Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000480.1 Hibiscus syriacus cultivar Beakdansim tig00000910_pilon, whole genome shotgun sequence
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: 869251
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:394418 original size:20 final size:19
Alignment explanation
Indices: 394376--394422 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
394366 ATATACGTTT
**
394376 TATGAACAGTAAAATACGG
1 TATGAACAGTAAAATACCA
*
394395 TATGAACAGTGAACATACCA
1 TATGAACAGT-AAAATACCA
394415 TATGAACA
1 TATGAACA
394423 ATGCTCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (19 bp):
TATGAACAGTAAAATACCA
Found at i:395288 original size:31 final size:31
Alignment explanation
Indices: 395238--395331 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
395228 CCCGAAGGAC
* * * * *
395238 CAGTCCATAGATTCTGAAGAACCTAGGTAAT
1 CAGTCCATATATCCCGAAGAACATAGGTAAA
* *
395269 CAGTCTATATATCTCGAAGAACATAGGTAAA
1 CAGTCCATATATCCCGAAGAACATAGGTAAA
*
395300 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATATCCCGAAGAACATAGGTAAA
395331 C
1 C
395332 CCTCGACCCT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (31 bp):
CAGTCCATATATCCCGAAGAACATAGGTAAA
Found at i:407705 original size:18 final size:18
Alignment explanation
Indices: 407682--407727 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
407672 AACATTCCTA
407682 GTAATCTTATTCTCGCCG
1 GTAATCTTATTCTCGCCG
* * *
407700 GTAATCGTATTTTCGCTG
1 GTAATCTTATTCTCGCCG
407718 GTAATCTTAT
1 GTAATCTTAT
407728 ATTCCGTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (18 bp):
GTAATCTTATTCTCGCCG
Found at i:417290 original size:20 final size:20
Alignment explanation
Indices: 417265--417305 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
417255 TACATAGTGG
*
417265 AATGGACAATTATTTTCTTA
1 AATGGACAATTATTGTCTTA
417285 AATGGACAATTATTGTCTTA
1 AATGGACAATTATTGTCTTA
417305 A
1 A
417306 GAAGTGAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (20 bp):
AATGGACAATTATTGTCTTA
Found at i:418503 original size:21 final size:20
Alignment explanation
Indices: 418465--418505 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
418455 AATTCTATAA
418465 TTAAATTTAAATAAATAATT
1 TTAAATTTAAATAAATAATT
418485 TTAAATTGATAAA-AAATAATT
1 TTAAATT--TAAATAAATAATT
418506 CAGGCTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TTAAATTTAAATAAATAATT
Found at i:422217 original size:23 final size:23
Alignment explanation
Indices: 422186--422239 Score: 78
Period size: 20 Copynumber: 2.5 Consensus size: 23
422176 ATGTTTTGAG
*
422186 CCTTTATGGTAGTATCGGTACTA
1 CCTTGATGGTAGTATCGGTACTA
422209 CCTTGAT-G--GTATCGGTACTA
1 CCTTGATGGTAGTATCGGTACTA
422229 CCTTGATGGTA
1 CCTTGATGGTA
422240 TCGGTACTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 19 0.70
21 1 0.04
22 1 0.04
23 6 0.22
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (23 bp):
CCTTGATGGTAGTATCGGTACTA
Found at i:422222 original size:20 final size:20
Alignment explanation
Indices: 422197--422249 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
422187 CTTTATGGTA
422197 GTATCGGTACTACCTTGATG
1 GTATCGGTACTACCTTGATG
422217 GTATCGGTACTACCTTGATG
1 GTATCGGTACTACCTTGATG
422237 GTATCGGTACTAC
1 GTATCGGTACTAC
422250 TTTTGCCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (20 bp):
GTATCGGTACTACCTTGATG
Found at i:427950 original size:64 final size:64
Alignment explanation
Indices: 427849--427987 Score: 269
Period size: 64 Copynumber: 2.2 Consensus size: 64
427839 TCCTTATAGG
*
427849 GTATCGGTACTACCATTGTTAATTTCAAATTTAACTAGCCGTTGCTAGCTGTTGGAGCCTTGTA
1 GTATCGATACTACCATTGTTAATTTCAAATTTAACTAGCCGTTGCTAGCTGTTGGAGCCTTGTA
427913 GTATCGATACTACCATTGTTAATTTCAAATTTAACTAGCCGTTGCTAGCTGTTGGAGCCTTGTA
1 GTATCGATACTACCATTGTTAATTTCAAATTTAACTAGCCGTTGCTAGCTGTTGGAGCCTTGTA
427977 GTATCGATACT
1 GTATCGATACT
427988 TCCTAAGGGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 74 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (64 bp):
GTATCGATACTACCATTGTTAATTTCAAATTTAACTAGCCGTTGCTAGCTGTTGGAGCCTTGTA
Found at i:429967 original size:24 final size:24
Alignment explanation
Indices: 429932--429989 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
429922 TTGTTGATCT
*
429932 TTCTTC-CGTTCTTGGTCACTCCAC
1 TTCTTCTC-TTCTTGGTCACTCAAC
429956 TTCTTCTCTTCTTGGTCACTCAAC
1 TTCTTCTCTTCTTGGTCACTCAAC
429980 TTCTTCTCTT
1 TTCTTCTCTT
429990 TCTTCTTTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.09, C:0.34, G:0.09, T:0.48
Consensus pattern (24 bp):
TTCTTCTCTTCTTGGTCACTCAAC
Found at i:432983 original size:3 final size:3
Alignment explanation
Indices: 432975--433020 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
432965 GTATTTTGTT
*
432975 TAA TAA TAA T-A TAA TAA AAA T-A TAA TAA TAA TAA TAAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
433018 TAA
1 TAA
433021 ATTATTGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 6 0.16
3 28 0.76
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:432991 original size:11 final size:11
Alignment explanation
Indices: 432975--433007 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
432965 GTATTTTGTT
432975 TAATAATAATA
1 TAATAATAATA
*
432986 TAATAAAAATA
1 TAATAATAATA
432997 TAATAATAATA
1 TAATAATAATA
433008 ATAAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAATAATA
Found at i:433021 original size:9 final size:10
Alignment explanation
Indices: 432975--433022 Score: 59
Period size: 9 Copynumber: 5.1 Consensus size: 10
432965 GTATTTTGTT
432975 TAATAATAATA
1 TAATAATAA-A
432986 TAATAA-AAA
1 TAATAATAAA
432995 T-ATAAT-AA
1 TAATAATAAA
433003 TAATAATAAA
1 TAATAATAAA
433013 TAA-AATAAA
1 TAATAATAAA
433022 T
1 T
433023 TATTGATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 7 0.21
9 14 0.41
10 7 0.21
11 6 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
TAATAATAAA
Found at i:433626 original size:105 final size:105
Alignment explanation
Indices: 433486--433778 Score: 407
Period size: 105 Copynumber: 2.8 Consensus size: 105
433476 GGAAACAACA
* *
433486 AAGTTCTTCTCATTATGAAC-TT-TTC-TT-GGGACGAGTTCTGCTCATTATGAAATCTTCTGGC
1 AAGTTCTTCTCATTATGAACTTTCTTCTTTAGGG-CGAGTTCTTCTCATTATGAAATCTTCTGGA
*
433547 AATGTCGATCCACCTCCTTCTGCAATGGATTTGAAAGGAAC
65 AATGTTGATCCACCTCCTTCTGCAATGGATTTGAAAGGAAC
* *
433588 AAGTTCTTCTCATTATGAACTTTCTTCTTTAGGGCGAGTTCTTCTCATTATGAACTCTTTTGGAA
1 AAGTTCTTCTCATTATGAACTTTCTTCTTTAGGGCGAGTTCTTCTCATTATGAAATCTTCTGGAA
* * * *
433653 ATATTAATCCACCTCCTTTTGCGATGGATTTGAAAGGAAC
66 ATGTTGATCCACCTCCTTCTGCAATGGATTTGAAAGGAAC
* * *
433693 AAGTTCTTCTCATTATGAACTTTCTCCTTTAGGGTGAGTTCTTCTCATTAT-AAACTCTTCTAGA
1 AAGTTCTTCTCATTATGAACTTTCTTCTTTAGGGCGAGTTCTTCTCATTATGAAA-TCTTCTGGA
**
433757 AATGTTGATCCATATCCTTCTG
65 AATGTTGATCCACCTCCTTCTG
433779 TGATGGATCA
Statistics
Matches: 167, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
102 20 0.12
103 2 0.01
104 5 0.03
105 137 0.82
106 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (105 bp):
AAGTTCTTCTCATTATGAACTTTCTTCTTTAGGGCGAGTTCTTCTCATTATGAAATCTTCTGGAA
ATGTTGATCCACCTCCTTCTGCAATGGATTTGAAAGGAAC
Found at i:433784 original size:105 final size:104
Alignment explanation
Indices: 433377--433786 Score: 404
Period size: 105 Copynumber: 3.9 Consensus size: 104
433367 GAGCTCCAAA
* * * * *
433377 TTCTTCTCATTATGAATTATTCTCTCTTATTTGGACGAGTTCTTCTCATAATGAACTCTGGCT-G
1 TTCTTCTCATTATGAACT-TTCTCT-TTA---GGGCGAGTTCTTCTCATTATAAACTCT-TCTGG
* * * *
433441 ACAATGCTG-T--ACATCCTTCTGTGATGAATCTGAAAGGAAACAACAAAG
60 A-AATGTTGATCCACATCCTTCTGCGATGGATTTGAAAGG----AAC-AAG
* *
433489 TTCTTCTCATTATGAACTTT-TC-TT-GGGACGAGTTCTGCTCATTATGAAA-TCTTCTGGCAAT
1 TTCTTCTCATTATGAACTTTCTCTTTAGGG-CGAGTTCTTCTCATTAT-AAACTCTTCTGGAAAT
* * *
433550 GTCGATCCACCTCCTTCTGCAATGGATTTGAAAGGAACAAG
64 GTTGATCCACATCCTTCTGCGATGGATTTGAAAGGAACAAG
* * *
433591 TTCTTCTCATTATGAACTTTCTTCTTTAGGGCGAGTTCTTCTCATTATGAACTCTTTTGGAAATA
1 TTCTTCTCATTATGAACTTTC-TCTTTAGGGCGAGTTCTTCTCATTATAAACTCTTCTGGAAATG
* * *
433656 TTAATCCACCTCCTTTTGCGATGGATTTGAAAGGAACAAG
65 TTGATCCACATCCTTCTGCGATGGATTTGAAAGGAACAAG
* *
433696 TTCTTCTCATTATGAACTTTCTCCTTTAGGGTGAGTTCTTCTCATTATAAACTCTTCTAGAAATG
1 TTCTTCTCATTATGAACTTTCT-CTTTAGGGCGAGTTCTTCTCATTATAAACTCTTCTGGAAATG
* *
433761 TTGATCCATATCCTTCTGTGATGGAT
65 TTGATCCACATCCTTCTGCGATGGAT
433787 CATAGTCGTT
Statistics
Matches: 253, Mismatches: 33, Indels: 31
0.80 0.10 0.10
Matches are distributed among these distances:
102 23 0.09
103 3 0.01
104 14 0.06
105 163 0.64
106 5 0.02
107 22 0.09
108 2 0.01
110 2 0.01
111 2 0.01
112 17 0.07
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (104 bp):
TTCTTCTCATTATGAACTTTCTCTTTAGGGCGAGTTCTTCTCATTATAAACTCTTCTGGAAATGT
TGATCCACATCCTTCTGCGATGGATTTGAAAGGAACAAG
Found at i:434738 original size:7 final size:7
Alignment explanation
Indices: 434722--434759 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
434712 TCTTTTAATT
434722 TTTCCTTC
1 TTTCC-TC
434730 TTTCCTC
1 TTTCCTC
434737 TTTCCTC
1 TTTCCTC
434744 TTTCCTC
1 TTTCCTC
434751 TTT-CTC
1 TTTCCTC
434757 TTT
1 TTT
434760 TTTTTTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.20
7 19 0.63
8 5 0.17
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (7 bp):
TTTCCTC
Found at i:434767 original size:20 final size:20
Alignment explanation
Indices: 434720--434785 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
434710 CCTCTTTTAA
**
434720 TTTTTCCTTCTTTCCTCTTTCC
1 TTTTTCC-TCTTT-CTCTTTTT
*
434742 TCTTTCCTCTTTCTCTTTTT
1 TTTTTCCTCTTTCTCTTTTT
*
434762 TTTTT-CTTTTTCATCTTTTT
1 TTTTTCCTCTTTC-TCTTTTT
434782 TTTT
1 TTTT
434786 CATTCTTCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
19 6 0.16
20 21 0.55
21 5 0.13
22 6 0.16
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTCCTCTTTCTCTTTTT
Found at i:434780 original size:19 final size:19
Alignment explanation
Indices: 434757--434800 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
434747 CCTCTTTCTC
*
434757 TTTTTTTTTTC-TTTTTCA
1 TTTTTTTTTTCATTCTTCA
434775 TCTTTTTTTTTCATTCTTCA
1 T-TTTTTTTTTCATTCTTCA
434795 TTTTTT
1 TTTTTT
434801 CAAGCATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 7 0.30
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTTTTCATTCTTCA
Found at i:439028 original size:18 final size:18
Alignment explanation
Indices: 439005--439062 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
438995 CGATATTGAA
439005 TGGTAGTAGTATCGATAC
1 TGGTAGTAGTATCGATAC
*
439023 TGGTAG-AGGTATTGATAC
1 TGGTAGTA-GTATCGATAC
**
439041 TAATAGTAAGATATCGATAC
1 TGGTAGT-AG-TATCGATAC
439061 TG
1 TG
439063 TAATTGAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 1 0.03
18 19 0.61
19 1 0.03
20 10 0.32
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.33
Consensus pattern (18 bp):
TGGTAGTAGTATCGATAC
Found at i:439836 original size:24 final size:24
Alignment explanation
Indices: 439799--439871 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
439789 GAGTCGAGGG
* *
439799 TTCTACACGTTCCTTCTGGACAAA
1 TTCTACACGGTCCTTCAGGACAAA
** * *
439823 TTCTACGTGGTCCTTCGGGTCAAA
1 TTCTACACGGTCCTTCAGGACAAA
*
439847 TTCTACACGGTCCTTCAGGATAAA
1 TTCTACACGGTCCTTCAGGACAAA
439871 T
1 T
439872 CTATGTAGCA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (24 bp):
TTCTACACGGTCCTTCAGGACAAA
Found at i:462737 original size:14 final size:14
Alignment explanation
Indices: 462718--462751 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
462708 AAGGAATTTA
462718 AAGAATGAAAAATG
1 AAGAATGAAAAATG
462732 AAGAATGAAAAATG
1 AAGAATGAAAAATG
462746 AA-AATG
1 AAGAATG
462752 TAAATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (14 bp):
AAGAATGAAAAATG
Found at i:466968 original size:12 final size:11
Alignment explanation
Indices: 466930--466968 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
466920 CAATGATGAG
466930 GTTTTTGAAAT
1 GTTTTTGAAAT
*
466941 GTTTTTGAAAAG
1 GTTTTTG-AAAT
466953 GTTTTATGAAAT
1 GTTTT-TGAAAT
466965 GTTT
1 GTTT
466969 GAAGTCGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 7 0.29
12 15 0.62
13 2 0.08
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (11 bp):
GTTTTTGAAAT
Found at i:468915 original size:2 final size:2
Alignment explanation
Indices: 468908--468935 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
468898 GTGGGTATCG
468908 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
468936 TCATATTTAC
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:469478 original size:77 final size:75
Alignment explanation
Indices: 469389--469573 Score: 228
Period size: 75 Copynumber: 2.4 Consensus size: 75
469379 CTTAACCGGT
* * ** *
469389 TAAAATAAAATATACACTACCTATTATGTTAAACTACCTA-TCGATTTTTGTTTGAAGGTTACCA
1 TAAAATAAAATATACGCTACCTATTACGTTAAAAAACCTACT-GA--TTTGTTTAAAGGTTACCA
*
469453 ATAATGTAAACGG
63 ATAATGTAAACAG
* * *
469466 TAAAATAAAATATGCGTTACCTATTACGTTAAAAAACCTACTGATTTGTTTAAAGGTTACTAATA
1 TAAAATAAAATATACGCTACCTATTACGTTAAAAAACCTACTGATTTGTTTAAAGGTTACCAATA
469531 ATGTAAACAG
66 ATGTAAACAG
* * *
469541 CAAAATAAAATAGACGCTATCTATTACGTTAAA
1 TAAAATAAAATATACGCTACCTATTACGTTAAA
469574 TAAGCGGTAC
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
75 56 0.60
77 36 0.39
78 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (75 bp):
TAAAATAAAATATACGCTACCTATTACGTTAAAAAACCTACTGATTTGTTTAAAGGTTACCAATA
ATGTAAACAG
Found at i:469613 original size:98 final size:98
Alignment explanation
Indices: 469473--469671 Score: 265
Period size: 98 Copynumber: 2.0 Consensus size: 98
469463 CGGTAAAATA
* * * *
469473 AAATATGCGTTACCTATTACGTTAAAAAACCTACTGATTTGTTTAAAGGTTACTAATAATGTAAA
1 AAATAAGCGGTACCTATTACGTTAAAAAACCTACAGATTTGTTTAAAGGTTAATAATAATGTAAA
* *
469538 CAGCAAAATAAAATAGACGCTATCTATTACGTT
66 CAGCAAAATAAAATAGACACTACCTATTACGTT
** *
469571 AAATAAGCGGTACCTATTACGTTAAACTAGCTACCAG-TTTGTTTAAAGGTTAATAATAATGTAA
1 AAATAAGCGGTACCTATTACGTTAAAAAACCTA-CAGATTTGTTTAAAGGTTAATAATAATGTAA
* * * *
469635 ACGGTAAAATAAAATAGGCACTACCTATTATGTT
65 ACAGCAAAATAAAATAGACACTACCTATTACGTT
469669 AAA
1 AAA
469672 ATACCTACCG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
98 85 0.98
99 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (98 bp):
AAATAAGCGGTACCTATTACGTTAAAAAACCTACAGATTTGTTTAAAGGTTAATAATAATGTAAA
CAGCAAAATAAAATAGACACTACCTATTACGTT
Found at i:469700 original size:173 final size:173
Alignment explanation
Indices: 469405--469841 Score: 563
Period size: 173 Copynumber: 2.5 Consensus size: 173
469395 AAAATATACA
* * * * * **
469405 CTACCTATTATGTTAAACTACCTATCGATTTTTGTTTGAAGGTTACCAATAATGTAAACGGTAAA
1 CTACCTATTACGTTAAACTAGCTA-CCA-GTTTGTTTAAAGGTTAATAATAATGTAAACGGTAAA
* * * *
469470 ATAAAATATGCGTTACCTATTACGTTAAAAAACCTACTGATTTGTTTAAAGGTTACTAATAATGT
64 ATAAAATAGGCGCTACCTATTATGTTAAAAAACCTACCGATTTGTTTAAAGGTTACTAATAATGT
*
469535 AAAC-AGCAAAATAAAATAGACGCTATCTATTACGTTAAATAAGCG
129 AAACGA-CAAAATAAAATAGACGCTACCTATTACGTTAAATAAGCG
*
469580 GTACCTATTACGTTAAACTAGCTACCAGTTTGTTTAAAGGTTAATAATAATGTAAACGGTAAAAT
1 CTACCTATTACGTTAAACTAGCTACCAGTTTGTTTAAAGGTTAATAATAATGTAAACGGTAAAAT
* * *
469645 AAAATAGGCACTACCTATTATGTTAAAATACCTACCG-TCTTGTTTAAATGTTACTAATAATGTA
66 AAAATAGGCGCTACCTATTATGTTAAAAAACCTACCGAT-TTGTTTAAAGGTTACTAATAATGTA
* * * * * *
469709 CACGATAAAATAAAATAGATGCTACCTATTATGTTTAATAGGCG
130 AACGACAAAATAAAATAGACGCTACCTATTACGTTAAATAAGCG
* *** *
469753 CTACTTATTACGTTAAACTAGCTATTTGTTTGTTTAAAGGTTAATAATAATGCAAACGGTAAAAT
1 CTACCTATTACGTTAAACTAGCTACCAGTTTGTTTAAAGGTTAATAATAATGTAAACGGTAAAAT
**
469818 AAAATAGATGCTACCTATTATGTT
66 AAAATAGGCGCTACCTATTATGTT
469842 TAATAGGCGC
Statistics
Matches: 229, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
172 1 0.00
173 204 0.89
174 3 0.01
175 21 0.09
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (173 bp):
CTACCTATTACGTTAAACTAGCTACCAGTTTGTTTAAAGGTTAATAATAATGTAAACGGTAAAAT
AAAATAGGCGCTACCTATTATGTTAAAAAACCTACCGATTTGTTTAAAGGTTACTAATAATGTAA
ACGACAAAATAAAATAGACGCTACCTATTACGTTAAATAAGCG
Found at i:469734 original size:75 final size:75
Alignment explanation
Indices: 469581--469743 Score: 220
Period size: 75 Copynumber: 2.2 Consensus size: 75
469571 AAATAAGCGG
* * * *
469581 TACCTATTACGTTAAACTAGCTACCAGTTTGTTTAAAGGTTAATAATAATGTAAACGGTAAAATA
1 TACCTATTATGTTAAAATACCTACCAGTTTGTTTAAAGGTTAATAATAATGTAAACGATAAAATA
*
469646 AAATAGGCAC
66 AAATAGACAC
* * *
469656 TACCTATTATGTTAAAATACCTACC-GTCTTGTTTAAATGTTACTAATAATGTACACGATAAAAT
1 TACCTATTATGTTAAAATACCTACCAGT-TTGTTTAAAGGTTAATAATAATGTAAACGATAAAAT
**
469720 AAAATAGATGC
65 AAAATAGACAC
469731 TACCTATTATGTT
1 TACCTATTATGTT
469744 TAATAGGCGC
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
74 2 0.03
75 75 0.97
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (75 bp):
TACCTATTATGTTAAAATACCTACCAGTTTGTTTAAAGGTTAATAATAATGTAAACGATAAAATA
AAATAGACAC
Found at i:469749 original size:98 final size:98
Alignment explanation
Indices: 469647--469916 Score: 407
Period size: 98 Copynumber: 2.8 Consensus size: 98
469637 GGTAAAATAA
* * * * * * * * *
469647 AATAGGCACTACCTATTATGTTAAAATACCTA-CCGTCTTGTTTAAATGTTACTAATAATGTACA
1 AATAGGCGCTACTTATTACGTTAAACTAGCTATCCGT-TTGTTTAAAGGTTAATAATAATGCAAA
*
469711 CGATAAAATAAAATAGATGCTACCTATTATGTTT
65 CGGTAAAATAAAATAGATGCTACCTATTATGTTT
**
469745 AATAGGCGCTACTTATTACGTTAAACTAGCTATTTGTTTGTTTAAAGGTTAATAATAATGCAAAC
1 AATAGGCGCTACTTATTACGTTAAACTAGCTATCCGTTTGTTTAAAGGTTAATAATAATGCAAAC
469810 GGTAAAATAAAATAGATGCTACCTATTATGTTT
66 GGTAAAATAAAATAGATGCTACCTATTATGTTT
*
469843 AATAGGCGCTACTTATTACGTTAAACTAGCTATCGGTTTGTTTAAAGGTTAATAATAATGCAAAC
1 AATAGGCGCTACTTATTACGTTAAACTAGCTATCCGTTTGTTTAAAGGTTAATAATAATGCAAAC
469908 GGTAAAATA
66 GGTAAAATA
469917 TATACAACTT
Statistics
Matches: 157, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
98 155 0.99
99 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (98 bp):
AATAGGCGCTACTTATTACGTTAAACTAGCTATCCGTTTGTTTAAAGGTTAATAATAATGCAAAC
GGTAAAATAAAATAGATGCTACCTATTATGTTT
Found at i:470174 original size:17 final size:17
Alignment explanation
Indices: 470152--470187 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
470142 CTCTAAAGGT
470152 TAATAATAATGTATCCA
1 TAATAATAATGTATCCA
470169 TAATAATAATGTATCCA
1 TAATAATAATGTATCCA
470186 TA
1 TA
470188 CTTACTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (17 bp):
TAATAATAATGTATCCA
Found at i:470600 original size:107 final size:107
Alignment explanation
Indices: 470403--470675 Score: 350
Period size: 107 Copynumber: 2.5 Consensus size: 107
470393 TTTGTTTATA
* * * * * *
470403 AAAAAATAAGAAATTAACATATTTTGTTGTCATTGGATTTCGAAGGCCCCATCAGCTTAAACTTT
1 AAAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAGCTTAAACTTT
*
470468 GATAACATTTTAGGCTCTACATAATATATTGATAATATTAAT
66 GATAACATTTTAGGCTCAACATAATATATTGATAATATTAAT
* *
470510 AAAAAATAATTAATTAACCTATTTTGTTATCGTCGGATTTCTAGGGCCCCATCAGCTTAAACTTT
1 AAAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAGCTTAAACTTT
* * * *
470575 GATAATATTTTAGG-TACAACCTAATATGTTGATAATATTGAT
66 GATAACATTTTAGGCT-CAACATAATATATTGATAATATTAAT
* * * * * *
470617 AACAAATTAAGTAATTAGCCTATTTTGTTCTCGTCAGATTTCTAAGGCTCCATTAGCTT
1 AA-AAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAGCTT
470676 TAAAAAGGTG
Statistics
Matches: 143, Mismatches: 21, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
106 1 0.01
107 94 0.66
108 48 0.34
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (107 bp):
AAAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAGCTTAAACTTT
GATAACATTTTAGGCTCAACATAATATATTGATAATATTAAT
Found at i:470919 original size:226 final size:226
Alignment explanation
Indices: 470520--470978 Score: 566
Period size: 226 Copynumber: 2.0 Consensus size: 226
470510 AAAAAATAAT
* ** * * * * *
470520 TAATTAACCTATTTTGTTATCGTCGGATTTCTAGGGCCCCATCAGCTTAAACTTTGATAATATTT
1 TAATTAACCTATTTTGTTAACGTCAAATTTCTAAGGACCAATCAACTTAAACTTTGATAACATTT
* * * * * *
470585 TAGGTACAACCTAATATGTTGATAATATTGATAACAAATTAAGTAATTAGCCTATTTTGTTCTCG
66 TAGGCACAACCTAATATGTTAATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCG
* * ** * * **
470650 TCAGATTTCTAAGGCTCCATTAGCTTTAAAAAGGTGTTACCTATTACATTAAATAAGCGTTA-CT
131 TCAGATTTCTAAGACTCCATCAGCTTTAAAAAGACGCTACCTATTACATTAAATAACCACTACCT
*
470714 TGTTATGTTATTATGGTTGATAATGTTTTC-AG
196 TG-TATGTTATTATGGTTCATAATG-TTTCGAG
**
470746 TAATTAACCTATTTTGTTAACGTCAAATTTCTAAGGATTAATCAACTTAAACTTT-AGTAACATT
1 TAATTAACCTATTTTGTTAACGTCAAATTTCTAAGGACCAATCAACTTAAACTTTGA-TAACATT
*** *
470810 TTAGGCGTTACTTAATATGTTAATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATC
65 TTAGGCACAACCTAATATGTTAATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATC
* * *
470875 GTCAGATTTTTAAGAC-CCTATCATCTTTAAAAAGACGCTACCTATTACGTTAAATAACCACTAC
130 GTCAGATTTCTAAGACTCC-ATCAGCTTTAAAAAGACGCTACCTATTACATTAAATAACCACTAC
470939 CTTGTATGTTATTATGGTTCATAATGTTTCGAG
194 CTTGTATGTTATTATGGTTCATAATGTTTCGAG
470972 TAATTAA
1 TAATTAA
470979 TTGCTATGTT
Statistics
Matches: 197, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
225 7 0.04
226 186 0.94
227 4 0.02
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (226 bp):
TAATTAACCTATTTTGTTAACGTCAAATTTCTAAGGACCAATCAACTTAAACTTTGATAACATTT
TAGGCACAACCTAATATGTTAATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATCG
TCAGATTTCTAAGACTCCATCAGCTTTAAAAAGACGCTACCTATTACATTAAATAACCACTACCT
TGTATGTTATTATGGTTCATAATGTTTCGAG
Found at i:472505 original size:6 final size:6
Alignment explanation
Indices: 472494--472533 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
472484 AACAAGTATA
472494 AAAAAT AAAAAT AAAAAT -AAAAT -AAAAT AATAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AAAAA
472534 GGAAATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.31
6 16 0.50
7 6 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:472517 original size:17 final size:17
Alignment explanation
Indices: 472495--472532 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
472485 ACAAGTATAA
472495 AAAATAAAAATAA-AAAT
1 AAAAT-AAAATAATAAAT
472512 AAAATAAAATAATAAAT
1 AAAATAAAATAATAAAT
472529 AAAA
1 AAAA
472533 AGGAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAAATAATAAAT
Found at i:472543 original size:29 final size:28
Alignment explanation
Indices: 472491--472548 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
472481 TAAAACAAGT
*
472491 ATAAAAAATAAAAATAAAAATAAAATAAA
1 ATAAAAAATAAAAAGAAAAATAAAA-AAA
* * *
472520 ATAATAAATAAAAAGGAAATTAAAAAAA
1 ATAAAAAATAAAAAGAAAAATAAAAAAA
472548 A
1 A
472549 CTATAAAGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.17
Consensus pattern (28 bp):
ATAAAAAATAAAAAGAAAAATAAAAAAA
Found at i:472626 original size:28 final size:30
Alignment explanation
Indices: 472576--472636 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
472566 TTATATTGCG
*
472576 TATACTATTTATCAAAATTATTTACAAAAT
1 TATACTATTTATCAAAATGATTTACAAAAT
* * *
472606 TATA-TATTT-TCTAAATGATTTCCAAACT
1 TATACTATTTATCAAAATGATTTACAAAAT
472634 TAT
1 TAT
472637 GTTATATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 18 0.67
29 5 0.19
30 4 0.15
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (30 bp):
TATACTATTTATCAAAATGATTTACAAAAT
Found at i:472811 original size:70 final size:67
Alignment explanation
Indices: 472639--472812 Score: 206
Period size: 66 Copynumber: 2.6 Consensus size: 67
472629 AAACTTATGT
* * * **
472639 TATATAATATTTTCCAAAATGGTTTTCAAGATTATATATTCTTTTCAAAAAGGTTTTAAATATAT
1 TATATAATATTTTTC-AAATGGTTTTCAAAATTATATAATAGTTTCAAAAAGGTTTTAAATATAT
472704 ACA
65 ACA
* * * *
472707 T-TATAATGTTTTTCAAATGTTTTTCAGAATTATATAATAGTTTCGAAAAGGTTTTAAATATGTA
1 TATATAATATTTTTCAAATGGTTTTCAAAATTATATAATAGTTTCAAAAAGGTTTTAAATA--TA
472771 TACA
64 TACA
* *
472775 TAATATAGTATTTTTCAAATGGTTTTCAAAACTATATA
1 T-ATATAATATTTTTCAAATGGTTTTCAAAATTATATA
472813 TTTTTAAAGC
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
66 39 0.44
67 11 0.12
68 8 0.09
70 30 0.34
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (67 bp):
TATATAATATTTTTCAAATGGTTTTCAAAATTATATAATAGTTTCAAAAAGGTTTTAAATATATA
CA
Found at i:473783 original size:15 final size:15
Alignment explanation
Indices: 473768--473820 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
473758 TTATTAAAAT
473768 TTTA-TTATTTTTAA
1 TTTATTTATTTTTAA
473782 TTTATTTA-TTTTAGA
1 TTTATTTATTTTTA-A
*
473797 TTTATTTTTATTTTAA
1 TTTATTTAT-TTTTAA
473813 -TTATTTAT
1 TTTATTTAT
473821 CTCTTAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
14 9 0.27
15 18 0.55
16 1 0.03
17 5 0.15
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTATTTATTTTTAA
Found at i:473785 original size:14 final size:15
Alignment explanation
Indices: 473776--473820 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 15
473766 ATTTTATTAT
473776 TTTTA-ATTTATTTA
1 TTTTAGATTTATTTA
473790 TTTTAGATTTATTTTTA
1 TTTTAGATTTA--TTTA
473807 TTTTA-A-TTATTTA
1 TTTTAGATTTATTTA
473820 T
1 T
473821 CTCTTAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 5 0.18
14 5 0.18
15 8 0.29
16 1 0.04
17 9 0.32
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTTAGATTTATTTA
Found at i:475583 original size:18 final size:17
Alignment explanation
Indices: 475529--475577 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
475519 TTGGACCCTT
* *
475529 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
475547 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
475565 AGTGCATTCGATG
1 AGTGCA-TCGATG
475578 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:475682 original size:65 final size:65
Alignment explanation
Indices: 475549--475708 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
475539 TGCACTAAGA
* *
475549 GTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAATGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAATGCATCGATGCATGGCTG
* * *
475613 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAATGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAATGCATCGATGCATGGCT
*
475676 AT
65 -G
*
475678 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
475709 CAATTTAATT
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
64 29 0.34
65 54 0.63
66 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAATGCATCGATGCATGGCTG
Found at i:475747 original size:65 final size:63
Alignment explanation
Indices: 475549--475758 Score: 214
Period size: 65 Copynumber: 3.3 Consensus size: 63
475539 TGCACTAAGA
* * *
475549 GTGCATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAGAATGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AATGCATCGATGCATGGTT
475612 G
63 G
*
475613 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAATGCATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAATGCATCGATGCATGGT-T
475678 -
63 G
* ** *
475678 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--ATGCATCGATGCATGG-T
475741 TG
62 TG
*
475743 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
475759 CTTTGATAAA
Statistics
Matches: 125, Mismatches: 11, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 48 0.38
65 65 0.52
66 5 0.04
67 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAATGCATCGATGCATGGTTG
Found at i:477895 original size:16 final size:16
Alignment explanation
Indices: 477857--477896 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
477847 AAAATAACAT
477857 AATTAAA-TTAAAAAA
1 AATTAAATTTAAAAAA
* *
477872 TATCAAATTTAAAAAA
1 AATTAAATTTAAAAAA
477888 AATTAAATT
1 AATTAAATT
477897 CAGATTTTCG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTAAATTTAAAAAA
Found at i:483930 original size:11 final size:11
Alignment explanation
Indices: 483914--483939 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
483904 GTTTGATGCT
483914 TTCTCTCTTGA
1 TTCTCTCTTGA
483925 TTCTCTCTTGA
1 TTCTCTCTTGA
483936 TTCT
1 TTCT
483940 AGTTGCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.27, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCTCTTGA
Found at i:484271 original size:65 final size:61
Alignment explanation
Indices: 484199--484364 Score: 172
Period size: 65 Copynumber: 2.6 Consensus size: 61
484189 AAATAGCCAG
484199 AGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCT
1 AGTGCATCGATGCATGG-TGGTGCATCGATGCATCAAATGCATTCGATG--TTCAATAAAAT--T
484263 C
61 C
* * * * **
484264 AGTGCATCGGTGCATGGTATGTGCATCGATGTATGAAATGCATTCGATGTTCAATTTAATTC
1 AGTGCATCGATGCATGGT-GGTGCATCGATGCATCAAATGCATTCGATGTTCAATAAAATTC
*
484326 ATGGTGCATCGATGCATGGATTGGTGCATCGGTGCATCA
1 A--GTGCATCGATGCATGG--TGGTGCATCGATGCATCA
484365 CTTTGATAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
62 3 0.04
63 3 0.04
64 21 0.25
65 56 0.67
66 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (61 bp):
AGTGCATCGATGCATGGTGGTGCATCGATGCATCAAATGCATTCGATGTTCAATAAAATTC
Found at i:485301 original size:66 final size:66
Alignment explanation
Indices: 485213--485340 Score: 170
Period size: 66 Copynumber: 1.9 Consensus size: 66
485203 TTAGCACCAA
* * * *
485213 AAATCCAAAATCAGCTTAATATTTTTATATACAAA-ACTTTATCATCATCAAATAATAAAAATAT
1 AAATCCAAAATCAGATTAATATTTCTATATACAAAGA-TTTATCATCAACAAATAACAAAAATAT
485277 AC
65 AC
* *
485279 AAATCCTAAATCAGGATT-ATATTTCTATTTACAAAGATTTATCATCAACAAATAACAAAAAT
1 AAATCCAAAATCA-GATTAATATTTCTATATACAAAGATTTATCATCAACAAATAACAAAAAT
485341 GAGGCGTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
66 50 0.93
67 4 0.07
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (66 bp):
AAATCCAAAATCAGATTAATATTTCTATATACAAAGATTTATCATCAACAAATAACAAAAATATA
C
Found at i:486196 original size:21 final size:22
Alignment explanation
Indices: 486167--486214 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
486157 AAAGAGAGGG
*
486167 GAAACGAAAGG-AAATGAAGAAA
1 GAAAAGAAAGGAAAAT-AAGAAA
486189 -AAAAGAAAGGAAAATAAGAAA
1 GAAAAGAAAGGAAAATAAGAAA
486210 GAAAA
1 GAAAA
486215 AATAAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.71, C:0.02, G:0.23, T:0.04
Consensus pattern (22 bp):
GAAAAGAAAGGAAAATAAGAAA
Found at i:486213 original size:12 final size:12
Alignment explanation
Indices: 486183--486230 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
486173 AAAGGAAATG
486183 AAGAAAAAAAGA
1 AAGAAAAAAAGA
*
486195 AAGGAAAATAAGA
1 AA-GAAAAAAAGA
486208 AAGAAAAAATA-A
1 AAGAAAAAA-AGA
*
486220 AACAAAAAAAG
1 AAGAAAAAAAG
486231 GAAAATAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 1 0.03
12 17 0.57
13 12 0.40
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (12 bp):
AAGAAAAAAAGA
Found at i:486219 original size:14 final size:13
Alignment explanation
Indices: 486183--486215 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
486173 AAAGGAAATG
486183 AAGAAAAA-AAGA
1 AAGAAAAATAAGA
*
486195 AAGGAAAATAAGA
1 AAGAAAAATAAGA
486208 AAGAAAAA
1 AAGAAAAA
486216 ATAAAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (13 bp):
AAGAAAAATAAGA
Found at i:486287 original size:9 final size:9
Alignment explanation
Indices: 486273--486297 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
486263 CTTCACCGCC
486273 GGTGAATGA
1 GGTGAATGA
486282 GGTGAATGA
1 GGTGAATGA
486291 GGTGAAT
1 GGTGAAT
486298 CAATCATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.44, T:0.24
Consensus pattern (9 bp):
GGTGAATGA
Found at i:487622 original size:133 final size:131
Alignment explanation
Indices: 487462--487823 Score: 447
Period size: 133 Copynumber: 2.7 Consensus size: 131
487452 TGACATAGTA
* * * *
487462 ATATCACTTCATTTCGATTAGAGTAATAAATAATTACTTTAAGGCATGAGAGGTAATTTATTATC
1 ATATCACTTCAATTCGATTAGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTAATTTATTCTC
* *
487527 GATTAGAAATAATTAGATATTATCGTTTTCTCTCGAATTAATATTCAATTTTAGGACGAAAAAGT
66 GATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTCAATTTTAGGACGAAAAAGT
*
487592 AAT
131 --G
* * * * *
487595 ATATCCCTTCAATTCGATTGGAATAATAAATGATTGCTTTAAGGCATGAGATGTTATTTATTCTC
1 ATATCACTTCAATTCGATTAGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTAATTTATTCTC
* ** * * *
487660 GATTGGAAATAATAAGATATTGCCATTTTCTCTCGAATCAATATTGAATTTTAGGACGAAATAGT
66 GATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTCAATTTTAGGACGAAAAAGT
487725 G
131 G
* * * * * * **
487726 ATATCTCTT-TATTTGATTTGAGTAATAAATGACTGCTTTAAGGCATGATAGGCCATTTATTCTC
1 ATATCACTTCAATTCGATTAGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTAATTTATTCTC
*
487790 AATTGGAAATAATTAGATATTATCGTTTCTCTCT
66 GATTGGAAATAATTAGATATTATCGTTT-TCTCT
487824 TAAAATTCAA
Statistics
Matches: 195, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
130 69 0.35
131 13 0.07
133 113 0.58
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (131 bp):
ATATCACTTCAATTCGATTAGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTAATTTATTCTC
GATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTCAATTTTAGGACGAAAAAGT
G
Found at i:489118 original size:23 final size:23
Alignment explanation
Indices: 489092--489141 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
489082 ATTTTTGTAG
489092 TGTAATTTTACTTTCAGAACAAA
1 TGTAATTTTACTTTCAGAACAAA
*
489115 TGTAATTTTACTTTCAGAATAAA
1 TGTAATTTTACTTTCAGAACAAA
489138 TGTA
1 TGTA
489142 TGAGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (23 bp):
TGTAATTTTACTTTCAGAACAAA
Found at i:490026 original size:21 final size:22
Alignment explanation
Indices: 489920--490005 Score: 106
Period size: 23 Copynumber: 3.9 Consensus size: 22
489910 AGCTCATAAT
*
489920 TTGCACCGAAGTGCCACATA-A
1 TTGCACCGAAGTGCCACATAGG
489941 TTGTC-CCGAAG-GACCACATAGG
1 TTG-CACCGAAGTG-CCACATAGG
489963 TTGCACCGAAGTGCCACATAGGG
1 TTGCACCGAAGTGCCACATA-GG
*
489986 TTGCACCGAAGTGCTACATA
1 TTGCACCGAAGTGCCACATA
490006 TTTGTCCCGA
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.02
21 17 0.30
22 17 0.30
23 22 0.39
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (22 bp):
TTGCACCGAAGTGCCACATAGG
Found at i:490612 original size:18 final size:19
Alignment explanation
Indices: 490577--490614 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
490567 CACGGAATGT
490577 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
490597 AAGATTACCA-GGGAATAA
1 AAGATTACCAGGGGAATAA
490615 GATTACTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:491358 original size:55 final size:55
Alignment explanation
Indices: 491267--491395 Score: 161
Period size: 55 Copynumber: 2.3 Consensus size: 55
491257 TCGAAATGGC
* * **
491267 AAGGGTATCGATACACTCATTATTGTATGGATACACAAATAGC-TCTCGATGTATT
1 AAGGGTATCGATACACTCTTTAGTGTACCGATACACAAATAGCAT-TCGATGTATT
* * * * *
491322 AAGGGTATCAATATACTCTTTAGTGTACCGATACACATATTGCATTCGATGTTTT
1 AAGGGTATCGATACACTCTTTAGTGTACCGATACACAAATAGCATTCGATGTATT
491377 AAGGGTATCGATACACTCT
1 AAGGGTATCGATACACTCT
491396 CAACAAGTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
55 61 0.98
56 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (55 bp):
AAGGGTATCGATACACTCTTTAGTGTACCGATACACAAATAGCATTCGATGTATT
Found at i:496171 original size:21 final size:21
Alignment explanation
Indices: 496113--496174 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
496103 AGCTCGTAAT
496113 TTGCACCGAAGTGCCACATAA
1 TTGCACCGAAGTGCCACATAA
* * *
496134 TTATC-CCAAAG-GACCACATAG
1 TT-GCACCGAAGTG-CCACATAA
496155 TTGCACCGAAGTGCCACATA
1 TTGCACCGAAGTGCCACATA
496175 TTTATCTCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.19
Consensus pattern (21 bp):
TTGCACCGAAGTGCCACATAA
Found at i:496172 original size:42 final size:42
Alignment explanation
Indices: 496113--496195 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
496103 AGCTCGTAAT
496113 TTGCACCGAAGTGCCACATAATTATC-CCAAAGGACCACATAG
1 TTGCACCGAAGTGCCACATAATTATCTCCAAAGG-CCACATAG
* *
496155 TTGCACCGAAGTGCCACATATTTATCTCGAAAGGCCACATA
1 TTGCACCGAAGTGCCACATAATTATCTCCAAAGGCCACATA
496196 ATTGTCCCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 32 0.84
43 6 0.16
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
TTGCACCGAAGTGCCACATAATTATCTCCAAAGGCCACATAG
Found at i:496206 original size:21 final size:21
Alignment explanation
Indices: 496125--496206 Score: 71
Period size: 21 Copynumber: 3.9 Consensus size: 21
496115 GCACCGAAGT
496125 GCCACATAATTATCCC-AAAG
1 GCCACATAATTATCCCGAAAG
* *
496145 GACCACATAGTT-GCACCG-AAG
1 G-CCACATAATTATC-CCGAAAG
* *
496166 TGCCACATATTTATCTCGAAAG
1 -GCCACATAATTATCCCGAAAG
*
496188 GCCACATAATTGTCCCGAA
1 GCCACATAATTATCCCGAA
496207 TGATCACATA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
20 2 0.04
21 41 0.85
22 5 0.10
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (21 bp):
GCCACATAATTATCCCGAAAG
Found at i:496854 original size:55 final size:55
Alignment explanation
Indices: 496794--496924 Score: 190
Period size: 55 Copynumber: 2.4 Consensus size: 55
496784 ATTCGAAATG
* *
496794 TTAAGGGTATCGATACACTCTTTAGTGTACCGATACAAAAATAGTACTCGATGTA
1 TTAAGGGTATCGATACACTCTTTAGTATACCGATACAAAAATAGCACTCGATGTA
* * * * * *
496849 TTAAGGGTATCGATACACTCCTTAGTATACCGATACACATATGGCATTCGATGTT
1 TTAAGGGTATCGATACACTCTTTAGTATACCGATACAAAAATAGCACTCGATGTA
496904 TTAAGGGTATCGATACACTCT
1 TTAAGGGTATCGATACACTCT
496925 CAACAAGTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (55 bp):
TTAAGGGTATCGATACACTCTTTAGTATACCGATACAAAAATAGCACTCGATGTA
Found at i:511250 original size:20 final size:20
Alignment explanation
Indices: 511225--511262 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
511215 TTTTAGACTA
511225 TGGAATTGAAGTTGGTACTT
1 TGGAATTGAAGTTGGTACTT
511245 TGGAATTGAAGTTGGTAC
1 TGGAATTGAAGTTGGTAC
511263 CATACCTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.32, T:0.37
Consensus pattern (20 bp):
TGGAATTGAAGTTGGTACTT
Found at i:512433 original size:19 final size:19
Alignment explanation
Indices: 512391--512433 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
512381 AAAAAAATTA
* *
512391 TTTTTGATTTAAATTGTTG
1 TTTTTGATTTAAATTATAG
512410 TTTTTGATTT-AATTATAG
1 TTTTTGATTTAAATTATAG
512428 TGTTTT
1 T-TTTT
512434 CATAAAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.65
Consensus pattern (19 bp):
TTTTTGATTTAAATTATAG
Found at i:512485 original size:12 final size:13
Alignment explanation
Indices: 512458--512490 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
512448 ACATAATAAT
*
512458 TTTTCAAACTTAG
1 TTTTCAAACATAG
512471 TTTTCAAA-ATAG
1 TTTTCAAACATAG
512483 TTTTCAAA
1 TTTTCAAA
512491 TTTTGCCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:514567 original size:45 final size:44
Alignment explanation
Indices: 514498--514596 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 44
514488 TGCAAAACAG
** *
514498 GTATCGATACTACTTTACATAGTAGTATCGATACCCCCATGGA-CA
1 GTATCGATACTACACTACAAAGTAGTATCGATA-CCCC-TGGACCA
*
514543 GTATCGATACTACACTACAAAGTAGTATCGATACCCCTTGACCA
1 GTATCGATACTACACTACAAAGTAGTATCGATACCCCTGGACCA
514587 GTATCGATAC
1 GTATCGATAC
514597 CATTGGGATG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
43 3 0.06
44 16 0.33
45 30 0.61
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (44 bp):
GTATCGATACTACACTACAAAGTAGTATCGATACCCCTGGACCA
Found at i:516829 original size:20 final size:20
Alignment explanation
Indices: 516804--516843 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
516794 CGATACTGAT
516804 TGATAAGGGTATCAATACCA
1 TGATAAGGGTATCAATACCA
*
516824 TGATAAGGGTATCGATACCA
1 TGATAAGGGTATCAATACCA
516844 AGAAACATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (20 bp):
TGATAAGGGTATCAATACCA
Found at i:516932 original size:20 final size:20
Alignment explanation
Indices: 516884--516943 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 20
516874 ATCGGTAGGA
* * *
516884 GGTATCGGTACTATAGTAAG
1 GGTATCGATACCATGGTAAG
516904 GTTGTATCGATACCATGGTAAG
1 G--GTATCGATACCATGGTAAG
516926 GGTATCGATACCA-GGTAA
1 GGTATCGATACCATGGTAA
516944 CATCAAACCT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 5 0.14
20 13 0.37
22 17 0.49
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCATGGTAAG
Found at i:516956 original size:95 final size:94
Alignment explanation
Indices: 516812--517125 Score: 362
Period size: 95 Copynumber: 3.3 Consensus size: 94
516802 ATTGATAAGG
* * * *
516812 GTATCAATACCATGATAAGGGTATCGATACCAAGAAACATCAAATCTAATTTTGGTATCAATATC
1 GTATCAATACCATGGTAAGGGTATCGATACCAAGAAACATCAAACCTAATTTTGGTATCGATACC
* *
516877 GGTAGGAGGTATCGGTACTATAGTAAGGTT
66 GG-AGGGGGTATCGGTACTATAGTAAGGTA
* * *
516907 GTATCGATACCATGGTAAGGGTATCGATACCAGGTAACATCAAACCTAATTTTGGTATCGATACC
1 GTATCAATACCATGGTAAGGGTATCGATACCAAGAAACATCAAACCTAATTTTGGTATCGATACC
** *
516972 GGAGGGGGGTATTAGTA-TCAAAGTATA-GTA
66 GGA-GGGGGTATCGGTACT-ATAGTA-AGGTA
* * ** * *
517002 GTATCGATACCATGGTGAGGGTATCGATACCAAGCCACATCGAAGCTAATTTTGGTATCGATACC
1 GTATCAATACCATGGTAAGGGTATCGATACCAAGAAACATCAAACCTAATTTTGGTATCGATACC
* * * *
517067 GAAAGGGGGTATCGATACCATAGTAGGGTA
66 G-GAGGGGGTATCGGTACTATAGTAAGGTA
*
517097 GTATCAATACCATGGTAGGGGTATCGATA
1 GTATCAATACCATGGTAAGGGTATCGATA
517126 TTGAAGGGCC
Statistics
Matches: 185, Mismatches: 28, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
94 2 0.01
95 181 0.98
96 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (94 bp):
GTATCAATACCATGGTAAGGGTATCGATACCAAGAAACATCAAACCTAATTTTGGTATCGATACC
GGAGGGGGTATCGGTACTATAGTAAGGTA
Found at i:517095 original size:19 final size:20
Alignment explanation
Indices: 517055--517125 Score: 74
Period size: 22 Copynumber: 3.5 Consensus size: 20
517045 AGCTAATTTT
*
517055 GGTATCGATACCGAAAG--GG
1 GGTATCGATACC-ATAGTAGG
517074 GGTATCGATACCATAGTAGG
1 GGTATCGATACCATAGTAGG
* *
517094 GTAGTATCAATACCATGGTAGG
1 G--GTATCGATACCATAGTAGG
517116 GGTATCGATA
1 GGTATCGATA
517126 TTGAAGGGCC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.07
19 12 0.27
20 11 0.25
22 18 0.41
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (20 bp):
GGTATCGATACCATAGTAGG
Found at i:517512 original size:59 final size:59
Alignment explanation
Indices: 517445--517956 Score: 769
Period size: 59 Copynumber: 8.7 Consensus size: 59
517435 TGATTACCAA
* *
517445 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCACATAGGACACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* *
517504 ATGATAAGGAATTCATACTAAGTGTATGAATTTCTATATAGGGCACTTCTTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
*
517563 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAAGGCACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
517622 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
*
517681 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTTGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * *
517740 ATGATAAGGAATTCATACTAAATGTATG-ATTTCCATATATGGCACTTCGTGAGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * * *
517798 ATAATAAGGAATTCATACTAAGTGTATGAATTTTCATATAGGGCACTTCGTGTACTAAA
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * * * * * * *
517857 ATGCTAAGGAATTCAAACTAAGTGTATGAATTTCCTTATTGGGCACCTT-TTATGTTAAA
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCA-CTTCGTGTGCTAAC
* * *
517916 ATGACT-AGAAATTCATACTAAGTGTATGCATTTCTATATAG
1 ATGA-TAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
517957 AAAATGTATG
Statistics
Matches: 413, Mismatches: 37, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
58 53 0.13
59 356 0.86
60 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (59 bp):
ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
Found at i:517741 original size:177 final size:175
Alignment explanation
Indices: 517445--517955 Score: 790
Period size: 176 Copynumber: 2.9 Consensus size: 175
517435 TGATTACCAA
* *
517445 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCACATAGGACACTTCGTGTGCTAACATGATA
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGATA
*
517510 AGGAATTCATACTAAGTGTATGAATTTCTATATAGGGCACTTCTTGTGCTAACATGATAAGGAAT
66 AGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTT-TTGTGCTAACATGATAAGGAAT
*
517575 TCATACTAAGTGTATGAATTTCCATATAAGGCACTTCGTGTGCTAAC
130 TCATACTAAGTGTATG-ATTTCCATATAAGGCACTTCGTGAGCTAAC
517622 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGATA
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGATA
517687 AGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTTGTGTGCTAACATGATAAGGAAT
66 AGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTT-TGTGCTAACATGATAAGGAAT
* *
517752 TCATACTAAATGTATGATTTCCATATATGGCACTTCGTGAGCTAAC
130 TCATACTAAGTGTATGATTTCCATATAAGGCACTTCGTGAGCTAAC
* * * * *
517798 ATAATAAGGAATTCATACTAAGTGTATGAATTTTCATATAGGGCACTTCGTGTACTAAAATGCTA
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGATA
* * * * * * *
517863 AGGAATTCAAACTAAGTGTATGAATTTCCTTATTGGGCACCTTTTATGTTAAAATGACT-AGAAA
66 AGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCA-CTTTTGTGCTAACATGA-TAAGGAA
*
517927 TTCATACTAAGTGTATGCATTTCTATATA
129 TTCATACTAAGTGTATG-ATTTCCATATA
517956 GAAAATGTAT
Statistics
Matches: 310, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
176 155 0.50
177 155 0.50
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (175 bp):
ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGATA
AGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTTTGTGCTAACATGATAAGGAATT
CATACTAAGTGTATGATTTCCATATAAGGCACTTCGTGAGCTAAC
Found at i:519754 original size:18 final size:18
Alignment explanation
Indices: 519731--519777 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
519721 AAATATGGGG
519731 ATAGATCAGTACAATCTA
1 ATAGATCAGTACAATCTA
* * *
519749 ATAGATCAATACAATTTG
1 ATAGATCAGTACAATCTA
*
519767 AGAGATCAGTA
1 ATAGATCAGTA
519778 GCATCACCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (18 bp):
ATAGATCAGTACAATCTA
Found at i:524270 original size:92 final size:93
Alignment explanation
Indices: 524040--524352 Score: 422
Period size: 94 Copynumber: 3.4 Consensus size: 93
524030 AAAGTTACTG
*
524040 AGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATCGAA-TCTAATTTTGTTATCG
1 AGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATCGAACT-TAATTTTGGTATCG
** *
524104 ATACCGGTAGGGGTATCGGTACCATAGTA
65 ATACCGAAAGGGGTATCAGTACCATAGTA
* * * *
524133 AGGTAATATTGATACCATGGTAAGGGTATCGATACCAGGTAACATCGAACTTAATTTTGGTATCG
1 A-GTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATCGAACTTAATTTTGGTATCG
524198 ATACC-AAAGGGGTATCAGTA-CATAGTA
65 ATACCGAAAGGGGTATCAGTACCATAGTA
**
524225 TAGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGCCACATCGAAGC-TAA-TTTGGTATC
1 -AGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATCGAA-CTTAATTTTGGTATC
* *
524288 GATACCGGAAAGAGGTATCAATACCATAGTA
64 GATACC-GAAAGGGGTATCAGTACCATAGTA
524319 GAGTAGTATCGATACCATGGT-AGGGTATCGATAC
1 -AGTAGTATCGATACCATGGTAAGGGTATCGATAC
524353 TGAAGTGCCA
Statistics
Matches: 197, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
91 15 0.08
92 52 0.26
93 41 0.21
94 88 0.45
95 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27
Consensus pattern (93 bp):
AGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATCGAACTTAATTTTGGTATCGA
TACCGAAAGGGGTATCAGTACCATAGTA
Found at i:524348 original size:19 final size:20
Alignment explanation
Indices: 524298--524352 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
524288 GATACCGGAA
*
524298 AGAGGTATCAATACCATAGT
1 AGAGGTATCGATACCATAGT
*
524318 AGAGTAGTATCGATACCATGGT
1 AGAG--GTATCGATACCATAGT
524340 AG-GGTATCGATAC
1 AGAGGTATCGATAC
524353 TGAAGTGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 10 0.32
20 4 0.13
21 1 0.03
22 16 0.52
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (20 bp):
AGAGGTATCGATACCATAGT
Found at i:524739 original size:59 final size:59
Alignment explanation
Indices: 524671--525169 Score: 737
Period size: 59 Copynumber: 8.6 Consensus size: 59
524661 TGATTACCAA
* * *
524671 ATGATAAGGAATTCGTACTAAGTGTATGAATTTCTATATAGGGCACTTCGTGTACTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * *
524730 ATGATAAGGAATGCATACTAAGTGTTTGAATTTCCATATAGGGCACTTCATGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
*
524789 ATGATAAGGAATTCATACTAAATGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * * *
524848 ATGATAAAGAATCCATGCTAAGTGTATGAATTTCCATATAAGGCACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
*
524907 ATGATAAGGAATTCATACTAA-TGTATGAATTTCCATATAGGGAACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
524965 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * *
525024 ATGATAAGGAATTCATACTAAGTGT-TGAATTTCCATATAGGACACTT-ATGTGCTAAA
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * *
525081 ATGCTAAGGAATTCATACTAAGTGTAT-AA-TTCCAT-TA-TGCACCTT-GTGTGCTAAA
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCA-CTTCGTGTGCTAAC
* *
525136 ATGATTAA-AAATTCATAGTAAGTGTATGAATTTC
1 ATGA-TAAGGAATTCATACTAAGTGTATGAATTTC
525170 TGTATGGGAA
Statistics
Matches: 403, Mismatches: 31, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
54 2 0.00
55 34 0.08
56 11 0.03
57 37 0.09
58 78 0.19
59 241 0.60
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (59 bp):
ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
Found at i:524879 original size:118 final size:118
Alignment explanation
Indices: 524671--525169 Score: 737
Period size: 117 Copynumber: 4.3 Consensus size: 118
524661 TGATTACCAA
* * *
524671 ATGATAAGGAATTCGTACTAAGTGTATGAATTTCTATATAGGGCACTTCGTGTACTAACATGATA
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGATA
* * *
524736 AGGAATGCATACTAAGTGTTTGAATTTCCATATAGGGCACTTCATGTGCTAAC
66 AGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
*
524789 ATGATAAGGAATTCATACTAAATGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGATA
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGATA
* * * *
524854 AAGAATCCATGCTAAGTGTATGAATTTCCATATAAGGCACTTCGTGTGCTAAC
66 AGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
*
524907 ATGATAAGGAATTCATACTAA-TGTATGAATTTCCATATAGGGAACTTCGTGTGCTAACATGATA
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGATA
524971 AGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
66 AGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * * *
525024 ATGATAAGGAATTCATACTAAGTGT-TGAATTTCCATATAGGACACTT-ATGTGCTAAAATGCTA
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGATA
* *
525087 AGGAATTCATACTAAGTGTAT-AA-TTCCAT-TA-TGCACCTT-GTGTGCTAAA
66 AGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCA-CTTCGTGTGCTAAC
* *
525136 ATGATTAA-AAATTCATAGTAAGTGTATGAATTTC
1 ATGA-TAAGGAATTCATACTAAGTGTATGAATTTC
525170 TGTATGGGAA
Statistics
Matches: 353, Mismatches: 24, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
112 31 0.09
113 16 0.05
114 6 0.02
115 2 0.01
116 34 0.10
117 132 0.37
118 132 0.37
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (118 bp):
ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGATA
AGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
Found at i:527699 original size:40 final size:40
Alignment explanation
Indices: 527653--527734 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
527643 TCATAAAATG
527653 CATAATGATAATAAATACAATTGAGTACTTACAGGTTTTC
1 CATAATGATAATAAATACAATTGAGTACTTACAGGTTTTC
* * **
527693 CATAATGATGATAAATGCAATTGAGTACTTTTAGGTTTTC
1 CATAATGATAATAAATACAATTGAGTACTTACAGGTTTTC
527733 CA
1 CA
527735 AAAGGAAAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (40 bp):
CATAATGATAATAAATACAATTGAGTACTTACAGGTTTTC
Found at i:530664 original size:131 final size:131
Alignment explanation
Indices: 530352--531145 Score: 920
Period size: 131 Copynumber: 6.0 Consensus size: 131
530342 ATAAATAACA
* * * *
530352 CTCGAATTAATA-TGAATTTTAGGATGAAATAGTAATATTTTTTCATTTCGATTGTAGTAATAAA
1 CTCGAATTAATATTGAATTTTAGGACGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAA
* * * * *
530416 TAAATGCTTTAAGGCGTGAGCGGTGATTTATTCTCGATT-AGAAATAATTAGATATTA--G-TTT
66 TGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGA-AAATAATTAGATATTATCGTTTT
530477 CT
130 CT
* * * * *
530479 CTCGAATTAATATTGAATTTTAGGATGTAATAGTAATATATCTTAATTTCGATTGGAGTGATAAA
1 CTCGAATTAATATTGAATTTTAGGACGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAA
* * * * *
530544 TGACTGCTTTAAGGCATGAGATGTCAGTTATTCTTGATTGAAAATAGTTAGTTATTATCGTTTTC
66 TGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGAAAATAATTAGATATTATCGTTTTC
530609 T
131 T
* * * *
530610 CTCGAATCAATATTGAATTTTAGGACGAAATAGTGATTTCTCTTCATTTTGATTGGAGTAATAAA
1 CTCGAATTAATATTGAATTTTAGGACGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAA
* * * *
530675 TGACTACTTTAAGGCATGAGA--TCATTTATTCTC-ATTGGAAATAATTAGGTATTGTCGTTTTC
66 TGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGAAAATAATTAGATATTATCGTTTTC
530737 T
131 T
* * ** *
530738 CTCTTAAAATTTAAAGAATATGTTTAAAAAATTAGGACGAAATAGTAATATCTTTTCATTTCGAT
1 CTC---GAA-TT----AATA---TT-GAATTTTAGGACGAAATAGTAATATCTCTTCATTTCGAT
* * * * * *
530803 TGGAGTAATAAATAAATGCTTTAAGGCGTGAGAGGTGATTTATTCTCGATTGGAAATAATTAAAT
54 TGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGAAAATAATTAGAT
530868 ATTATCGTTTTCT
119 ATTATCGTTTTCT
* * * * * *
530881 CTCGAATTAATATTGAATTTTAGGATGTAATAATAATATATCTTAATTTCGATTGGAGTGATAAA
1 CTCGAATTAATATTGAATTTTAGGACGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAA
* * *
530946 TGACTGCTTTAAGGCATGAGAGGTCATTTATTCTTGATTGAAAATAGTTAGTTATTATCGTTTTC
66 TGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGAAAATAATTAGATATTATCGTTTTC
531011 T
131 T
* * * *
531012 CTCGAATCAATATTGAATTTTAGGACGAAATATTGATATCTCTTCATTTTGATTGGAGTAATAAA
1 CTCGAATTAATATTGAATTTTAGGACGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAA
* * * *
531077 TGACTACTTTAAGGCATGAGAGATCATTTATTCTCAATTGGAAATAATTAGATATTATCGTTTTC
66 TGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGAAAATAATTAGATATTATCGTTTTC
531142 T
131 T
531143 CTC
1 CTC
531146 TTAAAATTTA
Statistics
Matches: 562, Mismatches: 85, Indels: 36
0.82 0.12 0.05
Matches are distributed among these distances:
127 12 0.02
128 120 0.21
129 11 0.02
130 1 0.00
131 299 0.53
132 3 0.01
135 4 0.01
136 4 0.01
139 4 0.01
140 63 0.11
142 11 0.02
143 30 0.05
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.41
Consensus pattern (131 bp):
CTCGAATTAATATTGAATTTTAGGACGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAA
TGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGAAAATAATTAGATATTATCGTTTTC
T
Found at i:531065 original size:402 final size:401
Alignment explanation
Indices: 530370--531173 Score: 1441
Period size: 402 Copynumber: 2.0 Consensus size: 401
530360 AATATGAATT
* * *
530370 TTAGGATGAAATAGTAATATTTTTTCATTTCGATTGTAGTAATAAATAAATGCTTTAAGGCGTGA
1 TTAGGACGAAATAGTAATATCTTTTCATTTCGATTGGAGTAATAAATAAATGCTTTAAGGCGTGA
* *
530435 GCGGTGATTTATTCTCGATTAGAAATAATTAGATATTAGTTTCTCTCGAATTAATATTGAATTTT
66 GAGGTGATTTATTCTCGATTAGAAATAATTAAATATTAGTTTCTCTCGAATTAATATTGAATTTT
*
530500 AGGATGTAATAGTAATATATCTTAATTTCGATTGGAGTGATAAATGACTGCTTTAAGGCATGAGA
131 AGGATGTAATAATAATATATCTTAATTTCGATTGGAGTGATAAATGACTGCTTTAAGGCATGAGA
*
530565 TGTCAGTTATTCTTGATTGAAAATAGTTAGTTATTATCGTTTTCTCTCGAATCAATATTGAATTT
196 GGTCAGTTATTCTTGATTGAAAATAGTTAGTTATTATCGTTTTCTCTCGAATCAATATTGAATTT
*
530630 TAGGACGAAATAGTGATTTCTCTTCATTTTGATTGGAGTAATAAATGACTACTTTAAGGCAT-GA
261 TAGGACGAAATAGTGATATCTCTTCATTTTGATTGGAGTAATAAATGACTACTTTAAGGCATAGA
* *
530694 GATCATTTATTCTC-ATTGGAAATAATTAGGTATTGTCGTTTTCTCTCTTAAAATTTAAAGAATA
326 GATCATTTATTCTCAATTGGAAATAATTAGATATTATCGTTTTCTCTCTTAAAATTTAAAGAATA
530758 TGTTTAAAAAA
391 TGTTTAAAAAA
530769 TTAGGACGAAATAGTAATATCTTTTCATTTCGATTGGAGTAATAAATAAATGCTTTAAGGCGTGA
1 TTAGGACGAAATAGTAATATCTTTTCATTTCGATTGGAGTAATAAATAAATGCTTTAAGGCGTGA
*
530834 GAGGTGATTTATTCTCGATTGGAAATAATTAAATATTATCGTTTTCTCTCGAATTAATATTGAAT
66 GAGGTGATTTATTCTCGATTAGAAATAATTAAATATTA--G-TTTCTCTCGAATTAATATTGAAT
530899 TTTAGGATGTAATAATAATATATCTTAATTTCGATTGGAGTGATAAATGACTGCTTTAAGGCATG
128 TTTAGGATGTAATAATAATATATCTTAATTTCGATTGGAGTGATAAATGACTGCTTTAAGGCATG
*
530964 AGAGGTCATTTATTCTTGATTGAAAATAGTTAGTTATTATCGTTTTCTCTCGAATCAATATTGAA
193 AGAGGTCAGTTATTCTTGATTGAAAATAGTTAGTTATTATCGTTTTCTCTCGAATCAATATTGAA
*
531029 TTTTAGGACGAAATATTGATATCTCTTCATTTTGATTGGAGTAATAAATGACTACTTTAAGGCAT
258 TTTTAGGACGAAATAGTGATATCTCTTCATTTTGATTGGAGTAATAAATGACTACTTTAAGGCAT
531094 GAGAGATCATTTATTCTCAATTGGAAATAATTAGATATTATCGTTTTCTCTCTTAAAATTTAAAG
323 -AGAGATCATTTATTCTCAATTGGAAATAATTAGATATTATCGTTTTCTCTCTTAAAATTTAAAG
531159 AATATGTTTAAAAAA
387 AATATGTTTAAAAAA
531174 AAGGTCTTAA
Statistics
Matches: 386, Mismatches: 13, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
399 97 0.25
401 1 0.00
402 213 0.55
404 16 0.04
405 59 0.15
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (401 bp):
TTAGGACGAAATAGTAATATCTTTTCATTTCGATTGGAGTAATAAATAAATGCTTTAAGGCGTGA
GAGGTGATTTATTCTCGATTAGAAATAATTAAATATTAGTTTCTCTCGAATTAATATTGAATTTT
AGGATGTAATAATAATATATCTTAATTTCGATTGGAGTGATAAATGACTGCTTTAAGGCATGAGA
GGTCAGTTATTCTTGATTGAAAATAGTTAGTTATTATCGTTTTCTCTCGAATCAATATTGAATTT
TAGGACGAAATAGTGATATCTCTTCATTTTGATTGGAGTAATAAATGACTACTTTAAGGCATAGA
GATCATTTATTCTCAATTGGAAATAATTAGATATTATCGTTTTCTCTCTTAAAATTTAAAGAATA
TGTTTAAAAAA
Found at i:534110 original size:2 final size:2
Alignment explanation
Indices: 534105--534155 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
534095 TGTGTGTGTG
534105 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
534147 TA TA TA TA T
1 TA TA TA TA T
534156 TAAAAAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:535539 original size:13 final size:14
Alignment explanation
Indices: 535509--535543 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
535499 TGCAGAGCAA
*
535509 CCCCTTTTCTCTTT
1 CCCCTTCTCTCTTT
*
535523 CCCCTTCTCTCTTC
1 CCCCTTCTCTCTTT
535537 CCCCTTC
1 CCCCTTC
535544 CATGATCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (14 bp):
CCCCTTCTCTCTTT
Found at i:537691 original size:19 final size:19
Alignment explanation
Indices: 537667--537709 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
537657 ATGTAGCTTT
537667 TGATCCAAACTACCCACAA
1 TGATCCAAACTACCCACAA
*
537686 TGATCCAAACTACCCATAA
1 TGATCCAAACTACCCACAA
537705 TGATC
1 TGATC
537710 TTTCTCCCGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.21
Consensus pattern (19 bp):
TGATCCAAACTACCCACAA
Found at i:539685 original size:30 final size:30
Alignment explanation
Indices: 539649--539712 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
539639 CAAGTTTTGA
539649 AATTACTCCCCCTTACTTTAACACTTCTTC
1 AATTACTCCCCCTTACTTTAACACTTCTTC
539679 AATTACTCCCCCTTACTTTAACACTTCTTC
1 AATTACTCCCCCTTACTTTAACACTTCTTC
539709 AATT
1 AATT
539713 TATCATGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.25, C:0.34, G:0.00, T:0.41
Consensus pattern (30 bp):
AATTACTCCCCCTTACTTTAACACTTCTTC
Found at i:541971 original size:21 final size:21
Alignment explanation
Indices: 541945--541984 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
541935 CAGAACCCCA
*
541945 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
541966 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
541985 TCAAAGGGGG
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:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:545852 original size:22 final size:21
Alignment explanation
Indices: 545810--545849 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
545800 GAGTTTGTTT
*
545810 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
545831 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
545850 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:553023 original size:42 final size:42
Alignment explanation
Indices: 552960--553043 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
552950 AGAAAATAAA
552960 AATACGTTTAGTTTAAGAAAATATATGTTATTTTAATTTTTT
1 AATACGTTTAGTTTAAGAAAATATATGTTATTTTAATTTTTT
* * *
553002 AATACGTTTGGTTTAATAAAATATATGTTATTTTTATTTTTT
1 AATACGTTTAGTTTAAGAAAATATATGTTATTTTAATTTTTT
553044 TAGAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (42 bp):
AATACGTTTAGTTTAAGAAAATATATGTTATTTTAATTTTTT
Found at i:553450 original size:30 final size:30
Alignment explanation
Indices: 553414--553486 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
553404 AATTTTAATT
553414 CTTTCTAAAAAAATTAATTAAACCATTAAA
1 CTTTCTAAAAAAATTAATTAAACCATTAAA
* * * *
553444 CTTTCTAAAAGAATTACTTAACCCATTGAA
1 CTTTCTAAAAAAATTAATTAAACCATTAAA
*
553474 CTTAGCTAAAAAA
1 CTT-TCTAAAAAA
553487 TTCAATAAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 29 0.81
31 7 0.19
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (30 bp):
CTTTCTAAAAAAATTAATTAAACCATTAAA
Found at i:553650 original size:26 final size:26
Alignment explanation
Indices: 553614--553675 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
553604 GATGATCAAC
553614 GATTGATTTTGTTAGTTAAAAGGTTA
1 GATTGATTTTGTTAGTTAAAAGGTTA
*
553640 GATTGATTTTGTTAGTTAAAGGGTTA
1 GATTGATTTTGTTAGTTAAAAGGTTA
553666 GATTGATTTT
1 GATTGATTTT
553676 TTTTTTCTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (26 bp):
GATTGATTTTGTTAGTTAAAAGGTTA
Found at i:555990 original size:32 final size:32
Alignment explanation
Indices: 555930--556010 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
555920 GTTGATACTC
*
555930 CTGTGCATTATCTGAGTGCAAAACTGACCACA
1 CTGTGCATTATCTGAATGCAAAACTGACCACA
* * *
555962 CTGTGCATTATTTGAATG-AAAGCTTGACCATA
1 CTGTGCATTATCTGAATGCAAAAC-TGACCACA
* * *
555994 ATGCGTATTATCTGAAT
1 CTGTGCATTATCTGAAT
556011 TCACCCAGAC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 4 0.10
32 36 0.90
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (32 bp):
CTGTGCATTATCTGAATGCAAAACTGACCACA
Found at i:557297 original size:20 final size:21
Alignment explanation
Indices: 557272--557310 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
557262 TTTTGCCATA
557272 ATTCAT-CCAATATCGATATT
1 ATTCATCCCAATATCGATATT
*
557292 ATTCATCCCAGTATCGATA
1 ATTCATCCCAATATCGATA
557311 CTCATACCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (21 bp):
ATTCATCCCAATATCGATATT
Found at i:562284 original size:32 final size:31
Alignment explanation
Indices: 562198--562285 Score: 86
Period size: 32 Copynumber: 2.8 Consensus size: 31
562188 AACTGTTATA
* * * *
562198 CATACTGTTCATTATCTAAATGTAAAACTGAT
1 CATAATGTGCATTATCTAAATG-CAAACTGAC
* * * *
562230 CATATTGTGCGTTATCTGAATGCAAGCTTGAC
1 CATAATGTGCATTATCTAAATGCAAAC-TGAC
562262 CATAATGTGCATTATCTAAATGCA
1 CATAATGTGCATTATCTAAATGCA
562286 CCTTGATTAG
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
31 3 0.07
32 42 0.93
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (31 bp):
CATAATGTGCATTATCTAAATGCAAACTGAC
Found at i:578634 original size:44 final size:44
Alignment explanation
Indices: 578571--578659 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
578561 CGTTGTCGAG
578571 GCAACTAATATTGTTCAGGTAAGGAAGGCAAACTCTTGGACATC
1 GCAACTAATATTGTTCAGGTAAGGAAGGCAAACTCTTGGACATC
578615 GCAACTAATATTGTTCAGGTAAGGAAGGCAAACTCTTGGACATC
1 GCAACTAATATTGTTCAGGTAAGGAAGGCAAACTCTTGGACATC
578659 G
1 G
578660 TGTTCTATTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (44 bp):
GCAACTAATATTGTTCAGGTAAGGAAGGCAAACTCTTGGACATC
Found at i:598365 original size:2 final size:2
Alignment explanation
Indices: 598298--598347 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
598288 AGAGAATTTA
*
598298 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
598340 AT AT AT AT
1 AT AT AT AT
598348 TCAAATAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:598898 original size:2 final size:2
Alignment explanation
Indices: 598891--598957 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
598881 AATTATATCC
598891 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
598933 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 A
598958 GAGAGAGAGA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:598962 original size:2 final size:2
Alignment explanation
Indices: 598957--598995 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
598947 ATATATATAT
598957 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
598996 AAAAGTATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:599284 original size:2 final size:2
Alignment explanation
Indices: 599277--599302 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
599267 GAAGCTGCGG
599277 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
599303 ATTTAAATGT
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):
TA
Found at i:600535 original size:20 final size:18
Alignment explanation
Indices: 600507--600557 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
600497 TTTAGCATCG
*
600507 GTACAATTCATACAGTATCA
1 GTACTATTCATACAGTA--A
*
600527 GTACTATTCATATAGTAA
1 GTACTATTCATACAGTAA
600545 GTTACTATTCATA
1 G-TACTATTCATA
600558 AAAAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 2 0.07
19 11 0.39
20 15 0.54
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (18 bp):
GTACTATTCATACAGTAA
Found at i:603820 original size:21 final size:21
Alignment explanation
Indices: 603791--603848 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
603781 GGGCTTGATA
*
603791 GTATCGATACTATTGTTCA-T
1 GTATCGATACTACTGTTCACT
*
603811 GGTATGGATACTACTGTTCACT
1 -GTATCGATACTACTGTTCACT
*
603833 GTATTGATACTACTGT
1 GTATCGATACTACTGT
603849 AGCAGTATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (21 bp):
GTATCGATACTACTGTTCACT
Found at i:604656 original size:19 final size:18
Alignment explanation
Indices: 604632--604667 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
604622 AAAAATAAAC
*
604632 ATTTAAATTTAGATAAAAA
1 ATTTAAAATTAG-TAAAAA
604651 ATTTAAAATTAGTAAAA
1 ATTTAAAATTAGTAAAA
604668 TCAAAGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
ATTTAAAATTAGTAAAAA
Found at i:606487 original size:15 final size:15
Alignment explanation
Indices: 606467--606497 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
606457 GTTGACTGGT
*
606467 TGTGAATCTTGAATG
1 TGTGAATCTTCAATG
606482 TGTGAATCTTCAATG
1 TGTGAATCTTCAATG
606497 T
1 T
606498 AATAGGCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (15 bp):
TGTGAATCTTCAATG
Found at i:607363 original size:21 final size:21
Alignment explanation
Indices: 607338--607388 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
607328 TGAGCATTTG
607338 TACTGTTCATGGTATCGATAC
1 TACTGTTCATGGTATCGATAC
*
607359 TACTGTTCATGGTATTGATAC
1 TACTGTTCATGGTATCGATAC
607380 TACTGTTCA
1 TACTGTTCA
607389 CACAGTATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (21 bp):
TACTGTTCATGGTATCGATAC
Found at i:607401 original size:23 final size:21
Alignment explanation
Indices: 607338--607404 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
607328 TGAGCATTTG
**
607338 TACTGTTCATGGTATCGATAC
1 TACTGTTCACAGTATCGATAC
** *
607359 TACTGTTCATGGTATTGATAC
1 TACTGTTCACAGTATCGATAC
607380 TACTGTTCACACAGTATCGATAC
1 TACTGTT--CACAGTATCGATAC
607403 TA
1 TA
607405 TTCATACAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 27 0.68
23 13 0.32
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.37
Consensus pattern (21 bp):
TACTGTTCACAGTATCGATAC
Found at i:607408 original size:20 final size:19
Alignment explanation
Indices: 607380--607427 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
607370 GTATTGATAC
* *
607380 TACTGTTCACACAGTATCGA
1 TACTATTCACACAATAT-GA
* *
607400 TACTATTCATACAATATGT
1 TACTATTCACACAATATGA
607419 TACTATTCA
1 TACTATTCA
607428 TAAAATAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (19 bp):
TACTATTCACACAATATGA
Found at i:610812 original size:21 final size:21
Alignment explanation
Indices: 610788--610835 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
610778 GCATCGGTAT
610788 TGTTCATGGTATCGATACTAC
1 TGTTCATGGTATCGATACTAC
610809 TGTTCATGGTATCGATACTAC
1 TGTTCATGGTATCGATACTAC
*
610830 TATTCA
1 TGTTCA
610836 CACGGTATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (21 bp):
TGTTCATGGTATCGATACTAC
Found at i:615199 original size:235 final size:236
Alignment explanation
Indices: 614864--615288 Score: 572
Period size: 235 Copynumber: 1.8 Consensus size: 236
614854 GATGACCTGA
* ** * *
614864 AGGACTTATCATCTTGCTCAAAAGACTTATGGATGGCTCAGATGATTTAATCATCATGCTCGAAA
1 AGGACTTATCATCTCGCTCAAAAGACTTACAGATGACTCAGAGGATTTAA-CATCATGCTCGAAA
** * *
614929 GACTTACTGATGGCCTGGAGGACCTACTAAGTAAGAAACTTTGGAAATCACTTTCTTTCTTTTTC
65 GACTTACTGATGGCCCAGAGGACCTACTAAGTAAGAAACTTTGGAAAGCACTTTCTTAC-TTTTC
* * *
614994 AAAACATTCATTTTAATAAAAGATCAAAT-GAGAAACTTTGGAAATCACTTTCTCATT-TTTCAA
129 AAAA-ATTC-TTTTAATAAAAGATCAAATAAAG-AACTTTGAAAATCACTTTATCATTCTTTCAA
615057 AAATCGTATGAAAATATCTTGCTCGGAGGTATTATAGATGGCCCGG
191 AAATCGTATGAAAATATCTTGCTCGGAGGTATTATAGATGGCCCGG
* *
615103 AGGACTTATCATCTCGCTCAAAA-ACTTACAGATGACTCAGAGGGTTT-A-ATCATGCTTGAAAG
1 AGGACTTATCATCTCGCTCAAAAGACTTACAGATGACTCAGAGGATTTAACATCATGCTCGAAAG
* ** *
615165 ACTTCCTGATGGCCCAGATTACTTACTAAGTAAGAAACTTTGGAAAGCACTTTCTTACTTTTCAA
66 ACTTACTGATGGCCCAGAGGACCTACTAAGTAAGAAACTTTGGAAAGCACTTTCTTACTTTTCAA
* * **
615230 AAATTCTTTTCATAAAAGGTTTAATAAAGAACTTTGAAAATCACTTTATCATTCTTTCA
131 AAATTCTTTTAATAAAAGATCAAATAAAGAACTTTGAAAATCACTTTATCATTCTTTCA
615289 TATAAAAATA
Statistics
Matches: 162, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
232 37 0.23
233 11 0.07
234 9 0.06
235 63 0.39
237 1 0.01
238 19 0.12
239 22 0.14
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (236 bp):
AGGACTTATCATCTCGCTCAAAAGACTTACAGATGACTCAGAGGATTTAACATCATGCTCGAAAG
ACTTACTGATGGCCCAGAGGACCTACTAAGTAAGAAACTTTGGAAAGCACTTTCTTACTTTTCAA
AAATTCTTTTAATAAAAGATCAAATAAAGAACTTTGAAAATCACTTTATCATTCTTTCAAAAATC
GTATGAAAATATCTTGCTCGGAGGTATTATAGATGGCCCGG
Found at i:616700 original size:28 final size:28
Alignment explanation
Indices: 616669--616733 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 28
616659 TGTGGAGTAC
616669 TTCAGGTTGATTTG-GAGAGGTCAA-GTGT
1 TTCAGGTTGATTTGAG-GAGGT-AATGTGT
616697 TTCAGGTCT-ATTTGAGGAGGTAATGTGT
1 TTCAGGT-TGATTTGAGGAGGTAATGTGT
616725 TTCAGGTTG
1 TTCAGGTTG
616734 GCTTCTTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
27 3 0.09
28 28 0.85
29 2 0.06
ACGTcount: A:0.20, C:0.08, G:0.34, T:0.38
Consensus pattern (28 bp):
TTCAGGTTGATTTGAGGAGGTAATGTGT
Found at i:625987 original size:23 final size:23
Alignment explanation
Indices: 625957--626004 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
625947 CGTCCTAAGT
625957 CAGAATCCGAAGTCTGTTTTTGC
1 CAGAATCCGAAGTCTGTTTTTGC
625980 CAGAATCCGAAGTCTGTTTTTGC
1 CAGAATCCGAAGTCTGTTTTTGC
626003 CA
1 CA
626005 AATTTGCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (23 bp):
CAGAATCCGAAGTCTGTTTTTGC
Found at i:626555 original size:27 final size:27
Alignment explanation
Indices: 626499--626558 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
626489 TTCAGTTAGT
* *
626499 TAAAATTACGAAAATACCCTTATGGGG
1 TAAAATTACAAAAATACCCTTATAGGG
* **
626526 TAAAATTACAAAAATTCCCTTATATTG
1 TAAAATTACAAAAATACCCTTATAGGG
626553 TAAAAT
1 TAAAAT
626559 GAAAATAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACAAAAATACCCTTATAGGG
Found at i:627938 original size:59 final size:58
Alignment explanation
Indices: 627803--627943 Score: 144
Period size: 60 Copynumber: 2.4 Consensus size: 58
627793 CCTAATAGGC
* * *
627803 CTAGTGGTAAGACCTTATGAACCCTAAGGAACTCCCTTAGGGTGGCACCTTTGCTATGTG
1 CTAG-GGTAAGACCTTATGGA-CCTAAGGAACTCCCTCAGGGTGGCACCTATGCTATGTG
* * *
627863 CTTTGGGTAAGTCCTTATGGACCTAAGGGCACTCCCATCA-GGTGGGCACCTATGCT-TCG-G
1 C-TAGGGTAAGACCTTATGGACCTAA-GGAACTCCC-TCAGGGT-GGCACCTATGCTAT-GTG
627923 CTAGGGTAAGACCTTATGGAC
1 CTAGGGTAAGACCTTATGGAC
627944 ACAAGGTGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
59 23 0.34
60 29 0.43
61 16 0.24
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (58 bp):
CTAGGGTAAGACCTTATGGACCTAAGGAACTCCCTCAGGGTGGCACCTATGCTATGTG
Found at i:643219 original size:36 final size:35
Alignment explanation
Indices: 643134--643260 Score: 141
Period size: 35 Copynumber: 3.6 Consensus size: 35
643124 TGTAGGTTCA
*
643134 GATCAAAATGGTAATTCCTTATATAGGTTCAGACC
1 GATCAAATTGGTAATTCCTTATATAGGTTCAGACC
* *
643169 GATCGAATTAGTAATTCCTTATGGA-AGGTTCA-ACTC
1 GATCAAATTGGTAATTCCTTAT--ATAGGTTCAGAC-C
* *
643205 GGTCAAATTGGTAATTCCTTATATAGGTTCTGACC
1 GATCAAATTGGTAATTCCTTATATAGGTTCAGACC
* **
643240 GATCTAGCTGGTAATTCCTTA
1 GATCAAATTGGTAATTCCTTA
643261 CGGATCTAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
34 1 0.01
35 45 0.59
36 29 0.38
37 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (35 bp):
GATCAAATTGGTAATTCCTTATATAGGTTCAGACC
Found at i:647696 original size:121 final size:121
Alignment explanation
Indices: 647427--647695 Score: 407
Period size: 121 Copynumber: 2.2 Consensus size: 121
647417 TAAACTATTA
* *
647427 GTTTTAGTACCTAAACTTTTAAATTTTTTAAAGTCATACATAATGTTTAGTTTTCATTTCATTTT
1 GTTTTAGTACCTAAAC-TTTCAATTTTTTAAAGTCATACATAATGTTTAGCTTTCATTTCATTTT
* *
647492 AATATCCCGCCGTTAAAAACTTAACGCATTTAGCACCTAAACTATCACTTTTGGTCC
65 AATATCCCGCCGTTAAAAACTTAACACATTTAGCACCTAAACTATCAATTTTGGTCC
* *
647549 ATTTTAGTACCTAAACTTTCAATTTTTTAAAGTCATACCTAATGTTTAGCTTTCATTTCATTTTA
1 GTTTTAGTACCTAAACTTTCAATTTTTTAAAGTCATACATAATGTTTAGCTTTCATTTCATTTTA
* * * * *
647614 GTAT-CCGCTGTTAAAAATTTAACACATTTAGTACCTAAAC-ATCAATTTTGGTCT
66 ATATCCCGCCGTTAAAAACTTAACACATTTAGCACCTAAACTATCAATTTTGGTCC
*
647668 GTTTTAGTAACTAAACTTTCAATTTTTT
1 GTTTTAGTACCTAAACTTTCAATTTTTT
647696 TCAAAACATA
Statistics
Matches: 134, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
119 38 0.28
120 32 0.24
121 49 0.37
122 15 0.11
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (121 bp):
GTTTTAGTACCTAAACTTTCAATTTTTTAAAGTCATACATAATGTTTAGCTTTCATTTCATTTTA
ATATCCCGCCGTTAAAAACTTAACACATTTAGCACCTAAACTATCAATTTTGGTCC
Found at i:650091 original size:4 final size:4
Alignment explanation
Indices: 650082--650139 Score: 73
Period size: 4 Copynumber: 14.0 Consensus size: 4
650072 ACCTAAAACA
*
650082 AAAT AAAT AAAT AAAT -AAT AAAATT AAAT AAAAT AAAT AAAT AGAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAA-T AAAT -AAAT AAAT AAAT AAAT AAAT
650132 AAAT AAAT
1 AAAT AAAT
650140 GAAAAACATT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
3 3 0.06
4 35 0.73
5 9 0.19
6 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:650188 original size:37 final size:36
Alignment explanation
Indices: 650147--650382 Score: 205
Period size: 36 Copynumber: 6.5 Consensus size: 36
650137 AATGAAAAAC
* *
650147 ATTTTTAAAACTATACAATATATGTTTTAAAAAAATA
1 ATTTTCAAAACTATATAATATATGTTTT-AAAAAATA
* * * *
650184 ATTTTCAAACCCATATAATTTATGTTTTTTAAAAATA
1 ATTTTCAAAACTATATAATATATG-TTTTAAAAAATA
*
650221 ATTTTCAAAACTATATATATATAT-TTTTAAAAACTA
1 ATTTTCAAAACTATATA-ATATATGTTTTAAAAAATA
* * *
650257 ATTTTCAAAATTATATAATATATATTTTAAAAACTA
1 ATTTTCAAAACTATATAATATATGTTTTAAAAAATA
* *
650293 ATTTTCAAAAC--TAT-ATGT-T-TTTTAAAAACTA
1 ATTTTCAAAACTATATAATATATGTTTTAAAAAATA
* *
650324 ATTTTCAAAACTAAAAATATATATATATGTTTTTCAAAAATG
1 ATTTTCAAAACT----ATATA-ATATATG-TTTTAAAAAATA
* *
650366 TTTTTAAAAACTATATA
1 ATTTTCAAAACTATATA
650383 TTTATATATT
Statistics
Matches: 165, Mismatches: 20, Indels: 27
0.78 0.09 0.13
Matches are distributed among these distances:
31 23 0.14
32 1 0.01
33 3 0.02
34 3 0.02
35 6 0.04
36 48 0.29
37 44 0.27
38 14 0.08
39 3 0.02
40 1 0.01
42 19 0.12
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.44
Consensus pattern (36 bp):
ATTTTCAAAACTATATAATATATGTTTTAAAAAATA
Found at i:650261 original size:73 final size:73
Alignment explanation
Indices: 650147--650400 Score: 204
Period size: 73 Copynumber: 3.5 Consensus size: 73
650137 AATGAAAAAC
* * * * **
650147 ATTTTTAAAACTATACA-ATATATGTTTTAAAAAAATAATTTTCAAACCCATATAATTTATGTTT
1 ATTTTCAAAACTATATATATATATATTTT-AAAAACTAATTTTCAAACAAATATAA-TTATGTTT
650211 TTTAAAAATA
64 TTTAAAAATA
* * *
650221 ATTTTCAAAACTATATATATATAT-TTTTAAAAACTAATTTTCAAA-ATTATATAA-TATATATT
1 ATTTTCAAAACTATATATATATATATTTTAAAAACTAATTTTCAAACA-AATATAATTATGTTTT
650283 TTAAAAACTA
65 TTAAAAA-TA
*
650293 ATTTTCAAAAC----TATATGT-T-TTTTAAAAACTAATTTTCAAAACTAAAAATATATATATAT
1 ATTTTCAAAACTATATATATATATATTTTAAAAACTAATTTTC-AAAC---AAATATA-AT-TAT
* *
650352 GTTTTTCAAAAATG
60 GTTTTTTAAAAATA
* * * *
650366 TTTTTAAAAACTATATATTTATATATTTTCAAAAC
1 ATTTTCAAAACTATATATATATATATTTTAAAAAC
650401 AATATAATAT
Statistics
Matches: 145, Mismatches: 18, Indels: 29
0.76 0.09 0.15
Matches are distributed among these distances:
67 19 0.13
68 9 0.06
71 18 0.12
72 15 0.10
73 32 0.22
74 31 0.21
75 6 0.04
77 5 0.03
78 1 0.01
79 9 0.06
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (73 bp):
ATTTTCAAAACTATATATATATATATTTTAAAAACTAATTTTCAAACAAATATAATTATGTTTTT
TAAAAATA
Found at i:650302 original size:13 final size:13
Alignment explanation
Indices: 650280--650337 Score: 53
Period size: 13 Copynumber: 4.1 Consensus size: 13
650270 TATAATATAT
650280 ATTTTAAAAACTA
1 ATTTTAAAAACTA
*
650293 ATTTTCAAAACTA
1 ATTTTAAAAACTA
650306 TATGTTTTTTAAAAACTA
1 -A----TTTTAAAAACTA
*
650324 ATTTTCAAAACTA
1 ATTTTAAAAACTA
650337 A
1 A
650338 AAATATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
13 24 0.65
14 1 0.03
17 1 0.03
18 11 0.30
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (13 bp):
ATTTTAAAAACTA
Found at i:650416 original size:22 final size:23
Alignment explanation
Indices: 650366--650421 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
650356 TTCAAAAATG
* * *
650366 TTTTTAAAAACTATATATTTATA
1 TTTTTCAAAACAATATATATATA
650389 TATTTTCAAAACAATATA-ATATA
1 T-TTTTCAAAACAATATATATATA
650412 TTTTTCAAAA
1 TTTTTCAAAA
650422 ATGTTTTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.31
23 6 0.21
24 14 0.48
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTTTCAAAACAATATATATATA
Found at i:650441 original size:35 final size:35
Alignment explanation
Indices: 650391--650518 Score: 104
Period size: 35 Copynumber: 3.7 Consensus size: 35
650381 TATTTATATA
650391 TTTTCAAAACAATATAATATAT-TTTTCAAAAATG
1 TTTTCAAAACAATATAATATATATTTTCAAAAATG
* *
650425 TTTTCAAAAACTATATATTATATATTTTC-AAAAT-
1 TTTTC-AAAACAATATAATATATATTTTCAAAAATG
* * * * *
650459 ATTTAAAATACCCATATATTATACAATTTTC-AAAATG
1 TTTTCAAA-A-CAATATAATATA-TATTTTCAAAAATG
* *
650496 ATTTC-AAACTATATAATATATAT
1 TTTTCAAAACAATATAATATATAT
650519 ATAAAATAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
33 5 0.06
34 19 0.24
35 32 0.41
36 18 0.23
37 4 0.05
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (35 bp):
TTTTCAAAACAATATAATATATATTTTCAAAAATG
Found at i:650454 original size:58 final size:60
Alignment explanation
Indices: 650342--650457 Score: 200
Period size: 59 Copynumber: 2.0 Consensus size: 60
650332 AACTAAAAAT
* *
650342 ATATATATATGTTTTTCAAAAATGTTTTTAAAAACTATATATTTATATATTTTCAAAACA
1 ATATATATATATTTTTCAAAAATGTTTTCAAAAACTATATATTTATATATTTTCAAAACA
650402 ATATA-ATATATTTTTCAAAAATGTTTTCAAAAACTATATA-TTATATATTTTCAAAA
1 ATATATATATATTTTTCAAAAATGTTTTCAAAAACTATATATTTATATATTTTCAAAA
650458 TATTTAAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
58 16 0.30
59 33 0.61
60 5 0.09
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.46
Consensus pattern (60 bp):
ATATATATATATTTTTCAAAAATGTTTTCAAAAACTATATATTTATATATTTTCAAAACA
Found at i:651146 original size:36 final size:35
Alignment explanation
Indices: 651099--651224 Score: 141
Period size: 34 Copynumber: 3.6 Consensus size: 35
651089 TTGAAGATTA
651099 GTGTTTCAAGAGAAACATTTTCAAAGTTTTTTTTGT
1 GTGTTTCAAGAGAAACATTTTCAAAGTTTTTTTT-T
* * *
651135 GTGTTTAAAGAGAAACAATTTCAAAG-GTTTTTTT
1 GTGTTTCAAGAGAAACATTTTCAAAGTTTTTTTTT
* * * *
651169 GAGTTTCAAGAGAAAC-TGTCCCAAGATTTTTTTTT
1 GTGTTTCAAGAGAAACATTTTCAAAG-TTTTTTTTT
651204 -TGTTTCAAGAGAAACAATTTT
1 GTGTTTCAAGAGAAAC-ATTTT
651225 AAATATTGGT
Statistics
Matches: 73, Mismatches: 13, Indels: 8
0.78 0.14 0.09
Matches are distributed among these distances:
33 5 0.07
34 29 0.40
35 13 0.18
36 26 0.36
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (35 bp):
GTGTTTCAAGAGAAACATTTTCAAAGTTTTTTTTT
Found at i:651353 original size:36 final size:36
Alignment explanation
Indices: 651290--652087 Score: 411
Period size: 36 Copynumber: 23.4 Consensus size: 36
651280 AAGACAGATT
* * *
651290 CAAAGATTTGTTTCAAGAAAAATTGTCTCAAGAGAGA
1 CAAA-ATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
* *
651327 CAAAATTTGTTTTAAAAGAAACTGTCTCAAGGGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
* *
651363 CGAAATTTGTTTTAAG-GAAAACAGAT-TC-A-A-AG-
1 CAAAATTTGTTTTAAGAG-AAACTG-TCTCAAGAGAGA
* *
651395 ---ATTTTGTTTCAA-ATGAAACTGTCTCAAGAGAGA
1 CAAAATTTGTTTTAAGA-GAAACTGTCTCAAGAGAGA
* * *
651428 CAAAATTTATTTTAAGAGAAAATGTATCAAGAGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
*
651464 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGGGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
* *
651500 CGAAATTTGTTTTAAG-GAAAACAGAT-TC-A-A-AG-
1 CAAAATTTGTTTTAAGAG-AAACTG-TCTCAAGAGAGA
* * * *
651532 ---ATTTTGTTTCAAGGGAAACTGTCTTAAGAGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
* *
651565 CAAAATTTATTTTAAGAGAAAATGTCTCAAGAGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
651601 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
* * * * **
651637 TAAAACTTTGCTTCAAG-GAAA-----AC-A-A-ATT
1 CAAAA-TTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
* * * *
651665 CAAAGTTTATGTTTCAAGGGAAACTGTCTCAAGAGGGA
1 CAAA-ATT-TGTTTTAAGAGAAACTGTCTCAAGAGAGA
* *
651703 CAAAA-ATG--TTAAGAGAAAATGTCTCAAGAGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
*
651736 AAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
* **
651772 CAAAACTTTGTTTCAAG-GAAAACAAAT-TC-A-A-AG-
1 CAAAA-TTTGTTTTAAGAG-AAAC-TGTCTCAAGAGAGA
* * * * *
651805 ---ATTTTGTTTCATGGGAAACTATCTCAAGAGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
* ** *
651838 CAAAACTTTGTTTCAAG-GAAAACAATTTC-A-A-AG-
1 CAAAA-TTTGTTTTAAGAG-AAACTGTCTCAAGAGAGA
** * * *
651871 ---TTTTTGTTTCAAGGGAAACTGCCTCAAGAGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
* * * *
651904 CAAAA---ATTTTAAGAGAAAATGTATTAAGAGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
* * *
651937 AAAAATTTGTTTTAAAAGAAACTGTCTCAAGGGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
* *
651973 CAAAATTTGTTTCAAG-GAAAACAGAT-TC-----A-A
1 CAAAATTTGTTTTAAGAG-AAACTG-TCTCAAGAGAGA
* * * * * *
652003 -ATATTTTGTTTAAAGGGGAACTATCTCAAGAGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
* *
652038 TAAAATTTGTTTTAAGAGAAACTGTCTTAAGAGAGA
1 CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
652074 CAAAACTTTGTTTT
1 CAAAA-TTTGTTTT
652088 GAGTAAATTA
Statistics
Matches: 576, Mismatches: 109, Indels: 152
0.69 0.13 0.18
Matches are distributed among these distances:
28 11 0.02
29 93 0.16
30 16 0.03
31 6 0.01
32 8 0.01
33 54 0.09
34 7 0.01
35 11 0.02
36 305 0.53
37 60 0.10
38 5 0.01
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (36 bp):
CAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
Found at i:651448 original size:101 final size:100
Alignment explanation
Indices: 651240--651484 Score: 339
Period size: 101 Copynumber: 2.4 Consensus size: 100
651230 TTGGTGCTTC
* * * * *
651240 AAGAGAAACTATCTCGAGAGAGACTAAATTTGTTTAAAGGAAGACAGATTCAAAGATTTGTTTCA
1 AAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGAAAACAGATTCAAAGATTTGTTTCA
* *
651305 AGAAAAATTGTCTCAAGAGAGACAAAATTTGTTTT
66 AGAAAAACTGTCTCAAGAGAGACAAAATTTATTTT
* * *
651340 AAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAGGAAAACAGATTCAAAGATTTTGTTTC
1 AAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGAAAACAGATTCAAAGA-TTTGTTTC
*
651405 AA-ATGAAACTGTCTCAAGAGAGACAAAATTTATTTT
65 AAGA-AAAACTGTCTCAAGAGAGACAAAATTTATTTT
* *
651441 AAGAGAAAATGTATCAAGAGAGACAAAATTTGTTTTAAGAGAAA
1 AAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAG-GAAA
651485 CTGTCTCAAG
Statistics
Matches: 127, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
100 50 0.39
101 73 0.57
102 4 0.03
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (100 bp):
AAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGAAAACAGATTCAAAGATTTGTTTCA
AGAAAAACTGTCTCAAGAGAGACAAAATTTATTTT
Found at i:651563 original size:137 final size:138
Alignment explanation
Indices: 651290--651859 Score: 832
Period size: 137 Copynumber: 4.2 Consensus size: 138
651280 AAGACAGATT
* * *
651290 CAAAGATTTGTTTCAAGA-AAAATTGTCTCAAGAGAGACAAAATTTGTTTTAAAAGAAACTGTCT
1 CAAA-ATTTATTTTAAGAGAAAA-TGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCT
* * * * **
651354 CAAGGGAGACGAAA-TTTGTTTTAAGGAAAACAGATTCAAAGATTTTGTTTCAAATGAAACTGTC
64 CAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTC
651418 TCAAGAGAGA
129 TCAAGAGAGA
*
651428 CAAAATTTATTTTAAGAGAAAATGTATCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCA
1 CAAAATTTATTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCA
* * * * *
651493 AGGGAGACGAAA-TTTGTTTTAAGGAAAACAGATTCAAAGATTTTGTTTCAAGGGAAACTGTCTT
66 AGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTC
651557 AAGAGAGA
131 AAGAGAGA
651565 CAAAATTTATTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCA
1 CAAAATTTATTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCA
* *
651630 AGAGAGATAAAACTTTGCTTCAAGGAAAACAAATTCAAAG-TTTATGTTTCAAGGGAAACTGTCT
66 AGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGATTT-TGTTTCAAGGGAAACTGTCT
*
651694 CAAGAGGGA
130 CAAGAGAGA
* *
651703 CAAAA---ATGTTAAGAGAAAATGTCTCAAGAGAGAAAAAATTTGTTTTAAGAGAAACTGTCTCA
1 CAAAATTTATTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCA
* *
651765 AGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGATTTTGTTTCATGGGAAACTATCTC
66 AGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTC
651830 AAGAGAGA
131 AAGAGAGA
* *
651838 CAAAACTTTGTTTCAAG-GAAAA
1 CAAAA-TTTATTTTAAGAGAAAA
651860 CAATTTCAAA
Statistics
Matches: 398, Mismatches: 26, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
135 124 0.31
136 3 0.01
137 197 0.49
138 69 0.17
139 5 0.01
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (138 bp):
CAAAATTTATTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCA
AGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTC
AAGAGAGA
Found at i:651695 original size:66 final size:65
Alignment explanation
Indices: 651606--652058 Score: 341
Period size: 66 Copynumber: 6.8 Consensus size: 65
651596 AGAGACAAAA
* * * *
651606 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGATAAAACTTTGCTTCAAGGAAAACAAATTCAAAGT
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGT
* *
651671 TTATGTTTCAAGGGAAACTGTCTCAAGAGGGACAAAA--ATG-TT-AAGAGAAAATGTCTCAAGA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAG-GAAAA-----CAA-A
*** **
651732 GAGAAAAAA
58 -TTCAAAGT
* *
651741 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAG-
651806 T
65 T
* * *
651807 TTTGTTTCATGGGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAATTTCAAAGT
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAG-
651872 T
65 T
* * *** *
651873 TTTGTTTCAAGGGAAACTGCCTCAAGAGAGACAAAA--AT-TTT-AAGAGAAAATGTATTAAGAG
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAG-GAAAACAAATTCA-A-
*
651934 AGAAAAAA
63 AG-----T
* ** * * *
651942 TTTGTTTTAAAAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGAAAACAGATTCAAATA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAA-G
652006 T
65 T
* * * * *
652007 TTTGTTTAAAGGGGAACTATCTCAAGAGAGATAAAA-TTTGTTTTAAGAGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAG-GAAA
652059 CTGTCTTAAG
Statistics
Matches: 306, Mismatches: 56, Indels: 51
0.74 0.14 0.12
Matches are distributed among these distances:
62 6 0.02
63 18 0.06
64 4 0.01
65 46 0.15
66 128 0.42
67 3 0.01
68 3 0.01
69 64 0.21
70 7 0.02
71 14 0.05
72 10 0.03
73 3 0.01
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (65 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGT
Found at i:651855 original size:201 final size:200
Alignment explanation
Indices: 651606--652058 Score: 701
Period size: 201 Copynumber: 2.3 Consensus size: 200
651596 AGAGACAAAA
* * * *
651606 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGATAAAACTTTGCTTCAAGGAAAACAAATTCAAAGT
1 TTTGTTTAAAGGGAAACTATCTCAAGAGAGATAAAACTTTGTTTCAAGGAAAACAAATTCAAAGT
* * *
651671 TTATGTTTCAAGGGAAACTGTCTCAAGAGGGACAAAAATGTTAAGAGAAAATGTCTCAAGAGAGA
66 TTATGTTTCAAGGGAAACTGCCTCAAGAGAGACAAAAATGTTAAGAGAAAATGTATCAAGAGAGA
*
651736 AAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTC
131 AAAAATTTGTTTTAAAAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGAAAACAAATTC
651801 AAAGAT
195 AAAGAT
* * * *
651807 TTTGTTTCATGGGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAATTTCAAAGT
1 TTTGTTTAAAGGGAAACTATCTCAAGAGAGATAAAACTTTGTTTCAAGGAAAACAAATTCAAAGT
* * *
651872 TTTTGTTTCAAGGGAAACTGCCTCAAGAGAGACAAAAATTTTAAGAGAAAATGTATTAAGAGAGA
66 TTATGTTTCAAGGGAAACTGCCTCAAGAGAGACAAAAATGTTAAGAGAAAATGTATCAAGAGAGA
* *
651937 AAAAATTTGTTTTAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACAGATTCA
131 AAAAATTTGTTTTAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACAAATTCA
*
652002 AATAT
196 AAGAT
* *
652007 TTTGTTTAAAGGGGAACTATCTCAAGAGAGATAAAA-TTTGTTTTAAGAGAAA
1 TTTGTTTAAAGGGAAACTATCTCAAGAGAGATAAAACTTTGTTTCAAG-GAAA
652059 CTGTCTTAAG
Statistics
Matches: 229, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
199 10 0.04
200 63 0.28
201 156 0.68
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (200 bp):
TTTGTTTAAAGGGAAACTATCTCAAGAGAGATAAAACTTTGTTTCAAGGAAAACAAATTCAAAGT
TTATGTTTCAAGGGAAACTGCCTCAAGAGAGACAAAAATGTTAAGAGAAAATGTATCAAGAGAGA
AAAAATTTGTTTTAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACAAATTCA
AAGAT
Done.