Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 30 of 150
Found at i:7843450 original size:7 final size:7
Alignment explanation
Indices: 7843438--7843489 Score: 77
Period size: 7 Copynumber: 7.3 Consensus size: 7
7843428 AAAATTAATA
7843438 TATAAAT
1 TATAAAT
7843445 TATAAAT
1 TATAAAT
7843452 TATAAAT
1 TATAAAT
7843459 TATAAAT
1 TATAAAT
7843466 TATAAAT
1 TATAAAT
*
7843473 AATATAAT
1 TATA-AAT
*
7843481 TATATAT
1 TATAAAT
7843488 TA
1 TA
7843490 AAGTTTATCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
7 35 0.85
8 6 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATAAAT
Found at i:7843450 original size:21 final size:22
Alignment explanation
Indices: 7843425--7843486 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 22
7843415 AGCTAAGTTG
7843425 ATAAA-AATTAATATATAAATT
1 ATAAATAATTAATATATAAATT
* *
7843446 ATAAATTATAAAT-TATAAATT
1 ATAAATAATTAATATATAAATT
7843467 ATAAATAATATAATTATATA
1 ATAAATAAT-TAA-TATATA
7843487 TTAAAGTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 21 0.64
22 7 0.21
23 1 0.03
24 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAATAATTAATATATAAATT
Found at i:7866229 original size:35 final size:35
Alignment explanation
Indices: 7866190--7866309 Score: 134
Period size: 35 Copynumber: 3.4 Consensus size: 35
7866180 TACTCTTTAT
* *
7866190 TTGGTGTGTTTTGGAGGGGCTAGCTCTTATAAGTA
1 TTGGTGTGTTTTGGAGGGACTAGCTCTTATAAGCA
***
7866225 TTGGTGTGTTTTGGTTAGACTAGCTCTTATAAGCA
1 TTGGTGTGTTTTGGAGGGACTAGCTCTTATAAGCA
* * * *
7866260 TTGGTGT-TTTTCGGAGGGATTGGCTCGTGTAAGCA
1 TTGGTGTGTTTT-GGAGGGACTAGCTCTTATAAGCA
7866295 TCTGGTGTGTTTTGG
1 T-TGGTGTGTTTTGG
7866310 TTAGACTGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
34 4 0.06
35 54 0.77
36 8 0.11
37 4 0.06
ACGTcount: A:0.15, C:0.10, G:0.33, T:0.42
Consensus pattern (35 bp):
TTGGTGTGTTTTGGAGGGACTAGCTCTTATAAGCA
Found at i:7867140 original size:15 final size:16
Alignment explanation
Indices: 7867120--7867157 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
7867110 TGAGACACGG
*
7867120 GTGTGTGACTCA-ACC
1 GTGTGTGACACACACC
7867135 GTGTGTGACACACGACC
1 GTGTGTGACACAC-ACC
7867152 GTGTGT
1 GTGTGT
7867158 CCCATGTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
17 9 0.45
ACGTcount: A:0.18, C:0.24, G:0.32, T:0.26
Consensus pattern (16 bp):
GTGTGTGACACACACC
Found at i:7871887 original size:17 final size:17
Alignment explanation
Indices: 7871867--7871900 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7871857 TAAAATATTA
* *
7871867 ATAATTATTTTAAAAAT
1 ATAAATATTCTAAAAAT
7871884 ATAAATATTCTAAAAAT
1 ATAAATATTCTAAAAAT
7871901 TAAGTATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAAATATTCTAAAAAT
Found at i:7872064 original size:9 final size:9
Alignment explanation
Indices: 7872046--7872104 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
7872036 TAATAGTGAA
7872046 ATAA-TTTT
1 ATAATTTTT
7872054 ATAATTTTT
1 ATAATTTTT
*
7872063 ATTATTTTTT
1 A-TAATTTTT
7872073 ATATATTTTT
1 ATA-ATTTTT
* *
7872083 AGAATTATT
1 ATAATTTTT
7872092 A-ATATTTTT
1 ATA-ATTTTT
7872101 ATAA
1 ATAA
7872105 AATTTAAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 5 0.12
9 20 0.49
10 16 0.39
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:7872109 original size:29 final size:29
Alignment explanation
Indices: 7872050--7872105 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
7872040 AGTGAAATAA
* * * *
7872050 TTTTATAATTTTTATTATTTTTTATATAT
1 TTTTAGAATTATTAATATTTTTTATAAAT
7872079 TTTTAGAATTATTAATA-TTTTTATAAA
1 TTTTAGAATTATTAATATTTTTTATAAA
7872106 ATTTAAGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (29 bp):
TTTTAGAATTATTAATATTTTTTATAAAT
Found at i:7872247 original size:8 final size:8
Alignment explanation
Indices: 7872234--7872287 Score: 76
Period size: 8 Copynumber: 6.8 Consensus size: 8
7872224 TTTTTTTTGA
7872234 ATTTTTCAT
1 ATTTTT-AT
7872243 A-TTTTAT
1 ATTTTTAT
7872250 ATTTTTAT
1 ATTTTTAT
7872258 ATTTTTAT
1 ATTTTTAT
7872266 AATTTTTAT
1 -ATTTTTAT
7872275 -TTTTTAT
1 ATTTTTAT
7872282 ATTTTT
1 ATTTTT
7872288 GCACTCGTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
7 10 0.24
8 23 0.55
9 9 0.21
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTTAT
Found at i:7872413 original size:11 final size:10
Alignment explanation
Indices: 7872385--7872417 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
7872375 TATTTTTATT
7872385 AATTATTTTA
1 AATTATTTTA
7872395 AATTATTTTA
1 AATTATTTTA
7872405 AATTTATTTTA
1 AA-TTATTTTA
7872416 AA
1 AA
7872418 ATTTTTGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTATTTTA
Found at i:7872557 original size:3 final size:3
Alignment explanation
Indices: 7872543--7872596 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
7872533 TTGATTGAGT
*
7872543 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7872591 TTA TTA
1 TTA TTA
7872597 AGGGGTCAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:7873912 original size:6 final size:6
Alignment explanation
Indices: 7873897--7873927 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
7873887 GCTACCTCCG
*
7873897 CCGCCC CCGCCT CCGCCT CCGCCT CCGCCT C
1 CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT C
7873928 TGCCATATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.71, G:0.16, T:0.13
Consensus pattern (6 bp):
CCGCCT
Found at i:7874216 original size:3 final size:3
Alignment explanation
Indices: 7874208--7874238 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7874198 AGTTGCCATG
7874208 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7874239 TGCTGATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7875324 original size:121 final size:121
Alignment explanation
Indices: 7875110--7875329 Score: 413
Period size: 121 Copynumber: 1.8 Consensus size: 121
7875100 TTTCAAGTTA
7875110 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
* *
7875175 TCGCGCTCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATTTTTTTTG
66 TCACGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATTTTTTTTG
*
7875231 ACGTTTCTGAGCAAATAGTATAAAATTGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
7875296 TCACGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 TCACGCCCTCGTGGACGCGATTTTGCTACAGTAG
7875330 CAAGTTTGGG
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 96 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (121 bp):
ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAA
TCACGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATTTTTTTTG
Found at i:7878626 original size:29 final size:29
Alignment explanation
Indices: 7878570--7879344 Score: 754
Period size: 29 Copynumber: 26.7 Consensus size: 29
7878560 ATGAAAAATT
7878570 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
* * *
7878599 ATTAGGTTAGGGTTATGGTTACGGTTTTTA
1 ATTAAGTTA-GGTTAGGGTTAGGGTTTTTA
*
7878629 ATTAAATTAGGTT-GGAGTTAGGGTTTTTA
1 ATTAAGTTAGGTTAGG-GTTAGGGTTTTTA
** *
7878658 ATTGGGTTATGTTAGGGTTAGGGTTTTTA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
* *
7878687 ATTAATTTAGGTTAGGGTTAGGGTTTGTA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
*
7878716 ATTAAATTAGGTTAGGGTTAGGGTTTTTCA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTT-A
*
7878746 ATTAAGTTAGGTTAGGGTTAGTGTTTTTA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
*
7878775 ATTAAATTAGGTT-GGAGTTAGGGTTTTTTA
1 ATTAAGTTAGGTTAGG-GTTAGGG-TTTTTA
*
7878805 ATTAAGTTAGGTTAGGGTTAGTGTTTTTA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
*
7878834 ATTAAATTAGGTT-GGAGTTAGGGTTTTTA
1 ATTAAGTTAGGTTAGG-GTTAGGGTTTTTA
*
7878863 ATT--G---GGTTA-TGTTAGGGTTTTTA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
*
7878886 ATTAGGGTTTAGGTTAGGGTTAGGGTTTAGGTTA
1 ATTA-AG-TTAGGTTAGGGTTAGGGTTT---TTA
* **
7878920 GGGTTTTTAA-TTAAATTA-GGTTAGGGTTAGGGTTT-
1 -----ATTAAGTTAGGTTAGGGTTAGGGTT----TTTA
7878955 -TTAA-TTAGGGTTTA-GGTTAGGGTTTTTA
1 ATTAAGTTA-GG-TTAGGGTTAGGGTTTTTA
*
7878983 ATTAAATTAGGTTAGGGTTAGGGTTTTTTA
1 ATTAAGTTAGGTTAGGGTTAGGG-TTTTTA
* *
7879013 ATTAAATTAGGTTTAGGGTTAAGGTTTTTA
1 ATTAAGTTAGG-TTAGGGTTAGGGTTTTTA
** *
7879043 ATTGGGTTATGTTAGGGTTAGGGTTTTTA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
* *
7879072 ATTAATTTAGGTTAGGGTTAGGGTTTGTA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
*** * *
7879101 ATTAAACCAGGTTAGGATTAGAGTTTTTTA
1 ATTAAGTTAGGTTAGGGTTAG-GGTTTTTA
* *
7879131 ATTAAGTTAAGTTAGGGTTAGAGTTTTTA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
* *
7879160 ATTAGGTTATGTTAGGGTTAGGGTTTTTA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
*
7879189 ATTAAGTTAGGTTAGGGCTAGGGTTTTTA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
* *
7879218 ATTAAATTAGGTTAGGGTTAGGGGTTTTA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
*
7879247 ATT-AG---GGTTTA-GGTTAAGGTTTTTA
1 ATTAAGTTAGG-TTAGGGTTAGGGTTTTTA
*
7879272 ATTAAATTAGGTTAGGGTTAGGGTTTTTA
1 ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
7879301 ATT-AG---GGTTTA-GGTTAGGGTTTTTA
1 ATTAAGTTAGG-TTAGGGTTAGGGTTTTTA
*
7879326 ATTAAATTAGGTTAGGGTT
1 ATTAAGTTAGGTTAGGGTT
7879345 TTTAAATAGG
Statistics
Matches: 621, Mismatches: 75, Indels: 100
0.78 0.09 0.13
Matches are distributed among these distances:
23 16 0.03
24 4 0.01
25 36 0.06
26 9 0.01
27 3 0.00
28 16 0.03
29 338 0.54
30 138 0.22
31 36 0.06
34 3 0.00
35 10 0.02
36 8 0.01
39 4 0.01
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.46
Consensus pattern (29 bp):
ATTAAGTTAGGTTAGGGTTAGGGTTTTTA
Found at i:7878639 original size:59 final size:58
Alignment explanation
Indices: 7878570--7879392 Score: 822
Period size: 59 Copynumber: 14.3 Consensus size: 58
7878560 ATGAAAAATT
* * * *
7878570 ATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAGGTTAGGGTTATGGTTACGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTA-GGTTAGGGTTAGGGTTTTTA
** *
7878629 ATTAAATTAGGTT-GGAGTTAGGGTTTTTAATTGGGTTATGTTAGGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGG-GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTA
* * *
7878687 ATTAATTTAGGTTAGGGTTAGGGTTTGTAATTAAATTAGGTTAGGGTTAGGGTTTTTCA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTT-A
* * *
7878746 ATTAAGTTAGGTTAGGGTTAGTGTTTTTAATTAAATTAGGTT-GGAGTTAGGGTTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGG-GTTAGGG-TTTTTA
* * *
7878805 ATTAAGTTAGGTTAGGGTTAGTGTTTTTAATTAAATTAGGTT-GGAGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGG-GTTAGGGTTTTTA
*** * * * * * **
7878863 ATTGGGTTATGTTAGGGTTTTTAATTAGG-GTTTAGGTTAGGGTTAGGGTTTAGGTTAGGGTTTT
1 ATTAAATTAGGTTAGGG---TT-A--GGGTTTTTA-ATTA-AGTTA-GGTTAGGGTTAGGGTTTT
7878927 TA
57 TA
7878929 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AG---GGTTTA-GGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG-TTAGGGTTAGGGTTTTTA
* *
7878983 ATTAAATTAGGTTAGGGTTAGGGTTTTTTAATTAAATTAGGTTTAGGGTTAAGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGG-TTTTTAATTAAGTTAGG-TTAGGGTTAGGGTTTTTA
*** * * *
7879043 ATTGGGTTATGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTGTA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTA
** * * * *
7879101 ATTAAACCAGGTTAGGATTAGAGTTTTTTAATTAAGTTAAGTTAGGGTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTAG-GGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTA
** * *
7879160 ATTAGGTTATGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGCTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTA
* *
7879218 ATTAAATTAGGTTAGGGTTAGGGGTTTTAATT-AG---GGTTTA-GGTTAAGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG-TTAGGGTTAGGGTTTTTA
7879272 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AG---GGTTTA-GGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG-TTAGGGTTAGGGTTTTTA
* *
7879326 ATT-AA--A--TTA-GGTTAGGGTTTTTAAATAGGTT---TTA-GGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTA
7879374 ATTAAATTAGGTTAGGGTT
1 ATTAAATTAGGTTAGGGTT
7879393 TTTATTACAT
Statistics
Matches: 656, Mismatches: 74, Indels: 73
0.82 0.09 0.09
Matches are distributed among these distances:
48 36 0.05
49 6 0.01
51 2 0.00
53 5 0.01
54 112 0.17
55 14 0.02
56 1 0.00
57 2 0.00
58 181 0.28
59 204 0.31
60 41 0.06
61 6 0.01
62 2 0.00
63 6 0.01
64 4 0.01
65 3 0.00
66 30 0.05
67 1 0.00
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.46
Consensus pattern (58 bp):
ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTA
Found at i:7878676 original size:88 final size:87
Alignment explanation
Indices: 7878570--7879344 Score: 814
Period size: 88 Copynumber: 8.9 Consensus size: 87
7878560 ATGAAAAATT
* * * *
7878570 ATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAGGTTAGGGTTATGGTTACGGTTTTTAATTAAA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTA-GGTTAGGGTTAGGGTTTTTAATTAAA
7878635 TTAGGTT-GGAGTTAGGGTTTTTA
65 TTAGGTTAGG-GTTAGGGTTTTTA
*** * * *
7878658 ATTGGGTTATGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTGTAATTAAAT
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAAT
7878723 TAGGTTAGGGTTAGGGTTTTTCA
66 TAGGTTAGGGTTAGGGTTTTT-A
* * *
7878746 ATTAAGTTAGGTTAGGGTTAGTGTTTTTAATTAAATTAGGTT-GGAGTTAGGGTTTTTTAATTAA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGG-GTTAGGG-TTTTTAATTAA
* *
7878810 GTTAGGTTAGGGTTAGTGTTTTTA
64 ATTAGGTTAGGGTTAGGGTTTTTA
** * * *
7878834 ATTAAATTAGGTT-GGAGTTAGGGTTTTTAATTGGGTTATGTTAGGGTTTTTAATTAGG-GTTTA
1 ATTAAATTAGGTTAGG-GTTAGGGTTTTTAATTAAGTTAGGTTAGGG---TT-A--GGGTTTTTA
* ** **
7878897 GGTTAGGGTTAGGGTTTAGGTTAGGGTTTTTA
59 -ATTA-AATTA-GGTTAGGGTTAGGGTTTTTA
7878929 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AG---GGTTTA-GGTTAGGGTTTTTAATTAAA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG-TTAGGGTTAGGGTTTTTAATTAAA
7878989 TTAGGTTAGGGTTAGGGTTTTTTA
65 TTAGGTTAGGGTTAGGG-TTTTTA
* ** * *
7879013 ATTAAATTAGGTTTAGGGTTAAGGTTTTTAATTGGGTTATGTTAGGGTTAGGGTTTTTAATTAAT
1 ATTAAATTAGG-TTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAA
*
7879078 TTAGGTTAGGGTTAGGGTTTGTA
65 TTAGGTTAGGGTTAGGGTTTTTA
** * * * * **
7879101 ATTAAACCAGGTTAGGATTAGAGTTTTTTAATTAAGTTAAGTTAGGGTTAGAGTTTTTAATTAGG
1 ATTAAATTAGGTTAGGGTTAG-GGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAA
*
7879166 TTATGTTAGGGTTAGGGTTTTTA
65 TTAGGTTAGGGTTAGGGTTTTTA
* * * *
7879189 ATTAAGTTAGGTTAGGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGGTTTTAATT--A-
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAAT
* *
7879251 -GGGTTTA-GGTTAAGGTTTTTA
66 TAGG-TTAGGGTTAGGGTTTTTA
7879272 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AG---GGTTTA-GGTTAGGGTTTTTAATTAAA
1 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG-TTAGGGTTAGGGTTTTTAATTAAA
7879332 TTAGGTTAGGGTT
65 TTAGGTTAGGGTT
7879345 TTTAAATAGG
Statistics
Matches: 579, Mismatches: 75, Indels: 71
0.80 0.10 0.10
Matches are distributed among these distances:
79 18 0.03
80 3 0.01
81 1 0.00
82 4 0.01
83 62 0.11
84 23 0.04
85 25 0.04
86 5 0.01
87 90 0.16
88 207 0.36
89 70 0.12
91 5 0.01
92 8 0.01
93 3 0.01
94 7 0.01
95 46 0.08
96 2 0.00
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.46
Consensus pattern (87 bp):
ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAAT
TAGGTTAGGGTTAGGGTTTTTA
Found at i:7878892 original size:13 final size:13
Alignment explanation
Indices: 7878851--7878895 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
7878841 TAGGTTGGAG
7878851 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
* *
7878864 TT-GGG-TTAT-G
1 TTAGGGTTTTTAA
7878874 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
7878887 TTAGGGTTT
1 TTAGGGTTT
7878896 AGGTTAGGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
10 2 0.08
11 6 0.24
12 6 0.24
13 11 0.44
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (13 bp):
TTAGGGTTTTTAA
Found at i:7878910 original size:18 final size:18
Alignment explanation
Indices: 7878887--7878924 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
7878877 GGGTTTTTAA
7878887 TTAGGGTTTAGGTTAGGG
1 TTAGGGTTTAGGTTAGGG
7878905 TTAGGGTTTAGGTTAGGG
1 TTAGGGTTTAGGTTAGGG
7878923 TT
1 TT
7878925 TTTAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (18 bp):
TTAGGGTTTAGGTTAGGG
Found at i:7878934 original size:95 final size:95
Alignment explanation
Indices: 7878820--7879097 Score: 316
Period size: 95 Copynumber: 3.0 Consensus size: 95
7878810 GTTAGGTTAG
* *
7878820 GGTTAGTGTTTTTAATTAAATTAGGTT-GGAGTTAGGGTTTTTAATT-GGG-TTATGTTAGGGTT
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGG-GTTAGGGTTTTTAATTAGGGTTTAGGTTAGGGTT
**
7878882 TTTAATTAGGGTTTAGGTTAGGGTTAGGGTTTA
65 TTTAATTA--AATTAGGTTAGGGTTAGGGTTTA
7878915 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAGGGTTTAGGTTAGGGTTT
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAGGGTTTAGGTTAGGGTTT
7878980 TTAATTAAATTAGGTTAGGGTTA--G----
66 TTAATTAAATTAGGTTAGGGTTAGGGTTTA
*
7879004 GG-T----TTTTTAATTAAATTAGGTTTAGGGTTAAGGTTTTTAATT-GGGTTATGTTAGGGTTA
1 GGTTAGGGTTTTTAATTAAATTAGG-TTAGGGTTAGGGTTTTTAATTAGGG---T-TTA-GGTTA
*
7879063 GGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTT
60 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT
7879098 GTAATTAAAC
Statistics
Matches: 163, Mismatches: 6, Indels: 29
0.82 0.03 0.15
Matches are distributed among these distances:
84 20 0.12
85 20 0.12
87 1 0.01
88 4 0.02
89 35 0.21
91 1 0.01
93 1 0.01
95 56 0.34
96 5 0.03
97 20 0.12
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (95 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAGGGTTTAGGTTAGGGTTT
TTAATTAAATTAGGTTAGGGTTAGGGTTTA
Found at i:7878964 original size:13 final size:13
Alignment explanation
Indices: 7878946--7878986 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
7878936 TAGGTTAGGG
7878946 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
*
7878959 TTAGGG--TTTAGG
1 TTAGGGTTTTTA-A
7878971 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
7878984 TTA
1 TTA
7878987 AATTAGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
11 4 0.17
12 6 0.26
13 9 0.39
14 4 0.17
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (13 bp):
TTAGGGTTTTTAA
Found at i:7879285 original size:48 final size:48
Alignment explanation
Indices: 7879233--7879396 Score: 229
Period size: 48 Copynumber: 3.3 Consensus size: 48
7879223 ATTAGGTTAG
*
7879233 GGTTAGGGGTTTTAATTAGGGTTTAGGTTAAGGTTTTTAATTAAATTA
1 GGTTAGGGGTTTTAATTAGGGTTTAGGTTAGGGTTTTTAATTAAATTA
7879281 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTAGGTTAGGGTTTTTAATTAAATTA
1 GGTTA--G---GGG-TTTTAATTAGGGTTTAGGTTAGGGTTTTTAATTAAATTA
* * *
7879335 GGTTAGGGTTTTTAAATAGGTTTTAGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGGTTTTAATTAGGGTTTAGGTTAGGGTTTTTAATTAAATTA
*
7879383 GGTTAGGGTTTTTA
1 GGTTAGGGGTTTTA
7879397 TTACATCAAA
Statistics
Matches: 106, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
48 56 0.53
49 2 0.02
50 1 0.01
52 1 0.01
53 3 0.03
54 43 0.41
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (48 bp):
GGTTAGGGGTTTTAATTAGGGTTTAGGTTAGGGTTTTTAATTAAATTA
Found at i:7879307 original size:13 final size:13
Alignment explanation
Indices: 7879289--7879329 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
7879279 TAGGTTAGGG
7879289 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
*
7879302 TTAGGG--TTTAGG
1 TTAGGGTTTTTA-A
7879314 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
7879327 TTA
1 TTA
7879330 AATTAGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
11 4 0.17
12 6 0.26
13 9 0.39
14 4 0.17
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (13 bp):
TTAGGGTTTTTAA
Found at i:7879385 original size:30 final size:25
Alignment explanation
Indices: 7879233--7879396 Score: 129
Period size: 25 Copynumber: 6.6 Consensus size: 25
7879223 ATTAGGTTAG
* * *
7879233 GGTTAGGGGTTTTAATTAGGGTTTA
1 GGTTAGGGTTTTTAAATAGGTTTTA
* * **
7879258 GGTTAAGGTTTTTAATTAAATTAGGTTA
1 GGTTAGGGTTTTTAAATAGGTT---TTA
* *
7879286 GGGTTAGGGTTTTTAATTAGGGTTTA
1 -GGTTAGGGTTTTTAAATAGGTTTTA
* **
7879312 GGTTAGGGTTTTTAATTA--AATTA
1 GGTTAGGGTTTTTAAATAGGTTTTA
7879335 GGTTAGGGTTTTTAAATAGGTTTTA
1 GGTTAGGGTTTTTAAATAGGTTTTA
* **
7879360 GGTTAGGGTTTTTAATTA--AATTA
1 GGTTAGGGTTTTTAAATAGGTTTTA
7879383 GGTTAGGGTTTTTA
1 GGTTAGGGTTTTTA
7879397 TTACATCAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
23 37 0.32
25 55 0.47
26 3 0.03
28 3 0.03
29 18 0.16
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (25 bp):
GGTTAGGGTTTTTAAATAGGTTTTA
Found at i:7879420 original size:25 final size:25
Alignment explanation
Indices: 7879392--7879576 Score: 92
Period size: 25 Copynumber: 7.7 Consensus size: 25
7879382 AGGTTAGGGT
7879392 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
7879417 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
7879440 --AAATAAC-TCGAA-AAACTTTCTA
1 TTTTATTACATCAAATAAAC-TTCTA
**
7879462 TGCGTATTACATCAAATAAACTTCTA
1 T-TTTATTACATCAAATAAACTTCTA
*
7879488 TTTTATTACATGAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
7879511 --AAATAAC-TCGAA-AAACTTTCTA
1 TTTTATTACATCAAATAAAC-TTCTA
** *
7879533 TGCGTATTACATCAAATAAACTTTTA
1 T-TTTATTACATCAAATAAACTTCTA
7879559 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
7879577 TAAATTTAAA
Statistics
Matches: 117, Mismatches: 23, Indels: 40
0.65 0.13 0.22
Matches are distributed among these distances:
20 11 0.09
21 12 0.10
22 4 0.03
23 4 0.03
24 8 0.07
25 51 0.44
26 19 0.16
27 8 0.07
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:7879476 original size:36 final size:36
Alignment explanation
Indices: 7879436--7879548 Score: 90
Period size: 36 Copynumber: 3.2 Consensus size: 36
7879426 ATCAAATAAT
7879436 ATCAAAATAACTCGAAAAACTTTCTATGCGTATTAC
1 ATCAAAATAACTCGAAAAACTTTCTATGCGTATTAC
* *** * ** * *
7879472 ATC-AAATAAACTTCTATTTTA-TTAC-ATG-AAATAAT
1 ATCAAAAT-AAC-TCGA-AAAACTTTCTATGCGTATTAC
7879507 ATCAAAATAACTCGAAAAACTTTCTATGCGTATTAC
1 ATCAAAATAACTCGAAAAACTTTCTATGCGTATTAC
7879543 ATCAAA
1 ATCAAA
7879549 TAAACTTTTA
Statistics
Matches: 52, Mismatches: 18, Indels: 14
0.62 0.21 0.17
Matches are distributed among these distances:
33 1 0.02
34 6 0.12
35 16 0.31
36 22 0.42
37 6 0.12
38 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (36 bp):
ATCAAAATAACTCGAAAAACTTTCTATGCGTATTAC
Found at i:7879511 original size:71 final size:71
Alignment explanation
Indices: 7879395--7879578 Score: 350
Period size: 71 Copynumber: 2.6 Consensus size: 71
7879385 TTAGGGTTTT
7879395 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAACTTTC
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAACTTTC
7879460 TATGCG
66 TATGCG
*
7879466 TATTACATCAAATAAACTTCTATTTTATTACATGAAATAATATCAAAATAACTCGAAAAACTTTC
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAACTTTC
7879531 TATGCG
66 TATGCG
*
7879537 TATTACATCAAATAAACTTTTATTTTATTACATCAAATAATA
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
7879579 AATTTAAATA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 110 1.00
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (71 bp):
TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAACTTTC
TATGCG
Found at i:7880675 original size:7 final size:7
Alignment explanation
Indices: 7880665--7880717 Score: 106
Period size: 7 Copynumber: 7.6 Consensus size: 7
7880655 TTATATACAT
7880665 AATACTA
1 AATACTA
7880672 AATACTA
1 AATACTA
7880679 AATACTA
1 AATACTA
7880686 AATACTA
1 AATACTA
7880693 AATACTA
1 AATACTA
7880700 AATACTA
1 AATACTA
7880707 AATACTA
1 AATACTA
7880714 AATA
1 AATA
7880718 TCTATTTGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:7880896 original size:20 final size:20
Alignment explanation
Indices: 7880858--7880896 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7880848 CTTTTATTTT
*
7880858 TAAAATCTACATAATAATTG
1 TAAAATCTACATAAAAATTG
7880878 TAAAATCTA-ATATAAAATT
1 TAAAATCTACATA-AAAATT
7880897 TACCTCGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (20 bp):
TAAAATCTACATAAAAATTG
Found at i:7881886 original size:50 final size:51
Alignment explanation
Indices: 7881828--7881949 Score: 185
Period size: 50 Copynumber: 2.4 Consensus size: 51
7881818 TATTTTAAAA
* *
7881828 AAGGAAATTGAGAGCAAATTGAAATTAAATATGG-GTT-TGAGAGATTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTATGAGA-ATTTTGG
* *
7881878 AATGAAATTGAGAGGAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
7881929 AAGGAAATTGAGAGAAAATTG
1 AAGGAAATTGAGAGAAAATTG
7881950 GGAGGAAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
50 32 0.49
51 28 0.43
52 5 0.08
ACGTcount: A:0.43, C:0.01, G:0.26, T:0.30
Consensus pattern (51 bp):
AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
Found at i:7881944 original size:22 final size:22
Alignment explanation
Indices: 7881925--7881969 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
7881915 TATGAGAATT
7881925 TTGGAAGGAAATTGAGAGAAAA
1 TTGGAAGGAAATTGAGAGAAAA
* *
7881947 TTGGGAGGAAATTGAGAGGAAA
1 TTGGAAGGAAATTGAGAGAAAA
7881969 T
1 T
7881970 ATGAGGGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.20
Consensus pattern (22 bp):
TTGGAAGGAAATTGAGAGAAAA
Found at i:7881949 original size:11 final size:11
Alignment explanation
Indices: 7881930--7881974 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
7881920 GAATTTTGGA
7881930 AGGAAATTGAG
1 AGGAAATTGAG
* *
7881941 AGAAAATTGGG
1 AGGAAATTGAG
7881952 AGGAAATTGAG
1 AGGAAATTGAG
7881963 AGGAAATATGAG
1 AGGAAAT-TGAG
7881975 GGAGGATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 25 0.86
12 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.36, T:0.18
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:7883268 original size:25 final size:23
Alignment explanation
Indices: 7883235--7883280 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
7883225 ATCTTTCATA
7883235 TTTTATTAATGGAATATTTTAATTT
1 TTTTATTAA-GGAA-ATTTTAATTT
* *
7883260 TTTTCTTAAGGTAATTTTAAT
1 TTTTATTAAGGAAATTTTAAT
7883281 ATGTTGTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 3 0.16
25 8 0.42
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (23 bp):
TTTTATTAAGGAAATTTTAATTT
Found at i:7884487 original size:27 final size:27
Alignment explanation
Indices: 7884452--7884503 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
7884442 AGTGAGGTGA
*
7884452 CACCAGTGGAGGGTGAGAAAGAGGCGG
1 CACCAGTGGAAGGTGAGAAAGAGGCGG
*
7884479 CACCGGTGGAAGGTGAGAAAGAGGC
1 CACCAGTGGAAGGTGAGAAAGAGGC
7884504 AACACCCGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.15, G:0.46, T:0.08
Consensus pattern (27 bp):
CACCAGTGGAAGGTGAGAAAGAGGCGG
Found at i:7884509 original size:27 final size:27
Alignment explanation
Indices: 7884451--7884509 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
7884441 GAGTGAGGTG
* *
7884451 ACACCAGTGGAGGGTGAGAAAGAGGCG
1 ACACCAGTGGAAGGTGAGAAAGAGGCA
* *
7884478 GCACCGGTGGAAGGTGAGAAAGAGGCA
1 ACACCAGTGGAAGGTGAGAAAGAGGCA
7884505 ACACC
1 ACACC
7884510 CGTGCTGAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.41, T:0.07
Consensus pattern (27 bp):
ACACCAGTGGAAGGTGAGAAAGAGGCA
Found at i:7884666 original size:15 final size:16
Alignment explanation
Indices: 7884648--7884680 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7884638 CAGTATTTTT
7884648 TTAA-AAAATTAATTA
1 TTAAGAAAATTAATTA
*
7884663 TTAAGAAATTTAATTA
1 TTAAGAAAATTAATTA
7884679 TT
1 TT
7884681 TTTACAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TTAAGAAAATTAATTA
Found at i:7899977 original size:14 final size:14
Alignment explanation
Indices: 7899958--7899985 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7899948 TCAATTTATT
7899958 AATGAAATATTAAA
1 AATGAAATATTAAA
7899972 AATGAAATATTAAA
1 AATGAAATATTAAA
7899986 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AATGAAATATTAAA
Found at i:7901371 original size:3 final size:3
Alignment explanation
Indices: 7901349--7901402 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
7901339 AAATAGATAT
*
7901349 TTA TTA -TA TT- TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7901395 TTA TTA TT
1 TTA TTA TT
7901403 GTTGTTGTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
2 4 0.09
3 43 0.91
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:7901407 original size:3 final size:3
Alignment explanation
Indices: 7901401--7901444 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7901391 ATTATTATTA
7901401 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
7901445 AACTAATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:7901457 original size:2 final size:2
Alignment explanation
Indices: 7901450--7901479 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7901440 TTGTTAACTA
7901450 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
7901480 GATAAAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7901995 original size:11 final size:11
Alignment explanation
Indices: 7901979--7902003 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7901969 GAATTTACAG
7901979 TAGAAATTGAA
1 TAGAAATTGAA
7901990 TAGAAATTGAA
1 TAGAAATTGAA
7902001 TAG
1 TAG
7902004 GAAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (11 bp):
TAGAAATTGAA
Found at i:7902986 original size:20 final size:21
Alignment explanation
Indices: 7902951--7902992 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
7902941 AACATAAACC
7902951 ATATTTCTTTAATTTTAAAAT
1 ATATTTCTTTAATTTTAAAAT
*
7902972 ATATTT-TTTATTTTTAAAAT
1 ATATTTCTTTAATTTTAAAAT
7902992 A
1 A
7902993 CACTGCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATTTCTTTAATTTTAAAAT
Found at i:7908683 original size:27 final size:27
Alignment explanation
Indices: 7908653--7908714 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
7908643 TAAGCCTAAG
* *
7908653 TATTTTAAGTT-ACTTTATATATTATTT
1 TATTTTAAGTTAACTTTACATATTA-CT
*
7908680 TATTTTAAGTTAATTTTACATATTACT
1 TATTTTAAGTTAACTTTACATATTACT
7908707 TATTTTAA
1 TATTTTAA
7908715 AATTAACCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 20 0.65
28 11 0.35
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (27 bp):
TATTTTAAGTTAACTTTACATATTACT
Found at i:7913941 original size:17 final size:16
Alignment explanation
Indices: 7913921--7913961 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
7913911 AAAAACAAAA
7913921 AAAAAAATAAAATGAA-G
1 AAAAAAATAAAA--AAGG
7913938 AAAAAAATAAAAAAGG
1 AAAAAAATAAAAAAGG
7913954 AAAAAAAT
1 AAAAAAAT
7913962 CAAAGTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 9 0.39
17 12 0.52
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAAAAATAAAAAAGG
Found at i:7913951 original size:19 final size:19
Alignment explanation
Indices: 7913917--7913960 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
7913907 CAAAAAAAAC
*
7913917 AAAAAAAAAAATAAAATGA
1 AAAAAAAAAAATAAAAGGA
*
7913936 AGAAAAAAATAA-AAAAGGA
1 A-AAAAAAAAAATAAAAGGA
7913955 AAAAAA
1 AAAAAA
7913961 TCAAAGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (19 bp):
AAAAAAAAAAATAAAAGGA
Found at i:7913956 original size:16 final size:16
Alignment explanation
Indices: 7913921--7913966 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
7913911 AAAAACAAAA
7913921 AAAAAAATAAAATGAAG
1 AAAAAAATAAAA-GAAG
7913938 AAAAAAATAAAA-AAGG
1 AAAAAAATAAAAGAA-G
*
7913954 AAAAAAATCAAAG
1 AAAAAAATAAAAG
7913967 TCAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 12 0.46
17 12 0.46
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (16 bp):
AAAAAAATAAAAGAAG
Found at i:7914927 original size:15 final size:16
Alignment explanation
Indices: 7914907--7914941 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
7914897 CACTTTGAGT
*
7914907 AAAAAATGAAAAA-TA
1 AAAAAACGAAAAAGTA
7914922 AAAAAACGAAAAAGTA
1 AAAAAACGAAAAAGTA
7914938 AAAA
1 AAAA
7914942 TAGAGAGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.80, C:0.03, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAAAACGAAAAAGTA
Found at i:7916278 original size:44 final size:44
Alignment explanation
Indices: 7916205--7916420 Score: 306
Period size: 44 Copynumber: 4.9 Consensus size: 44
7916195 GTGAAATCAC
* *
7916205 AAGCCATAGTTCCCTGACCAGCAGCGGAATAGGTGGAAGACTGT
1 AAGCCCTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGT
* * *
7916249 AAGTCCTAGTTCCCTAACCAGCAGTGGAATAGGTCGAAGACTGT
1 AAGCCCTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGT
* * *
7916293 AAGTCCTAGTTCTCTGACCAGTAGTGGAATAGGTGGAAGACTGT
1 AAGCCCTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGT
* * * **
7916337 AAGCCCTAGTTCCCTGACCAACAATAGAATAAATGGAAGACTGT
1 AAGCCCTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGT
*
7916381 GAGCCCTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGA
1 AAGCCCTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGA
7916421 TAAGTCCTAT
Statistics
Matches: 149, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 149 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (44 bp):
AAGCCCTAGTTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGT
Found at i:7916737 original size:44 final size:44
Alignment explanation
Indices: 7916640--7916752 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 44
7916630 GAAGATGGCA
* * *
7916640 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * *
7916684 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAG-TAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* *
7916727 AGATCTTATCTCTCTGAAGTTACAGT
1 A-ATCTTATCTCCCTGAAGTTGCAGT
7916753 ACAGTGGATC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 3 0.05
44 54 0.95
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:7917033 original size:100 final size:100
Alignment explanation
Indices: 7916810--7917893 Score: 1457
Period size: 100 Copynumber: 10.9 Consensus size: 100
7916800 GACTGAGAAT
*
7916810 AGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTT-
1 AGCGAATCTTACTCCCCAGACGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTC
*
7916874 CCCGACATTGCAATTAAAAAGATTAAAGCTACAAC
66 CCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
* * * * *
7916909 AGTGAATCTTACTCCACAGGCGATGCAGTGGAACAGATTAAAGACACATCGGTGAATCTTACTTC
1 AGCGAATCTTACTCCCCAGACGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTC
*
7916974 CCCGACATTGCAGTTAAAAATATTAAAGCTACAAC
66 CCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
*
7917009 AGCGAATCTTACTCCTCAGACGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTC
1 AGCGAATCTTACTCCCCAGACGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTC
*
7917074 CCCGACATTGCAGTTAAAAAGATTAAAGCTACAAT
66 CCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
* *
7917109 AGCGAATCTTACTCCCCAGGA-GATGTAGTGGAACAGATTAAAGCTACATCGGTGAATCTTGCTT
1 AGCGAATCTTACTCCCCA-GACGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTT
7917173 CCCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
65 CCCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
*
7917209 AGCGAATCTTACTCCCCAGGA-GATGTAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTT
1 AGCGAATCTTACTCCCCA-GACGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTT
7917273 CCCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
65 CCCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
*
7917309 AGCGAATCTTACTCCCCAGGA-GATGTAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTT
1 AGCGAATCTTACTCCCCA-GACGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTT
7917373 CCCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
65 CCCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
* * * *
7917409 AGCGAATCTTACTCTCTAGGCGATGCAGTGGAACATATTAAAGCCACATCGGTGAATCTTGCTTC
1 AGCGAATCTTACTCCCCAGACGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTC
7917474 CCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
66 CCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
* *
7917509 AGTGAATCTTACTCCCCA-A-GTTATGCAGTGGAACAGATT-AAGCCACATCAGTGAATCTTGCT
1 AGCGAATCTTACTCCCCAGACG--ATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCT
* *
7917571 TCCCCGACATTGTAGTT----A-A--AAAGCTACCAC
64 TCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
* ** * * *
7917601 AGCGAATCTTACTCCTCAGGTGACGCAGTGGAACAGATTAAAGCCACAAT-GGCGAACCTTGCTT
1 AGCGAATCTTACTCCCCAGACGATGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTT
* * *
7917665 CCCTGACATTGCAGTTAAAAATATTATAGCTACAAC
65 CCCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
* * * * * * * * ** *
7917701 AGTGAATCTTACTTCTCA-AGCGGTGTAGTGGAACAAATTAACGCCACAACGGCAAAACTTGCTT
1 AGCGAATCTTACTCCCCAGA-CGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTT
* *
7917765 CCCCGATATTGCAGTTAGAAAGATTAAAGCTACAAC
65 CCCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
* * * * ** * *
7917801 AGCGAATCTTACTTCCCAGGC-AGTGTAGTGGAACAGATTGAAGATACAAT-AGCGAATCTTGCT
1 AGCGAATCTTACTCCCCAGACGA-TGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCT
* ** *
7917864 TCCTCGACATCACAGTTAAACAGATTAAAG
64 TCCCCGACATTGCAGTTAAAAAGATTAAAG
7917894 TTACGAGTTA
Statistics
Matches: 886, Mismatches: 78, Indels: 41
0.88 0.08 0.04
Matches are distributed among these distances:
92 42 0.05
93 32 0.04
94 4 0.00
95 1 0.00
97 1 0.00
98 2 0.00
99 100 0.11
100 701 0.79
101 3 0.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (100 bp):
AGCGAATCTTACTCCCCAGACGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTC
CCCGACATTGCAGTTAAAAAGATTAAAGCTACAAC
Found at i:7917679 original size:50 final size:50
Alignment explanation
Indices: 7917625--7917893 Score: 157
Period size: 50 Copynumber: 5.4 Consensus size: 50
7917615 CTCAGGTGAC
* ** *
7917625 GCAGTGGAACAGATTAAAGCCACAATGGCGAACCTTGCTTCCCTGACATT
1 GCAGTGGAACAGATTAAAGCTACAACAGCGAATCTTGCTTCCCTGACATT
** * * * * * * * **
7917675 GCAGTTAAAAATATTATAGCTACAACAGTGAATCTTACTTCTC-AAGCGGT
1 GCAGTGGAACAGATTAAAGCTACAACAGCGAATCTTGCTTCCCTGA-CATT
* * * * * * * * *
7917725 GTAGTGGAACAAATTAACGCCACAACGGCAAAACTTGCTTCCCCGATATT
1 GCAGTGGAACAGATTAAAGCTACAACAGCGAATCTTGCTTCCCTGACATT
* * * * *
7917775 GCAGTTAGAA-AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGT
1 GCAG-TGGAACAGATTAAAGCTACAACAGCGAATCTTGCTTCCCTGACATT
* * * * *
7917825 GTAGTGGAACAGATTGAAGATACAATAGCGAATCTTGCTT-CCTCGACATC
1 GCAGTGGAACAGATTAAAGCTACAACAGCGAATCTTGCTTCCCT-GACATT
* **
7917875 ACAGTTAAACAGATTAAAG
1 GCAGTGGAACAGATTAAAG
7917894 TTACGAGTTA
Statistics
Matches: 153, Mismatches: 61, Indels: 10
0.68 0.27 0.04
Matches are distributed among these distances:
49 7 0.05
50 141 0.92
51 5 0.03
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (50 bp):
GCAGTGGAACAGATTAAAGCTACAACAGCGAATCTTGCTTCCCTGACATT
Found at i:7919547 original size:27 final size:27
Alignment explanation
Indices: 7919517--7919578 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
7919507 TAAGCCTAAG
* *
7919517 TATTTTAAGTT-ACTTTATATATTATTT
1 TATTTTAAGTTAACTTTACATATTA-CT
*
7919544 TATTTTAAGTTAATTTTACATATTACT
1 TATTTTAAGTTAACTTTACATATTACT
7919571 TATTTTAA
1 TATTTTAA
7919579 AATTAACCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 20 0.65
28 11 0.35
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (27 bp):
TATTTTAAGTTAACTTTACATATTACT
Found at i:7921828 original size:50 final size:51
Alignment explanation
Indices: 7921695--7921881 Score: 198
Period size: 51 Copynumber: 3.6 Consensus size: 51
7921685 ACATGCAAAA
** * *
7921695 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGTCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGTCCAAC
* ** *
7921746 GCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG-CCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGTCCAAC
* * *
7921796 GCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAATCTTAATGATGT-CAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATC-----GGTGTCCAAC
*
7921852 GCCATGTCTCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
7921882 TCTCATTCCC
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
50 37 0.33
51 41 0.37
56 34 0.30
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGTCCAAC
Found at i:7923357 original size:14 final size:15
Alignment explanation
Indices: 7923329--7923357 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7923319 GAGAAGCTAT
7923329 TTAAAATACATATTA
1 TTAAAATACATATTA
7923344 TTAAAATA-ATATTA
1 TTAAAATACATATTA
7923358 AATTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATACATATTA
Found at i:7930707 original size:9 final size:9
Alignment explanation
Indices: 7930693--7930719 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
7930683 CAACTTATAG
7930693 CAAATCCAT
1 CAAATCCAT
7930702 CAAATCCAT
1 CAAATCCAT
7930711 CAAATCCAT
1 CAAATCCAT
7930720 TAAACAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (9 bp):
CAAATCCAT
Found at i:7939362 original size:28 final size:29
Alignment explanation
Indices: 7939321--7939389 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
7939311 AGGGTTTTAA
* * *
7939321 AAATATTTAATTTTATTTATAGTTAT-TT
1 AAATATATAATTTTAATTATAGATATGTT
* *
7939349 AAATATATATTTTTAATTGTAGATATGTT
1 AAATATATAATTTTAATTATAGATATGTT
*
7939378 TAATATATAATT
1 AAATATATAATT
7939390 ATATTAGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
28 21 0.64
29 12 0.36
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (29 bp):
AAATATATAATTTTAATTATAGATATGTT
Found at i:7939770 original size:2 final size:2
Alignment explanation
Indices: 7939763--7939788 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7939753 GATACGTGTA
7939763 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
7939789 TTAAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7940734 original size:18 final size:20
Alignment explanation
Indices: 7940708--7940744 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
7940698 GAAGATTTCT
7940708 TTGGAGGT-GTA-AAACGGG
1 TTGGAGGTGGTAGAAACGGG
*
7940726 TTGGCGGTGGTAGAAACGG
1 TTGGAGGTGGTAGAAACGG
7940745 CTCCTATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 3 0.19
20 6 0.38
ACGTcount: A:0.24, C:0.08, G:0.46, T:0.22
Consensus pattern (20 bp):
TTGGAGGTGGTAGAAACGGG
Found at i:7941816 original size:2 final size:2
Alignment explanation
Indices: 7941809--7941836 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7941799 TCATTGAAAC
7941809 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
7941837 CCACAATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7947001 original size:10 final size:10
Alignment explanation
Indices: 7946986--7947011 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7946976 TTTAAATATT
7946986 AAAAATTAGA
1 AAAAATTAGA
7946996 AAAAATTAGA
1 AAAAATTAGA
7947006 AAAAAT
1 AAAAAT
7947012 ATATAAAAAT
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:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (10 bp):
AAAAATTAGA
Found at i:7947019 original size:10 final size:10
Alignment explanation
Indices: 7947006--7947072 Score: 50
Period size: 10 Copynumber: 6.9 Consensus size: 10
7946996 AAAAATTAGA
7947006 AAAAATATAT
1 AAAAATATAT
*
7947016 AAAAAT-TGT
1 AAAAATATAT
* *
7947025 AAAATTTTAT
1 AAAAATATAT
* *
7947035 AAAAATCGTAA
1 AAAAAT-ATAT
7947046 AAAAAT-TAT
1 AAAAATATAT
7947055 -AAAATATAT
1 AAAAATATAT
*
7947064 AGAAATATA
1 AAAAATATA
7947073 AAATTTTATG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
8 5 0.11
9 12 0.27
10 20 0.44
11 8 0.18
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
AAAAATATAT
Found at i:7947019 original size:20 final size:20
Alignment explanation
Indices: 7946986--7947068 Score: 57
Period size: 20 Copynumber: 4.1 Consensus size: 20
7946976 TTTAAATATT
*
7946986 AAAAATTAGAAAAA-ATTAGA
1 AAAAATTATAAAAATA-TAGA
7947006 AAAAATATATAAAAAT-T-GTA
1 AAAAAT-TATAAAAATATAG-A
** *
7947026 AAATTTTATAAAAATCGTA-A
1 AAAAATTATAAAAAT-ATAGA
7947046 AAAAATTATAAAATATATAGA
1 AAAAATTATAAAA-ATATAGA
7947067 AA
1 AA
7947069 TATAAAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 15
0.70 0.09 0.21
Matches are distributed among these distances:
19 10 0.20
20 26 0.53
21 13 0.27
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (20 bp):
AAAAATTATAAAAATATAGA
Found at i:7947028 original size:19 final size:19
Alignment explanation
Indices: 7946996--7947058 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
7946986 AAAAATTAGA
*
7946996 AAAAATTAGAAAAAATATAT
1 AAAAATT-GTAAAAATATAT
* *
7947016 AAAAATTGTAAAATTTTAT
1 AAAAATTGTAAAAATATAT
* *
7947035 AAAAATCGTAAAAAAATTAT
1 AAAAATTGTAAAAATA-TAT
7947055 AAAA
1 AAAA
7947059 TATATAGAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
19 21 0.60
20 14 0.40
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAAATTGTAAAAATATAT
Found at i:7947107 original size:48 final size:48
Alignment explanation
Indices: 7946995--7947122 Score: 134
Period size: 48 Copynumber: 2.6 Consensus size: 48
7946985 TAAAAATTAG
* * *
7946995 AAAAAATTAGAAAAAATATATAAAAATTGTAAAATTTTATAAAAATCGTA
1 AAAAAATTA-TAAAAATATATAGAAA-TATAAAATTTTATAAAAATCGTA
* * *
7947045 AAAAAATTAT-AAAATATATAGAAATATAAAATTTTAT-GAAGTCGTG
1 AAAAAATTATAAAAATATATAGAAATATAAAATTTTATAAAAATCGTA
* * *
7947091 AGAAAATTATACAAAATGTAAAGAAATATAAA
1 AAAAAATTATA-AAAATATATAGAAATATAAA
7947123 TTTCGTAATT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 15 0.22
47 12 0.18
48 31 0.46
50 9 0.13
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (48 bp):
AAAAAATTATAAAAATATATAGAAATATAAAATTTTATAAAAATCGTA
Found at i:7947587 original size:85 final size:86
Alignment explanation
Indices: 7947454--7947612 Score: 248
Period size: 85 Copynumber: 1.8 Consensus size: 86
7947444 TAAGAGCAGT
* * *
7947454 GGCTTAATTGCTTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACCC
1 GGCTTAATT-CTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAGTACCC
7947519 AATTGAGTGAAAGAGAAGTAGG
65 AATTGAGTGAAAGAGAAGTAGG
* * *
7947541 GGCTTAATT-TTTTTTGAAGAAGTTTGAGGGCCTTTTTGATACATTTTGAAAGTTCAAGTACTCA
1 GGCTTAATTCTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAGTACCCA
7947605 ATTGAGTG
66 ATTGAGTG
7947613 CAAAAAAATG
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
85 57 0.86
87 9 0.14
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (86 bp):
GGCTTAATTCTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAGTACCCA
ATTGAGTGAAAGAGAAGTAGG
Found at i:7947626 original size:14 final size:14
Alignment explanation
Indices: 7947607--7947638 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7947597 AGTACTCAAT
7947607 TGAGTGCAAAAAAA
1 TGAGTGCAAAAAAA
7947621 TGAGTGCAAAAAAA
1 TGAGTGCAAAAAAA
7947635 TGAG
1 TGAG
7947639 GGACTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.25, T:0.16
Consensus pattern (14 bp):
TGAGTGCAAAAAAA
Found at i:7948010 original size:20 final size:22
Alignment explanation
Indices: 7947973--7948013 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
7947963 TCGAAAAAAC
7947973 CTAAAATATATCAAATATATAA
1 CTAAAATATATCAAATATATAA
7947995 CTAAAAT-TAT-AAATATATA
1 CTAAAATATATCAAATATATA
7948014 TAATTGTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 3 0.16
22 7 0.37
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (22 bp):
CTAAAATATATCAAATATATAA
Found at i:7948075 original size:9 final size:9
Alignment explanation
Indices: 7948063--7948167 Score: 52
Period size: 10 Copynumber: 11.0 Consensus size: 9
7948053 AAATTGTAAA
7948063 AAAAATTAT
1 AAAAATTAT
7948072 AAAAAATCTAT
1 -AAAAAT-TAT
*
7948083 AAAAACTAT
1 AAAAATTAT
*
7948092 AAACATTATT
1 AAAAATTA-T
7948102 AGAAAATGTA-
1 A-AAAAT-TAT
* *
7948112 AAATATAAT
1 AAAAATTAT
7948121 AAAAA-TAT
1 AAAAATTAT
*
7948129 AAAAAATATT
1 AAAAATTA-T
** *
7948139 AGTAATCAT
1 AAAAATTAT
7948148 AAAAGATTAT
1 AAAA-ATTAT
7948158 AAAAAATTAT
1 -AAAAATTAT
7948168 TACATACTTT
Statistics
Matches: 71, Mismatches: 15, Indels: 18
0.68 0.14 0.17
Matches are distributed among these distances:
8 8 0.11
9 22 0.31
10 28 0.39
11 11 0.15
12 2 0.03
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:7948131 original size:18 final size:17
Alignment explanation
Indices: 7948081--7948132 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
7948071 TAAAAAATCT
7948081 ATAAAAACTATAAACATTA
1 ATAAAAA-TATAAA-ATTA
* *
7948100 TTAGAAAATGTAAAATATA
1 ATA-AAAATATAAAAT-TA
7948119 ATAAAAATATAAAA
1 ATAAAAATATAAAA
7948133 AATATTAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 12 0.44
19 11 0.41
20 4 0.15
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (17 bp):
ATAAAAATATAAAATTA
Found at i:7948598 original size:17 final size:19
Alignment explanation
Indices: 7948578--7948614 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7948568 ATATATGAAA
7948578 TAATT-AAA-AATATAATT
1 TAATTGAAATAATATAATT
*
7948595 TAATTGAAATAATATTATT
1 TAATTGAAATAATATAATT
7948614 T
1 T
7948615 TTTATTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATTGAAATAATATAATT
Found at i:7949025 original size:18 final size:20
Alignment explanation
Indices: 7948992--7949030 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
7948982 CATTAAGCCT
*
7948992 AATAAATTTAATTATTTTAA
1 AATAAATTTAATTATTGTAA
7949012 AATAAA-TT-ATTATTGTAA
1 AATAAATTTAATTATTGTAA
7949030 A
1 A
7949031 GTTAGAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
AATAAATTTAATTATTGTAA
Found at i:7949647 original size:2 final size:2
Alignment explanation
Indices: 7949640--7949683 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
7949630 ATGTTTTTGT
7949640 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7949682 TA
1 TA
7949684 ANNNNNNNNN
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):
TA
Found at i:7961325 original size:76 final size:76
Alignment explanation
Indices: 7961233--7961383 Score: 302
Period size: 76 Copynumber: 2.0 Consensus size: 76
7961223 AATTGCTAAC
7961233 TAGTCCTTCCTTATTTTTCCACTACTTACATAAATTCTCATAACTTCCTAACAAGGCAAGATTCT
1 TAGTCCTTCCTTATTTTTCCACTACTTACATAAATTCTCATAACTTCCTAACAAGGCAAGATTCT
7961298 AGTTGGGAGGT
66 AGTTGGGAGGT
7961309 TAGTCCTTCCTTATTTTTCCACTACTTACATAAATTCTCATAACTTCCTAACAAGGCAAGATTCT
1 TAGTCCTTCCTTATTTTTCCACTACTTACATAAATTCTCATAACTTCCTAACAAGGCAAGATTCT
7961374 AGTTGGGAGG
66 AGTTGGGAGG
7961384 ATGGAAGAAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (76 bp):
TAGTCCTTCCTTATTTTTCCACTACTTACATAAATTCTCATAACTTCCTAACAAGGCAAGATTCT
AGTTGGGAGGT
Found at i:7965247 original size:3 final size:3
Alignment explanation
Indices: 7965239--7965301 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
7965229 TGTTTGCCTT
7965239 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7965287 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
7965302 CTTNNNNNNN
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7969506 original size:5 final size:5
Alignment explanation
Indices: 7969496--7969529 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
7969486 AACAAAGTGT
7969496 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAA
7969530 CTTTAACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:7980221 original size:18 final size:19
Alignment explanation
Indices: 7980188--7980223 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7980178 GTTTTCTCGT
7980188 TCTCTTATTAGGTTTTTTG
1 TCTCTTATTAGGTTTTTTG
*
7980207 TCTCTTCTT-GGTTTTTT
1 TCTCTTATTAGGTTTTTT
7980224 TTAAAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.06, C:0.14, G:0.14, T:0.67
Consensus pattern (19 bp):
TCTCTTATTAGGTTTTTTG
Found at i:7985164 original size:22 final size:25
Alignment explanation
Indices: 7985118--7985166 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 25
7985108 TAGTTTATGC
7985118 AGGTTCATCTACAAGATCATCTCAA
1 AGGTTCATCTACAAGATCATCTCAA
*
7985143 AGGTTC-T-TACAA-ATCGTCTCAA
1 AGGTTCATCTACAAGATCATCTCAA
7985165 AG
1 AG
7985167 TCACATTCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 5 0.22
24 1 0.04
25 6 0.26
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (25 bp):
AGGTTCATCTACAAGATCATCTCAA
Found at i:7990751 original size:24 final size:23
Alignment explanation
Indices: 7990702--7990751 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
7990692 ATAAAGTAGT
* *
7990702 TATATATTATTTTTATAATATTA
1 TATATATGATTTTTATAATATCA
7990725 TATATTATGATTTTTATTAAT-TCA
1 TATA-TATGATTTTTA-TAATATCA
7990749 TAT
1 TAT
7990752 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TATATATGATTTTTATAATATCA
Found at i:7990841 original size:57 final size:55
Alignment explanation
Indices: 7990727--7990870 Score: 168
Period size: 57 Copynumber: 2.6 Consensus size: 55
7990717 TAATATTATA
* * *
7990727 TATTATGATTTTTATT-AATTCATATTTTAATAATAATATTAAGAATGTTATTAAAT
1 TATTATTATTTTTATTAAATT-ATA-TTTAATAATAATATTAAGAATATAATTAAAT
*
7990783 TATATATTA-TTTTATTAAATTGTATTTAATAATAATTATGTTAA-AATATAATTAAAT
1 TAT-TATTATTTTTATTAAATTATATTTAATAATAA-TA--TTAAGAATATAATTAAAT
*
7990840 TATTTTTATTTTTATTAAATTATATTTAATA
1 TATTATTATTTTTATTAAATTATATTTAATA
7990871 GTGATCTTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
55 11 0.14
56 18 0.24
57 43 0.57
58 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (55 bp):
TATTATTATTTTTATTAAATTATATTTAATAATAATATTAAGAATATAATTAAAT
Found at i:7991074 original size:16 final size:16
Alignment explanation
Indices: 7991055--7991098 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
7991045 CTGATTACCA
*
7991055 CTCTATTCTATTACAG
1 CTCTATTCCATTACAG
7991071 CTCTATTCCATTACAAG
1 CTCTATTCCATTAC-AG
*
7991088 -TCCATTCCATT
1 CTCTATTCCATT
7991099 CCCCCAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 23 0.92
17 2 0.08
ACGTcount: A:0.25, C:0.30, G:0.05, T:0.41
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:7994223 original size:69 final size:69
Alignment explanation
Indices: 7994071--7994228 Score: 192
Period size: 69 Copynumber: 2.3 Consensus size: 69
7994061 ATCATTTTAT
* * * * *
7994071 CCGACCAGCGCTGGGCACAACCTTTGTTAGCTTGTCTGACTAGTGCTGGGCACACAATTATCGGT
1 CCGACTAGCGCTGGGCGCAACCTTTGTCAGCTTGTCTGACTAGTGCTAGGCACACAATCATCGGT
*
7994136 TCAT
66 TCAA
* * * * *
7994140 CCGATTAGCACTGGGCGCAACTTTTGTCAGCTTGTTTGACTAGTGCTAGGCACACAATCATTGG-
1 CCGACTAGCGCTGGGCGCAACCTTTGTCAGCTTGTCTGACTAGTGCTAGGCACACAATCATCGGT
7994204 TCAAA
66 TC-AA
*
7994209 CCGACTAGCGCTGGGTGCAA
1 CCGACTAGCGCTGGGCGCAA
7994229 ACATCGTTGG
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
68 2 0.03
69 72 0.97
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (69 bp):
CCGACTAGCGCTGGGCGCAACCTTTGTCAGCTTGTCTGACTAGTGCTAGGCACACAATCATCGGT
TCAA
Found at i:8000472 original size:16 final size:15
Alignment explanation
Indices: 8000451--8000484 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
8000441 TATTTTATAA
8000451 TATTTTAATTATATTT
1 TATTTTAATTAT-TTT
8000467 TATTTTAATTATTTT
1 TATTTTAATTATTTT
8000482 TAT
1 TAT
8000485 ATGTGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTAATTATTTT
Found at i:8000479 original size:25 final size:25
Alignment explanation
Indices: 8000433--8000500 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
8000423 ATTTTGATTT
8000433 ATTATATATATTTTATAATATTTTA
1 ATTATATATATTTTATAATATTTTA
* * *
8000458 ATTATATTTTATTTTA-ATTATTTTT
1 ATTATA-TATATTTTATAATATTTTA
* *
8000483 A-TATGTGTATTTTATAAT
1 ATTATATATATTTTATAAT
8000501 TTATACTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 8 0.23
24 5 0.14
25 14 0.40
26 8 0.23
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (25 bp):
ATTATATATATTTTATAATATTTTA
Found at i:8000502 original size:22 final size:22
Alignment explanation
Indices: 8000459--8000502 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8000449 AATATTTTAA
* *
8000459 TTATATTTTATTTTAATTATTT
1 TTATATTGTATTTTAATAATTT
8000481 TTATATGTGTATTTT-ATAATTT
1 TTATAT-TGTATTTTAATAATTT
8000503 ATACTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (22 bp):
TTATATTGTATTTTAATAATTT
Found at i:8001555 original size:15 final size:17
Alignment explanation
Indices: 8001524--8001555 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
8001514 TCACTTTTAA
8001524 AAATATATAACAATTTT
1 AAATATATAACAATTTT
8001541 AAAT-TATAA-AATTTT
1 AAATATATAACAATTTT
8001556 TATATTATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATATATAACAATTTT
Found at i:8002772 original size:11 final size:11
Alignment explanation
Indices: 8002746--8002781 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
8002736 TTTATGCCAA
*
8002746 AAGAAGCAACAA
1 AAGAA-CAACAG
8002758 AAGAACAACAG
1 AAGAACAACAG
8002769 AAGAACAACAG
1 AAGAACAACAG
8002780 AA
1 AA
8002782 AGATTGCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.67, C:0.17, G:0.17, T:0.00
Consensus pattern (11 bp):
AAGAACAACAG
Found at i:8010517 original size:23 final size:24
Alignment explanation
Indices: 8010489--8010534 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
8010479 TTTTGGTGCT
*
8010489 GTTATTTTT-CTGCTGTTTTTGTA
1 GTTATTTTTGCTACTGTTTTTGTA
*
8010512 GTTATTTTTGCTATTGTTTTTGT
1 GTTATTTTTGCTACTGTTTTTGT
8010535 TATTTGTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.09, C:0.07, G:0.17, T:0.67
Consensus pattern (24 bp):
GTTATTTTTGCTACTGTTTTTGTA
Found at i:8017054 original size:22 final size:22
Alignment explanation
Indices: 8016993--8017047 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
8016983 ATGCTCCCTA
* *
8016993 TGTTGCTACATCGAACCCTCCG
1 TGTTGCGACATCGAAACCTCCG
*
8017015 TGTTGCGACATCGAAACCTCTG
1 TGTTGCGACATCGAAACCTCCG
8017037 TGTTGCGACAT
1 TGTTGCGACAT
8017048 ACTAACCAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (22 bp):
TGTTGCGACATCGAAACCTCCG
Found at i:8023471 original size:13 final size:13
Alignment explanation
Indices: 8023452--8023482 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8023442 AAATGATTAC
8023452 ATGAATTGGTTAT
1 ATGAATTGGTTAT
*
8023465 GTGAATTGGTTAT
1 ATGAATTGGTTAT
8023478 ATGAA
1 ATGAA
8023483 AATATATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (13 bp):
ATGAATTGGTTAT
Found at i:8023940 original size:2 final size:2
Alignment explanation
Indices: 8023933--8023965 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8023923 AGGGTTTTGG
8023933 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8023966 AGCATTATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8024478 original size:8 final size:8
Alignment explanation
Indices: 8024465--8024490 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
8024455 TTAGGGGCAT
8024465 TTTGGTAA
1 TTTGGTAA
8024473 TTTGGTAA
1 TTTGGTAA
8024481 TTTGGTAA
1 TTTGGTAA
8024489 TT
1 TT
8024491 AAAATGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (8 bp):
TTTGGTAA
Found at i:8025336 original size:41 final size:41
Alignment explanation
Indices: 8025290--8025605 Score: 218
Period size: 41 Copynumber: 7.5 Consensus size: 41
8025280 CATTGAATGT
*
8025290 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGA-TCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTC-AA
* * *
8025331 AAGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTCAA
* **
8025372 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATC-CTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGAATCAC-TGATT-CAA
* * * *
8025416 AAGGGGTTGCTATGTGCTGATTTCCC-ATATCATTGATT-AT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-ATCACTGATTCAA
* * * *
8025456 AAGGTGGTTGCTAAGTGTTGATTCCACAGGGATC-CT-A-TGAA
1 AAGG-GGTTGCTAAGTGCTGATTCC-C-CGAATCACTGATTCAA
* * **
8025497 CTTGAGGTGGTTGCTAAGTGCTGATTCCACCGTATC-CTTGATTTGA
1 ---AAGG-GGTTGCTAAGTGCTGATTCC-CCGAATCAC-TGATTCAA
* * * *
8025543 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATT-AT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTCAA
8025583 AAGGTGGTTGCTAAGTGCTGATT
1 AAGG-GGTTGCTAAGTGCTGATT
8025606 GCATGGGGAT
Statistics
Matches: 221, Mismatches: 34, Indels: 40
0.75 0.12 0.14
Matches are distributed among these distances:
40 9 0.04
41 86 0.39
42 53 0.24
43 39 0.18
44 31 0.14
45 1 0.00
46 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTCAA
Found at i:8025435 original size:85 final size:83
Alignment explanation
Indices: 8025331--8025605 Score: 296
Period size: 85 Copynumber: 3.3 Consensus size: 83
8025321 ACTGATCAAA
*
8025331 AAGG-GGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATT
1 AAGGTGGTTGCTAAGTGCTGATTCCCCGAATCATTGATT-TAAAGGTGGTTGCTAAGTGCTGATT
8025395 CCACCGTATCCTTGATTGTG
65 CCACCGTATCCTTGATT-TG
* * *
8025415 AAAGG-GGTTGCTATGTGCTGATTTCCC-ATATCATTGA-TTATAAGGTGGTTGCTAAGTGTTGA
1 -AAGGTGGTTGCTAAGTGCTGATTCCCCGA-ATCATTGATTTA-AAGGTGGTTGCTAAGTGCTGA
* * *
8025477 TTCCACAGGGATCCTATGAACTTG
63 TTCCAC-CGTATCCT-TG-ATTTG
* * *
8025501 -AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTTGAAAGG-GGTTGCTATGTGCTGAT
1 AAGGTGGTTGCTAAGTGCTGATTCC-CCGAATCATTGATTT-AAAGGTGGTTGCTAAGTGCTGAT
*
8025564 TCC-CCGTATCATTGATTAT-
64 TCCACCGTATCCTTGATT-TG
8025583 AAGGTGGTTGCTAAGTGCTGATT
1 AAGGTGGTTGCTAAGTGCTGATT
8025606 GCATGGGGAT
Statistics
Matches: 161, Mismatches: 17, Indels: 26
0.79 0.08 0.13
Matches are distributed among these distances:
82 2 0.01
83 27 0.17
84 36 0.22
85 56 0.35
86 31 0.19
87 8 0.05
88 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (83 bp):
AAGGTGGTTGCTAAGTGCTGATTCCCCGAATCATTGATTTAAAGGTGGTTGCTAAGTGCTGATTC
CACCGTATCCTTGATTTG
Found at i:8025583 original size:127 final size:128
Alignment explanation
Indices: 8025373--8025655 Score: 478
Period size: 127 Copynumber: 2.2 Consensus size: 128
8025363 TTGATTCTAA
8025373 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATT
1 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATT
* * *
8025438 TCCCATATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACAGGGATCCTATGAACTTG
66 CCCCATATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACAGGGATCCTATGAACATG
8025501 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATT-TGAAAGGGGTTGCTATGTGCTGATT
1 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATT
* * ** *
8025565 CCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTGCATGGGGATCCTTTGAACATG
66 CCCCATATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACAGGGATCCTATGAACATG
*
8025628 AGGTGGTTGCTAAGTGTTGATTCCACCG
1 AGGTGGTTGCTAAGTGCTGATTCCACCG
8025656 GGATCCTTTG
Statistics
Matches: 146, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
127 107 0.73
128 39 0.27
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.35
Consensus pattern (128 bp):
AGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATT
CCCCATATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACAGGGATCCTATGAACATG
Found at i:8025676 original size:171 final size:170
Alignment explanation
Indices: 8025335--8025700 Score: 476
Period size: 171 Copynumber: 2.1 Consensus size: 170
8025325 ATCAAAAAGG
* *
8025335 GGTTGCTAAGTGCTGATTCC-CCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCAC
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCAC
* * * **
8025399 CGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTTCCCATATCATTGATTATAAGGTGGT
66 CGTATCATTGATTAT-AAAGGGGTTGCTAAGTGCTGATTTCCCATATCATTGAACATAAGGTGGT
*
8025464 TGCTAAGTGTTGATTCCACAGGGATCCTATGAACTTGAGGT
130 TGCTAAGTGTTGATTCCACAGGGATCCTATGAACATGAGGT
* *
8025505 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATT-TGAAAGG-GGTTGCTATGTGCTGATTCC-
1 GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTCT-AAAGGTGGTTGCTAAGTGCTGATTCCA
* * *
8025567 CCGTATCATTGATTAT-AAGGTGGTTGCTAAGTGCTGA-TT-GCATGGGGATCCTTTGAACATGA
65 CCGTATCATTGATTATAAAGG-GGTTGCTAAGTGCTGATTTCCCAT----AT-CATTGAACATAA
* *
8025629 GGTGGTTGCTAAGTGTTGATTCCACCGGGATCCTTTGAACATGAGGT
124 GGTGGTTGCTAAGTGTTGATTCCACAGGGATCCTATGAACATGAGGT
8025676 GGTTGCTAAGTGCTGATTCCACCGT
1 GGTTGCTAAGTGCTGATTCCACCGT
8025701 GTAACAGTTA
Statistics
Matches: 173, Mismatches: 15, Indels: 15
0.85 0.07 0.07
Matches are distributed among these distances:
166 3 0.02
167 6 0.03
168 15 0.09
169 14 0.08
170 42 0.24
171 93 0.54
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.34
Consensus pattern (170 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCAC
CGTATCATTGATTATAAAGGGGTTGCTAAGTGCTGATTTCCCATATCATTGAACATAAGGTGGTT
GCTAAGTGTTGATTCCACAGGGATCCTATGAACATGAGGT
Found at i:8025698 original size:44 final size:43
Alignment explanation
Indices: 8025335--8025700 Score: 290
Period size: 44 Copynumber: 8.6 Consensus size: 43
8025325 ATCAAAAAGG
* * * *
8025335 GGTTGCTAAGTGCTGATTCC-CCGAAT--TATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCCT-TTGAATAT-GAGGT
* *
8025377 GGTTGCTAAGTGCTGATTCCACCGTATCC-TTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCCTTTGAATATG--AGGT
* * * * * *
8025420 GGTTGCTATGTGCTGATTTC-CCATAT-CATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCCTTTGAATATGAGGT
* * * *
8025461 GGTTGCTAAGTGTTGATTCCACAGGGATCCTATGAACT-TGAGGT
1 GGTTGCTAAGTGCTGATTCCAC-CGTATCCTTTGAA-TATGAGGT
*
8025505 GGTTGCTAAGTGCTGATTCCACCGTATCC-TTG-ATTTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCCTTTGAATATG--AGGT
* * * *
8025547 GGTTGCTATGTGCTGATTCC-CCGTAT-CATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCCTTTGAATATGAGGT
* ** * *
8025588 GGTTGCTAAGTGCTGATTGCATGGGGATCCTTTGAACATGAGGT
1 GGTTGCTAAGTGCTGATTCCA-CCGTATCCTTTGAATATGAGGT
* * *
8025632 GGTTGCTAAGTGTTGATTCCACCGGGATCCTTTGAACATGAGGT
1 GGTTGCTAAGTGCTGATTCCACC-GTATCCTTTGAATATGAGGT
8025676 GGTTGCTAAGTGCTGATTCCACCGT
1 GGTTGCTAAGTGCTGATTCCACCGT
8025701 GTAACAGTTA
Statistics
Matches: 262, Mismatches: 41, Indels: 41
0.76 0.12 0.12
Matches are distributed among these distances:
40 8 0.03
41 48 0.18
42 56 0.21
43 44 0.17
44 105 0.40
45 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.34
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCCTTTGAATATGAGGT
Found at i:8030748 original size:7 final size:7
Alignment explanation
Indices: 8030731--8030774 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
8030721 TTAGCTTTAA
8030731 ATATT-T
1 ATATTAT
8030737 ATATTAT
1 ATATTAT
8030744 ATATTAT
1 ATATTAT
8030751 ATATTAT
1 ATATTAT
8030758 ATATTAT
1 ATATTAT
8030765 ATATTAT
1 ATATTAT
8030772 ATA
1 ATA
8030775 ATGGGTCTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 5 0.14
7 32 0.86
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATTAT
Found at i:8032793 original size:208 final size:208
Alignment explanation
Indices: 8032435--8032850 Score: 814
Period size: 208 Copynumber: 2.0 Consensus size: 208
8032425 ACAAAAAACT
8032435 CAAGCAGCTGAAATAAATCGTTTGGTATCCATTAATGAGTTAGCAACAAGAATAGGTATGAATCA
1 CAAGCAGCTGAAATAAATCGTTTGGTATCCATTAATGAGTTAGCAACAAGAATAGGTATGAATCA
8032500 GATTGGCACTTTACAACATCTTGGTGAGACTCGATAGAGTTCTCATTTAAATTCAATTACTATTT
66 GATTGGCACTTTACAACATCTTGGTGAGACTCGATAGAGTTCTCATTTAAATTCAATTACTATTT
8032565 TACTAACAATGTACAATGCTACTAGCACAATTCTTGAAAATCTAAAAAATATCGCTCCTAACCAT
131 TACTAACAATGTACAATGCTACTAGCACAATTCTTGAAAATCTAAAAAATATCGCTCCTAACCAT
8032630 TCTCAGCGAGGAG
196 TCTCAGCGAGGAG
*
8032643 CAAGCAGCTGAAATAACTCGTTTGGTATCCATTAATGAGTTAGCAACAAGAATAGGTATGAATCA
1 CAAGCAGCTGAAATAAATCGTTTGGTATCCATTAATGAGTTAGCAACAAGAATAGGTATGAATCA
*
8032708 GATTGGCACTTTACAACATCTTGGTGAGACTCGATGGAGTTCTCATTTAAATTCAATTACTATTT
66 GATTGGCACTTTACAACATCTTGGTGAGACTCGATAGAGTTCTCATTTAAATTCAATTACTATTT
8032773 TACTAACAATGTACAATGCTACTAGCACAATTCTTGAAAATCTAAAAAATATCGCTCCTAACCAT
131 TACTAACAATGTACAATGCTACTAGCACAATTCTTGAAAATCTAAAAAATATCGCTCCTAACCAT
8032838 TCTCAGCGAGGAG
196 TCTCAGCGAGGAG
8032851 ATGCTCATAA
Statistics
Matches: 206, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
208 206 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (208 bp):
CAAGCAGCTGAAATAAATCGTTTGGTATCCATTAATGAGTTAGCAACAAGAATAGGTATGAATCA
GATTGGCACTTTACAACATCTTGGTGAGACTCGATAGAGTTCTCATTTAAATTCAATTACTATTT
TACTAACAATGTACAATGCTACTAGCACAATTCTTGAAAATCTAAAAAATATCGCTCCTAACCAT
TCTCAGCGAGGAG
Found at i:8043773 original size:117 final size:117
Alignment explanation
Indices: 8043567--8043803 Score: 456
Period size: 117 Copynumber: 2.0 Consensus size: 117
8043557 ATTCTTTAAA
*
8043567 GACAGTTATTGCCTATGTTACTCAGACTAGGAATGAATATTGGATCAGATACAAATATTTTGGAT
1 GACAGTTATTGCCTATGTTACTCAGACTAGGAATGAATATCGGATCAGATACAAATATTTTGGAT
*
8043632 TTTTAATAACTTCTTTTATATCTTTAGAGAATCATACCTTAACATCTATCAT
66 TTTTAATAACTTCTTTTATATCTTTAGAGAATCATACCTTAACATCGATCAT
8043684 GACAGTTATTGCCTATGTTACTCAGACTAGGAATGAATATCGGATCAGATACAAATATTTTGGAT
1 GACAGTTATTGCCTATGTTACTCAGACTAGGAATGAATATCGGATCAGATACAAATATTTTGGAT
8043749 TTTTAATAACTTCTTTTATATCTTTAGAGAATCATACCTTAACATCGATCAT
66 TTTTAATAACTTCTTTTATATCTTTAGAGAATCATACCTTAACATCGATCAT
8043801 GAC
1 GAC
8043804 TATTGGATGA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 118 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (117 bp):
GACAGTTATTGCCTATGTTACTCAGACTAGGAATGAATATCGGATCAGATACAAATATTTTGGAT
TTTTAATAACTTCTTTTATATCTTTAGAGAATCATACCTTAACATCGATCAT
Found at i:8052200 original size:13 final size:13
Alignment explanation
Indices: 8052158--8052203 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
8052148 TCAAATTTTC
*
8052158 AAAAGCACTCCTG
1 AAAAGCACTTCTG
*
8052171 AAAAGCATTTCTG
1 AAAAGCACTTCTG
8052184 AAAAGCACTTC-G
1 AAAAGCACTTCTG
8052196 CAAAAGCA
1 -AAAAGCA
8052204 ATAAAGAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 1 0.03
13 28 0.97
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.17
Consensus pattern (13 bp):
AAAAGCACTTCTG
Found at i:8053766 original size:2 final size:2
Alignment explanation
Indices: 8053759--8053793 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8053749 TAGAATACAA
8053759 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8053794 CATGAGTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8059051 original size:19 final size:18
Alignment explanation
Indices: 8059003--8059052 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
8058993 AATAATTTTT
8059003 AAAATA-TAAAAAAACTC
1 AAAATATTAAAAAAACTC
**
8059020 AAAA-ATTATAAAAAGTTC
1 AAAATATTA-AAAAAACTC
8059038 ATAAATATTAAAAAA
1 A-AAATATTAAAAAA
8059053 TAGCATGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 1 0.04
17 6 0.22
18 8 0.30
19 8 0.30
20 4 0.15
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAATATTAAAAAAACTC
Found at i:8063339 original size:38 final size:38
Alignment explanation
Indices: 8063288--8063587 Score: 294
Period size: 38 Copynumber: 7.9 Consensus size: 38
8063278 AGAAATGTAA
** * *
8063288 TGTTATTTAGGCTATATGCTTAGCAGGCTGTGTGCCGG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGG
* * *
8063326 TGTTATTCGGGCTATGTGCCCAGCAAGCTGTGTGCCGA
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGG
* * * * * * * *
8063364 TGTTATTTGGGATATGTTCCTTGTAGGATTTGTGCCGA
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGG
* **
8063402 TTTTATTCGGGCTATGTGCCTAATAGGCTGTGTGCCGG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGG
* * * *
8063440 TGTTATTTGGGTTGTGTGCCTAGCAGGCTTTGTGCCGG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGG
* * *
8063478 TGATATTCGGGCTATGTACCTAGCAGGCTGTGTACCGG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGG
* * * * *
8063516 TGTTATTCGGGCTCTGTGCCTAGCAGCCTTTATGCCAG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGG
* * * *
8063554 TGTTATTTGGGCTCTGTGCCTAGCAAGCTTTGTG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTG
8063588 TCGATGTATT
Statistics
Matches: 211, Mismatches: 51, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 211 1.00
ACGTcount: A:0.14, C:0.19, G:0.31, T:0.36
Consensus pattern (38 bp):
TGTTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGG
Found at i:8063494 original size:114 final size:114
Alignment explanation
Indices: 8063287--8063597 Score: 327
Period size: 114 Copynumber: 2.7 Consensus size: 114
8063277 TAGAAATGTA
** * * * * *
8063287 ATGTTATTTAGGCTATATGCTTAGCAGGCTGTGTGCCGGTGTTATTCGGGCTATGTGCCCAGCAA
1 ATGTTATTCGGGCTATGTGCCTAACAGGCTGTGTGCCGGTGTTATTTGGGCTATGTGCCTAGCAA
* * * * * * * *
8063352 GCTGTGTGCCGATGTTATTTGGGATATGTTCCTTGTAGGATTTGTGCCG
66 GCTTTGTGCCGATGATATTCGGGATATGTACCTAGCAGGATGTGTACCG
* * * * *
8063401 ATTTTATTCGGGCTATGTGCCTAATAGGCTGTGTGCCGGTGTTATTTGGGTTGTGTGCCTAGCAG
1 ATGTTATTCGGGCTATGTGCCTAACAGGCTGTGTGCCGGTGTTATTTGGGCTATGTGCCTAGCAA
* * *
8063466 GCTTTGTGCCGGTGATATTCGGGCTATGTACCTAGCAGGCTGTGTACCG
66 GCTTTGTGCCGATGATATTCGGGATATGTACCTAGCAGGATGTGTACCG
* * * * * * * *
8063515 GTGTTATTCGGGCTCTGTGCCTAGCAGCCTTTATGCCAGTGTTATTTGGGCTCTGTGCCTAGCAA
1 ATGTTATTCGGGCTATGTGCCTAACAGGCTGTGTGCCGGTGTTATTTGGGCTATGTGCCTAGCAA
*
8063580 GCTTTGTGTCGATG-TATT
66 GCTTTGTGCCGATGATATT
8063598 GAAAGTTTAT
Statistics
Matches: 160, Mismatches: 37, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
113 4 0.03
114 156 0.98
ACGTcount: A:0.14, C:0.18, G:0.31, T:0.37
Consensus pattern (114 bp):
ATGTTATTCGGGCTATGTGCCTAACAGGCTGTGTGCCGGTGTTATTTGGGCTATGTGCCTAGCAA
GCTTTGTGCCGATGATATTCGGGATATGTACCTAGCAGGATGTGTACCG
Found at i:8065433 original size:18 final size:19
Alignment explanation
Indices: 8065405--8065440 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8065395 GCAGGTTTCT
8065405 AAAACTGGAAATGAAAACG
1 AAAACTGGAAATGAAAACG
*
8065424 AAAA-TGGAAATGGAAAC
1 AAAACTGGAAATGAAAAC
8065441 TTGCAATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.58, C:0.08, G:0.22, T:0.11
Consensus pattern (19 bp):
AAAACTGGAAATGAAAACG
Found at i:8065609 original size:26 final size:25
Alignment explanation
Indices: 8065578--8065626 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
8065568 ACGAATTTTG
*
8065578 TCAAAATTTTATTGAGTGTAAAATCA
1 TCAAAATTTTATT-AGGGTAAAATCA
8065604 TCAAAATTTTATTAGGGTAAAAT
1 TCAAAATTTTATTAGGGTAAAAT
8065627 TAGGGTGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (25 bp):
TCAAAATTTTATTAGGGTAAAATCA
Found at i:8076105 original size:34 final size:35
Alignment explanation
Indices: 8076049--8076115 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
8076039 CAAACACTAG
* *
8076049 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
*
8076084 AAAACATTTTCCA-AAAATCATTTTACGGAAAA
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAA
8076116 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
Found at i:8076788 original size:19 final size:18
Alignment explanation
Indices: 8076755--8076790 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8076745 AAACCGCCTA
*
8076755 TATAATAAAATTAAAATG
1 TATAAAAAAATTAAAATG
8076773 TATAAAAAATATTAAAAT
1 TATAAAAAA-ATTAAAAT
8076791 AAAACTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
TATAAAAAAATTAAAATG
Found at i:8077169 original size:31 final size:29
Alignment explanation
Indices: 8077097--8077170 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
8077087 GGCTCAAGTT
* *
8077097 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* * **
8077126 ACGTCTTAGTCACTTATGTTATCACGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
8077157 ACATTTTAGTCACT
1 ACATTTTAGTCACT
8077171 GAGCCGTTAG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 18 0.51
30 2 0.06
31 15 0.43
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:8082877 original size:179 final size:180
Alignment explanation
Indices: 8082568--8082927 Score: 508
Period size: 179 Copynumber: 2.0 Consensus size: 180
8082558 TTTTGAAGAG
* * * *
8082568 AAATTTGTGTGATTGTCAAATAAGATGCCCATGTGATTGTGGCATTATGTATTGTTCCCAGCTCG
1 AAATTTATGTGATTGTCAAATAAGATGCCCATATGATTGTAGCATTATGTATTATTCCCAGCTCG
* ** * * * *
8082633 CAATTTAAGCCTCTTCATATCTAAATGTCTTTTCTTAAATTATAGACATATTTCCTTACCAAACT
66 CAATTGAAGCCTCCCCATATCTAAAAGTATTTTCCTAAATTATAGACATACTTCCTTACCAAACT
**
8082698 CTGGAATCAAAAGGTCTTGTTTCTATGGTAGTAAGATCTTGATTCTTGCA
131 CTAAAATCAAAAGGTCTTGTTTCTATGGTAGTAAGATCTTGATTCTTGCA
** *
8082748 AAATTTATGTGATTGTCAAATAAGAT-TTCATATGATTGTAGCATTATGTATTATTTCCAGCTCG
1 AAATTTATGTGATTGTCAAATAAGATGCCCATATGATTGTAGCATTATGTATTATTCCCAGCTCG
* * **
8082812 CAATTCGAA-CCTCCCCATATCTAAAAGTATTTTCCTAAATTATAGGCATCCTTCCTTGTCAAAC
66 CAATT-GAAGCCTCCCCATATCTAAAAGTATTTTCCTAAATTATAGACATACTTCCTTACCAAAC
*
8082876 TCTAAAATCAAAAGGTCTTGTTTCTATGGTCGTAAGATCTTGATTCTTGCA
130 TCTAAAATCAAAAGGTCTTGTTTCTATGGTAGTAAGATCTTGATTCTTGCA
8082927 A
1 A
8082928 CACTTTGCCT
Statistics
Matches: 158, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
179 131 0.83
180 27 0.17
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (180 bp):
AAATTTATGTGATTGTCAAATAAGATGCCCATATGATTGTAGCATTATGTATTATTCCCAGCTCG
CAATTGAAGCCTCCCCATATCTAAAAGTATTTTCCTAAATTATAGACATACTTCCTTACCAAACT
CTAAAATCAAAAGGTCTTGTTTCTATGGTAGTAAGATCTTGATTCTTGCA
Found at i:8086663 original size:184 final size:185
Alignment explanation
Indices: 8086354--8086726 Score: 685
Period size: 184 Copynumber: 2.0 Consensus size: 185
8086344 GGAGAAGAAA
8086354 AAGACTTTTCTGATGAAATGATAGAAAAGATTAATAAAAATCATATTTCTAAAAAAGAAATATAT
1 AAGACTTTTCTGATGAAATGATAGAAAAGATTAATAAAAATCATATTTCTAAAAAAGAAATATAT
8086419 AAGATCTCTAAGTTTAAAATATGGACTCAGAGACATATAGAAAAAATTAACGGTAACACAGTCGC
66 AAGATCTCTAAGTTTAAAATATGGACTCAGAGACATATAGAAAAAATTAACGGTAACACAGTCGC
*
8086484 TAAGGATACAAAAGGAGGATTAACATAAATCACT-TTTTTACCAAAGATAAAATC
131 TAAGGATACAAAAGGAGGATTAACAGAAATCACTCTTTTTACCAAAGATAAAATC
*
8086538 AAGACTTTTCTGATGAAATGATAGAAAAGATTAATAAAAATCATATTTCTAAAGAAGAAATATAT
1 AAGACTTTTCTGATGAAATGATAGAAAAGATTAATAAAAATCATATTTCTAAAAAAGAAATATAT
*
8086603 AAGATCTCTAAGTTTAAAATATGGACTCAGAGACATATAGAAAAAATTAGCGGTAACACAGTCGC
66 AAGATCTCTAAGTTTAAAATATGGACTCAGAGACATATAGAAAAAATTAACGGTAACACAGTCGC
* * *
8086668 TAAGGATATAAGAGGAGGATTAACAGAAATCCCTCTTTTTACCAAAGATAAAATC
131 TAAGGATACAAAAGGAGGATTAACAGAAATCACTCTTTTTACCAAAGATAAAATC
8086723 AAGA
1 AAGA
8086727 GAAATAGACT
Statistics
Matches: 182, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
184 158 0.87
185 24 0.13
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.26
Consensus pattern (185 bp):
AAGACTTTTCTGATGAAATGATAGAAAAGATTAATAAAAATCATATTTCTAAAAAAGAAATATAT
AAGATCTCTAAGTTTAAAATATGGACTCAGAGACATATAGAAAAAATTAACGGTAACACAGTCGC
TAAGGATACAAAAGGAGGATTAACAGAAATCACTCTTTTTACCAAAGATAAAATC
Found at i:8087286 original size:17 final size:17
Alignment explanation
Indices: 8087266--8087298 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8087256 TAATTATCTT
*
8087266 AATTAAATTATTAAAAA
1 AATTAAAATATTAAAAA
8087283 AATTAAAATATTAAAA
1 AATTAAAATATTAAAA
8087299 TAAGAAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTAAAATATTAAAAA
Found at i:8100620 original size:3 final size:3
Alignment explanation
Indices: 8100614--8100672 Score: 93
Period size: 3 Copynumber: 19.7 Consensus size: 3
8100604 ACTAGTTAGG
8100614 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
8100661 GGTA TTA TTA TT
1 -TTA TTA TTA TT
8100673 GTATTAGTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
2 2 0.04
3 49 0.92
4 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:8100838 original size:15 final size:17
Alignment explanation
Indices: 8100818--8100849 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
8100808 ATTGTCTATA
8100818 TATTTTA-AATA-ATTT
1 TATTTTATAATATATTT
8100833 TATTTTATAATATATTT
1 TATTTTATAATATATTT
8100850 AAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTTATAATATATTT
Found at i:8100850 original size:26 final size:28
Alignment explanation
Indices: 8100815--8100868 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
8100805 AATATTGTCT
8100815 ATATATTTTAAATAATTTTATTT-TATA
1 ATATATTTTAAATAATTTTATTTATATA
**
8100842 ATATA-TTTAAATTTTTTTATTTATATA
1 ATATATTTTAAATAATTTTATTTATATA
8100869 CTTCTATGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
ATATATTTTAAATAATTTTATTTATATA
Found at i:8101847 original size:4 final size:4
Alignment explanation
Indices: 8101838--8101862 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8101828 CAACAAAATG
8101838 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
8101863 AGATGACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:8102067 original size:3 final size:3
Alignment explanation
Indices: 8102052--8102115 Score: 69
Period size: 3 Copynumber: 21.7 Consensus size: 3
8102042 AAAAGGTATT
* * **
8102052 TAA TAA TAT TAA TAA TAA TAA TAA TAA TAG TTT TAA TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
8102098 TAA TAA TAA -AA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
8102116 GCACATATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
2 4 0.08
3 45 0.87
4 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:8103524 original size:2 final size:2
Alignment explanation
Indices: 8103514--8103548 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
8103504 TACAATTTTT
* *
8103514 TA TA CA TA TA TA TA TA TA TA TA CA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8103549 CTTTTACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:8103591 original size:12 final size:12
Alignment explanation
Indices: 8103570--8103600 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8103560 TTTTATAATC
*
8103570 TTATTCATTTCT
1 TTATTTATTTCT
8103582 TTATTTATTTCT
1 TTATTTATTTCT
8103594 TTATTTA
1 TTATTTA
8103601 CATTTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTTATTTCT
Found at i:8123440 original size:39 final size:39
Alignment explanation
Indices: 8123379--8123532 Score: 236
Period size: 39 Copynumber: 3.9 Consensus size: 39
8123369 TCAATACACT
*
8123379 GGCACACAGCCTGCTAGGCACATAGCCCGAATAATCACC
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACC
* * *
8123418 GGTACAAAGCCTGCTAGGCACATAGCTCGAATAATCACT
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACC
*
8123457 GGCACAAAGCCTGCTAGGCACATAGCCTGAATAATCACC
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACC
* * *
8123496 AGCACAAAGCCAGCTAGGCACATAGCCTGAATAATCA
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCA
8123533 TCGGATTTCT
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 105 1.00
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.16
Consensus pattern (39 bp):
GGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACC
Found at i:8123953 original size:43 final size:43
Alignment explanation
Indices: 8123905--8123993 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
8123895 TTTATCCAAA
*
8123905 TATTCTAGGCCCTCAAAAAACCCCTAATAAACCTAAAATTCAC
1 TATTCTAGGCCCTAAAAAAACCCCTAATAAACCTAAAATTCAC
8123948 TATTCTAGGCCCTAAAAAAACCCCTAATAAACCTAAAATTCAC
1 TATTCTAGGCCCTAAAAAAACCCCTAATAAACCTAAAATTCAC
8123991 TAT
1 TAT
8123994 CAAACCCTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.43, C:0.28, G:0.04, T:0.25
Consensus pattern (43 bp):
TATTCTAGGCCCTAAAAAAACCCCTAATAAACCTAAAATTCAC
Done.