Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 15 of 349
Found at i:4403227 original size:30 final size:28
Alignment explanation
Indices: 4403193--4403289 Score: 79
Period size: 31 Copynumber: 3.2 Consensus size: 28
4403183 TAATTTATAA
*
4403193 AATTTTAAATTAATAATAAAATTATACTTT
1 AATTTTAAATTAAT-A-AAAATTATAATTT
* *
4403223 AATTTTTAAAATTGATAAAAATTTTAATTT
1 AA-TTTT-AAATTAATAAAAATTATAATTT
4403253 AATCTTTAAAAACTT-ATAAAAATATATAATTT
1 AAT-TTT--AAA-TTAATAAAAAT-TATAATTT
4403285 AATTT
1 AATTT
4403290 CGATTAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
29 1 0.02
30 18 0.32
31 19 0.33
32 19 0.33
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (28 bp):
AATTTTAAATTAATAAAAATTATAATTT
Found at i:4403286 original size:32 final size:30
Alignment explanation
Indices: 4403210--4403289 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
4403200 AATTAATAAT
* *
4403210 AAAATTATACTTTAATTTTTAAAATTGATA
1 AAAATTATAATTTAATTTTAAAAATTGATA
*
4403240 AAAATTTTAATTTAATCTTTAAAAACTT-ATA
1 AAAATTATAATTTAAT-TTTAAAAA-TTGATA
4403271 AAAATATATAATTTAATTT
1 AAAAT-TATAATTTAATTT
4403290 CGATTAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 14 0.33
31 17 0.40
32 12 0.28
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (30 bp):
AAAATTATAATTTAATTTTAAAAATTGATA
Found at i:4403404 original size:19 final size:17
Alignment explanation
Indices: 4403365--4403404 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
4403355 GAAATATGTC
*
4403365 AAAAATATTTTTTAATG
1 AAAAATATTTTTTAATA
4403382 AAAAATATTTTAATTAATA
1 AAAAATATTTT--TTAATA
4403401 AAAA
1 AAAA
4403405 CTATAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
19 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
AAAAATATTTTTTAATA
Found at i:4411592 original size:29 final size:29
Alignment explanation
Indices: 4411550--4411610 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
4411540 TTGATAGTAA
4411550 GTACTGAACAAGAGTACTTAATGAGACAC
1 GTACTGAACAAGAGTACTTAATGAGACAC
*
4411579 GTACTGAACAAGAGTACTTAATGAGACCC
1 GTACTGAACAAGAGTACTTAATGAGACAC
4411608 GTA
1 GTA
4411611 ACTGTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (29 bp):
GTACTGAACAAGAGTACTTAATGAGACAC
Found at i:4429512 original size:69 final size:70
Alignment explanation
Indices: 4429392--4429559 Score: 200
Period size: 69 Copynumber: 2.4 Consensus size: 70
4429382 CTTTCCAAGG
**
4429392 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
4429455 T-TTTT
65 TGTTTT
** * *
4429460 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
4429525 TGTTTT
65 TGTTTT
** * *
4429531 -AAATTGACTTATATTGCGAGAGGTGAGTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTT
4429560 AAGGCTTTTA
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
69 79 0.92
70 3 0.03
71 4 0.05
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:4429697 original size:75 final size:74
Alignment explanation
Indices: 4429583--4429921 Score: 432
Period size: 72 Copynumber: 4.5 Consensus size: 74
4429573 TTTGTTTTTC
* * *
4429583 AAAATCAACTCATGTTGCTAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
4429648 GTTGTTAAAA
66 GTT-TTAAAA
**
4429658 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
4429723 GTTTT--CA
66 GTTTTAAAA
* * ** * * *
4429730 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
4429795 GTTTTCAAAAA
66 GTTTT--AAAA
* * *
4429806 AGAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAAT
1 A-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAAT
*
4429870 TTCTGTTTTTAAA
62 TTCTGTTTTAAAA
*
4429883 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
4429922 ATTACACACT
Statistics
Matches: 234, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
72 66 0.28
74 2 0.01
75 63 0.27
76 37 0.16
77 38 0.16
79 28 0.12
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAA
Found at i:4430216 original size:72 final size:72
Alignment explanation
Indices: 4430078--4430216 Score: 181
Period size: 72 Copynumber: 1.9 Consensus size: 72
4430068 AAGTCAGCTT
** * ** **
4430078 ATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATT
1 ATATTGCAAGAGGTGAGTTGAGCCTCGGACCACGCCGAGGTATTTTCAATTTAAGCCTTTTAATT
4430143 TCAACTC
66 TCAACTC
* *
4430150 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACCACGCCGAGGTATTTTCAA-TTAAGCCTTTTGAT
1 ATATTGCAAGAGGTGAGTTGAGCCTC-GGACCACGCCGAGGTATTTTCAATTTAAGCCTTTTAAT
4430214 TTC
65 TTC
4430217 TGTTTTTCAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
72 37 0.65
73 20 0.35
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (72 bp):
ATATTGCAAGAGGTGAGTTGAGCCTCGGACCACGCCGAGGTATTTTCAATTTAAGCCTTTTAATT
TCAACTC
Found at i:4430504 original size:73 final size:72
Alignment explanation
Indices: 4430320--4430570 Score: 396
Period size: 73 Copynumber: 3.4 Consensus size: 72
4430310 TTTGAAAGAA
*
4430320 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
4430385 TCAAAAT
66 TCAAAAT
* *
4430392 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTTCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC-TGTT
4430457 TTCAAAAT
65 TTCAAAAT
* * *
4430465 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
4430530 TCAAAAAAA
66 TC--AAAAT
4430539 TCAACTCATATTGCGA-AAAGTGAGTTGAGCCT
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCT
4430571 AAGTTCACAT
Statistics
Matches: 166, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
72 63 0.38
73 71 0.43
74 32 0.19
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:4431186 original size:17 final size:17
Alignment explanation
Indices: 4431164--4431197 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4431154 ATTTTGGGCC
4431164 CTAAACCAAACAACCCA
1 CTAAACCAAACAACCCA
4431181 CTAAACCAAACAACCCA
1 CTAAACCAAACAACCCA
4431198 ATAACCCGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.41, G:0.00, T:0.06
Consensus pattern (17 bp):
CTAAACCAAACAACCCA
Found at i:4432423 original size:15 final size:17
Alignment explanation
Indices: 4432403--4432443 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
4432393 GTTACTATTA
4432403 TATTTATTATT-A-TAT
1 TATTTATTATTCACTAT
4432418 TATTTATT-TTCACTAT
1 TATTTATTATTCACTAT
4432434 TA-TTATTATT
1 TATTTATTATT
4432444 TTCATCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.09
15 14 0.61
16 7 0.30
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTATTATTCACTAT
Found at i:4432444 original size:18 final size:18
Alignment explanation
Indices: 4432415--4432457 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
4432405 TTTATTATTA
4432415 TATTATTTATTTTCA-CTAT
1 TATTA-TTATTTTCATC-AT
4432434 TATTATTATTTTCATCAT
1 TATTATTATTTTCATCAT
4432452 TATTAT
1 TATTAT
4432458 ACATATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTATTATTTTCATCAT
Found at i:4438428 original size:14 final size:15
Alignment explanation
Indices: 4438403--4438436 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
4438393 TTTTTTTTAA
*
4438403 AATTATTAATTAATT
1 AATTATTAATTAAAT
4438418 AATTA-TAATTAAAT
1 AATTATTAATTAAAT
4438432 AATTA
1 AATTA
4438437 AAGTTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTATTAATTAAAT
Found at i:4442561 original size:23 final size:22
Alignment explanation
Indices: 4442538--4442595 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
4442528 TTAATCTTTA
4442538 AAAATGAAATTATTTAAATATT
1 AAAATGAAATTATTTAAATATT
* * *
4442560 AATATTAAATTATTTTATATATT
1 AAAATGAAATTA-TTTAAATATT
*
4442583 AAAATGGAATTAT
1 AAAATGAAATTAT
4442596 GTATATTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (22 bp):
AAAATGAAATTATTTAAATATT
Found at i:4450505 original size:25 final size:24
Alignment explanation
Indices: 4450425--4450505 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 24
4450415 GACAAAAAAG
*
4450425 AAAGATTAAGTACCAAATTAGGAA
1 AAAGATTAAGTACCAAATTAGAAA
* *
4450449 AAAGAATAAAGTATCAAATTAGACCCCAAA
1 AAAG-ATTAAGTACCAAATTAG-----AAA
4450479 AAAGATTAAGTACCAAATTCAGAAA
1 AAAGATTAAGTACCAAATT-AGAAA
4450504 AA
1 AA
4450506 GTGTTAAGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
24 4 0.09
25 20 0.44
29 13 0.29
30 8 0.18
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.19
Consensus pattern (24 bp):
AAAGATTAAGTACCAAATTAGAAA
Found at i:4454761 original size:3 final size:3
Alignment explanation
Indices: 4454753--4454783 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4454743 CCGCCATCGT
4454753 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4454784 TTTTATATAA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4455640 original size:29 final size:29
Alignment explanation
Indices: 4455600--4455660 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
4455590 TTTGAAAATC
*
4455600 AAAACTTAAAAATATTTAAAATACAAAAA
1 AAAACTTAAAAATATATAAAATACAAAAA
* *
4455629 AAAACCTT-AAAATATATAAAATTCAAGAA
1 AAAA-CTTAAAAATATATAAAATACAAAAA
4455658 AAA
1 AAA
4455661 TTCTATTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (29 bp):
AAAACTTAAAAATATATAAAATACAAAAA
Found at i:4457216 original size:37 final size:37
Alignment explanation
Indices: 4457175--4457249 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
4457165 TACTTACCAT
*
4457175 ATGTGTCCTAATAAGGATTGGTTTTCTAGTCTTAAAG
1 ATGTGTCCTAATAAAGATTGGTTTTCTAGTCTTAAAG
4457212 ATGTGTCCTAATAAAGATTGGTTTTCTAGTCTTAAAG
1 ATGTGTCCTAATAAAGATTGGTTTTCTAGTCTTAAAG
4457249 A
1 A
4457250 GCTAGAAGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (37 bp):
ATGTGTCCTAATAAAGATTGGTTTTCTAGTCTTAAAG
Found at i:4457249 original size:21 final size:21
Alignment explanation
Indices: 4457190--4457249 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
4457180 TCCTAATAAG
4457190 GATTGGTTTTCTAGTCTTAAA
1 GATTGGTTTTCTAGTCTTAAA
* * *
4457211 GA-T-GTGTCCTA---ATAAA
1 GATTGGTTTTCTAGTCTTAAA
4457227 GATTGGTTTTCTAGTCTTAAA
1 GATTGGTTTTCTAGTCTTAAA
4457248 GA
1 GA
4457250 GCTAGAAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 10
0.64 0.14 0.23
Matches are distributed among these distances:
16 6 0.21
17 1 0.04
18 6 0.21
19 6 0.21
20 1 0.04
21 8 0.29
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (21 bp):
GATTGGTTTTCTAGTCTTAAA
Found at i:4459052 original size:46 final size:46
Alignment explanation
Indices: 4459002--4459177 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
4458992 TGGTTGAGCA
*
4459002 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
4459048 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
4459093 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
4459141 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4459178 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:4459158 original size:93 final size:93
Alignment explanation
Indices: 4458999--4459170 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
4458989 GGATGGTTGA
* *
4458999 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
4459064 TGAGTTCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
4459092 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
4459157 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
4459171 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:4463465 original size:24 final size:22
Alignment explanation
Indices: 4463432--4463475 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
4463422 GAATTCTTAA
4463432 TTTTTAAATTCTTTTAAAATATAT
1 TTTTTAAA-T-TTTTAAAATATAT
*
4463456 TTTTTGAATTTTTAAAATAT
1 TTTTTAAATTTTTAAAATAT
4463476 GTGTTGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 1 0.05
24 7 0.37
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTTAAATTTTTAAAATATAT
Found at i:4464361 original size:90 final size:90
Alignment explanation
Indices: 4464259--4464435 Score: 230
Period size: 90 Copynumber: 2.0 Consensus size: 90
4464249 ATATTTTTAA
* * * * * **
4464259 AAAATGTCTAATGTGTTACTTGAACTATTAATTTTTATATTATTTGG-AACTTATATTTTCATAA
1 AAAATGACTAATGTGGTACTCGAACTATCAATTTGTATATTATTTGGTAACTT-TACATTCATAA
*
4464323 AACATATAATGTGATACTTATACTTT
65 AACATACAATGTGATACTTATACTTT
*
4464349 AAAATGACTAATGTGGTACTCGAACTATCAATTTGTATATTATTTGGTACCTTTACATTCATAAA
1 AAAATGACTAATGTGGTACTCGAACTATCAATTTGTATATTATTTGGTAACTTTACATTCATAAA
** *
4464414 ATGTACAATGTGGTACTTATAC
66 ACATACAATGTGATACTTATAC
4464436 ATTGGAAATG
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
90 70 0.95
91 4 0.05
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (90 bp):
AAAATGACTAATGTGGTACTCGAACTATCAATTTGTATATTATTTGGTAACTTTACATTCATAAA
ACATACAATGTGATACTTATACTTT
Found at i:4469757 original size:10 final size:11
Alignment explanation
Indices: 4469741--4469782 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
4469731 TGACCTTTCC
4469741 AAGGTATGGG-
1 AAGGTATGGGA
*
4469751 TAGGTATGGGA
1 AAGGTATGGGA
*
4469762 AAGGTATGGGC
1 AAGGTATGGGA
*
4469773 AAGGAATGGG
1 AAGGTATGGG
4469783 TATATTCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.31, C:0.02, G:0.48, T:0.19
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:4472219 original size:18 final size:18
Alignment explanation
Indices: 4472148--4472219 Score: 90
Period size: 18 Copynumber: 4.0 Consensus size: 18
4472138 ATCCCAACTA
* *
4472148 CTGTATACGTGAACAGTA
1 CTGTATACGTGAATAGTG
*
4472166 CTGTATACGTAAATAGTG
1 CTGTATACGTGAATAGTG
* *
4472184 CTATATACATGAATAGTG
1 CTGTATACGTGAATAGTG
*
4472202 CCGTATACGTGAATAGTG
1 CTGTATACGTGAATAGTG
4472220 TCATAAATGG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (18 bp):
CTGTATACGTGAATAGTG
Found at i:4472775 original size:10 final size:10
Alignment explanation
Indices: 4472760--4472791 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
4472750 GACCTTTCCT
4472760 AGGTATGGGC
1 AGGTATGGGC
4472770 AGGTATGGGC
1 AGGTATGGGC
4472780 AAGGTATGGGC
1 -AGGTATGGGC
4472791 A
1 A
4472792 AGGAATGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.25, C:0.09, G:0.47, T:0.19
Consensus pattern (10 bp):
AGGTATGGGC
Found at i:4472786 original size:11 final size:11
Alignment explanation
Indices: 4472760--4472800 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
4472750 GACCTTTCCT
4472760 AGGTATGGGC-
1 AGGTATGGGCA
4472770 AGGTATGGGCA
1 AGGTATGGGCA
4472781 AGGTATGGGCA
1 AGGTATGGGCA
*
4472792 AGGAATGGG
1 AGGTATGGG
4472801 TATATTCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 10 0.34
11 19 0.66
ACGTcount: A:0.27, C:0.07, G:0.49, T:0.17
Consensus pattern (11 bp):
AGGTATGGGCA
Found at i:4472786 original size:21 final size:22
Alignment explanation
Indices: 4472760--4472800 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4472750 GACCTTTCCT
*
4472760 AGGTATGGGC-AGGTATGGGCA
1 AGGTATGGGCAAGGAATGGGCA
4472781 AGGTATGGGCAAGGAATGGG
1 AGGTATGGGCAAGGAATGGG
4472801 TATATTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.27, C:0.07, G:0.49, T:0.17
Consensus pattern (22 bp):
AGGTATGGGCAAGGAATGGGCA
Found at i:4473557 original size:18 final size:17
Alignment explanation
Indices: 4473534--4473596 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 17
4473524 TAAAATTGAT
4473534 TTTTTTTGAAATTATAAA
1 TTTTTTTGAAATTAT-AA
* **
4473552 TTTTTTTAAAAGTATTATTCT
1 TTTTTTT-GAA--ATTA-TAA
4473573 TTTTTTTGAAATTATAA
1 TTTTTTTGAAATTATAA
4473590 TTTTTTT
1 TTTTTTT
4473597 AAAAAATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
17 8 0.23
18 11 0.31
19 2 0.06
20 2 0.06
21 11 0.31
22 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (17 bp):
TTTTTTTGAAATTATAA
Found at i:4473576 original size:21 final size:20
Alignment explanation
Indices: 4473552--4473596 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
4473542 AAATTATAAA
*
4473552 TTTTTTTAAAAGTATTATTCT
1 TTTTTTTAAAAGTATAATT-T
* *
4473573 TTTTTTTGAAATTATAATTT
1 TTTTTTTAAAAGTATAATTT
4473593 TTTT
1 TTTT
4473597 AAAAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTTTTAAAAGTATAATTT
Found at i:4473611 original size:39 final size:39
Alignment explanation
Indices: 4473524--4473611 Score: 115
Period size: 39 Copynumber: 2.2 Consensus size: 39
4473514 ATAAAATTTT
* *
4473524 TAAAATTGATTTTTTTTGAAATTATAAATTTTTTTAAAAG
1 TAAAATT-CTTTTTTTTGAAATTATAAATTTTTTTAAAAA
**
4473564 TATTATTCTTTTTTTTGAAATTAT-AATTTTTTTAAAAAA
1 TAAAATTCTTTTTTTTGAAATTATAAATTTTTTT-AAAAA
4473603 TAAAATTCT
1 TAAAATTCT
4473612 GTAAAAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 9 0.22
39 27 0.66
40 5 0.12
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (39 bp):
TAAAATTCTTTTTTTTGAAATTATAAATTTTTTTAAAAA
Found at i:4473632 original size:16 final size:17
Alignment explanation
Indices: 4473613--4473644 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4473603 TAAAATTCTG
4473613 TAAAAAAAT-TAAAAAT
1 TAAAAAAATCTAAAAAT
4473629 TAAAAAAATCTAAAAA
1 TAAAAAAATCTAAAAA
4473645 GTGTTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (17 bp):
TAAAAAAATCTAAAAAT
Found at i:4478010 original size:30 final size:30
Alignment explanation
Indices: 4477974--4478031 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
4477964 AGGCAATCCT
4477974 CCTATCTAAGTCTGCAAATGAAGCTTGTCG
1 CCTATCTAAGTCTGCAAATGAAGCTTGTCG
4478004 CCTATCTAAGTCTGCAAATGAAGCTTGT
1 CCTATCTAAGTCTGCAAATGAAGCTTGT
4478032 TTTGACGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (30 bp):
CCTATCTAAGTCTGCAAATGAAGCTTGTCG
Found at i:4482071 original size:28 final size:32
Alignment explanation
Indices: 4482030--4482092 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
4482020 TATTAATGAT
4482030 AAAATTATACTTTAA-CC-TTAAAAATAATAA
1 AAAATTATACTTTAACCCTTTAAAAATAATAA
*
4482060 AAAATTA-A-TTTAACCCTTTAAAAATTATAA
1 AAAATTATACTTTAACCCTTTAAAAATAATAA
4482090 AAA
1 AAA
4482093 TATAAATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 5 0.17
29 3 0.10
30 22 0.73
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (32 bp):
AAAATTATACTTTAACCCTTTAAAAATAATAA
Found at i:4483269 original size:273 final size:273
Alignment explanation
Indices: 4482782--4483326 Score: 713
Period size: 273 Copynumber: 2.0 Consensus size: 273
4482772 CATCGACGTT
*
4482782 GGAAAAATATACTCCAAACCATAACAATTAGATATGCTGACGTCTCCTAACTCTGGGAAGCACAA
1 GGAAAAATATACTCCAAACCATAACAAGTAGATATGCTGACGTCTCCTAACTCTGGGAAGCACAA
* *
4482847 AGAATTATGAGAAGTGATGGTCGATGATATTTCTCCCTCGTCACCTTCCAATTCAGTCACTATTT
66 AGAAGTATGAGAAGTGATGGTCGATGATATTTCTCCCTCGTCACCTTCCAATTCAGTCACTACTT
* * * * ** *
4482912 GCTTCATTTCATCACAGTAGCTTACTTCAAGGCCTTTCAATTGTACTAGACTTTGAGCAAGAGAG
131 GCTTCAATTCAGCACAATAGATTACTTCAAGGCCTTTCAAGAGTACGAGACTTTGAGCAAGAGAG
* * * **
4482977 ACTGAACAGAGTGATTTCAAACGTGGGCACTTTTTTATAGTCAAAACAACTAAGCTTTCAAGTCT
196 ACTGAAAAGAGTGATTTCAAACGTCGGCACTGTAGTATAGTCAAAACAACTAAGCTTTCAAGTCT
4483042 TACATGTTGGGTC
261 TACATGTTGGGTC
* * ** * *
4483055 GGAAAAATATATTCCAAACCATCACAAGTAGATATG-TAGACCGT-TGTTAACTTTGGGAAGGAC
1 GGAAAAATATACTCCAAACCATAACAAGTAGATATGCT-GA-CGTCTCCTAACTCTGGGAAGCAC
* * * *
4483118 AAAGAAGTATGAGAATTGATGGTCGATGATATTTCTCCCTCGTCACCTTCTAGTTCTGTCACTAC
64 AAAGAAGTATGAGAAGTGATGGTCGATGATATTTCTCCCTCGTCACCTTCCAATTCAGTCACTAC
* **
4483183 TTGCTTCAATTCAGGACAATAGATTA-TCTCAA-GTTTTTCCAAGAGTACGAGACTTTGAGCAAG
129 TTGCTTCAATTCAGCACAATAGATTACT-TCAAGGCCTTT-CAAGAGTACGAGACTTTGAGCAAG
* * * **
4483246 CGA-ATGTGAAAAGAGTGATTTCAAACGTCGGCAGTGTAGTATAGTCAATTCAACTAAGCTTTCA
192 AGAGA-CTGAAAAGAGTGATTTCAAACGTCGGCACTGTAGTATAGTCAAAACAACTAAGCTTTCA
4483310 AGTCTTACATGTTGGGT
256 AGTCTTACATGTTGGGT
4483327 TGGCAATTCC
Statistics
Matches: 234, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
272 7 0.03
273 224 0.96
274 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (273 bp):
GGAAAAATATACTCCAAACCATAACAAGTAGATATGCTGACGTCTCCTAACTCTGGGAAGCACAA
AGAAGTATGAGAAGTGATGGTCGATGATATTTCTCCCTCGTCACCTTCCAATTCAGTCACTACTT
GCTTCAATTCAGCACAATAGATTACTTCAAGGCCTTTCAAGAGTACGAGACTTTGAGCAAGAGAG
ACTGAAAAGAGTGATTTCAAACGTCGGCACTGTAGTATAGTCAAAACAACTAAGCTTTCAAGTCT
TACATGTTGGGTC
Found at i:4483969 original size:25 final size:25
Alignment explanation
Indices: 4483941--4483990 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4483931 TCCAATATCT
4483941 TTAGATTTTCTAACATCCCTAATTC
1 TTAGATTTTCTAACATCCCTAATTC
4483966 TTAGATTTTCTAACATCCCTAATTC
1 TTAGATTTTCTAACATCCCTAATTC
4483991 ATCTGCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.04, T:0.44
Consensus pattern (25 bp):
TTAGATTTTCTAACATCCCTAATTC
Found at i:4485301 original size:32 final size:31
Alignment explanation
Indices: 4485230--4485302 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
4485220 AAAAGATTAA
*
4485230 GTACCAAATTAAGAAAAAGTGTTAAGTTTAG
1 GTACCAAATTAAGAAAAAGTGTTAAATTTAG
** *
4485261 GTGTCAAATTAGGGAGAAAA-TGTTAAATTTAG
1 GTACCAAATTA-AGA-AAAAGTGTTAAATTTAG
4485293 GTACCAAATT
1 GTACCAAATT
4485303 GGAAAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
31 9 0.26
32 21 0.62
33 4 0.12
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (31 bp):
GTACCAAATTAAGAAAAAGTGTTAAATTTAG
Found at i:4485313 original size:32 final size:32
Alignment explanation
Indices: 4485230--4485319 Score: 80
Period size: 32 Copynumber: 2.9 Consensus size: 32
4485220 AAAAGATTAA
* *
4485230 GTACCAAATT--AAGAAAAAGTGTTAAGTTTAG
1 GTACCAAATTGGAA-AAAAAATGTTAAATTTAG
** * *
4485261 GTGTCAAATTAGG-GAGAAAATGTTAAATTTAG
1 GTACCAAATT-GGAAAAAAAATGTTAAATTTAG
4485293 GTACCAAATTGGAAAAAAAAT-TTAAAT
1 GTACCAAATTGGAAAAAAAATGTTAAAT
4485320 ACCAAATTTA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
31 16 0.36
32 29 0.64
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.29
Consensus pattern (32 bp):
GTACCAAATTGGAAAAAAAATGTTAAATTTAG
Found at i:4485314 original size:25 final size:25
Alignment explanation
Indices: 4485285--4485337 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
4485275 AGAAAATGTT
** *
4485285 AAATTTAGGTACCAAATTGGAAAAA
1 AAATTTAAATACCAAATTGAAAAAA
*
4485310 AAATTTAAATACCAAATTTAAAAAA
1 AAATTTAAATACCAAATTGAAAAAA
4485335 AAA
1 AAA
4485338 AGTCAAGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.25
Consensus pattern (25 bp):
AAATTTAAATACCAAATTGAAAAAA
Found at i:4485541 original size:15 final size:15
Alignment explanation
Indices: 4485510--4485540 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
4485500 ATCATTAAAA
4485510 TATTTTTAATATTTT
1 TATTTTTAATATTTT
4485525 TATTTATTAATATTTT
1 TATTT-TTAATATTTT
4485541 AATGGGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTTAATATTTT
Found at i:4487439 original size:21 final size:22
Alignment explanation
Indices: 4487413--4487454 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
4487403 TGACCTTTCC
*
4487413 AAGGTATGGG-TAGGTATGGGA
1 AAGGTATGGGCAAGGTATGGGA
4487434 AAGGTATGGGCAAGGTATGGG
1 AAGGTATGGGCAAGGTATGGG
4487455 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (22 bp):
AAGGTATGGGCAAGGTATGGGA
Found at i:4487440 original size:11 final size:10
Alignment explanation
Indices: 4487413--4487454 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
4487403 TGACCTTTCC
4487413 AAGGTATGGG
1 AAGGTATGGG
*
4487423 TAGGTATGGG
1 AAGGTATGGG
4487433 AAAGGTATGGG
1 -AAGGTATGGG
4487444 CAAGGTATGGG
1 -AAGGTATGGG
4487455 GTATATTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (10 bp):
AAGGTATGGG
Found at i:4491521 original size:18 final size:18
Alignment explanation
Indices: 4491498--4491572 Score: 89
Period size: 18 Copynumber: 4.2 Consensus size: 18
4491488 CCCAACTACT
4491498 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* ***
4491516 GTATACGTAAATAGTGTT
1 GTATACGTGAATAGTACC
4491534 GTATACGTGAATA-TGACC
1 GTATACGTGAATAGT-ACC
*
4491552 GTATACGTGAATAGTATC
1 GTATACGTGAATAGTACC
4491570 GTA
1 GTA
4491573 AACAGTTGTA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
17 1 0.02
18 44 0.96
19 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:4491544 original size:36 final size:36
Alignment explanation
Indices: 4491497--4491566 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
4491487 TCCCAACTAC
4491497 TGTATACGTGAATA-GTACCGTATACGTAAATAGTGT
1 TGTATACGTGAATATG-ACCGTATACGTAAATAGTGT
*
4491533 TGTATACGTGAATATGACCGTATACGTGAATAGT
1 TGTATACGTGAATATGACCGTATACGTAAATAGT
4491567 ATCGTAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (36 bp):
TGTATACGTGAATATGACCGTATACGTAAATAGTGT
Found at i:4492132 original size:11 final size:11
Alignment explanation
Indices: 4492104--4492157 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
4492094 TTGACCTTTC
4492104 CAAGGTATGGG
1 CAAGGTATGGG
*
4492115 -TAGGTATGGG
1 CAAGGTATGGG
* *
4492125 AAAGGTATAGG
1 CAAGGTATGGG
*
4492136 CAAGGTATAGG
1 CAAGGTATGGG
4492147 CAAGGTATGGG
1 CAAGGTATGGG
4492158 GTATATTCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 9 0.24
11 28 0.76
ACGTcount: A:0.31, C:0.06, G:0.43, T:0.20
Consensus pattern (11 bp):
CAAGGTATGGG
Found at i:4495223 original size:15 final size:16
Alignment explanation
Indices: 4495203--4495232 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4495193 ACATTATGTG
4495203 ACAAAAA-TAAATAAA
1 ACAAAAAGTAAATAAA
4495218 ACAAAAAGTAAATAA
1 ACAAAAAGTAAATAA
4495233 CTAAACCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (16 bp):
ACAAAAAGTAAATAAA
Found at i:4496261 original size:15 final size:15
Alignment explanation
Indices: 4496241--4496270 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4496231 CTAATAAAAG
4496241 TTAGTTAGTCTGTTA
1 TTAGTTAGTCTGTTA
*
4496256 TTAGTTATTCTGTTA
1 TTAGTTAGTCTGTTA
4496271 ATAACAGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.57
Consensus pattern (15 bp):
TTAGTTAGTCTGTTA
Found at i:4500316 original size:35 final size:35
Alignment explanation
Indices: 4500277--4500348 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
4500267 ACAAATAGCA
4500277 GTCAAATATTTAACCCATTAGAATACATTTACATC
1 GTCAAATATTTAACCCATTAGAATACATTTACATC
* *
4500312 GTCAAATATTTAACCCATTGGAATACATTTACTTC
1 GTCAAATATTTAACCCATTAGAATACATTTACATC
4500347 GT
1 GT
4500349 TTATTGTGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (35 bp):
GTCAAATATTTAACCCATTAGAATACATTTACATC
Found at i:4502522 original size:16 final size:16
Alignment explanation
Indices: 4502501--4502552 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
4502491 TTTGGTTCGC
4502501 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4502517 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
4502533 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
4502549 TGTA
1 TGTA
4502553 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:4502599 original size:45 final size:44
Alignment explanation
Indices: 4502533--4502627 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
4502523 GGATTAGAGG
* * *
4502533 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
4502578 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
4502622 TGTAAT
1 TGTAAT
4502628 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:4502810 original size:18 final size:17
Alignment explanation
Indices: 4502789--4502823 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4502779 TTATTATTTA
*
4502789 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4502807 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4502824 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4502817 original size:28 final size:27
Alignment explanation
Indices: 4502747--4502819 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
4502737 TTTATTATCA
*
4502747 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
4502775 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
4502802 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
4502820 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:4502957 original size:18 final size:17
Alignment explanation
Indices: 4502936--4502970 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4502926 TTATTATTAA
*
4502936 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4502954 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4502971 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4503016 original size:61 final size:61
Alignment explanation
Indices: 4502951--4503138 Score: 185
Period size: 61 Copynumber: 3.1 Consensus size: 61
4502941 TTTTAATTAA
4502951 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * ** * * *
4503012 AATATATGATACTGTAA-AATATAAATTAA-AA-TAATAATTATTAAAT--ATATTA-T--AATT
1 AATATAT-A-A-TTTAATAAAAT-TCTTAATAATTAAT-ATTCTTATATGAAT-TTACTCAAATC
*
4503069 AA
60 AT
*
4503071 AATATATAATTTAATAAAATTCTTAATAATTAATAGTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
4503132 AATATAT
1 AATATAT
4503139 GATACTATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 8 0.08
57 14 0.15
58 8 0.08
59 14 0.15
61 21 0.22
62 8 0.08
63 15 0.16
64 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:4503058 original size:120 final size:120
Alignment explanation
Indices: 4502914--4503211 Score: 492
Period size: 120 Copynumber: 2.5 Consensus size: 120
4502904 ATTTAATCAT
*
4502914 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
4502979 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
65 ATTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
*
4503036 A-TTAAAATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
4503100 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
4503155 ATTTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
4503212 TAAAATAATT
Statistics
Matches: 166, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
119 3 0.02
120 154 0.93
121 8 0.05
122 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:4503075 original size:16 final size:16
Alignment explanation
Indices: 4503035--4503080 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
4503025 GTAAAATATA
4503035 AATTAAAATA-ATAAT
1 AATTAAAATATATAAT
* *
4503050 TATT-AAATATATTAT
1 AATTAAAATATATAAT
4503065 AATTAAAATATATAAT
1 AATTAAAATATATAAT
4503081 TTAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 5 0.20
15 10 0.40
16 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAAATATATAAT
Found at i:4503222 original size:54 final size:54
Alignment explanation
Indices: 4503029--4503222 Score: 144
Period size: 54 Copynumber: 3.4 Consensus size: 54
4503019 GATACTGTAA
* *
4503029 AATATAAA-TTAAAATAA-TAATTATTAAATATATTATAATTAAAATATATAATTT
1 AATA-AAATTTAAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTT
* * * *
4503083 AATAAAATTCT-TAATAATTAATAGTCT-TATATGAATTTACTCAAATCATAATATATGATACTA
1 AATAAAATT-TAAAATAATTAATA-T-TAAATAT--ATTT--T--AATTAAAATATATGAT--T-
4503146 T
54 T
* *
4503147 AAAAGAAAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
1 --AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
4503203 AATAAAATTTAAAATAATTA
1 AATAAAATTTAAAATAATTA
4503223 TAACTAATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
53 3 0.03
54 30 0.28
55 9 0.08
56 2 0.02
57 4 0.04
59 15 0.14
61 14 0.13
63 5 0.05
64 2 0.02
65 6 0.06
66 19 0.17
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
Found at i:4503949 original size:16 final size:16
Alignment explanation
Indices: 4503928--4503963 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4503918 TAAGAAATCA
4503928 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
4503944 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
4503960 CAGC
1 CAGC
4503964 TCCTGAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.39, G:0.19, T:0.22
Consensus pattern (16 bp):
CAGCCATGTACTCCTG
Found at i:4506271 original size:19 final size:17
Alignment explanation
Indices: 4506247--4506297 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
4506237 TAAAAAATAT
4506247 TTTTTAAATATTTTTATA
1 TTTTTAAATATTTTTA-A
*
4506265 CTTTTT-AATAATTTTAA
1 -TTTTTAAATATTTTTAA
*
4506282 TTTCTAAATTATTTTT
1 TTTTTAAA-TATTTTT
4506298 TTGCATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 4 0.15
17 3 0.11
18 15 0.56
19 5 0.19
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTAAATATTTTTAA
Found at i:4507479 original size:41 final size:41
Alignment explanation
Indices: 4507417--4507496 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 41
4507407 GCGCTTTCCT
4507417 AAAAACGCCGCAATAGCTCGCACT-TTAGTGGCATTTTTCTA
1 AAAAACGCCGCAATAGCTCGCA-TATTAGTGGCATTTTTCTA
* * * *
4507458 AAAAATGCCGCTATAGGTCGCATAATTAGTGGCGTTTTT
1 AAAAACGCCGCAATAGCTCGCAT-ATTAGTGGCATTTTT
4507497 TTGTAAACGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 1 0.03
41 19 0.58
42 13 0.39
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (41 bp):
AAAAACGCCGCAATAGCTCGCATATTAGTGGCATTTTTCTA
Found at i:4507520 original size:156 final size:152
Alignment explanation
Indices: 4507108--4507627 Score: 472
Period size: 156 Copynumber: 3.4 Consensus size: 152
4507098 GCGTTTTTAA
* * * *
4507108 AAAAACGCCGCAATAGATCGAGCTTTAGTGGCGTTTTTGAAAAAGCACCGCTAAAGGTCGACTTT
1 AAAAACGCCGCAATAGATCGA-CTTTAGTGGCGTTTTTAAAAAAACGCCGCTAAAGGTCG-CATT
** * * *
4507173 TAGCGGCGTTTTACT-AAAACGCCGCTAAAAGTTTAAGCAAGACGACGTCGTTTTACATGAGCTT
64 TAGCGGCGTTTTTTTGAAAACGCCGCTAAAAGGTTAAGCAAAACGACGTCGTTTTAAATGAGCTT
* * * * *
4507237 CATTGGCAGTAGCGGCGTTTTCCC
129 CAATGACATTAGCGGCGCTTTCCT
* * * * * *
4507261 AAAAACGCCGTAACAGATCAAACTTTAGTGGCGTTTTTAAAAAAAACGCAGCTAGAGGTCCGCCT
1 AAAAACGCCGCAATAGATC-GACTTTAGTGGCGTTTTT-AAAAAAACGCCGCTAAAGGT-CGCAT
* * * * * *
4507326 TTTGCGGCG-TTTTTGGAAAAAACACCGCTAAAATGTTAAACAAAACGACGTCGTTTTATATGAG
63 TTAGCGGCGTTTTTTTG--AAAACGCCGCTAAAAGGTTAAGCAAAACGACGTCGTTTTAAATGAG
4507390 CTTCAATGACATTAGCGGCGCTTTCCT
126 CTTCAATGACATTAGCGGCGCTTTCCT
* * * * *
4507417 AAAAACGCCGCAATAGCTCGCACTTTAGTGGCATTTTTCTAAAAAATGCCGCTATAGGTCGCATA
1 AAAAACGCCGCAATAGATCG-ACTTTAGTGGCGTTTTT-AAAAAAACGCCGCTAAAGGTCGCAT-
* * * * * *
4507482 ATTAGTGGCGTTTTTTTGTAAACGCCGTTAATAGGTTAAGGC-AAACGACGTCATTTTAAATTAG
63 -TTAGCGGCGTTTTTTTGAAAACGCCGCTAAAAGGTTAA-GCAAAACGACGTCGTTTTAAATGAG
*
4507546 CTTCAATGGA-ATTAGCGGCGCTTTACT
126 CTTCAAT-GACATTAGCGGCGCTTTCCT
* * * ** * * *
4507573 TAAAACGCCGCAATATATCAATCTTTAACGGCGTCTTTACAAAAACGACGCTAAA
1 AAAAACGCCGCAATAGATCGA-CTTTAGTGGCGTTTTTAAAAAAACGCCGCTAAA
4507628 ACATTAAGCA
Statistics
Matches: 293, Mismatches: 61, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
153 36 0.12
154 26 0.09
155 19 0.06
156 196 0.67
157 10 0.03
158 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (152 bp):
AAAAACGCCGCAATAGATCGACTTTAGTGGCGTTTTTAAAAAAACGCCGCTAAAGGTCGCATTTA
GCGGCGTTTTTTTGAAAACGCCGCTAAAAGGTTAAGCAAAACGACGTCGTTTTAAATGAGCTTCA
ATGACATTAGCGGCGCTTTCCT
Found at i:4508480 original size:14 final size:14
Alignment explanation
Indices: 4508463--4508492 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4508453 GTGTTTTAAA
4508463 GTTTATTATTTAGG
1 GTTTATTATTTAGG
4508477 GTTTATTATTTAGG
1 GTTTATTATTTAGG
4508491 GT
1 GT
4508493 CTAAGATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (14 bp):
GTTTATTATTTAGG
Found at i:4508529 original size:7 final size:7
Alignment explanation
Indices: 4508517--4508578 Score: 54
Period size: 7 Copynumber: 8.4 Consensus size: 7
4508507 TTTAGCGATA
4508517 TTAAGGT
1 TTAAGGT
4508524 TTAAGGGT
1 TTAA-GGT
4508532 TTAAGGT
1 TTAAGGT
* *
4508539 TTATGGG
1 TTAAGGT
4508546 TTAAGAGT
1 TTAAG-GT
4508554 TTAGAGG-
1 TTA-AGGT
*
4508561 TTAAGGG
1 TTAAGGT
4508568 TTAATGGT
1 TTAA-GGT
4508576 TTA
1 TTA
4508579 TGAATTATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
6 3 0.07
7 23 0.51
8 17 0.38
9 2 0.04
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.40
Consensus pattern (7 bp):
TTAAGGT
Found at i:4508537 original size:15 final size:14
Alignment explanation
Indices: 4508517--4508576 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 14
4508507 TTTAGCGATA
4508517 TTAAGGTTTAAGGG
1 TTAAGGTTTAAGGG
*
4508531 TTTAAGGTTTATGGG
1 -TTAAGGTTTAAGGG
4508546 TTAAGAGTTT-AGAGG
1 TTAAG-GTTTAAG-GG
* *
4508561 TTAAGGGTTAATGG
1 TTAAGGTTTAAGGG
4508575 TT
1 TT
4508577 TATGAATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 13 0.34
15 25 0.66
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (14 bp):
TTAAGGTTTAAGGG
Found at i:4508550 original size:22 final size:22
Alignment explanation
Indices: 4508517--4508578 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
4508507 TTTAGCGATA
*
4508517 TTAAGGTTTAAGGGTTTA-AGG
1 TTAAGGGTTAAGGGTTTAGAGG
* *
4508538 TTTATGGGTTAAGAGTTTAGAGG
1 -TTAAGGGTTAAGGGTTTAGAGG
*
4508561 TTAAGGGTTAATGGTTTA
1 TTAAGGGTTAAGGGTTTA
4508579 TGAATTATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 30 0.91
23 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.40
Consensus pattern (22 bp):
TTAAGGGTTAAGGGTTTAGAGG
Found at i:4508713 original size:7 final size:7
Alignment explanation
Indices: 4508663--4508725 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
4508653 TAGGGGTTAA
*
4508663 TTAGGGC
1 TTAGGGT
4508670 TTAGGGT
1 TTAGGGT
*
4508677 CTAGGGT
1 TTAGGGT
*
4508684 TTGGGGT
1 TTAGGGT
*
4508691 TTGGGGT
1 TTAGGGT
**
4508698 TTATAGT
1 TTAGGGT
4508705 TTAGGGT
1 TTAGGGT
*
4508712 TTATGGT
1 TTAGGGT
*
4508719 ATAGGGT
1 TTAGGGT
4508726 CAAGGTCTTA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.14, C:0.03, G:0.41, T:0.41
Consensus pattern (7 bp):
TTAGGGT
Found at i:4509275 original size:41 final size:41
Alignment explanation
Indices: 4509188--4509274 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
4509178 GCGTTTTTTC
* **
4509188 AAAAACGCCACAAAAAATGAGCTATAGTGGCGTTTATAATA
1 AAAAACGCCACAAAAAATGACCTATACCGGCGTTTATAATA
**
4509229 AAAAACGCCACTAAAAGTTGACCTATACCGGCGTTT-TAAATA
1 AAAAACGCCAC-AAAAAATGACCTATACCGGCGTTTAT-AATA
4509271 AAAA
1 AAAA
4509275 CACCGCAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 12 0.31
42 27 0.69
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAAACGCCACAAAAAATGACCTATACCGGCGTTTATAATA
Found at i:4509956 original size:24 final size:24
Alignment explanation
Indices: 4509926--4509971 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
4509916 GTCAGGTAAC
4509926 TTTAATTTCTAAGTCTCTGTTTCT
1 TTTAATTTCTAAGTCTCTGTTTCT
4509950 TTTAATTTCTAAGTCTCTGTTT
1 TTTAATTTCTAAGTCTCTGTTT
4509972 ACAAATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.09, T:0.59
Consensus pattern (24 bp):
TTTAATTTCTAAGTCTCTGTTTCT
Found at i:4510753 original size:24 final size:24
Alignment explanation
Indices: 4510690--4510759 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
4510680 TTTGTGACTG
*
4510690 TGAAAATCGTATTATAATAATGTTA
1 TGAAAATTGTATTATAAT-ATGTTA
**
4510715 T-ACTATCT-TATTTATAATATGTTA
1 TGAAAAT-TGTA-TTATAATATGTTA
4510739 TGAAAATTGTATTATAATATG
1 TGAAAATTGTATTATAATATG
4510760 CTTTTGTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
24 23 0.64
25 13 0.36
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (24 bp):
TGAAAATTGTATTATAATATGTTA
Found at i:4513588 original size:21 final size:21
Alignment explanation
Indices: 4513562--4513601 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4513552 CTTAGAGCGA
* *
4513562 AGGCAGCAGCGCGGGAGGCGG
1 AGGCAGCAACGAGGGAGGCGG
4513583 AGGCAGCAACGAGGGAGGC
1 AGGCAGCAACGAGGGAGGC
4513602 AGAGCAGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.23, G:0.53, T:0.00
Consensus pattern (21 bp):
AGGCAGCAACGAGGGAGGCGG
Found at i:4517517 original size:39 final size:39
Alignment explanation
Indices: 4517453--4517599 Score: 129
Period size: 40 Copynumber: 3.7 Consensus size: 39
4517443 CGGCGTTTTC
* * *
4517453 AGCGGCGTTTGGATGAAAAATGCCGCAAAAT-TTACACATT
1 AGCGGCGTTTGTAT-AAAAACGCCGCAAAATATCA-ACATT
* *
4517493 AGTGGCGTTTGTATAAAAACGCCGCAAAATATCAATATT
1 AGCGGCGTTTGTATAAAAACGCCGCAAAATATCAACATT
* * * *
4517532 AGCGGCGCTTATATAGAAAACGCCGCAAAAAAGTGAGA-ATT
1 AGCGGCGTTTGTATA-AAAACGCCGCAAAATA-TCA-ACATT
*
4517573 AGCGGCGTTT-TCTTAAAAACGCCGCAA
1 AGCGGCGTTTGT-ATAAAAACGCCGCAA
4517600 TAGGTGACGC
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 31 0.34
40 42 0.47
41 16 0.18
42 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (39 bp):
AGCGGCGTTTGTATAAAAACGCCGCAAAATATCAACATT
Found at i:4518549 original size:28 final size:28
Alignment explanation
Indices: 4518517--4518583 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
4518507 TGTGAATGGT
4518517 TTTTGGGTTTAAAGTTTAGGGTTATA-GG
1 TTTTGGGTTTAAAGTTTAGGGTT-TAGGG
* ***
4518545 TTTTGTGTTTGTGGTTTAGGGTTTAGGG
1 TTTTGGGTTTAAAGTTTAGGGTTTAGGG
*
4518573 TTTTAGGTTTA
1 TTTTGGGTTTA
4518584 GGGTTTTAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (28 bp):
TTTTGGGTTTAAAGTTTAGGGTTTAGGG
Found at i:4518567 original size:21 final size:21
Alignment explanation
Indices: 4518543--4518596 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
4518533 TAGGGTTATA
*
4518543 GGTTTTGTGTTTGT-GGTTTAG
1 GGTTTTGGGTTT-TAGGTTTAG
*
4518564 GGTTTAGGGTTTTAGGTTTAG
1 GGTTTTGGGTTTTAGGTTTAG
*
4518585 GGTTTTAGGTTT
1 GGTTTTGGGTTT
4518597 AGAGTATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.09, C:0.00, G:0.37, T:0.54
Consensus pattern (21 bp):
GGTTTTGGGTTTTAGGTTTAG
Found at i:4518568 original size:14 final size:14
Alignment explanation
Indices: 4518559--4518598 Score: 71
Period size: 14 Copynumber: 2.8 Consensus size: 14
4518549 GTGTTTGTGG
4518559 TTTAGGGTTTAGGGT
1 TTTA-GGTTTAGGGT
4518574 TTTAGGTTTAGGGT
1 TTTAGGTTTAGGGT
4518588 TTTAGGTTTAG
1 TTTAGGTTTAG
4518599 AGTATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 21 0.84
15 4 0.16
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTTAGGTTTAGGGT
Found at i:4518579 original size:8 final size:7
Alignment explanation
Indices: 4518530--4518598 Score: 56
Period size: 7 Copynumber: 9.9 Consensus size: 7
4518520 TGGGTTTAAA
4518530 GTTTAGG
1 GTTTAGG
4518537 GTTATA-G
1 GTT-TAGG
* *
4518544 GTTTTGT
1 GTTTAGG
4518551 GTTT-GTG
1 GTTTAG-G
4518558 GTTTAGG
1 GTTTAGG
4518565 GTTTAGG
1 GTTTAGG
4518572 GTTTTA-G
1 G-TTTAGG
4518579 GTTTAGG
1 GTTTAGG
4518586 GTTTTA-G
1 G-TTTAGG
4518593 GTTTAG
1 GTTTAG
4518599 AGTATAATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
6 10 0.20
7 30 0.59
8 11 0.22
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (7 bp):
GTTTAGG
Found at i:4518643 original size:15 final size:15
Alignment explanation
Indices: 4518623--4518654 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4518613 TTTAATTTAG
4518623 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
4518638 AAGATAAATATATAT
1 AAGATAAATATAAAT
4518653 AA
1 AA
4518655 ATTATTATTT
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:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:4518679 original size:37 final size:37
Alignment explanation
Indices: 4518629--4518709 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
4518619 TTAGAAGATA
4518629 AATATAAATAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAATATATATAAATTATTATTTT
4518666 AATATAAATAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAATATATATAAATTATTATTTT
*
4518703 AAAATAA
1 AATATAA
4518710 TATATATCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (37 bp):
AATATAAATAAGATAAATATATATAAATTATTATTTT
Found at i:4520697 original size:39 final size:39
Alignment explanation
Indices: 4520643--4520721 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
4520633 GATATGACTG
*
4520643 TCTTAAATTTGTTATTTTGCATGATTATTTGAGATCTGC
1 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
4520682 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
1 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
4520721 T
1 T
4520722 TCTGTCAATG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (39 bp):
TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
Found at i:4520711 original size:20 final size:20
Alignment explanation
Indices: 4520649--4520712 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
4520639 ACTGTCTTAA
*
4520649 ATTTGTTATTTTGCATGATT
1 ATTTGTTATTCTGCATGATT
** *
4520669 ATTTGAGA-TCTGC-T-CTT
1 ATTTGTTATTCTGCATGATT
4520686 AAATTTGTTATTCTGCATGATT
1 --ATTTGTTATTCTGCATGATT
4520708 ATTTG
1 ATTTG
4520713 AGATCTGCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 10 0.31
20 16 0.50
21 1 0.03
22 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (20 bp):
ATTTGTTATTCTGCATGATT
Found at i:4521980 original size:21 final size:21
Alignment explanation
Indices: 4521926--4521973 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
4521916 ACTTAGAGGG
* * *
4521926 GAGGTAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGAGAGGCA
*
4521947 GCGGCAGCAGCGAGAGAGGCA
1 GAGGCAGCAGCGAGAGAGGCA
4521968 GAGGCA
1 GAGGCA
4521974 CGAGCGATGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.50, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAGAGAGGCA
Found at i:4522274 original size:31 final size:31
Alignment explanation
Indices: 4522212--4522294 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
4522202 TTAGAATTAA
*
4522212 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGTA--TTTTATACTAAATTTGC
* * *
4522245 TGTTTTTGGCTGTATTTTATACTATATTTGT
1 TGTTTTTGGTTGTATTTTATACTAAATTTGC
* *
4522276 TGTATTTGGTTGGATTTTA
1 TGTTTTTGGTTGTATTTTA
4522295 ATGCAGGAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 30 0.70
33 13 0.30
ACGTcount: A:0.16, C:0.05, G:0.19, T:0.60
Consensus pattern (31 bp):
TGTTTTTGGTTGTATTTTATACTAAATTTGC
Found at i:4522446 original size:44 final size:44
Alignment explanation
Indices: 4522346--4522447 Score: 154
Period size: 43 Copynumber: 2.4 Consensus size: 44
4522336 TCTGCCAAAA
* * *
4522346 TTAGCGGCGT-TTTTCCCACAAATGCCGCTAAAAGCCGTCACTT
1 TTAGCGGCGTCTTTTTCCACAAACGCCGCTAAAAGCCATCACTT
*
4522389 TTAGCGGCG-CTTTTTCCACAAACGCCGCTAAAATCCATCACTT
1 TTAGCGGCGTCTTTTTCCACAAACGCCGCTAAAAGCCATCACTT
4522432 TTAGCGGCGTCTTTTT
1 TTAGCGGCGTCTTTTT
4522448 TCAATAAACG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
43 47 0.89
44 6 0.11
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (44 bp):
TTAGCGGCGTCTTTTTCCACAAACGCCGCTAAAAGCCATCACTT
Found at i:4524987 original size:12 final size:12
Alignment explanation
Indices: 4524970--4524998 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4524960 TAATTTGAAC
4524970 TAAAAAGAAAAA
1 TAAAAAGAAAAA
4524982 TAAAAAGAAAAA
1 TAAAAAGAAAAA
4524994 -AAAAA
1 TAAAAA
4524999 CTAAGGCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (12 bp):
TAAAAAGAAAAA
Found at i:4530555 original size:23 final size:24
Alignment explanation
Indices: 4530507--4530557 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
4530497 TCAGGTACTG
4530507 AATTAGACAAAAAAAAAGGTACCA
1 AATTAGACAAAAAAAAAGGTACCA
*
4530531 AATTAGA-AAAAAATAAA-GTATCA
1 AATTAGACAAAAAA-AAAGGTACCA
4530554 AATT
1 AATT
4530558 GGACCCCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.63, C:0.08, G:0.10, T:0.20
Consensus pattern (24 bp):
AATTAGACAAAAAAAAAGGTACCA
Found at i:4531818 original size:49 final size:49
Alignment explanation
Indices: 4531763--4531863 Score: 166
Period size: 49 Copynumber: 2.1 Consensus size: 49
4531753 ATGATTTAAG
* *
4531763 TATGACTATTTAAAACCATGACTAACAATGGCATGTCTACGATTGCCAA
1 TATGACTATTTAAAACCATGACTAACAATGACATCTCTACGATTGCCAA
* *
4531812 TATGACTATTTAAAACCATGATTGACAATGACATCTCTACGATTGCCAA
1 TATGACTATTTAAAACCATGACTAACAATGACATCTCTACGATTGCCAA
4531861 TAT
1 TAT
4531864 TATATGATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (49 bp):
TATGACTATTTAAAACCATGACTAACAATGACATCTCTACGATTGCCAA
Found at i:4533168 original size:17 final size:18
Alignment explanation
Indices: 4533146--4533181 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4533136 GGCCAAGATG
*
4533146 GGTGTGT-GGGCCACACA
1 GGTGTGTAGGCCCACACA
4533163 GGTGTGTAGGCCCACACA
1 GGTGTGTAGGCCCACACA
4533181 G
1 G
4533182 TCATGCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.19, C:0.25, G:0.39, T:0.17
Consensus pattern (18 bp):
GGTGTGTAGGCCCACACA
Found at i:4535098 original size:26 final size:25
Alignment explanation
Indices: 4535069--4535117 Score: 89
Period size: 26 Copynumber: 1.9 Consensus size: 25
4535059 AAATGTCAAG
4535069 TTTAAGTATCAAATTGAAAAAAATAT
1 TTTAAGTATCAAATT-AAAAAAATAT
4535095 TTTAAGTATCAAATTAAAAAAAT
1 TTTAAGTATCAAATTAAAAAAAT
4535118 TATCAAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
TTTAAGTATCAAATTAAAAAAATAT
Found at i:4535675 original size:14 final size:14
Alignment explanation
Indices: 4535620--4535681 Score: 53
Period size: 13 Copynumber: 4.7 Consensus size: 14
4535610 TTTAGTATTG
*
4535620 AAATAATTTTGTAT
1 AAATAATTTTTTAT
4535634 -AA-AATTTTTTAT
1 AAATAATTTTTTAT
*
4535646 --TTGAATTTTTTA-
1 AAAT-AATTTTTTAT
4535658 AAATAATTTTTTAT
1 AAATAATTTTTTAT
*
4535672 AAATTATTTT
1 AAATAATTTT
4535682 CAGAGAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
12 9 0.23
13 20 0.51
14 10 0.26
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
AAATAATTTTTTAT
Found at i:4535780 original size:18 final size:17
Alignment explanation
Indices: 4535757--4535792 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
4535747 AATCAAAAAT
*
4535757 TATTTTTTAATAAAATAA
1 TATTTTGTAAT-AAATAA
4535775 TATTTTGTAATAAATAA
1 TATTTTGTAATAAATAA
4535792 T
1 T
4535793 GTATTATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TATTTTGTAATAAATAA
Found at i:4544325 original size:268 final size:268
Alignment explanation
Indices: 4543847--4544385 Score: 947
Period size: 268 Copynumber: 2.0 Consensus size: 268
4543837 GTGAAAAATC
*
4543847 AAGAAAAAGAATTTGGTATCTTGATAATTGCGCCAACAATCACATGTGTGGCCGAAAAGACTTAT
1 AAGAAAAAGAATTTGGTATCTTGATAATTGCACCAACAATCACATGTGTGGCCGAAAAGACTTAT
*
4543912 TTTCAGAGTTGGATGAGAATATTCATGGACAAGTAACGTTTGGAGATGAATCGCATACCACGGTC
66 TTTCAAAGTTGGATGAGAATATTCATGGACAAGTAACGTTTGGAGATGAATCGCATACCACGGTC
*
4543977 AAAAGCAACGGCAAAGTCACTATTACAAAAAAGAATGGAAAAAAGAAGTTAATTTCAAATGTTTA
131 AAAAGCAAAGGCAAAGTCACTATTACAAAAAAGAATGGAAAAAAGAAGTTAATTTCAAATGTTTA
* * *
4544042 TTACGTACTAGCTTTGAAAAGCAACATTATCAGCTTTAGACAGCTTTTAAAAAAAAGATATGAAG
196 TTACGTACCAGCTTTGAAAAGCAACATTATCAGCTTTAGACAGCTTCTAAAAAAAAGATATAAAG
4544107 TACATATG
261 TACATATG
*
4544115 AAGAAAAA-ATATTTGGTATCTTGATAATTGCACCAGCAATCACATGTGTGGCCGAAAAGACTTA
1 AAGAAAAAGA-ATTTGGTATCTTGATAATTGCACCAACAATCACATGTGTGGCCGAAAAGACTTA
*
4544179 TTTTCAAAGTTGGATGAGAATATTCATGGACAAGTAACGTTTGGAGATGAATCGCATGCCACGGT
65 TTTTCAAAGTTGGATGAGAATATTCATGGACAAGTAACGTTTGGAGATGAATCGCATACCACGGT
* *
4544244 CAAAGGCAAAGGCAAAGTCACTATTACAAAAAAGAATGGAAAAAAGAAGTTCATTT-AAGATGTT
130 CAAAAGCAAAGGCAAAGTCACTATTACAAAAAAGAATGGAAAAAAGAAGTTAATTTCAA-ATGTT
*
4544308 TATTACGTACCAGCTTTGAAAAGCAACATTATCAGCTTTAGACAGCTTCTAAAAAAAGGATATAA
194 TATTACGTACCAGCTTTGAAAAGCAACATTATCAGCTTTAGACAGCTTCTAAAAAAAAGATATAA
4544373 AGTACATATG
259 AGTACATATG
4544383 AAG
1 AAG
4544386 GATTCCATGC
Statistics
Matches: 258, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
267 3 0.01
268 255 0.99
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (268 bp):
AAGAAAAAGAATTTGGTATCTTGATAATTGCACCAACAATCACATGTGTGGCCGAAAAGACTTAT
TTTCAAAGTTGGATGAGAATATTCATGGACAAGTAACGTTTGGAGATGAATCGCATACCACGGTC
AAAAGCAAAGGCAAAGTCACTATTACAAAAAAGAATGGAAAAAAGAAGTTAATTTCAAATGTTTA
TTACGTACCAGCTTTGAAAAGCAACATTATCAGCTTTAGACAGCTTCTAAAAAAAAGATATAAAG
TACATATG
Found at i:4549564 original size:17 final size:16
Alignment explanation
Indices: 4549542--4549586 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
4549532 ACATATTTTA
4549542 AAAATAATTAATTACAT
1 AAAATAATTAATTA-AT
*
4549559 AAAATAATTAATTATT
1 AAAATAATTAATTAAT
*
4549575 TAAATAATTAAT
1 AAAATAATTAAT
4549587 ATTAAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATAATTAATTAAT
Found at i:4552868 original size:16 final size:17
Alignment explanation
Indices: 4552837--4552869 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4552827 TTCATAAGTA
4552837 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
4552854 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
4552870 GTTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:4553403 original size:138 final size:138
Alignment explanation
Indices: 4553155--4553413 Score: 419
Period size: 138 Copynumber: 1.9 Consensus size: 138
4553145 TTTGACATGA
* * * *
4553155 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
** *
4553220 CATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCC
66 CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCC
4553285 CGTTATGT
131 CGTTATGT
* *
4553293 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
* *
4553358 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
66 CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTA
4553414 CACATTTCAT
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 110 1.00
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.41
Consensus pattern (138 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCC
CGTTATGT
Found at i:4553428 original size:46 final size:46
Alignment explanation
Indices: 4553150--4553423 Score: 370
Period size: 46 Copynumber: 6.0 Consensus size: 46
4553140 TTATCTTTGA
* * * *
4553150 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
4553196 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * **
4553242 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * **
4553288 TATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
4553334 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
4553380 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
4553424 ATCAGAGAGC
Statistics
Matches: 208, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 204 0.98
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:4554847 original size:17 final size:17
Alignment explanation
Indices: 4554825--4554863 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
4554815 ACACCCTTAT
4554825 TTTCTTTTTCTACACTA
1 TTTCTTTTTCTACACTA
4554842 TTTCTTTTTCTACACTA
1 TTTCTTTTTCTACACTA
4554859 TTTCT
1 TTTCT
4554864 CATCACTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTCTTTTTCTACACTA
Found at i:4556820 original size:45 final size:45
Alignment explanation
Indices: 4556729--4556821 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
4556719 GACTGTTAAC
* * * *
4556729 AGAAAAAGGTGGCTGTGCAACAGTATCACCTGAAGCACTGGTTGG
1 AGAAAAAGATGGCTGTGCAACAATATCACCGGAAGCACTGGATGG
* *
4556774 AGAAAAAGATGGTTGTGCAACAATATCACCGGGAGCA-TGGGATGG
1 AGAAAAAGATGGCTGTGCAACAATATCACCGGAAGCACT-GGATGG
4556819 AGA
1 AGA
4556822 TGAGCTGGTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.02
45 40 0.98
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.18
Consensus pattern (45 bp):
AGAAAAAGATGGCTGTGCAACAATATCACCGGAAGCACTGGATGG
Found at i:4557938 original size:25 final size:25
Alignment explanation
Indices: 4557904--4557955 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
4557894 GGAGACCCAG
4557904 AGCTTGAAGCAGATTTATTAAAAGT
1 AGCTTGAAGCAGATTTATTAAAAGT
* *
4557929 AGCTTGAAGCAGGTTTATTGAAAGT
1 AGCTTGAAGCAGATTTATTAAAAGT
4557954 AG
1 AG
4557956 GTCGAGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.31
Consensus pattern (25 bp):
AGCTTGAAGCAGATTTATTAAAAGT
Found at i:4558912 original size:63 final size:63
Alignment explanation
Indices: 4558810--4558931 Score: 217
Period size: 63 Copynumber: 1.9 Consensus size: 63
4558800 GGAAGGCCAG
*
4558810 CCAAGATAACGCTGATCTGTTCTTGCTTCGTAACAAGGCTACCAGCGGCAGTCAGACTACCCA
1 CCAAGATAACGCTGATCTGTTCTTGCTTCGTAACAAGGCTACCAGAGGCAGTCAGACTACCCA
* *
4558873 CCAAGATAACGCTGATCTGTTCTTGCTTCGTAACCAGGCTACTAGAGGCAGTCAGACTA
1 CCAAGATAACGCTGATCTGTTCTTGCTTCGTAACAAGGCTACCAGAGGCAGTCAGACTA
4558932 TCACTTAAAC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (63 bp):
CCAAGATAACGCTGATCTGTTCTTGCTTCGTAACAAGGCTACCAGAGGCAGTCAGACTACCCA
Found at i:4583622 original size:15 final size:15
Alignment explanation
Indices: 4583602--4583636 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4583592 ATATCAATAT
* *
4583602 TTTTAAGTATTATTA
1 TTTTAAATAATATTA
4583617 TTTTAAATAATATTA
1 TTTTAAATAATATTA
4583632 TTTTA
1 TTTTA
4583637 CATTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TTTTAAATAATATTA
Found at i:4591801 original size:16 final size:16
Alignment explanation
Indices: 4591780--4591833 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
4591770 TTTGGTTCAC
4591780 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
* *
4591796 TGTAATTGAACAGAGT
1 TGTAATGGAATAGAGT
* * *
4591812 TGTAATGAAATAAAGC
1 TGTAATGGAATAGAGT
4591828 TGTAAT
1 TGTAAT
4591834 TAGTAATTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:4593056 original size:29 final size:24
Alignment explanation
Indices: 4593012--4593068 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 24
4593002 GAAATATACG
4593012 ATATATAATATTGAAAGTAAATACATA
1 ATATATAATATTGAAA-T-AAT-CATA
4593039 ATATATACATATTAGAAATAATCATA
1 ATATATA-ATATT-GAAATAATCATA
4593065 ATAT
1 ATAT
4593069 TAGAAACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 8 0.29
27 10 0.36
28 6 0.21
29 4 0.14
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (24 bp):
ATATATAATATTGAAATAATCATA
Found at i:4593254 original size:17 final size:19
Alignment explanation
Indices: 4593222--4593264 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
4593212 ATAAAAATAC
*
4593222 AATATAAAAAGATATATAT
1 AATATAAAAAGATATACAT
*
4593241 -ATATAAAATG-TATACAT
1 AATATAAAAAGATATACAT
4593258 AATATAA
1 AATATAA
4593265 TATTAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
AATATAAAAAGATATACAT
Found at i:4593262 original size:24 final size:24
Alignment explanation
Indices: 4593235--4593301 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
4593225 ATAAAAAGAT
4593235 ATATATATATAAAATGTATACATA
1 ATATATATATAAAATGTATACATA
* * *
4593259 ATATA-ATATTAAAATATTTACATG
1 ATATATATA-TAAAATGTATACATA
* *
4593283 GTATATACATAATAATGTA
1 ATATATATATAA-AATGTA
4593302 AAAAATAAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
23 3 0.09
24 24 0.73
25 6 0.18
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (24 bp):
ATATATATATAAAATGTATACATA
Found at i:4593920 original size:39 final size:38
Alignment explanation
Indices: 4593792--4593982 Score: 256
Period size: 39 Copynumber: 5.0 Consensus size: 38
4593782 ATTCCATTCC
* * * *
4593792 CCCCATGCTACTTTGTTTTATTATTAATCAAAACCACT
1 CCCCATGCTATTTTGTTTTATTGTTAATTAAAACCATT
**
4593830 CCTTATGCTATTTTGTTTTATTGTTAATTAAAACCATT
1 CCCCATGCTATTTTGTTTTATTGTTAATTAAAACCATT
*
4593868 CCCCATGCTATTTTGTTTTATTGTTAATTAAAACTATTT
1 CCCCATGCTATTTTGTTTTATTGTTAATTAAAACCA-TT
* *
4593907 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTT
1 CCCCATGCTATTTTGTTTTATTGTTAATTAAAACCA-TT
* * *
4593946 CCTCATACTATTTTGTTTTATTATTAATTAAAACCAT
1 CCCCATGCTATTTTGTTTTATTGTTAATTAAAACCAT
4593983 ACTTTATTTT
Statistics
Matches: 138, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 66 0.48
39 72 0.52
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (38 bp):
CCCCATGCTATTTTGTTTTATTGTTAATTAAAACCATT
Found at i:4595284 original size:45 final size:45
Alignment explanation
Indices: 4595210--4595295 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
4595200 CGATATCTGC
* *
4595210 TATCTTTGATCTGCCCCCCGTCTACTACAGAGACGCCAAATCTAT
1 TATCTTCGATCTGCCCCCCGTCTAATACAGAGACGCCAAATCTAT
* * *
4595255 TATCTTCGATCTGCTCCCCTTCTAATACAGCGACGCCAAAT
1 TATCTTCGATCTGCCCCCCGTCTAATACAGAGACGCCAAAT
4595296 TTGCTTCTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.29
Consensus pattern (45 bp):
TATCTTCGATCTGCCCCCCGTCTAATACAGAGACGCCAAATCTAT
Found at i:4595771 original size:210 final size:209
Alignment explanation
Indices: 4595512--4596147 Score: 869
Period size: 210 Copynumber: 3.1 Consensus size: 209
4595502 GATGCTAAAC
* **
4595512 CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCA
1 CATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCTCTCCATCA
* *
4595577 AAGTGAAGATGCCAAACTTTGATTCGTTCTCTGACAATACAGAGACGACAAATAATCTTAGATTT
66 AAGTGAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
* *
4595642 GCTTCATCGTAAACACATGAAAGCCAAATCAGCTATATCTTCGATCTACTTCCTGCCGAATACAG
131 GCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGAT-TACTTCCTGCTGAATACAG
4595707 AGAGATAAGATCTGT
195 AGAGATAAGATCTGT
* *
4595722 CATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGC-CTTCCATC
1 CATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCTC-TCCATC
* * *
4595786 AAAGTGGAA-ATGCCAGACTTCGATTTGTTCTTTGACAATACAGAGACGACAAATCATCTTAGAT
65 AAAGT-GAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGAT
* * * * ** * * *
4595850 TTGTTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTTTTCGATTTGTTCATTG-TAAACAC
129 TTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATTACTTC-CTGCTGAATAC
4595914 A-AGA-ATGCCAA-A-C---
193 AGAGAGAT---AAGATCTGT
** *
4595927 CATCTTGGATCCGCTTCAGCATAAACATCTGAAATTCAGATCTGCTATGTGTCTGCTCTCCATCA
1 CATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCTCTCCATCA
4595992 AAGTGAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
66 AAGTGAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
* * * *
4596057 GCTTCATCGTAAACACGTGAAAGCCAAATCAACTATATCTTCGATATGCTCCCCGCTGAATACAG
131 GCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGAT-TACTTCCTGCTGAATACAG
4596122 AGAGATAAGATCTGT
195 AGAGATAAGATCTGT
*
4596137 CATCTTAGATC
1 CATCTTGGATC
4596148 TGCCCCGATG
Statistics
Matches: 367, Mismatches: 42, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
204 3 0.01
205 159 0.43
206 11 0.03
207 6 0.02
208 6 0.02
209 11 0.03
210 168 0.46
211 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (209 bp):
CATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCTCTCCATCA
AAGTGAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
GCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATTACTTCCTGCTGAATACAGA
GAGATAAGATCTGT
Found at i:4596013 original size:205 final size:203
Alignment explanation
Indices: 4595389--4596101 Score: 882
Period size: 205 Copynumber: 3.5 Consensus size: 203
4595379 AAATCTGCTT
* * * * * * *
4595389 CTTCGATTTGTTCCCTGACAATACAGATATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * * * *
4595454 GTGAAAGCCAAATAAACTATGA--TTCGATTTGCTCCTTGTAAGCATAAGGATGCTAAACCATCT
66 GTGAAAGCCAAATCAACTAT-ATCTTCGATTTG-TTCTTGTAAACACAAGAATGC-AAACCATCT
* *
4595517 TGGATCCGCTTCAGCATAAACATCCG-AAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGT
128 TGGATCCGCTTCAGCATAAACATCTGAAAGTC-AGATCTGCTATGTGTCTGCTCTCCATCAAAGT
4595581 GAAGATGCCAAA
192 GAAGATGCCAAA
* * *
4595593 CTTTGATTCGTTCTCTGACAATACAGAGACGACAAATAATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * ** * ** *
4595658 ATGAAAGCCAAATCAGCTATATCTTCGATCTACTTCCTGCCGAATACAGAGAGAT--AAGATCTG
66 GTGAAAGCCAAATCAACTATATCTTCGAT-TTGTTCTTG-TAAACACA-AGA-ATGCAA-A-C--
* * * *
4595721 TCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGC-CTTCCAT
123 -CATCTTGGATCCGCTTCAGCATAAACATCTGAAAGTCAGATCTGCTATGTGTCTGCTC-TCCAT
*
4595785 CAAAGTGGAA-ATGCCAGA
186 CAAAGT-GAAGATGCCAAA
* * *
4595803 CTTCGATTTGTTCTTTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCAACGTAAACAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * *
4595868 GTGAAAGCCAAATCAGCTATGTTTTCGATTTGTTCATTGTAAACACAAGAATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACTATATCTTCGATTTGTTC-TTGTAAACACAAGAATG-CAAACCATCTT
*
4595933 GGATCCGCTTCAGCATAAACATCTGAAATTCAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
129 GGATCCGCTTCAGCATAAACATCTGAAAGTCAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
4595998 AGATGCCAAA
194 AGATGCCAAA
*
4596008 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
4596073 GTGAAAGCCAAATCAACTATATCTTCGAT
66 GTGAAAGCCAAATCAACTATATCTTCGAT
4596102 ATGCTCCCCG
Statistics
Matches: 431, Mismatches: 58, Indels: 39
0.82 0.11 0.07
Matches are distributed among these distances:
203 1 0.00
204 75 0.17
205 168 0.39
206 6 0.01
207 5 0.01
208 6 0.01
209 11 0.03
210 154 0.36
211 5 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (203 bp):
CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAACTATATCTTCGATTTGTTCTTGTAAACACAAGAATGCAAACCATCTTGG
ATCCGCTTCAGCATAAACATCTGAAAGTCAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
ATGCCAAA
Found at i:4604157 original size:13 final size:15
Alignment explanation
Indices: 4604127--4604157 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4604117 TTCCAGATTT
4604127 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
4604142 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
4604157 T
1 T
4604158 GGAAAGTAAA
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:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:4607902 original size:29 final size:24
Alignment explanation
Indices: 4607858--4607914 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 24
4607848 GAAATATACG
4607858 ATATATAATATTGAAAGTAAATACATA
1 ATATATAATATTGAAA-T-AAT-CATA
4607885 ATATATACATATTAGAAATAATCATA
1 ATATATA-ATATT-GAAATAATCATA
4607911 ATAT
1 ATAT
4607915 TAGAAACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 8 0.29
27 10 0.36
28 6 0.21
29 4 0.14
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (24 bp):
ATATATAATATTGAAATAATCATA
Found at i:4608743 original size:38 final size:37
Alignment explanation
Indices: 4608689--4608838 Score: 183
Period size: 38 Copynumber: 3.9 Consensus size: 37
4608679 TTCCATTCCC
* * *
4608689 CCCATGCTACTTTGTTTTATTATTAATCAAAACCACT
1 CCCATGCTATTTTGTTTTATTGTTAATTAAAACCACT
4608726 CCCTATGCTATTTTGTTTTATTGTTAATTAAAACCACT
1 CCC-ATGCTATTTTGTTTTATTGTTAATTAAAACCACT
* * * * *
4608764 CCCCATGTTATTTTGTTTTATTTTTTATTAAAACTATTTT
1 -CCCATGCTATTTTGTTTTATTGTTAATTAAAACCA--CT
*
4608804 CCCATACTATTTTGTTTTATTGTTAATTAAAACCA
1 CCCATGCTATTTTGTTTTATTGTTAATTAAAACCA
4608839 TACTATTTTG
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
37 3 0.03
38 59 0.61
39 33 0.34
40 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.49
Consensus pattern (37 bp):
CCCATGCTATTTTGTTTTATTGTTAATTAAAACCACT
Found at i:4613346 original size:41 final size:40
Alignment explanation
Indices: 4613291--4613376 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 40
4613281 ATATAATCAC
* *
4613291 TTTTTTTATATTTTTAATTTGTTTATTATTTTAAAAATTG
1 TTTTATTATATTTTTAATTTATTTATTATTTTAAAAATTG
* * * *
4613331 TTTTATTATTATTTTTCATTTATTTTTTCTTTTAATAATTG
1 TTTTATTA-TATTTTTAATTTATTTATTATTTTAAAAATTG
4613372 TTTTA
1 TTTTA
4613377 AGTGTATTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 7 0.18
41 32 0.82
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.70
Consensus pattern (40 bp):
TTTTATTATATTTTTAATTTATTTATTATTTTAAAAATTG
Found at i:4613385 original size:41 final size:40
Alignment explanation
Indices: 4613299--4613412 Score: 103
Period size: 41 Copynumber: 3.0 Consensus size: 40
4613289 ACTTTTTTTA
*
4613299 TATTTTTAATTTGTTTATTATTTTAAAAATTGTTTTATTAT
1 TATTTTTAATTTATTTATTATTTTAAAAATTGTTTTA-TAT
* * * * *
4613340 TATTTTTCATTTATTTTTTCTTTTAATAATTGTTTTA-AG
1 TATTTTTAATTTATTTATTATTTTAAAAATTGTTTTATAT
* * *
4613379 TGTATTTGATTTA-TTA-TATTTT-AAAATT-TTTTAT
1 TATTTTTAATTTATTTATTATTTTAAAAATTGTTTTAT
4613413 TTAATGAAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
35 5 0.08
36 5 0.08
37 5 0.08
38 2 0.03
39 11 0.18
41 32 0.53
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (40 bp):
TATTTTTAATTTATTTATTATTTTAAAAATTGTTTTATAT
Found at i:4624429 original size:381 final size:381
Alignment explanation
Indices: 4623726--4624491 Score: 1514
Period size: 381 Copynumber: 2.0 Consensus size: 381
4623716 CGACCGTACA
*
4623726 AAGTCAAGAACACCTTATCGCCTAGCTGCTGTCCAAAAATCAGCTCAATCGAACCACGGATGGAC
1 AAGTCAAGAACACCTTATCGCCTAGCTGCTATCCAAAAATCAGCTCAATCGAACCACGGATGGAC
4623791 CTTCGATCGAAGAGTTGATCACTGCTGCACCAAGCTTGAAAAACTGATTTTTCTATTCTCTCTTT
66 CTTCGATCGAAGAGTTGATCACTGCTGCACCAAGCTTGAAAAACTGATTTTTCTATTCTCTCTTT
4623856 TTCTCCAACGAGCTTCAATTTCACTCTCTTTCTCTCTGGATGTAATTGTGAATTTTGCTCTCAAT
131 TTCTCCAACGAGCTTCAATTTCACTCTCTTTCTCTCTGGATGTAATTGTGAATTTTGCTCTCAAT
4623921 TAAGAATGCTGCCCACTCCCACGTTAAAAGGCCAAAAAATTAACTTTTGACAAAACCAAAAAGAA
196 TAAGAATGCTGCCCACTCCCACGTTAAAAGGCCAAAAAATTAACTTTTGACAAAACCAAAAAGAA
4623986 GGCAAAACATTGTGGCAGAAAATATGGGCTTTTCCCACATAGTGGGACCCATACCCAACACTTCC
261 GGCAAAACATTGTGGCAGAAAATATGGGCTTTTCCCACATAGTGGGACCCATACCCAACACTTCC
4624051 TCATCACCTTCCAATTCTGTGACTATTTGCTTTAGTTCGCCACAACCGATTATCTT
326 TCATCACCTTCCAATTCTGTGACTATTTGCTTTAGTTCGCCACAACCGATTATCTT
4624107 AAGTCAAGAACACCTTATCGCCTAGCTGCTATCCAAAAATCAGCTCAATCGAACCACGGATGGAC
1 AAGTCAAGAACACCTTATCGCCTAGCTGCTATCCAAAAATCAGCTCAATCGAACCACGGATGGAC
4624172 CTTCGATCGAAGAGTTGATCACTGCTGCACCAAGCTTGAAAAACTGATTTTTCTATTCTCTCTTT
66 CTTCGATCGAAGAGTTGATCACTGCTGCACCAAGCTTGAAAAACTGATTTTTCTATTCTCTCTTT
4624237 TTCTCCAACGAGCTTCAATTTCACTCTCTTTCTCTCTGGATGTAATTGTGAATTTTGCTCTCAAT
131 TTCTCCAACGAGCTTCAATTTCACTCTCTTTCTCTCTGGATGTAATTGTGAATTTTGCTCTCAAT
*
4624302 TAAGAATGCTGCCCACTCCCACGTTAAAAGGCCAAAAAATTGACTTTTGACAAAACCAAAAAGAA
196 TAAGAATGCTGCCCACTCCCACGTTAAAAGGCCAAAAAATTAACTTTTGACAAAACCAAAAAGAA
4624367 GGCAAAACATTGTGGCAGAAAATATGGGCTTTTCCCACATAGTGGGACCCATACCCAACACTTCC
261 GGCAAAACATTGTGGCAGAAAATATGGGCTTTTCCCACATAGTGGGACCCATACCCAACACTTCC
4624432 TCATCACCTTCCAATTCTGTGACTATTTGCTTTAGTTCGCCACAACCGATTATCTT
326 TCATCACCTTCCAATTCTGTGACTATTTGCTTTAGTTCGCCACAACCGATTATCTT
4624488 AAGT
1 AAGT
4624492 TTTTCCAAGA
Statistics
Matches: 383, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
381 383 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (381 bp):
AAGTCAAGAACACCTTATCGCCTAGCTGCTATCCAAAAATCAGCTCAATCGAACCACGGATGGAC
CTTCGATCGAAGAGTTGATCACTGCTGCACCAAGCTTGAAAAACTGATTTTTCTATTCTCTCTTT
TTCTCCAACGAGCTTCAATTTCACTCTCTTTCTCTCTGGATGTAATTGTGAATTTTGCTCTCAAT
TAAGAATGCTGCCCACTCCCACGTTAAAAGGCCAAAAAATTAACTTTTGACAAAACCAAAAAGAA
GGCAAAACATTGTGGCAGAAAATATGGGCTTTTCCCACATAGTGGGACCCATACCCAACACTTCC
TCATCACCTTCCAATTCTGTGACTATTTGCTTTAGTTCGCCACAACCGATTATCTT
Found at i:4626592 original size:21 final size:22
Alignment explanation
Indices: 4626562--4626603 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
4626552 TTGATAAATT
4626562 ATATACATTTA-AATATTTTTC
1 ATATACATTTATAATATTTTTC
* *
4626583 ATATATATTTATAATCTTTTT
1 ATATACATTTATAATATTTTT
4626604 TTTTGTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATACATTTATAATATTTTTC
Found at i:4644580 original size:2 final size:2
Alignment explanation
Indices: 4644573--4644606 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4644563 TATATTTACA
4644573 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
4644607 TGCACAAGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4644865 original size:13 final size:13
Alignment explanation
Indices: 4644847--4644873 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4644837 ATATATTGTT
4644847 AAATTATCACAGA
1 AAATTATCACAGA
4644860 AAATTATCACAGA
1 AAATTATCACAGA
4644873 A
1 A
4644874 TATATACACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
AAATTATCACAGA
Found at i:4647317 original size:2 final size:2
Alignment explanation
Indices: 4647306--4647337 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4647296 GATATTTGAG
4647306 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4647338 TTATTAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4657449 original size:21 final size:21
Alignment explanation
Indices: 4657423--4657463 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4657413 ATCTGCTCAA
* *
4657423 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4657444 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4657464 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4664852 original size:13 final size:14
Alignment explanation
Indices: 4664810--4664853 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
4664800 TTTTATCCTG
*
4664810 AATCTCGAATCTTA
1 AATCTCGAACCTTA
*
4664824 AATCTCGAACCCTA
1 AATCTCGAACCTTA
*
4664838 AA-CTTGAACCTTA
1 AATCTCGAACCTTA
4664851 AAT
1 AAT
4664854 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.30
Consensus pattern (14 bp):
AATCTCGAACCTTA
Found at i:4666861 original size:12 final size:13
Alignment explanation
Indices: 4666837--4666884 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 13
4666827 TAATAGTATC
4666837 ATTTCGATATTTA
1 ATTTCGATATTTA
4666850 ATTTCGTATTTAAGTTTA
1 ATTTCG-A--T-A-TTTA
4666868 ATTTCGATATTTA
1 ATTTCGATATTTA
4666881 ATTT
1 ATTT
4666885 GATGTCTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 14 0.47
14 2 0.07
15 1 0.03
16 1 0.03
17 2 0.07
18 10 0.33
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTTCGATATTTA
Found at i:4666869 original size:18 final size:19
Alignment explanation
Indices: 4666846--4666881 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
4666836 CATTTCGATA
4666846 TTTAATTTCG-TATTTAAG
1 TTTAATTTCGATATTTAAG
4666864 TTTAATTTCGATATTTAA
1 TTTAATTTCGATATTTAA
4666882 TTTGATGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTAATTTCGATATTTAAG
Done.