACAAGCTA
TCAACAATGGCACAACTCAAAATATTCGTCAAAATCAAAAAATAAAGCATGGGTTTTGTAGTACT
CCAAGCAACGATCTCAAAAATGTAGAAATTATCAAAAACTGACTAAGAATGAACCTTGATTTTAG
CTTGGAAGATGGTCGAACTAGGTTTC
Found at i:49666271 original size:10 final size:10
Alignment explanation
Indices: 49666256--49666290 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
49666246 ACAGTAAATA
49666256 ATTTTTTAAT
1 ATTTTTTAAT
49666266 ATTTTTT-A-
1 ATTTTTTAAT
49666274 ATTTTTTAAT
1 ATTTTTTAAT
49666284 ATTTTTT
1 ATTTTTT
49666291 TGAATTGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.30
9 2 0.09
10 14 0.61
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:49666277 original size:18 final size:18
Alignment explanation
Indices: 49666254--49666290 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
49666244 ACACAGTAAA
49666254 TAATTTTTTAATATTTTT
1 TAATTTTTTAATATTTTT
49666272 TAATTTTTTAATATTTTT
1 TAATTTTTTAATATTTTT
49666290 T
1 T
49666291 TGAATTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TAATTTTTTAATATTTTT
Found at i:49666551 original size:15 final size:15
Alignment explanation
Indices: 49666531--49666562 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49666521 AGAGTGGAAG
49666531 AAAGAAAGAAAGAGA
1 AAAGAAAGAAAGAGA
*
49666546 AAAGAAAGAAAGGGA
1 AAAGAAAGAAAGAGA
49666561 AA
1 AA
49666563 GGGAAAGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAAGAGA
Found at i:49674079 original size:46 final size:45
Alignment explanation
Indices: 49674029--49674201 Score: 170
Period size: 46 Copynumber: 3.8 Consensus size: 45
49674019 TGGTTGAGCA
* *
49674029 TCCGAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAACG
* * * * *
49674075 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA-GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAA--A--CG
* * *
49674122 TCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAACG
* *
49674168 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49674202 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.57
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAAACG
Found at i:49674185 original size:93 final size:93
Alignment explanation
Indices: 49674026--49674196 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
49674016 GGATGGTTGA
* * * * *
49674026 GCATCCGAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCGTTGAGT
*
49674091 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
49674119 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATAGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCGTTGAGT
49674184 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
49674197 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49674463 original size:19 final size:20
Alignment explanation
Indices: 49674426--49674463 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
49674416 ATAAGGTGGT
49674426 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
49674446 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
49674464 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:49682481 original size:31 final size:31
Alignment explanation
Indices: 49682440--49682504 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
49682430 TGCCTTACGA
* *
49682440 ATAATGAATACTC-AGTTGTCTTTGTCTGATG
1 ATAATAAATACTCGA-TTATCTTTGTCTGATG
49682471 ATAATAAATACTCGATTATCTTTGTCTGATG
1 ATAATAAATACTCGATTATCTTTGTCTGATG
49682502 ATA
1 ATA
49682505 GTTCAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (31 bp):
ATAATAAATACTCGATTATCTTTGTCTGATG
Found at i:49686057 original size:31 final size:31
Alignment explanation
Indices: 49686016--49686079 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49686006 CCTTTTCATA
*
49686016 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
49686047 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
49686078 TT
1 TT
49686080 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:49686325 original size:24 final size:24
Alignment explanation
Indices: 49686272--49686436 Score: 248
Period size: 23 Copynumber: 7.0 Consensus size: 24
49686262 GCTTTATCAT
*
49686272 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
49686297 GTAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49686321 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49686344 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49686367 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
49686390 ATAACTGGTGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49686414 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
49686437 GCACTTCCTC
Statistics
Matches: 131, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 68 0.52
24 52 0.40
25 11 0.08
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:49686382 original size:46 final size:47
Alignment explanation
Indices: 49686293--49686435 Score: 252
Period size: 47 Copynumber: 3.1 Consensus size: 47
49686283 CCTAGCCTCT
* *
49686293 TTTAGTAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
49686340 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
49686386 TTTAATAACTGGTGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
49686433 TTT
1 TTT
49686436 TGCACTTCCT
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
46 45 0.49
47 47 0.51
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:49686518 original size:20 final size:20
Alignment explanation
Indices: 49686486--49686551 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
49686476 TTATGATTAC
* *
49686486 ATCATGGGCATATCAAACAT
1 ATCATGAGCATATCATACAT
* *
49686506 ATCCTGTGCATATCATACAT
1 ATCATGAGCATATCATACAT
*
49686526 GTCATGAGCATATCATACAT
1 ATCATGAGCATATCATACAT
*
49686546 ACCATG
1 ATCATG
49686552 TTTATCAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (20 bp):
ATCATGAGCATATCATACAT
Found at i:49687855 original size:27 final size:27
Alignment explanation
Indices: 49687796--49687875 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
49687786 GGGCATATTC
* *
49687796 GTCATTTTACCATACA-GGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
49687822 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
49687849 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
49687876 ATCTTTTTAC
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
26 14 0.28
27 35 0.70
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:49687970 original size:27 final size:27
Alignment explanation
Indices: 49687940--49687991 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
49687930 GTAAATCTAC
49687940 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
49687967 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
49687992 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:49688053 original size:27 final size:27
Alignment explanation
Indices: 49687989--49688185 Score: 166
Period size: 27 Copynumber: 7.3 Consensus size: 27
49687979 TTTCTATAAT
* * *
49687989 TTTTAGAAAGTCAAGGGTATTTTTGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
* **
49688017 CTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
49688044 TTTTACAAAT-TGAGGGTATTTCGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * * **
49688071 TTTCACAAACCAGTGGTATTTTACTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
49688098 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
* *
49688125 TTTTACAAAT-TGAGGGTATTTTTGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * * *
49688152 TTTTACAAACCAAGGGTATTTTAGCAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
49688179 TTTTACA
1 TTTTACA
49688186 GACTAGGGTT
Statistics
Matches: 135, Mismatches: 28, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
26 3 0.02
27 125 0.93
28 7 0.05
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:49688122 original size:81 final size:81
Alignment explanation
Indices: 49688028--49688222 Score: 270
Period size: 81 Copynumber: 2.4 Consensus size: 81
49688018 TTTGTAAATC
49688028 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGTATTT
49688092 TA-CTAATTTTACAAACT
65 TAGC-AATTTTACAAACT
** *
49688109 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
*
49688174 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
* * ** *
49688190 A-GGGTTTTTTAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
49688223 AAACAATAAT
Statistics
Matches: 103, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
80 27 0.26
81 73 0.71
82 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:49688222 original size:53 final size:54
Alignment explanation
Indices: 49688030--49688208 Score: 166
Period size: 54 Copynumber: 3.3 Consensus size: 54
49688020 TGTAAATCAG
* *** ** * * *
49688030 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC-CA
1 GGGTATTTTTGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACTGA
** * * * * *
49688083 GTGGTATTTTACTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTTTTGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACTGA
*
49688138 GGGTATTTTTGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGACT-A
1 GGGTATTTTTGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACTGA
49688191 GGGT-TTTTTAGTAATTTT
1 GGGTATTTTT-GTAATTTT
49688209 GTAAATCGAG
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
52 5 0.05
53 14 0.13
54 85 0.80
55 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (54 bp):
GGGTATTTTTGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACTGA
Found at i:49688232 original size:27 final size:27
Alignment explanation
Indices: 49688200--49688359 Score: 205
Period size: 27 Copynumber: 6.0 Consensus size: 27
49688190 AGGGTTTTTT
* *
49688200 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
49688227 AATAATTCTATAAATCAAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
49688254 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
49688281 GGTACTTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
49688308 AGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
49688335 AGTAATTCTATAAATC-AAGGTAAAA
1 AGTAATTCTATAAATCGAGGGTAAAA
49688360 TGGTAATTTT
Statistics
Matches: 114, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 8 0.07
27 106 0.93
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.28
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:49688268 original size:54 final size:54
Alignment explanation
Indices: 49688199--49688381 Score: 242
Period size: 54 Copynumber: 3.4 Consensus size: 54
49688189 TAGGGTTTTT
* * *
49688199 TAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAA
* * * *
49688253 TAGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAA
* *
49688307 TAGTAATTCTGTAAGTCGAGGGTAAAACAGTAATTCTATAAATCAA-GGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAA
* * * *
49688360 TGGTAATTTTACAAATTGAGGG
1 TAGTAATTCTATAAATCGAGGG
49688382 CATTTCAGTA
Statistics
Matches: 110, Mismatches: 19, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
53 23 0.21
54 87 0.79
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.30
Consensus pattern (54 bp):
TAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAA
Found at i:49688302 original size:81 final size:80
Alignment explanation
Indices: 49688210--49688364 Score: 238
Period size: 81 Copynumber: 1.9 Consensus size: 80
49688200 AGTAATTTTG
*
49688210 TAAATCGAGGGTAAAACAATAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGG
1 TAAATCGAGGGTAAAACAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCAA-GG
49688275 TAAAACGGTACTTCTA
65 TAAAACGGTACTTCTA
* * * * *
49688291 TAAATCGAGGGTAAAATAGTAATTCTGTAAGTCGAGGGTAAAACAGTAATTCTATAAATCAAGGT
1 TAAATCGAGGGTAAAACAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGT
*
49688356 AAAATGGTA
66 AAAACGGTA
49688365 ATTTTACAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
80 11 0.16
81 56 0.84
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.27
Consensus pattern (80 bp):
TAAATCGAGGGTAAAACAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGT
AAAACGGTACTTCTA
Found at i:49692776 original size:24 final size:24
Alignment explanation
Indices: 49692745--49692793 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
49692735 TAAATATATG
*
49692745 TTAGAGTGTGTTTATGTTGTCTAT
1 TTAGAGTGTGTTTATGTTGCCTAT
49692769 TTAGAGTGTGTTTATGTTGCCTAT
1 TTAGAGTGTGTTTATGTTGCCTAT
49692793 T
1 T
49692794 ATTTGCATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.06, G:0.24, T:0.53
Consensus pattern (24 bp):
TTAGAGTGTGTTTATGTTGCCTAT
Found at i:49696965 original size:25 final size:25
Alignment explanation
Indices: 49696931--49696982 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
49696921 ACGAAAAGAG
49696931 ATAGAATTTCAAGTTGTGATAAGGT
1 ATAGAATTTCAAGTTGTGATAAGGT
49696956 ATAGAATTTCAAGTTGTGATAAGGT
1 ATAGAATTTCAAGTTGTGATAAGGT
49696981 AT
1 AT
49696983 TCTTGAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.37
Consensus pattern (25 bp):
ATAGAATTTCAAGTTGTGATAAGGT
Found at i:49703974 original size:46 final size:45
Alignment explanation
Indices: 49703916--49704088 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 45
49703906 GGGTTATTTT
* *
49703916 GAGCAAGTGTAAGACATGTCTGGGACATGCATCAGCCACATT-ACGA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCAG-C-CATTGACGA
* *
49703962 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATC-GGCATTGAGACGA
1 GAGCCAGTGTAAGAC-ATGTCTAGGACAT-GCATCAGCCATT--GACGA
*
49704010 GAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCC-TTGA-GA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCAGCCATTGACGA
*
49704053 TGTAAGCCAGTGTAGGACATGTCTAGGACATGCATC
1 -G--AGCCAGTGTAAGACATGTCTAGGACATGCATC
49704089 GACTACAAGT
Statistics
Matches: 111, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
43 2 0.02
44 3 0.03
45 4 0.04
46 51 0.46
47 28 0.25
48 23 0.21
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTAGGACATGCATCAGCCATTGACGA
Found at i:49707266 original size:50 final size:50
Alignment explanation
Indices: 49707090--49707325 Score: 214
Period size: 50 Copynumber: 4.7 Consensus size: 50
49707080 AATAGACCTA
* * * * *
49707090 TGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTG-TTAAGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGTCACATG
* * ** * * *
49707140 TGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGATCACTTC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGA-TGAGGTCACATG
*
49707191 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACATG
* * *
49707241 TGTAGTACTAAGTGCAAGG-TACTACGTGTA-CTGGATTGTTGA--TCGCATG
1 TGTAGTACTAAGTGC-AGGCTACTACGTGTATC-AGA-TGATGAGGTCACATG
* *
49707290 TGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
49707326 AGCTTCGGCT
Statistics
Matches: 154, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
48 4 0.03
49 34 0.22
50 67 0.44
51 49 0.32
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACATG
Found at i:49707324 original size:99 final size:99
Alignment explanation
Indices: 49707090--49707325 Score: 271
Period size: 101 Copynumber: 2.4 Consensus size: 99
49707080 AATAGACCTA
* * * *
49707090 TGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTGAAGTCACATGTGTAGTACTAAGTGC
* *
49707155 AGGCTACTATGCGTACTCAATGACTTCGATCACTTC
65 AGGCTACTACGCGTACTCAATGA-TTCGATCACATC
* *
49707191 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATG-TGAAGTCACATGTGTAGTACTAAGTGC
* * * * *
49707256 AAGG-TACTACGTGTACTGGATTG-TT-GATCGCATG
65 -AGGCTACTACGCGTACT-CAATGATTCGATCACATC
* *
49707290 TGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
49707326 AGCTTCGGCT
Statistics
Matches: 117, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
99 40 0.34
100 4 0.03
101 67 0.57
102 6 0.05
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (99 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTGAAGTCACATGTGTAGTACTAAGTGCA
GGCTACTACGCGTACTCAATGATTCGATCACATC
Found at i:49707442 original size:27 final size:26
Alignment explanation
Indices: 49707412--49707463 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
49707402 GGGAAAATCG
49707412 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGT-G-AATATGTGCAAAGTTATT
* *
49707439 ATAAGGTGAATATGTGCAAATTTAT
1 ATAAAGTGAATATGTGCAAAGTTAT
49707464 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 8 0.36
26 8 0.36
27 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (26 bp):
ATAAAGTGAATATGTGCAAAGTTATT
Found at i:49713074 original size:37 final size:36
Alignment explanation
Indices: 49713024--49713110 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
49713014 TACGAAGTCT
49713024 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
49713060 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
49713097 TCACCCGGAACATA
1 T-ACCCGG-ACATA
49713111 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:49713248 original size:49 final size:49
Alignment explanation
Indices: 49713179--49713592 Score: 630
Period size: 49 Copynumber: 8.4 Consensus size: 49
49713169 TTTACCACAT
* *
49713179 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
49713228 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
*
49713277 ATATACATATACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
49713326 ATATACATACATATACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATAC----ACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
* *
49713379 ATATACATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
* *
49713428 ATATACATATACTTTCCCATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
* * * * *
49713477 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
* * * *
49713526 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
* *
49713575 ATATATATACATTTTCAC
1 ATATACATACACTTTCAC
49713593 GAATCTTGAT
Statistics
Matches: 344, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
49 296 0.86
53 48 0.14
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
Found at i:49713371 original size:151 final size:151
Alignment explanation
Indices: 49713159--49713579 Score: 665
Period size: 151 Copynumber: 2.8 Consensus size: 151
49713149 ATTCACATTA
* * * * *
49713159 GCCATTCGGCTTTACCACATAT--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 GCCATTAGGCCTTATCACATATACATACATATACTTTCACATTCATCACATCGGCCATTAGGCCT
*
49713222 TATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATAT
66 TATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATAT
49713287 ACTTTCACATTCACCACATCG
131 ACTTTCACATTCACCACATCG
*
49713308 GCCATTAGGCCTTATCACATATACATACATATACTTTCACATTCACCACATCGGCCATTAGGCCT
1 GCCATTAGGCCTTATCACATATACATACATATACTTTCACATTCATCACATCGGCCATTAGGCCT
*
49713373 TATCACATATACATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATAT
66 TATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATAT
*
49713438 ACTTTCCCATTCACCACATCG
131 ACTTTCACATTCACCACATCG
* *
49713459 GCCATTAGGCCTTATCACATATACATAC--AT--TTTCGCATTCATCGCATCGGCCATTAGGCCT
1 GCCATTAGGCCTTATCACATATACATACATATACTTTCACATTCATCACATCGGCCATTAGGCCT
* * * *
49713520 CATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATA
66 TATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
49713580 TATACATTTT
Statistics
Matches: 253, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
147 83 0.33
149 21 0.08
151 149 0.59
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (151 bp):
GCCATTAGGCCTTATCACATATACATACATATACTTTCACATTCATCACATCGGCCATTAGGCCT
TATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATAT
ACTTTCACATTCACCACATCG
Found at i:49725311 original size:46 final size:46
Alignment explanation
Indices: 49725177--49725389 Score: 177
Period size: 46 Copynumber: 4.7 Consensus size: 46
49725167 TTATTTTGAT
* * ** *
49725177 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGAGA-
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATGAGAG
* * * * * **
49725222 ATAGTGTAAGACCATGTCCGGGGCATGGCATCAACATTGAGATGAGAG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCAAGATGAGAG
49725270 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATGTA-AG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATG-AGAG
* * * * *
49725316 CCAGTGTAAAACATGTCTGGG-TATGCATCA-ACTACAAG-T-TGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CAAGATGAGAG
*
49725359 CTAGTGTAAGCCATGTCTGGGACATGGCATC
1 CTAGTGTAAGACATGTCTGGGACAT-GCATC
49725390 GGCATCCTAC
Statistics
Matches: 132, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
43 20 0.15
44 5 0.04
45 27 0.20
46 46 0.35
47 24 0.18
48 10 0.08
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (46 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATGAGAG
Found at i:49727641 original size:17 final size:16
Alignment explanation
Indices: 49727595--49727641 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
49727585 CCATAGAATA
*
49727595 TTTTTTT-ATTTTTCT
1 TTTTTTTCATTTTTCC
*
49727610 TTTTTTTCGTATTTTCC
1 TTTTTTTCAT-TTTTCC
49727627 TTTTTTTCACTTTTT
1 TTTTTTTCA-TTTTT
49727642 ATCACTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 7 0.27
16 1 0.04
17 17 0.65
18 1 0.04
ACGTcount: A:0.06, C:0.13, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTTTTCATTTTTCC
Found at i:49741598 original size:27 final size:26
Alignment explanation
Indices: 49741550--49741609 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
49741540 GCGAGGCTTC
*
49741550 CAGATATTGTGACGAAGTCACTAGATA
1 CAGATATTGTGACGAAGCCACTAGA-A
* * *
49741577 CAGATATTGTGGCTAGGCCACTAGAA
1 CAGATATTGTGACGAAGCCACTAGAA
49741603 CAGATAT
1 CAGATAT
49741610 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACTAGAA
Found at i:49749038 original size:27 final size:26
Alignment explanation
Indices: 49748990--49749049 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
49748980 GCGAGGCTGC
*
49748990 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
49749017 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
49749043 CAGATAT
1 CAGATAT
49749050 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:49749142 original size:27 final size:26
Alignment explanation
Indices: 49749094--49749145 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49749084 GCGAGGCTGC
*
49749094 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
49749120 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
49749146 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:49754723 original size:49 final size:49
Alignment explanation
Indices: 49754662--49754799 Score: 248
Period size: 49 Copynumber: 2.9 Consensus size: 49
49754652 ATGTATGAGA
49754662 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49754711 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49754760 TATATATATGTGATAAGGCCTAAT----GATGTGATGAATGTGA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
49754800 CTGTATCCGA
Statistics
Matches: 89, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
45 16 0.18
49 73 0.82
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:49758355 original size:20 final size:20
Alignment explanation
Indices: 49758332--49758397 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
49758322 AAGTATATCT
49758332 AGGGGTACCGTAGTACAATC
1 AGGGGTACCGTAGTACAATC
* * *
49758352 AGGGGCA-CGTATGTGCAATTT
1 AGGGGTACCGTA-GTACAA-TC
* * *
49758373 AGGGTTACCGAAGTACAAAC
1 AGGGGTACCGTAGTACAATC
49758393 AGGGG
1 AGGGG
49758398 CACGCATGTG
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
19 4 0.12
20 15 0.45
21 11 0.33
22 3 0.09
ACGTcount: A:0.30, C:0.17, G:0.33, T:0.20
Consensus pattern (20 bp):
AGGGGTACCGTAGTACAATC
Found at i:49758382 original size:41 final size:41
Alignment explanation
Indices: 49758331--49758543 Score: 248
Period size: 41 Copynumber: 5.2 Consensus size: 41
49758321 TAAGTATATC
** * *
49758331 TAGGGGTACCGTAGTACAATCAGGGGCACGTATGTGCAATT
1 TAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATT
* * * * *
49758372 TAGGGTTACCGAAGTACAAACAGGGGCACGCATGTGAAATT
1 TAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATT
* * *
49758413 TAGGGGTATCAAAGTACAAACATGGGCACGCATGTG-AACTT
1 TAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAA-TT
* *
49758454 CAGGGGTATCAAAGTACAAACAAGGGCACGTATGTGCAATT
1 TAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATT
* * *
49758495 TAAGGGTACCAAAGTACAAACAAGGGCATGTATATGCAATT
1 TAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATT
*
49758536 CAGGGGTA
1 TAGGGGTA
49758544 TTGAAGTATA
Statistics
Matches: 151, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 2 0.01
41 147 0.97
42 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.21
Consensus pattern (41 bp):
TAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATT
Found at i:49758551 original size:41 final size:41
Alignment explanation
Indices: 49758343--49758576 Score: 247
Period size: 41 Copynumber: 5.7 Consensus size: 41
49758333 GGGGTACCGT
* * * * *
49758343 AGTACAATCAGGGGCACGTATGTGCAATTTAGGGTTACCGA
1 AGTACAAACAAGGGCACGTATGTGCAATTTAGGGGTATCAA
* * *
49758384 AGTACAAACAGGGGCACGCATGTGAAATTTAGGGGTATCAA
1 AGTACAAACAAGGGCACGTATGTGCAATTTAGGGGTATCAA
* * *
49758425 AGTACAAACATGGGCACGCATGTG-AACTTCAGGGGTATCAA
1 AGTACAAACAAGGGCACGTATGTGCAA-TTTAGGGGTATCAA
* *
49758466 AGTACAAACAAGGGCACGTATGTGCAATTTAAGGGTACCAA
1 AGTACAAACAAGGGCACGTATGTGCAATTTAGGGGTATCAA
* * * **
49758507 AGTACAAACAAGGGCATGTATATGCAATTCAGGGGTATTGA
1 AGTACAAACAAGGGCACGTATGTGCAATTTAGGGGTATCAA
* * *
49758548 AGTATAAA-AGGGGGCACATATGTGCAATT
1 AGTACAAACA-AGGGCACGTATGTGCAATT
49758577 CATCATTAAT
Statistics
Matches: 165, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
40 3 0.02
41 160 0.97
42 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.22
Consensus pattern (41 bp):
AGTACAAACAAGGGCACGTATGTGCAATTTAGGGGTATCAA
Found at i:49758551 original size:82 final size:82
Alignment explanation
Indices: 49758334--49758576 Score: 274
Period size: 82 Copynumber: 3.0 Consensus size: 82
49758324 GTATATCTAG
** * * * * *
49758334 GGGTACCGTAGTACAATCAGGGGCACGTATGTGCAATTTAGGGTTACCGAAGTACAAACAGGGGC
1 GGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATTCAGGGGTATCGAAGTACAAACAGGGGC
* * *
49758399 ACGCATGTGAAATTTAG
66 ACGTATGTGCAATTTAA
* * * * *
49758416 GGGTATCAAAGTACAAACATGGGCACGCATGTG-AACTTCAGGGGTATCAAAGTACAAACAAGGG
1 GGGTACCAAAGTACAAACAAGGGCACGTATGTGCAA-TTCAGGGGTATCGAAGTACAAACAGGGG
49758480 CACGTATGTGCAATTTAA
65 CACGTATGTGCAATTTAA
* * * *
49758498 GGGTACCAAAGTACAAACAAGGGCATGTATATGCAATTCAGGGGTATTGAAGTATAAA-AGGGGG
1 GGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATTCAGGGGTATCGAAGTACAAACA-GGGG
*
49758562 CACATATGTGCAATT
65 CACGTATGTGCAATT
49758577 CATCATTAAT
Statistics
Matches: 134, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
81 3 0.02
82 129 0.96
83 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.22
Consensus pattern (82 bp):
GGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATTCAGGGGTATCGAAGTACAAACAGGGGC
ACGTATGTGCAATTTAA
Found at i:49758571 original size:123 final size:123
Alignment explanation
Indices: 49758343--49758571 Score: 291
Period size: 123 Copynumber: 1.9 Consensus size: 123
49758333 GGGGTACCGT
* * * * *
49758343 AGTACAATCAGGGGCACGTATGTGCAATTTAGGGTTACCGAAGTACAAACAGGGGCACGCATGTG
1 AGTACAAACAAGGGCACGTATGTGCAATTTAGGGTTACCAAAGTACAAACAAGGGCACGCATATG
* * *
49758408 AAATTTAGGGGTATCAAAGTACAAACATGGGCACGCATGTGAACTTCAGGGGTATCAA
66 AAATTCAGGGGTATCAAAGTACAAACAGGGGCACACATGTGAACTTCAGGGGTATCAA
* *
49758466 AGTACAAACAAGGGCACGTATGTGCAATTTAAGGG-TACCAAAGTACAAACAAGGGCATGTATAT
1 AGTACAAACAAGGGCACGTATGTGCAATTT-AGGGTTACCAAAGTACAAACAAGGGCACGCATAT
* ** * *
49758530 GCAATTCAGGGGTATTGAAGTATAAA-AGGGGGCACATATGTG
65 GAAATTCAGGGGTATCAAAGTACAAACA-GGGGCACACATGTG
49758572 CAATTCATCA
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
122 1 0.01
123 84 0.94
124 4 0.04
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.21
Consensus pattern (123 bp):
AGTACAAACAAGGGCACGTATGTGCAATTTAGGGTTACCAAAGTACAAACAAGGGCACGCATATG
AAATTCAGGGGTATCAAAGTACAAACAGGGGCACACATGTGAACTTCAGGGGTATCAA
Found at i:49758810 original size:12 final size:12
Alignment explanation
Indices: 49758790--49758872 Score: 93
Period size: 12 Copynumber: 7.2 Consensus size: 12
49758780 TTAATAACCC
49758790 TAGCATTCAATT
1 TAGCATTCAATT
*
49758802 TAGCTTTCAATT
1 TAGCATTCAATT
49758814 TAGCATTCAATT
1 TAGCATTCAATT
* *
49758826 TAG--TCCAACT
1 TAGCATTCAATT
49758836 TAGCATTCAATT
1 TAGCATTCAATT
* *
49758848 TAG--TCCAACT
1 TAGCATTCAATT
49758858 TAGCATTCAATT
1 TAGCATTCAATT
49758870 TAG
1 TAG
49758873 TCTATTTTGC
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
10 16 0.28
12 41 0.72
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (12 bp):
TAGCATTCAATT
Found at i:49758841 original size:22 final size:22
Alignment explanation
Indices: 49758790--49758874 Score: 134
Period size: 22 Copynumber: 3.8 Consensus size: 22
49758780 TTAATAACCC
* *
49758790 TAGCATTCAATTTAGCTTTCAATT
1 TAGCATTCAATTTAG--TCCAACT
49758814 TAGCATTCAATTTAGTCCAACT
1 TAGCATTCAATTTAGTCCAACT
49758836 TAGCATTCAATTTAGTCCAACT
1 TAGCATTCAATTTAGTCCAACT
49758858 TAGCATTCAATTTAGTC
1 TAGCATTCAATTTAGTC
49758875 TATTTTGCCC
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
22 44 0.75
24 15 0.25
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (22 bp):
TAGCATTCAATTTAGTCCAACT
Found at i:49759654 original size:3 final size:3
Alignment explanation
Indices: 49759646--49759685 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
49759636 CATAGACATT
49759646 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
49759686 TTACTCGTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:49764592 original size:41 final size:41
Alignment explanation
Indices: 49764530--49764651 Score: 147
Period size: 41 Copynumber: 3.0 Consensus size: 41
49764520 GTATATCTAG
* *
49764530 GGGTACCGTAA-TACAATCAGGGGCATGTATGTGCAATTCAA
1 GGGTACCG-AAGTACAAACAGGGGCACGTATGTGCAATTCAA
* * * * *
49764571 GGGTATCGAAGTACAAACAGGGGCACATATGTGTAAGTAAA
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAA
* *
49764612 GGGTACCGAAGCACAAACAGGGGCACGTGTGTGCAATTCA
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCA
49764652 TCATTAATCT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
40 2 0.03
41 64 0.97
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.20
Consensus pattern (41 bp):
GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAA
Found at i:49767459 original size:122 final size:121
Alignment explanation
Indices: 49767243--49767461 Score: 271
Period size: 122 Copynumber: 1.8 Consensus size: 121
49767233 ATTATGTGAG
** ** * * **
49767243 ATGAAATATGGATGTGTATGATTATTGATTATGTGTGTATGAGTATTTGAATTCTACCCGGGCTA
1 ATGAAATATGGATGTCAATGATTATTGATTATGTGTACATGAGAAATTGAATGATACCCGGGCTA
* * **
49767308 AGTCCCGAAGGCGAATATGCTTGTGATTATATTGCGTTTGAGCCTTAGTAACGAAA
66 AGTCCCGAAGACGAATATGCTGGAAATTATATTGCGTTTGAGCCTTAGTAACGAAA
* *
49767364 ATGAAATATGTATGTCCAATGATTATTGATGTATGTGTACATGAGAAATTGAATGATATCCGGGC
1 ATGAAATATGGATGT-CAATGATTATTGAT-TATGTGTACATGAGAAATTGAATGATACCCGGGC
49767429 TAAG-CCCGAAGAC-AATTATGCTGGAAATTATAT
64 TAAGTCCCGAAGACGAA-TATGCTGGAAATTATAT
49767462 CCGGGTTAAG
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
121 16 0.20
122 34 0.42
123 31 0.38
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (121 bp):
ATGAAATATGGATGTCAATGATTATTGATTATGTGTACATGAGAAATTGAATGATACCCGGGCTA
AGTCCCGAAGACGAATATGCTGGAAATTATATTGCGTTTGAGCCTTAGTAACGAAA
Found at i:49767485 original size:40 final size:40
Alignment explanation
Indices: 49767419--49767585 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
49767409 AAATTGAATG
* * *
49767419 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49767458 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
49767498 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49767538 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49767578 ATATCCGG
1 ATATCCGG
49767586 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49775495 original size:40 final size:40
Alignment explanation
Indices: 49775411--49775560 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
49775401 AAATTGAATG
* * *
49775411 ATATCCGGGCTAAG-CCCGAAGACAATATGCTG-GA--AATT
1 ATATCCGGGCTAAGACCCGAAGGCAAT-TG-TGCGAGTGACT
* * *
49775449 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
49775489 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* *
49775529 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
49775561 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
37 2 0.02
38 16 0.18
39 14 0.15
40 57 0.63
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:49775575 original size:40 final size:40
Alignment explanation
Indices: 49775446--49775576 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
49775436 TATGCTGGAA
* * *
49775446 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * *
49775486 GCTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
49775526 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
*
49775566 ATTAAATCCGG
1 ATTATATCCGG
49775577 TTATATTCCG
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:49781067 original size:29 final size:30
Alignment explanation
Indices: 49781025--49781154 Score: 153
Period size: 29 Copynumber: 4.5 Consensus size: 30
49781015 ATAGTGAATC
*
49781025 CGCACACTTAGTGCTATA-AATTTTCAGCT
1 CGCACACTTAGTGCTATACAATTTTCAACT
* *
49781054 CGCACACTTAGTGCTATA-TATTTTCAGCT
1 CGCACACTTAGTGCTATACAATTTTCAACT
*
49781083 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATACAATTTTC-AACT
* * *
49781111 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATACAATTTTCAACT
49781141 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49781155 CAATCTTGTC
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
27 2 0.02
28 22 0.25
29 46 0.52
30 18 0.20
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATACAATTTTCAACT
Found at i:49788979 original size:29 final size:29
Alignment explanation
Indices: 49788919--49789047 Score: 156
Period size: 28 Copynumber: 4.5 Consensus size: 29
49788909 ATAGTGAATC
*
49788919 CGCACACTTAGTGCTATA-ATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
49788947 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
49788976 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * * *
49789004 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
49789034 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49789048 CAATCTTGTC
Statistics
Matches: 89, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
27 2 0.02
28 38 0.43
29 31 0.35
30 17 0.19
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:49789007 original size:57 final size:58
Alignment explanation
Indices: 49788918--49789047 Score: 165
Period size: 57 Copynumber: 2.3 Consensus size: 58
49788908 TATAGTGAAT
** * * * *
49788918 CCGCACACTTAGTGCTATAATTTTCAGCTCGCACACTTAGTGCTATA-TATTTTCAGC
1 CCGCACACTTAGTGCTATAATAATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
49788975 TCGCACACTTAGTGCTAT-ATAATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATAATAATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
49789033 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
49789048 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
56 4 0.06
57 37 0.60
58 21 0.34
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATAATAATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:49794720 original size:40 final size:39
Alignment explanation
Indices: 49794609--49794722 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 39
49794599 TTAATCACGT
* * *
49794609 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
49794649 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
*
49794689 GCACAATTGCCTTCGGGTCTTAACCCGGATATAA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAA
49794723 TTTCCAGCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.03
40 61 0.97
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:49807832 original size:50 final size:50
Alignment explanation
Indices: 49807752--49808139 Score: 394
Period size: 50 Copynumber: 7.8 Consensus size: 50
49807742 TAGGGTTATT
* *
49807752 CGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGACATA
1 CGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATA
* * * *
49807802 CGAGAGCTAGTGCAAGACCATGTCTAGGACATGGCGTCGGCCTCGATACA
1 CGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATA
* * * *
49807852 TGATAG-TCAATGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATAGA
1 CGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATATA
* * * * **
49807902 TGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATTGGCAC-AGATGGA
1 CGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATATA
*
49807951 CGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATA
1 CGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATA
* * ** *
49808001 CGAGAGCTAGTGTAAGACCATGTCTAGGATATGGTGTCGGCCTCGATACA
1 CGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATA
* * * * * * * * *
49808051 TGATAGTTAGTGTAAGACCATGTTTGAGACATAGCATCGTCTTTG--ATA
1 CGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATA
* *
49808099 CGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 CGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
49808140 TTCCTACCCT
Statistics
Matches: 278, Mismatches: 53, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
48 36 0.13
49 45 0.16
50 195 0.70
51 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
CGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATA
Found at i:49808024 original size:149 final size:148
Alignment explanation
Indices: 49807753--49808139 Score: 422
Period size: 149 Copynumber: 2.6 Consensus size: 148
49807743 AGGGTTATTC
* * *
49807753 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGACATACGAGAGCTAGTGCAAG
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATAGCAT-AGCCTC-AGATACGAGAGCTAGTGTAAG
* * * * * *
49807818 ACCATGTCTAGGACATGGCGTCGGCCTCGATACATGATAGTCAATGTAAGACCATGTCTGGGACA
64 ACCATGTCTGGGACATGGCATCGGCCTCGACACACGAGAGTCAATGTAAGACCATGTCTAGGACA
*
49807883 TGGCATCGGCAC-CGATAGAT
129 TGGCATCGGC-CTCGATACAT
* * * *
49807903 GAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATTGGCACAGATGGACGAGAG-TCAGTGTAA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATAGCCTCAGAT--ACGAGAGCT-AGTGTAA
* *
49807966 GACCATGTCTGGGACATGGCATCGGCCTCGACATACGAGAG-CTAGTGTAAGACCATGTCTAGGA
63 GACCATGTCTGGGACATGGCATCGGCCTCGACACACGAGAGTC-AATGTAAGACCATGTCTAGGA
* **
49808030 TATGGTGTCGGCCTCGATACAT
127 CATGGCATCGGCCTCGATACAT
* * * * * * ** *
49808052 GATAGTTAGTGTAAGACCATGTTTGAGACATAGCATCGTCTTTGATACGTGAGCTAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATAGCCTCAGATACGAGAGCTAGTGTAAGAC
*
49808117 CATGTTTGGGACATGGCATCGGC
66 CATGTCTGGGACATGGCATCGGC
49808140 TTCCTACCCT
Statistics
Matches: 200, Mismatches: 30, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
147 3 0.01
148 44 0.22
149 114 0.57
150 39 0.19
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (148 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATAGCCTCAGATACGAGAGCTAGTGTAAGAC
CATGTCTGGGACATGGCATCGGCCTCGACACACGAGAGTCAATGTAAGACCATGTCTAGGACATG
GCATCGGCCTCGATACAT
Found at i:49811137 original size:16 final size:16
Alignment explanation
Indices: 49811116--49811149 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
49811106 ACCATCTCTT
49811116 TTAGGAAAAATCATGG
1 TTAGGAAAAATCATGG
49811132 TTAGGAAAAATCATGG
1 TTAGGAAAAATCATGG
49811148 TT
1 TT
49811150 TATCTCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (16 bp):
TTAGGAAAAATCATGG
Found at i:49815927 original size:45 final size:46
Alignment explanation
Indices: 49815867--49815990 Score: 162
Period size: 45 Copynumber: 2.7 Consensus size: 46
49815857 GTAACCAATG
* *
49815867 CATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAGGCCGAT-
1 CATGTCCCAAACATGTCTTACACTGGCTCT-CGTCTCAAGGCCGATC
* * *
49815912 CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTTAATGCCGATGC
1 CATGTCCCAAACATGTCTTACACTGGCTCTCGTCTCAAGGCCGAT-C
49815959 CATGTCCCAAACATGGTCTTACACTGGCTCTC
1 CATGTCCCAAACAT-GTCTTACACTGGCTCTC
49815991 ATAATGTGGC
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
45 38 0.55
46 1 0.01
47 14 0.20
48 16 0.23
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTGGCTCTCGTCTCAAGGCCGATC
Found at i:49816006 original size:48 final size:46
Alignment explanation
Indices: 49815906--49816034 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 46
49815896 ACGTCTCGAG
* **
49815906 GCCGAT-CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTTAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAATAAT
* *
49815951 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GT
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCATAATAAT
* * * *
49815998 GGCTGATGCATGTCCTAGACATGTTTTACACTAGCTC
1 -GCCGATGCATGTCCCAAACATGTCTTACACTAGCTC
49816035 ACACACGAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
45 6 0.09
46 13 0.19
47 27 0.39
48 24 0.34
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAATAAT
Done.