Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008661.1 Hibiscus syriacus cultivar Beakdansim tig00111659_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: 1762280
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:759409 original size:23 final size:23
Alignment explanation
Indices: 759376--759428 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
759366 GTGTAGAAAT
*
759376 AGAG-TTTCCGGCTCTGGTAAAA
1 AGAGTTTTCCGGCTCTAGTAAAA
* *
759398 AGAGTTTTCCGGTTCTAGTAAAC
1 AGAGTTTTCCGGCTCTAGTAAAA
*
759421 AGGGTTTT
1 AGAGTTTT
759429 TTTATTCTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (23 bp):
AGAGTTTTCCGGCTCTAGTAAAA
Found at i:766305 original size:47 final size:46
Alignment explanation
Indices: 766169--766325 Score: 251
Period size: 46 Copynumber: 3.4 Consensus size: 46
766159 GAAGAGGATG
* * *
766169 GAGCTGTTATCAGGTATGGTGCGGCGTAGGGAACAACATGGTATGA
1 GAGCTGTTATCGGGTATGGTGTGGCGTAGGGAACAACAGGGTATGA
766215 GAGCTGTTATCGGGTATGGTGTGGCGTAGGGAACAACAGGGTATGA
1 GAGCTGTTATCGGGTATGGTGTGGCGTAGGGAACAACAGGGTATGA
* *
766261 GAGCTGTTATCGGGTATGGTGTTGGCGTAGGGAATAACAGGGTATGG
1 GAGCTGTTATCGGGTATGGTG-TGGCGTAGGGAACAACAGGGTATGA
*
766308 GAGTTGTTATCGGGTATG
1 GAGCTGTTATCGGGTATG
766326 ATGCTGACGT
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
46 64 0.62
47 40 0.38
ACGTcount: A:0.23, C:0.10, G:0.40, T:0.27
Consensus pattern (46 bp):
GAGCTGTTATCGGGTATGGTGTGGCGTAGGGAACAACAGGGTATGA
Found at i:766520 original size:3 final size:3
Alignment explanation
Indices: 766506--766544 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
766496 GTAATATAGT
*
766506 TAA TAA TTA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
766545 TTTTTTAAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:767139 original size:60 final size:61
Alignment explanation
Indices: 767046--767454 Score: 438
Period size: 60 Copynumber: 6.7 Consensus size: 61
767036 GTGAAGTTGA
*
767046 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTGT-TTCACGAAATTG
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTGTCTTCACCAAATTG
* * * * *
767106 GCTTTGAGTTGGATATCCTTGGATGTGAAGTTGAAATCCAA-TCTTGTGCTTTACCAAATCG
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTGT-CTTCACCAAATTG
* * *
767167 GCTTTGAGTTAGATATCTTTCGTTGTGAAGTTGAAATCCAAGTATTGT-TTCACCAAATTA
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTGTCTTCACCAAATTG
* * * *
767227 GCTTTGAGTTGGATATCCTTCATTGTAAAGTTGAAATCCAA-TCTTGTGCTTCACCAAATCG
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTGT-CTTCACCAAATTG
* * * * * * *
767288 AC-TTGAATTGGATATACTTCG-TGTTAAGTTAAAATCCAAGTACTG-CTTCA-CGAATTG
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTGTCTTCACCAAATTG
* * * **
767345 ACTTTAAGTTGGATATCCTTCGTTGTAAAGTTGAAATCCAATTTTGGGTTGTACGACTTCACCAA
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA----GTATTGT----CTTCACCAA
767410 ATTG
58 ATTG
*
767414 GCTTTGAGTGGGATATCCTTCGTTGTGAAGTTGAAATCCAA
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA
767455 TCTTGTGTAA
Statistics
Matches: 287, Mismatches: 44, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
57 7 0.02
58 21 0.07
59 42 0.15
60 104 0.36
61 57 0.20
62 5 0.02
63 3 0.01
68 5 0.02
69 43 0.15
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (61 bp):
GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTGTCTTCACCAAATTG
Found at i:767210 original size:121 final size:120
Alignment explanation
Indices: 767046--767454 Score: 518
Period size: 121 Copynumber: 3.3 Consensus size: 120
767036 GTGAAGTTGA
767046 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTGTTTCACGAAATTGGCTTT
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTGTTTCACGAAATTGGCTTT
* *
767111 GAGTTGGATATCCTTGGATGTGAAGTTGAAATCCAATCTTGTGCTTTACCAAATCG
66 GAGTTGGATATCCTT-GATGTAAAGTTGAAATCCAATCTTGTGCTTCACCAAATCG
* * * *
767167 GCTTTGAGTTAGATATCTTTCGTTGTGAAGTTGAAATCCAAGTATTGTTTCACCAAATTAGCTTT
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTGTTTCACGAAATTGGCTTT
*
767232 GAGTTGGATATCCTTCATTGTAAAGTTGAAATCCAATCTTGTGCTTCACCAAATCG
66 GAGTTGGATATCCTTGA-TGTAAAGTTGAAATCCAATCTTGTGCTTCACCAAATCG
* * * * * * * *
767288 AC-TTGAATTGGATATACTTCG-TGTTAAGTTAAAATCCAAGTACTGCTTCACG-AATTGACTTT
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTGTTTCACGAAATTGGCTTT
* * * *
767350 AAGTTGGATATCCTTCGTTGTAAAGTTGAAATCCAATTTTGGGTTGTACGACTTCACCAAATTG
66 GAGTTGGATATCCTT-GATGTAAAGTTGAAATCCAA---T--CTTGT--G-CTTCACCAAATCG
*
767414 GCTTTGAGTGGGATATCCTTCGTTGTGAAGTTGAAATCCAA
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA
767455 TCTTGTGTAA
Statistics
Matches: 246, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
118 40 0.16
119 26 0.11
120 16 0.07
121 114 0.46
123 4 0.02
125 1 0.00
126 13 0.05
127 16 0.07
128 16 0.07
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (120 bp):
GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTGTTTCACGAAATTGGCTTT
GAGTTGGATATCCTTGATGTAAAGTTGAAATCCAATCTTGTGCTTCACCAAATCG
Found at i:769124 original size:15 final size:16
Alignment explanation
Indices: 769106--769144 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
769096 TTGAAATACA
769106 AATTTC-AAAGATTTC
1 AATTTCTAAAGATTTC
**
769121 AATTTCTATCGATTTC
1 AATTTCTAAAGATTTC
769137 AATTTCTA
1 AATTTCTA
769145 TTATTCATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.46
Consensus pattern (16 bp):
AATTTCTAAAGATTTC
Found at i:769136 original size:16 final size:16
Alignment explanation
Indices: 769115--769145 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
769105 AAATTTCAAA
769115 GATTTCAATTTCTATC
1 GATTTCAATTTCTATC
769131 GATTTCAATTTCTAT
1 GATTTCAATTTCTAT
769146 TATTCATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (16 bp):
GATTTCAATTTCTATC
Found at i:771800 original size:46 final size:46
Alignment explanation
Indices: 771733--771829 Score: 185
Period size: 46 Copynumber: 2.1 Consensus size: 46
771723 AACAAATAAA
771733 AAGCTAGAACCGGTTCTATACTGAATTCTAAACTTGTACATCTCTC
1 AAGCTAGAACCGGTTCTATACTGAATTCTAAACTTGTACATCTCTC
*
771779 AAGCTAGAACCGGTTCTATACTGAATTCTAAACTTGTACATCTTTC
1 AAGCTAGAACCGGTTCTATACTGAATTCTAAACTTGTACATCTCTC
771825 AAGCT
1 AAGCT
771830 TCACCCCTAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (46 bp):
AAGCTAGAACCGGTTCTATACTGAATTCTAAACTTGTACATCTCTC
Found at i:772308 original size:21 final size:21
Alignment explanation
Indices: 772284--772324 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
772274 TAGAAAAATA
772284 TTAACCAAATAAAGCACTCAC
1 TTAACCAAATAAAGCACTCAC
772305 TTAACCAAATAAAGCACTCA
1 TTAACCAAATAAAGCACTCA
772325 TCATTCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.27, G:0.05, T:0.20
Consensus pattern (21 bp):
TTAACCAAATAAAGCACTCAC
Found at i:775298 original size:13 final size:12
Alignment explanation
Indices: 775262--775303 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
775252 AAAAGATTTC
*
775262 AAAGAAGATTAA
1 AAAGAAAATTAA
775274 AAAGAAAATTAA
1 AAAGAAAATTAA
* *
775286 AAAGAAAGTTTA
1 AAAGAAAATTAA
775298 AAAGAA
1 AAAGAA
775304 TATTCAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (12 bp):
AAAGAAAATTAA
Found at i:775968 original size:13 final size:13
Alignment explanation
Indices: 775950--775974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
775940 AAAACAAAGA
775950 AAAGATAATTCTG
1 AAAGATAATTCTG
775963 AAAGATAATTCT
1 AAAGATAATTCT
775975 TAAAATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (13 bp):
AAAGATAATTCTG
Found at i:777470 original size:23 final size:21
Alignment explanation
Indices: 777430--777471 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
777420 ATATATATAT
*
777430 ATATTTATTTTTATAAATAAG
1 ATATTTATTTTTAGAAATAAG
777451 ATATTTATTTACTTAGAAATA
1 ATATTTATTT--TTAGAAATA
777472 TCAGAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (21 bp):
ATATTTATTTTTAGAAATAAG
Found at i:777945 original size:26 final size:26
Alignment explanation
Indices: 777896--777946 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
777886 TAATATACAA
*
777896 AAAGTAATAAAACTAGTAATTAAATG
1 AAAGTAATAAAACTAGTAACTAAATG
* * *
777922 AAAGTATTAAAATTAGTGACTAAAT
1 AAAGTAATAAAACTAGTAACTAAAT
777947 TATAACATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.55, C:0.04, G:0.12, T:0.29
Consensus pattern (26 bp):
AAAGTAATAAAACTAGTAACTAAATG
Found at i:779372 original size:17 final size:17
Alignment explanation
Indices: 779350--779385 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
779340 TAATAGTAAC
*
779350 AATAATAGTAAAATAAT
1 AATAATAATAAAATAAT
*
779367 AATAATAATAAATTAAT
1 AATAATAATAAAATAAT
779384 AA
1 AA
779386 ACAAAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
AATAATAATAAAATAAT
Found at i:779995 original size:20 final size:21
Alignment explanation
Indices: 779970--780029 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
779960 AGGTTGAACA
779970 AGTTCTTCTCATTATGAACTT
1 AGTTCTTCTCATTATGAACTT
* *
779991 A-TTCTTCCTCTTTA-G-AC-A
1 AGTTCTT-CTCATTATGAACTT
780009 AGTTCTTCTCATTATGAACTT
1 AGTTCTTCTCATTATGAACTT
780030 TCTCTGGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
18 7 0.23
19 8 0.27
20 8 0.27
21 7 0.23
ACGTcount: A:0.23, C:0.22, G:0.08, T:0.47
Consensus pattern (21 bp):
AGTTCTTCTCATTATGAACTT
Found at i:780012 original size:123 final size:123
Alignment explanation
Indices: 779765--780169 Score: 611
Period size: 123 Copynumber: 3.3 Consensus size: 123
779755 TTTTGGGATT
* * * * * **
779765 AGTTCTTCTCATTATGAACACT-TTTGGAAATGTTGATGTTTATCTATCTCCTTCTGTAATAGAG
1 AGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATGCTGATCTATTTCCTTCTGCGATAGAG
* * *
779829 TCATGC-AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATCTTCAGATA
66 TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGACA
* *
779886 AGTTATTCTCATTATGAACTCTCTCTGGAAATGTTGATGCTGATCTATTTCCTTCTACGATAGAG
1 AGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATGCTGATCTATTTCCTTCTGCGATAGAG
* *
779951 TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTTAGACA
66 TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGACA
*
780009 AGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATGCTGATCTATCTT-CTTCTGCGATAGA
1 AGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATGCTGATCTAT-TTCCTTCTGCGATAGA
*
780073 GTCGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAG-CTA
65 GTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAC-A
*
780132 AGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGAT
1 AGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGAT
780170 CCATCGAGTG
Statistics
Matches: 260, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
121 20 0.08
122 41 0.16
123 197 0.76
124 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (123 bp):
AGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATGCTGATCTATTTCCTTCTGCGATAGAG
TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGACA
Found at i:780278 original size:112 final size:112
Alignment explanation
Indices: 779954--780294 Score: 434
Period size: 123 Copynumber: 2.9 Consensus size: 112
779944 GATAGAGTCA
* * *
779954 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTTAGACAAGTTCTTCTC
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTC
** * * *
780019 ATTATGAACTTTCTCTGGAAATGTTGATGCTGATCTATCTTCTTCTGCGAT-AGAGTCG
66 ATTATGAACTTTCTCTGGAAATGTTGAT-C----C-A---TC--GAGTGATGA-ATTTG
*
780077 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGCTAAGTTCTTCTC
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTC
780142 ATTATGAACTTTCTCTGGAAATGTTGATCCATCGAGTGATGAATTTG
66 ATTATGAACTTTCTCTGGAAATGTTGATCCATCGAGTGATGAATTTG
* * *
780189 AGCGAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATAAGTTCTTTT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTCTTCAGATAAGTTCTTCT
*
780254 GATTATGAAC-TTCTCTGGAAATGTTGATCCATCGAGTGATG
65 CATTATGAACTTTCTCTGGAAATGTTGATCCATCGAGTGATG
780295 GATTCAAATC
Statistics
Matches: 202, Mismatches: 14, Indels: 15
0.87 0.06 0.06
Matches are distributed among these distances:
112 81 0.40
113 27 0.13
114 2 0.01
117 1 0.00
118 1 0.00
122 1 0.00
123 89 0.44
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.39
Consensus pattern (112 bp):
AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTC
ATTATGAACTTTCTCTGGAAATGTTGATCCATCGAGTGATGAATTTG
Found at i:780691 original size:22 final size:22
Alignment explanation
Indices: 780648--780727 Score: 115
Period size: 22 Copynumber: 3.6 Consensus size: 22
780638 AAATCCAATA
* * *
780648 AATCTTTCTTCTTTTAAAAGAG
1 AATCTATCATCTTTGAAAAGAG
* *
780670 AATGTATCATCTTTGAAGAGAG
1 AATCTATCATCTTTGAAAAGAG
780692 AATCTATCATCTTTGAAAAGAG
1 AATCTATCATCTTTGAAAAGAG
780714 AATCTATCATCTTT
1 AATCTATCATCTTT
780728 AAAGAATGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (22 bp):
AATCTATCATCTTTGAAAAGAG
Found at i:785934 original size:20 final size:20
Alignment explanation
Indices: 785905--785968 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
785895 CACAACATTA
*
785905 GTTCAACACCATAATTACTG
1 GTTCAGCACCATAATTACTG
785925 GTTCAGCACCATAATTACTG
1 GTTCAGCACCATAATTACTG
*
785945 GTTCGGCACCATAATTACTG
1 GTTCAGCACCATAATTACTG
785965 GTTC
1 GTTC
785969 GTAAAACATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (20 bp):
GTTCAGCACCATAATTACTG
Found at i:786301 original size:126 final size:126
Alignment explanation
Indices: 786076--786329 Score: 499
Period size: 126 Copynumber: 2.0 Consensus size: 126
786066 TGGTAATAAC
*
786076 TTGTTTGCTTTTCAACAATGATTGCAAATGTTGATAAGACTTACTTTGGATTCCATGCACTTAAA
1 TTGTTTGCTTTTCAACAATGATTGCAAATGTTGATAAGACTTACTTTGGATTCCATGAACTTAAA
786141 AGTATTAACATAAAGTGATAGCCAAAAATATTTTGTTTGTTTCAAGATTATGTTAATCCAT
66 AGTATTAACATAAAGTGATAGCCAAAAATATTTTGTTTGTTTCAAGATTATGTTAATCCAT
786202 TTGTTTGCTTTTCAACAATGATTGCAAATGTTGATAAGACTTACTTTGGATTCCATGAACTTAAA
1 TTGTTTGCTTTTCAACAATGATTGCAAATGTTGATAAGACTTACTTTGGATTCCATGAACTTAAA
786267 AGTATTAACATAAAGTGATAGCCAAAAATATTTTGTTTGTTTCAAGATTATGTTAATCCAT
66 AGTATTAACATAAAGTGATAGCCAAAAATATTTTGTTTGTTTCAAGATTATGTTAATCCAT
786328 TT
1 TT
786330 ACAAGATGTT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (126 bp):
TTGTTTGCTTTTCAACAATGATTGCAAATGTTGATAAGACTTACTTTGGATTCCATGAACTTAAA
AGTATTAACATAAAGTGATAGCCAAAAATATTTTGTTTGTTTCAAGATTATGTTAATCCAT
Found at i:786387 original size:18 final size:18
Alignment explanation
Indices: 786350--786387 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
786340 TATATGAAAG
* *
786350 AATAAATTTAATTTCGAA
1 AATAAATTGAATTTCAAA
786368 AATAAATTGAATTTCAAA
1 AATAAATTGAATTTCAAA
786386 AA
1 AA
786388 GATAAACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (18 bp):
AATAAATTGAATTTCAAA
Found at i:786784 original size:9 final size:9
Alignment explanation
Indices: 786739--786803 Score: 70
Period size: 9 Copynumber: 7.8 Consensus size: 9
786729 CCTCATTTTC
786739 TATTTT-TT
1 TATTTTCTT
786747 TA-TTT-TT
1 TATTTTCTT
786754 TA-TTT-TT
1 TATTTTCTT
*
786761 CATTTTCATT
1 TATTTTC-TT
786771 T-TTTTCTT
1 TATTTTCTT
786779 TATTTTCTT
1 TATTTTCTT
786788 TATTTTCTT
1 TATTTTCTT
786797 TATTTTC
1 TATTTTC
786804 ATTTTCATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
7 13 0.25
8 8 0.16
9 28 0.55
10 2 0.04
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (9 bp):
TATTTTCTT
Found at i:786821 original size:7 final size:8
Alignment explanation
Indices: 786734--786835 Score: 53
Period size: 9 Copynumber: 13.4 Consensus size: 8
786724 ATGACCCTCA
786734 TTTTCTATT
1 TTTTC-ATT
*
786743 TTTTTATT
1 TTTTCATT
786751 TTTT-A-T
1 TTTTCATT
786757 TTTTCA--
1 TTTTCATT
786763 TTTTCATTT
1 TTTTCA-TT
*
786772 TTTTCTTT
1 TTTTCATT
*
786780 ATTTTCTTT
1 -TTTTCATT
*
786789 ATTTTCTTT
1 -TTTTCATT
786798 ATTTTCA--
1 -TTTTCATT
786805 TTTTCATT
1 TTTTCATT
786813 TTTTC---
1 TTTTCATT
786818 TTTTCATT
1 TTTTCATT
786826 TTTTC-TT
1 TTTTCATT
786833 TTT
1 TTT
786836 CTTCTTCAAG
Statistics
Matches: 80, Mismatches: 3, Indels: 22
0.76 0.03 0.21
Matches are distributed among these distances:
5 5 0.06
6 17 0.21
7 7 0.09
8 19 0.24
9 32 0.40
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTCATT
Found at i:786829 original size:13 final size:13
Alignment explanation
Indices: 786756--786834 Score: 72
Period size: 13 Copynumber: 5.8 Consensus size: 13
786746 TTATTTTTTA
786756 TTTTTCATTTTCAT
1 TTTTTC-TTTTCAT
786770 TTTTT-TCTTT-ATT
1 TTTTTCT-TTTCA-T
* *
786783 TTCTTTATTTTCTT
1 TT-TTTCTTTTCAT
786797 TATTTTCATTTTCAT
1 T-TTTTC-TTTTCAT
786812 TTTTTCTTTTCAT
1 TTTTTCTTTTCAT
786825 TTTTTCTTTT
1 TTTTTCTTTT
786835 TCTTCTTCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
12 2 0.04
13 23 0.42
14 21 0.38
15 9 0.16
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTTCAT
Found at i:786836 original size:42 final size:41
Alignment explanation
Indices: 786734--786838 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 41
786724 ATGACCCTCA
*
786734 TTTTCTATTTTTTTATTT-TTTATTTTTCATTTTCATTTTTT
1 TTTTC-ATTTTTTTTTTTCTTTATTTTTCATTTTCATTTTTT
786775 TCTTT-ATTTTCTTTATTTTCTTTA-TTTTCATTTTCATTTTTT
1 T-TTTCATTTT-TTT-TTTTCTTTATTTTTCATTTTCATTTTTT
786817 CTTTTCATTTTTTCTTTTTCTT
1 -TTTTCATTTTTT-TTTTTCTT
786839 CTTCAAGTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 13
0.80 0.01 0.19
Matches are distributed among these distances:
40 5 0.09
41 4 0.07
42 36 0.64
43 11 0.20
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.78
Consensus pattern (41 bp):
TTTTCATTTTTTTTTTTCTTTATTTTTCATTTTCATTTTTT
Found at i:797461 original size:26 final size:26
Alignment explanation
Indices: 797421--797488 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 26
797411 TTAATACTTG
797421 AAAATAA-A-ATA-AAATACTAAT-AA
1 AAAATAATATATATAAATA-TAATGAA
*
797444 AAAATAATATATATAAATATTATGAA
1 AAAATAATATATATAAATATAATGAA
797470 AATAATAAGTATATATAAA
1 AA-AATAA-TATATATAAA
797489 AATTTTGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 7 0.18
24 1 0.03
25 6 0.16
26 9 0.24
27 5 0.13
28 10 0.26
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (26 bp):
AAAATAATATATATAAATATAATGAA
Found at i:797488 original size:28 final size:26
Alignment explanation
Indices: 797442--797498 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 26
797432 AAATACTAAT
*
797442 AAAAAATAATATATATAAATATTATG
1 AAAAAATAATATATATAAAAATTATG
*
797468 AAAATAATAAGTATATATAAAAATTTTG
1 AAAA-AATAA-TATATATAAAAATTATG
797496 AAA
1 AAA
797499 GGAAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 4 0.15
27 5 0.19
28 18 0.67
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAAAATAATATATATAAAAATTATG
Found at i:798796 original size:2 final size:2
Alignment explanation
Indices: 798789--798861 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
798779 TTTATCCTAA
798789 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
798831 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
798862 GTAACTAACT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:799969 original size:3 final size:3
Alignment explanation
Indices: 799961--800001 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
799951 AAAATTTATT
* *
799961 TAA TAA TAA TAA TAG TAG TAA -AA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
800002 ATTAATAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:799985 original size:20 final size:20
Alignment explanation
Indices: 799962--800009 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
799952 AAATTTATTT
* *
799962 AATAATAATAATAGTAGTAA
1 AATAATAATAATAATAATAA
799982 AATAATAATAATAATAATAA
1 AATAATAATAATAATAATAA
*
800002 ATTAATAA
1 AATAATAA
800010 ACAAAAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
AATAATAATAATAATAATAA
Found at i:800879 original size:11 final size:10
Alignment explanation
Indices: 800858--800883 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
800848 AGATTTATCA
800858 TTTTCTTTTT
1 TTTTCTTTTT
800868 TTTTCTTTTT
1 TTTTCTTTTT
800878 TTTTCT
1 TTTTCT
800884 CTCATTGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:800958 original size:34 final size:33
Alignment explanation
Indices: 800889--800992 Score: 172
Period size: 33 Copynumber: 3.1 Consensus size: 33
800879 TTTCTCTCAT
800889 TGTTCGAACCAAAACTGTACTACTATTTTTTAC
1 TGTTCGAACCAAAACTGTACTACTATTTTTTAC
* *
800922 TGTTCGAACCAAAATTGTACTGCTATTTTTTCAC
1 TGTTCGAACCAAAACTGTACTACTATTTTTT-AC
*
800956 TGTTCGAACCAAAACTATACTACTATTTTTTAC
1 TGTTCGAACCAAAACTGTACTACTATTTTTTAC
800989 TGTT
1 TGTT
800993 AGTGCACTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 35 0.54
34 30 0.46
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (33 bp):
TGTTCGAACCAAAACTGTACTACTATTTTTTAC
Found at i:801247 original size:30 final size:28
Alignment explanation
Indices: 801212--801297 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 28
801202 TTCGAACCAA
*
801212 ATATGTTTTTTTCTGCACTGTTTGAATCT
1 ATATGTTTTTTTCTGCACTGTTTGAA-CC
* *
801241 ACTATGTATTTTTATGCACTGTTTGAACC
1 A-TATGTTTTTTTCTGCACTGTTTGAACC
* * *
801270 AAATGAATTTTTTCTGCACTGTTCGAAC
1 ATATG-TTTTTTTCTGCACTGTTTGAAC
801298 AATGTATTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
28 3 0.06
29 21 0.45
30 23 0.49
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (28 bp):
ATATGTTTTTTTCTGCACTGTTTGAACC
Found at i:801291 original size:29 final size:30
Alignment explanation
Indices: 801218--801297 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
801208 CCAAATATGT
* * *
801218 TTTTTTCTGCACTGTTTGAATCTACTATGTA
1 TTTTTTCTGCACTGTTTGAA-CCACAATGAA
*
801249 -TTTTTATGCACTGTTTGAACCA-AATGAA
1 TTTTTTCTGCACTGTTTGAACCACAATGAA
*
801277 TTTTTTCTGCACTGTTCGAAC
1 TTTTTTCTGCACTGTTTGAAC
801298 AATGTATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 4 0.10
29 20 0.48
30 18 0.43
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (30 bp):
TTTTTTCTGCACTGTTTGAACCACAATGAA
Found at i:801495 original size:12 final size:12
Alignment explanation
Indices: 801480--801532 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
801470 AAATCAAAGG
801480 AAAATAAAATAA
1 AAAATAAAATAA
801492 AAAAT-AAATCAGA
1 AAAATAAAAT-A-A
**
801505 AAAATAAAATTG
1 AAAATAAAATAA
801517 AAAATAAAAATAA
1 AAAAT-AAAATAA
801530 AAA
1 AAA
801533 TTTAAGAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
11 4 0.12
12 11 0.33
13 14 0.42
14 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:801513 original size:6 final size:6
Alignment explanation
Indices: 801480--801557 Score: 50
Period size: 6 Copynumber: 12.2 Consensus size: 6
801470 AAATCAAAGG
* * * *
801480 AAAAT- AAAATAA AAAATA AATCAGA AAAATA AAATTG AAAATA AAAATA
1 AAAATA AAAAT-A AAAATA AA-AATA AAAATA AAAATA AAAATA AAAATA
*
801529 AAAATTTA AGAAACGA AAAATA AAAATA A
1 AAAA--TA A-AAA-TA AAAATA AAAATA A
801558 TAATGGGTTG
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
5 5 0.09
6 31 0.55
7 12 0.21
8 5 0.09
9 3 0.05
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:801937 original size:13 final size:12
Alignment explanation
Indices: 801901--801946 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
801891 AAAAGATTTC
*
801901 AAAGAAGATTAA
1 AAAGAAAATTAA
801913 AAAGAAAATTAA
1 AAAGAAAATTAA
* *
801925 AAAGAAAGTTTA
1 AAAGAAAATTAA
801937 AAAGAAAATT
1 AAAGAAAATT
801947 CAATATGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (12 bp):
AAAGAAAATTAA
Found at i:807700 original size:42 final size:42
Alignment explanation
Indices: 807621--807871 Score: 137
Period size: 42 Copynumber: 6.1 Consensus size: 42
807611 AAATGCGATA
* * * *
807621 TTTTTGTAATAAACGCCGCAATAGTTATGTAAC-TTAGCTGTG
1 TTTTTGTAATAAATGCCGCAATAGTCATG-CACTTTAGCTGCG
* *
807663 TTTTTGTAATAAATGCCTCAATAGTCATGCACTTTAGCGGCG
1 TTTTTGTAATAAATGCCGCAATAGTCATGCACTTTAGCTGCG
* * * *
807705 TTTTAG--ATAAATGTCGAAATAATCATGCACTTTAG-TGGCG
1 TTTTTGTAATAAATGCCGCAATAGTCATGCACTTTAGCT-GCG
* * ** *
807745 TTTTTGAAATAAACGTTGCTAA-A-TCATGCACTTTAGCGGCG
1 TTTTTGTAATAAATGCCGC-AATAGTCATGCACTTTAGCTGCG
* * * * *
807786 TTTTGGT--T-AATGACGCAATTGT-ATTGCAGTTTAG-TGATG
1 TTTTTGTAATAAATGCCGCAATAGTCA-TGCACTTTAGCTG-CG
* * * * * * *
807825 TTTATGGAATAAACGCCGCAATAGTCATGAACCTTAGCGGCA
1 TTTTTGTAATAAATGCCGCAATAGTCATGCACTTTAGCTGCG
807867 TTTTT
1 TTTTT
807872 ATAAACACCA
Statistics
Matches: 155, Mismatches: 39, Indels: 30
0.69 0.17 0.13
Matches are distributed among these distances:
37 2 0.01
38 7 0.05
39 16 0.10
40 33 0.21
41 24 0.15
42 69 0.45
43 4 0.03
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (42 bp):
TTTTTGTAATAAATGCCGCAATAGTCATGCACTTTAGCTGCG
Found at i:807731 original size:40 final size:41
Alignment explanation
Indices: 807682--807790 Score: 132
Period size: 40 Copynumber: 2.7 Consensus size: 41
807672 TAAATGCCTC
* * *
807682 AATAGTCATGCACTTTAGCGGCGTTTT-AGATAAATGTCGA
1 AATAATCATGCACTTTAGCGGCGTTTTGAAATAAACGTCGA
* * *
807722 AATAATCATGCACTTTAGTGGCGTTTTTGAAATAAACGTTGC
1 AATAATCATGCACTTTAGCGGCG-TTTTGAAATAAACGTCGA
*
807764 TA-AATCATGCACTTTAGCGGCGTTTTG
1 AATAATCATGCACTTTAGCGGCGTTTTG
807791 GTTAATGACG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 26 0.44
41 23 0.39
42 10 0.17
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (41 bp):
AATAATCATGCACTTTAGCGGCGTTTTGAAATAAACGTCGA
Found at i:807853 original size:81 final size:82
Alignment explanation
Indices: 807661--807870 Score: 203
Period size: 81 Copynumber: 2.6 Consensus size: 82
807651 AACTTAGCTG
* * * *
807661 TGTTTTTGTAATAAATGCCTCAATAGTCATGCACTTTAGCGGCGTTTTAGATAAATGTCGAAATA
1 TGTTTTTGAAATAAACGCCGCAATAGTCATGCACTTTAGCGGCGTTTTAGATAAATGACGAAATA
*
807726 ATCATGCACTTTAGTGG
66 ATCATGCACTTTAGTGA
* ** * * *
807743 CGTTTTTGAAATAAACGTTGCTAA-A-TCATGCACTTTAGCGGCGTTTT-GGTTAATGACGCAAT
1 TGTTTTTGAAATAAACGCCGC-AATAGTCATGCACTTTAGCGGCGTTTTAGATAAATGACGAAAT
** *
807805 TGT-ATTGCAGTTTAGTGA
65 AATCA-TGCACTTTAGTGA
* * * * *
807823 TGTTTATGGAATAAACGCCGCAATAGTCATGAACCTTAGCGGCATTTT
1 TGTTTTTGAAATAAACGCCGCAATAGTCATGCACTTTAGCGGCGTTTT
807871 TATAAACACC
Statistics
Matches: 102, Mismatches: 22, Indels: 9
0.77 0.17 0.07
Matches are distributed among these distances:
79 3 0.03
80 40 0.39
81 41 0.40
82 16 0.16
83 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (82 bp):
TGTTTTTGAAATAAACGCCGCAATAGTCATGCACTTTAGCGGCGTTTTAGATAAATGACGAAATA
ATCATGCACTTTAGTGA
Found at i:807988 original size:42 final size:42
Alignment explanation
Indices: 807942--808040 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
807932 TACACTTTAA
807942 CGGCGTTTTTGTAATCAACGTTGA-TGTAGCCATGCACCTTAG
1 CGGCGTTTTTGTAATCAACGTT-ACTGTAGCCATGCACCTTAG
* * *
807984 CGGCGTTTTTGTAATCATCGTTACTGTAGTCATGCACTTTAG
1 CGGCGTTTTTGTAATCAACGTTACTGTAGCCATGCACCTTAG
808026 CGGCGTTTTTGTAAT
1 CGGCGTTTTTGTAAT
808041 AATCGCCGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
41 1 0.02
42 52 0.98
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (42 bp):
CGGCGTTTTTGTAATCAACGTTACTGTAGCCATGCACCTTAG
Found at i:808302 original size:10 final size:10
Alignment explanation
Indices: 808287--808333 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
808277 TTTTTTTTAG
808287 GATTAAAATA
1 GATTAAAATA
808297 GATTAAAATA
1 GATTAAAATA
* *
808307 TATTAAATTA
1 GATTAAAATA
* *
808317 GATTGAAGTA
1 GATTAAAATA
808327 GATTAAA
1 GATTAAA
808334 TTATAAGATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (10 bp):
GATTAAAATA
Found at i:808331 original size:20 final size:20
Alignment explanation
Indices: 808287--808336 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
808277 TTTTTTTTAG
*
808287 GATTAAAATAGATTAAAATA
1 GATTAAATTAGATTAAAATA
* * *
808307 TATTAAATTAGATTGAAGTA
1 GATTAAATTAGATTAAAATA
808327 GATTAAATTA
1 GATTAAATTA
808337 TAAGATAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (20 bp):
GATTAAATTAGATTAAAATA
Found at i:808450 original size:10 final size:10
Alignment explanation
Indices: 808435--808482 Score: 78
Period size: 10 Copynumber: 4.8 Consensus size: 10
808425 TTTTTTAATT
808435 ATTAAATTAG
1 ATTAAATTAG
*
808445 ATTAAAGTAG
1 ATTAAATTAG
808455 ATTAAATTAG
1 ATTAAATTAG
*
808465 ATTAAAATAG
1 ATTAAATTAG
808475 ATTAAATT
1 ATTAAATT
808483 GCAAGATAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
ATTAAATTAG
Found at i:808460 original size:20 final size:20
Alignment explanation
Indices: 808435--808482 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
808425 TTTTTTAATT
*
808435 ATTAAATTAGATTAAAGTAG
1 ATTAAATTAGATTAAAATAG
808455 ATTAAATTAGATTAAAATAG
1 ATTAAATTAGATTAAAATAG
808475 ATTAAATT
1 ATTAAATT
808483 GCAAGATAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (20 bp):
ATTAAATTAGATTAAAATAG
Found at i:808545 original size:147 final size:147
Alignment explanation
Indices: 808278--808609 Score: 529
Period size: 147 Copynumber: 2.3 Consensus size: 147
808268 TACAAATTCT
* * * * * * * *
808278 TTTTTTTAGGATTAAAATAGATTAAAATATATTAAATTAGATTGAAGTAGATTAAATTATAAGAT
1 TTTTTTAATGATTAAATTAGATTAAAGTAGATTAAATTAGATTAAAATAGATTAAATTACAAGAT
* *
808343 AGATAAAAATATATTGATATTAGATAAATAAACATACTAATTTTTTGAAACATAAAAATACAACA
66 AGATAAAAATACATTGAAATTAGATAAATAAACATACTAATTTTTTGAAACATAAAAATACAACA
* * *
808408 AACATTAAAATATAGAA
131 AACATAAAAACATAAAA
* *
808425 TTTTTTAATTATTAAATTAGATTAAAGTAGATTAAATTAGATTAAAATAGATTAAATTGCAAGAT
1 TTTTTTAATGATTAAATTAGATTAAAGTAGATTAAATTAGATTAAAATAGATTAAATTACAAGAT
808490 AGATAAAAATACATTGAAATTAGATAAATAAACATACTAATTTTTTGAAACATAAAAATACAACA
66 AGATAAAAATACATTGAAATTAGATAAATAAACATACTAATTTTTTGAAACATAAAAATACAACA
808555 AACATAAAAACATAAAA
131 AACATAAAAACATAAAA
808572 TTTTTTAATGATTAAATTAGATTAAAGTAGATTAAATT
1 TTTTTTAATGATTAAATTAGATTAAAGTAGATTAAATT
808610 GCTTACCCGA
Statistics
Matches: 169, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
147 169 1.00
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (147 bp):
TTTTTTAATGATTAAATTAGATTAAAGTAGATTAAATTAGATTAAAATAGATTAAATTACAAGAT
AGATAAAAATACATTGAAATTAGATAAATAAACATACTAATTTTTTGAAACATAAAAATACAACA
AACATAAAAACATAAAA
Found at i:810816 original size:12 final size:12
Alignment explanation
Indices: 810801--810843 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
810791 AAGCTAAAGC
810801 GAGAGAAGCAGA
1 GAGAGAAGCAGA
*
810813 GAGAGCAGC-GA
1 GAGAGAAGCAGA
810824 GAGA-AA-CAGA
1 GAGAGAAGCAGA
810834 GAGAGAAGCA
1 GAGAGAAGCA
810844 TCATTTCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
9 1 0.04
10 7 0.27
11 8 0.31
12 10 0.38
ACGTcount: A:0.49, C:0.12, G:0.40, T:0.00
Consensus pattern (12 bp):
GAGAGAAGCAGA
Found at i:810822 original size:21 final size:21
Alignment explanation
Indices: 810798--810838 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
810788 CCGAAGCTAA
*
810798 AGCGAGAGAAGCAGAGAGAGC
1 AGCGAGAGAAACAGAGAGAGC
810819 AGCGAGAGAAACAGAGAGAG
1 AGCGAGAGAAACAGAGAGAG
810839 AAGCATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.41, T:0.00
Consensus pattern (21 bp):
AGCGAGAGAAACAGAGAGAGC
Found at i:811131 original size:11 final size:11
Alignment explanation
Indices: 811117--811144 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
811107 AAAATAGGAA
811117 GAAAATATGTT
1 GAAAATATGTT
811128 GAAAATATGTT
1 GAAAATATGTT
811139 GAAAAT
1 GAAAAT
811145 CAATTTCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (11 bp):
GAAAATATGTT
Found at i:812484 original size:65 final size:65
Alignment explanation
Indices: 812325--812510 Score: 200
Period size: 65 Copynumber: 2.9 Consensus size: 65
812315 TGACCGTTGG
* * * *
812325 ATCCTTAGTGCATCGGTGCACTAAG-AGTGCATTGATGCATCAAGTGCATTCGATG-TTTCAAAA
1 ATCCTCAGTGCATCGGTGCACT-GGTAGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAA
812388 T
65 T
* ** * * * *
812389 AGCCAGAGTGCATCGATGCATTGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA
1 ATCCTCAGTGCATCGGTGCACTGGTAGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAA
812454 -
65 T
* *
812454 ATCCTCAGTGCATCGGTGCA-TGGTATGTGCATCGATGCATGAAATGCATTCAATGTT
1 ATCCTCAGTGCATCGGTGCACTGGTA-GTGCATCGATGCATCAAATGCATTCGATGTT
812511 CAATTTAATT
Statistics
Matches: 100, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
64 47 0.47
65 50 0.50
66 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (65 bp):
ATCCTCAGTGCATCGGTGCACTGGTAGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAT
Found at i:812549 original size:65 final size:63
Alignment explanation
Indices: 812351--812560 Score: 187
Period size: 65 Copynumber: 3.3 Consensus size: 63
812341 TGCACTAAGA
* * * * * *
812351 GTGCATTGATGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAGAGTGCATCGATGCATTGCT
1 GTGCATCGATGCATCAAATGCATTCAATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTT
812414 G
63 G
* *
812415 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCAATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-T
812480 -
63 G
* **
812480 GTGCATCGATGCATGAAATGCATTCAATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCAATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-T
812543 TG
62 TG
*
812545 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
812561 CTCTTAAAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 48 0.39
65 63 0.51
66 5 0.04
67 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCAATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTG
Found at i:813610 original size:21 final size:21
Alignment explanation
Indices: 813586--813629 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
813576 GAGCTGGAGG
* *
813586 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
813607 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
813628 AG
1 AG
813630 CTCCCGGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:821087 original size:18 final size:17
Alignment explanation
Indices: 821033--821081 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
821023 TTGGATCCTT
* *
821033 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
821051 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
821069 AGTGCATTCGATG
1 AGTGCA-TCGATG
821082 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:821194 original size:65 final size:65
Alignment explanation
Indices: 821027--821212 Score: 202
Period size: 65 Copynumber: 2.9 Consensus size: 65
821017 TGACCGTTGG
* *
821027 ATCCTTAGTGCATCGGTGCACTAAG-A-GTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAA
1 ATCCTCAGTGCATCGGTGCA-T-AGTATGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAA
821089 AT
64 AT
* ** * * *
821091 AGCCAGAGTGCATCGATGTATTGT-TGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAA
1 ATCCTCAGTGCATCGGTGCATAGTAT-GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AA
821155 A-
64 AT
* * *
821156 ATCCTCAGTGCATCGGTGCATGGTATGTGCATCTATGCATGAAATGCATTCGATGTT
1 ATCCTCAGTGCATCGGTGCATAGTATGTGCATCGATGCATCAAATGCATTCGATGTT
821213 CAATTTAATT
Statistics
Matches: 101, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 43 0.43
65 52 0.51
66 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (65 bp):
ATCCTCAGTGCATCGGTGCATAGTATGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAT
Found at i:821251 original size:65 final size:63
Alignment explanation
Indices: 821053--821253 Score: 187
Period size: 65 Copynumber: 3.1 Consensus size: 63
821043 TGCACTAAGA
* * * *
821053 GTGCATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAGAGTGCATCGATGTATTGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTT
821116 G
63 G
*
821117 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-T
821182 -
63 G
* * ** *
821182 GTGCATCTATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTTCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-T
821245 TG
62 TG
821247 GTGCATC
1 GTGCATC
821254 ACTCTTAAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 48 0.41
65 56 0.48
66 5 0.04
67 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTG
Found at i:829698 original size:6 final size:6
Alignment explanation
Indices: 829683--829742 Score: 86
Period size: 6 Copynumber: 10.2 Consensus size: 6
829673 CTCGGCTCGC
* * *
829683 TCGT-G TCGTGG TCGTGG TCGAGG TCGAGG TCGAGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
829730 TCGTGG TCGTGG T
1 TCGTGG TCGTGG T
829743 AATACGTGTC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
5 4 0.08
6 48 0.92
ACGTcount: A:0.05, C:0.17, G:0.48, T:0.30
Consensus pattern (6 bp):
TCGTGG
Found at i:837078 original size:20 final size:21
Alignment explanation
Indices: 837053--837098 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
837043 AAAATTGCTC
837053 AAAAATTAAA-TA-TCAAAAAT
1 AAAAATTAAATTACT-AAAAAT
837073 AAAAATTAAATTACTAAAAAT
1 AAAAATTAAATTACTAAAAAT
837094 AAAAA
1 AAAAA
837099 ATATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.42
21 13 0.54
22 1 0.04
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAATTAAATTACTAAAAAT
Found at i:837091 original size:21 final size:20
Alignment explanation
Indices: 837053--837098 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 20
837043 AAAATTGCTC
837053 AAAAATTAAATATCAAAAAT
1 AAAAATTAAATATCAAAAAT
837073 AAAAATTAAAT-TACTAAAAAT
1 AAAAATTAAATAT-C-AAAAAT
837094 AAAAA
1 AAAAA
837099 ATATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 12 0.50
21 11 0.46
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATTAAATATCAAAAAT
Found at i:838413 original size:26 final size:26
Alignment explanation
Indices: 838384--838446 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
838374 TTATTTCGGG
838384 TCGGGTCGGGTTTCTAAGTTATATAT
1 TCGGGTCGGGTTTCTAAGTTATATAT
838410 TCGGGTCGGGTTTCTAAGTTATATAT
1 TCGGGTCGGGTTTCTAAGTTATATAT
838436 TCGGGTCGGGT
1 TCGGGTCGGGT
838447 CGGGTCGGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.16, C:0.13, G:0.32, T:0.40
Consensus pattern (26 bp):
TCGGGTCGGGTTTCTAAGTTATATAT
Found at i:838413 original size:31 final size:31
Alignment explanation
Indices: 838378--838451 Score: 113
Period size: 26 Copynumber: 2.5 Consensus size: 31
838368 TTTTTTTTAT
838378 TTCGGGTCGGGTCGGGTTTCTAAGTTATATA
1 TTCGGGTCGGGTCGGGTTTCTAAGTTATATA
838409 -T----TCGGGTCGGGTTTCTAAGTTATATA
1 TTCGGGTCGGGTCGGGTTTCTAAGTTATATA
838435 TTCGGGTCGGGTCGGGT
1 TTCGGGTCGGGTCGGGT
838452 CGGGTGAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
26 25 0.66
27 1 0.03
30 1 0.03
31 11 0.29
ACGTcount: A:0.14, C:0.14, G:0.35, T:0.38
Consensus pattern (31 bp):
TTCGGGTCGGGTCGGGTTTCTAAGTTATATA
Found at i:841504 original size:39 final size:37
Alignment explanation
Indices: 841453--841566 Score: 108
Period size: 38 Copynumber: 3.0 Consensus size: 37
841443 TTCTGATATG
841453 TAAAAA-TAAATAAATCGTTAGATTTATTTTCCTATT
1 TAAAAAGTAAATAAATCGTTAGATTTATTTTCCTATT
* *
841489 TAAAAAAAGTAAATAAATC-ATAGAATTTAGTTTT-CTGGTT
1 T--AAAAAGTAAATAAATCGTTAG-ATTTA-TTTTCCT-ATT
* * * *
841529 TTAAAAGGAAATAAATCGTTGGATTTAGTTTCCTATT
1 TAAAAAGTAAATAAATCGTTAGATTTATTTTCCTATT
841566 T
1 T
841567 TGTAAATGGA
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
36 1 0.02
37 6 0.10
38 29 0.47
39 19 0.31
40 7 0.11
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (37 bp):
TAAAAAGTAAATAAATCGTTAGATTTATTTTCCTATT
Found at i:847182 original size:18 final size:18
Alignment explanation
Indices: 847155--847281 Score: 209
Period size: 18 Copynumber: 6.9 Consensus size: 18
847145 ACTGAATATT
847155 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
847173 TGTCCTGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
847191 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
847209 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
847227 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
847245 TGTCTCGAAGGACCACTGTT
1 TGTCCCGAAGGACCAC--TA
847265 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
847282 GATAATCCCT
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
18 86 0.84
20 16 0.16
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:848648 original size:64 final size:63
Alignment explanation
Indices: 848574--848714 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 63
848564 TCTTTAACAT
* * *
848574 GTGCATCGATGCACTACTCATGCATAGATACACAAATTACCTTCGATGTTTTCAT-TTTAAGGG
1 GTGCATCGATGCACTACTCATGCATAGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * * * * *
848637 GATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACTCATGCATAGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
848701 GTGCATCGATGCAC
1 GTGCATCGATGCAC
848715 ATTCAATGTG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
63 19 0.29
64 47 0.71
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACTCATGCATAGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:852840 original size:18 final size:19
Alignment explanation
Indices: 852819--852858 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
852809 TTCTTTTTGA
852819 TTTA-TTCCTTTCTTTTA-T
1 TTTATTTCCTTT-TTTTACT
852837 TTTATTTCCTTTTTTTACT
1 TTTATTTCCTTTTTTTACT
852856 TTT
1 TTT
852859 CTCTCTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTCCTTTTTTTACT
Found at i:860966 original size:19 final size:19
Alignment explanation
Indices: 860942--860978 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
860932 ATGATTAACA
*
860942 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
860961 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
860979 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:862228 original size:21 final size:21
Alignment explanation
Indices: 862202--862277 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
862192 GATAGTCAGA
862202 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
862223 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
**
862244 ATCGCGTTGCGA-TA-GTCAGA
1 ATCGCGTTGCGATTATGT-ATT
862264 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
862278 TACATATTCG
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.04
20 15 0.29
21 34 0.67
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:862276 original size:20 final size:20
Alignment explanation
Indices: 862168--862276 Score: 114
Period size: 20 Copynumber: 5.3 Consensus size: 20
862158 AAATTCAGCA
* *
862168 TTGCGACAGTCAGAATCGTG
1 TTGCGATAGTCAGAATCGCG
862188 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
**
862208 TTGCGATTATGT-ATTATCGCG
1 TTGCGA-TA-GTCAGAATCGCG
**
862229 TTGCGATTATGT-ATTATCGCG
1 TTGCGA-TA-GTCAGAATCGCG
862250 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
862270 TTGCGAT
1 TTGCGAT
862277 TTACATATTC
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.03
20 40 0.50
21 36 0.45
22 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:863756 original size:43 final size:43
Alignment explanation
Indices: 863675--864003 Score: 344
Period size: 43 Copynumber: 7.7 Consensus size: 43
863665 CACAATAGTT
* * *
863675 AAGATCTATAGTGGCG-TTTCGGAACAAACACCGCAAAAGGTC
1 AAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC
* * *
863717 AAGATCTATAGCGGCGTTTTTGGAACAAACGTCGTAAAAGGTT
1 AAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC
* * * * *
863760 GATATTTATAGCGGCATTTTTAGAACAAACGCCGCAAAAGGTC
1 AAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC
* * * * * *
863803 AATATCTATAGCGGCATTTTTGAAACAAATGCCACAAAAGATC
1 AAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC
* *
863846 AAGATCTATAGCGACGTTTTTGGAACAAACGTCGCAAAAGGTC
1 AAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC
* * * *
863889 -AGATCTATAGCGACGTTTCCT-GAAGAAACACCGCAAAAGGTC
1 AAGATCTATAGCGGCGTTT-TTGGAACAAACGCCGCAAAAGGTC
* * **
863931 -AGATCTATAGCGACGCTTTTGGAACAAGTGCCGCAAAAGGT-
1 AAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC
* *
863972 AAGATCTATAGCAGCGTTTTTTGATACAAACG
1 AAGATCTATAGCGGCGTTTTTGGA-ACAAACG
864004 TCGTTAATTA
Statistics
Matches: 237, Mismatches: 45, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
41 1 0.00
42 103 0.43
43 133 0.56
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (43 bp):
AAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC
Found at i:864993 original size:13 final size:13
Alignment explanation
Indices: 864975--865021 Score: 94
Period size: 13 Copynumber: 3.6 Consensus size: 13
864965 GAACATTTAA
864975 AAGGATCACATTC
1 AAGGATCACATTC
864988 AAGGATCACATTC
1 AAGGATCACATTC
865001 AAGGATCACATTC
1 AAGGATCACATTC
865014 AAGGATCA
1 AAGGATCA
865022 TATACCAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (13 bp):
AAGGATCACATTC
Found at i:866545 original size:83 final size:82
Alignment explanation
Indices: 866427--866664 Score: 212
Period size: 83 Copynumber: 2.9 Consensus size: 82
866417 CATATCAAAC
* * * **
866427 TATTGCGGCGTTTGTAAAAAATGCCGCTAACGTACTACTCTGTCGCGGCGTTTGTTGAAAAAATG
1 TATTGCGGAGTTTGTAAAAAATGCCGCTAACGTACTACTCTATCGCGGCGTTTATTGAAAAAACA
866492 CCACTATGAATGAACTT
66 CCACTATGAATGAACTT
* * * * *
866509 TATTGTGGAGTTTGTATAAAAATGTCGTTAAGGTACTACTCTATCGCGGTGTTTATTGAAAAAAC
1 TATTGCGGAGTTTGTA-AAAAATGCCGCTAACGTACTACTCTATCGCGGCGTTTATTGAAAAAAC
*
866574 ACCACTAT-AGATGAA-TCA
65 ACCACTATGA-ATGAACT-T
* * * ** * ** * *
866592 TACTAC-GACATTTGTATAAAAACACCGCTAAAGTACTACTCTATCATGACATTTATTGAAAAAA
1 TATTGCGGA-GTTTGTA-AAAAATGCCGCTAACGTACTACTCTATCGCGGCGTTTATTGAAAAAA
*
866656 CGCCACTAT
64 CACCACTAT
866665 AGATTAACCC
Statistics
Matches: 126, Mismatches: 26, Indels: 7
0.79 0.16 0.04
Matches are distributed among these distances:
82 18 0.14
83 108 0.86
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (82 bp):
TATTGCGGAGTTTGTAAAAAATGCCGCTAACGTACTACTCTATCGCGGCGTTTATTGAAAAAACA
CCACTATGAATGAACTT
Found at i:866643 original size:41 final size:41
Alignment explanation
Indices: 866598--866750 Score: 107
Period size: 42 Copynumber: 3.7 Consensus size: 41
866588 ATCATACTAC
866598 GACATTTGTATAAAAACACCGCTAAAGTACTACTCTATCAT
1 GACATTTGTATAAAAACACCGCTAAAGTACTACTCTATCAT
* * * * * *
866639 GACATTTAT-TGAAAAAACGCCACTATAG-ATTAACCCTAT--T
1 GACATTTGTAT--AAAAACACCGCTAAAGTACT-ACTCTATCAT
* * * *
866679 GCAGCATTTGTATAAAAACATCGCTAAAGTACTACTATGTCAC
1 G-A-CATTTGTATAAAAACACCGCTAAAGTACTACTCTATCAT
* **
866722 GACGTTTCGTATAAAAATGCCGCTAAAGT
1 GACATTT-GTATAAAAACACCGCTAAAGT
866751 TATCATTTCG
Statistics
Matches: 82, Mismatches: 20, Indels: 19
0.68 0.17 0.16
Matches are distributed among these distances:
40 3 0.04
41 31 0.38
42 46 0.56
43 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (41 bp):
GACATTTGTATAAAAACACCGCTAAAGTACTACTCTATCAT
Found at i:866665 original size:83 final size:83
Alignment explanation
Indices: 866560--866714 Score: 231
Period size: 83 Copynumber: 1.9 Consensus size: 83
866550 TATCGCGGTG
*
866560 TTTATTGAAAAAACACCACTATAGATGAATCATACTAC-GACATTTGTATAAAAACACCGCTAAA
1 TTTATTGAAAAAACACCACTATAGATGAACCATACTACAG-CATTTGTATAAAAACACCGCTAAA
866624 GTACTACTCTATCATGACA
65 GTACTACTCTATCATGACA
* * * * * *
866643 TTTATTGAAAAAACGCCACTATAGATTAACCCTATTGCAGCATTTGTATAAAAACATCGCTAAAG
1 TTTATTGAAAAAACACCACTATAGATGAACCATACTACAGCATTTGTATAAAAACACCGCTAAAG
866708 TACTACT
66 TACTACT
866715 ATGTCACGAC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
83 63 0.98
84 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (83 bp):
TTTATTGAAAAAACACCACTATAGATGAACCATACTACAGCATTTGTATAAAAACACCGCTAAAG
TACTACTCTATCATGACA
Found at i:876329 original size:3 final size:3
Alignment explanation
Indices: 876323--876381 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
876313 TTATTATAGT
* * *
876323 TTA TTA TTA TTT TTA ATA TTA TATA ATA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
*
876368 -TA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA
876382 AAAGGTTAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
2 4 0.09
3 39 0.87
4 2 0.04
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:883135 original size:20 final size:20
Alignment explanation
Indices: 883110--883179 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
883100 TGTCTACATG
883110 CCCCAACCCCAGCCTGCCCA
1 CCCCAACCCCAGCCTGCCCA
*
883130 CCCCAACCGCAG-C--CCCA
1 CCCCAACCCCAGCCTGCCCA
* *
883147 GTCCCAGCCCCAGCCTGCCCA
1 -CCCCAACCCCAGCCTGCCCA
883168 CCCC-ACCCCAGC
1 CCCCAACCCCAGC
883180 TTGCACTCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
17 4 0.10
18 9 0.22
19 9 0.22
20 14 0.35
21 4 0.10
ACGTcount: A:0.19, C:0.64, G:0.13, T:0.04
Consensus pattern (20 bp):
CCCCAACCCCAGCCTGCCCA
Found at i:883195 original size:5 final size:5
Alignment explanation
Indices: 883187--883211 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
883177 AGCTTGCACT
883187 CCACA CCACA CCACA CCACA CCACA
1 CCACA CCACA CCACA CCACA CCACA
883212 ACTAGATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.60, G:0.00, T:0.00
Consensus pattern (5 bp):
CCACA
Found at i:887868 original size:13 final size:13
Alignment explanation
Indices: 887850--887879 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
887840 TTTTCATACA
887850 TGCATTTTCATTT
1 TGCATTTTCATTT
887863 TGCATTTTCATTT
1 TGCATTTTCATTT
887876 TGCA
1 TGCA
887880 CTCGTACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.57
Consensus pattern (13 bp):
TGCATTTTCATTT
Found at i:893826 original size:54 final size:54
Alignment explanation
Indices: 893759--893912 Score: 254
Period size: 54 Copynumber: 2.9 Consensus size: 54
893749 AAATCTTGGC
893759 AGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTAGGA
1 AGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTAGGA
* * *
893813 AGAAGCCATAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTATGT
1 AGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTAGGA
* * *
893867 AGAAGCCACAGGAAATGATGAATGTGTTGTCAAGTGTTTTACGAAC
1 AGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
893913 CAACGATTTT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 93 1.00
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (54 bp):
AGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTAGGA
Found at i:894302 original size:22 final size:22
Alignment explanation
Indices: 894274--894333 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
894264 TCTACATCTA
894274 CATTCTTCAAAGATGATAGATT
1 CATTCTTCAAAGATGATAGATT
*
894296 CATTCTTCAAAGATGATATATT
1 CATTCTTCAAAGATGATAGATT
*
894318 C-TCTTTTCAAAGATGA
1 CAT-TCTTCAAAGATGA
894334 AAGCTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (22 bp):
CATTCTTCAAAGATGATAGATT
Found at i:895086 original size:26 final size:26
Alignment explanation
Indices: 895057--895180 Score: 69
Period size: 26 Copynumber: 5.2 Consensus size: 26
895047 TATATGTAAG
895057 ACCTTCAGTGCATGATGTTTTCAAAA
1 ACCTTCAGTGCATGATGTTTTCAAAA
* * *
895083 ACCTTC-GGGTCAT-CTG---T--AAG
1 ACCTTCAGTG-CATGATGTTTTCAAAA
895103 ACCTTCAGTGCATGATGTTTTCAAAA
1 ACCTTCAGTGCATGATGTTTTCAAAA
* * * *
895129 ACCTT-TGGGTCAT-CTG---T--AAG
1 ACCTTCAGTG-CATGATGTTTTCAAAA
895149 ACCTTCAGTGCATGATGTTTTCAAAA
1 ACCTTCAGTGCATGATGTTTTCAAAA
895175 ACCTTC
1 ACCTTC
895181 GGGTCATCTG
Statistics
Matches: 68, Mismatches: 14, Indels: 32
0.60 0.12 0.28
Matches are distributed among these distances:
20 21 0.31
21 8 0.12
22 2 0.03
24 2 0.03
25 8 0.12
26 27 0.40
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (26 bp):
ACCTTCAGTGCATGATGTTTTCAAAA
Found at i:895101 original size:46 final size:45
Alignment explanation
Indices: 895002--895465 Score: 784
Period size: 45 Copynumber: 10.2 Consensus size: 45
894992 CTATTTCCCA
*
895002 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTGGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
895047 TATATGTAAGACCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
*
895093 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAACCTTTGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
895139 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
*
895185 CATCTGTAAGACCTTCAATGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
*
895231 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
895276 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGAT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
895321 CATCTGTAAGACCTTCAGTGCATGATGTTATCAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
895366 CATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAAACCTTCTGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
**
895411 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAGTCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
895456 CATCTGTAAG
1 CATCTGTAAG
895466 TCTTCTGAGA
Statistics
Matches: 397, Mismatches: 21, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
45 222 0.56
46 175 0.44
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (45 bp):
CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:895635 original size:3 final size:3
Alignment explanation
Indices: 895627--895677 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
895617 TAATTTTTTC
895627 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
895674 ATT A
1 ATT A
895678 AATAAAAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:897024 original size:12 final size:11
Alignment explanation
Indices: 897001--897040 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
896991 AATTTCAATA
897001 TATTTAAATTAT
1 TATTT-AATTAT
897013 TACTTTAATTAT
1 TA-TTTAATTAT
*
897025 TATTTTATTAT
1 TATTTAATTAT
897036 TATTT
1 TATTT
897041 TCATCTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 13 0.50
12 10 0.38
13 3 0.12
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTAATTAT
Found at i:897062 original size:2 final size:2
Alignment explanation
Indices: 897055--897083 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
897045 CTTAGTCATA
897055 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
897084 TCATTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:897398 original size:19 final size:20
Alignment explanation
Indices: 897374--897423 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
897364 TATTCACTTC
897374 ATTTTTATT-AT-TTTATTAT
1 ATTTTTATTAATGTTTATT-T
897393 ATTTTTATTAATGTTTATTT
1 ATTTTTATTAATGTTTATTT
897413 ATTTTT-TTAAT
1 ATTTTTATTAAT
897424 ATTAAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 14 0.48
20 9 0.31
21 6 0.21
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
ATTTTTATTAATGTTTATTT
Found at i:898324 original size:16 final size:16
Alignment explanation
Indices: 898257--898324 Score: 70
Period size: 16 Copynumber: 4.3 Consensus size: 16
898247 ATGAGATTAA
*
898257 AAAAATCTAAAAAATT
1 AAAAATCTAAGAAATT
*
898273 AGAAATCTAAGAAATT
1 AAAAATCTAAGAAATT
*
898289 -AAAATGGATAA-AAA-T
1 AAAAAT--CTAAGAAATT
898304 AAAAATCTAAGAAATT
1 AAAAATCTAAGAAATT
898320 AAAAA
1 AAAAA
898325 AAATGATGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
14 3 0.07
15 8 0.19
16 28 0.67
17 3 0.07
ACGTcount: A:0.66, C:0.04, G:0.07, T:0.22
Consensus pattern (16 bp):
AAAAATCTAAGAAATT
Found at i:901785 original size:53 final size:54
Alignment explanation
Indices: 901615--901839 Score: 337
Period size: 54 Copynumber: 4.2 Consensus size: 54
901605 CTATGTGTAC
** *
901615 TATAGGCACTATGTGTATAACCCACAAAATTCATCATATGTTGATGAACGATCG
1 TATAGGCACTATGTGTGCAACCCACAAAATTCATCATATGTTGATGAACGACCG
* *
901669 TATAGGCACTATGTGTGCAACCCACAAAATTCATCATATGTTGATGAATGACTG
1 TATAGGCACTATGTGTGCAACCCACAAAATTCATCATATGTTGATGAACGACCG
*
901723 TATAGGCACTATGTGTGCAACCCACAGAATTCATC-TATGTTGATGAACGACCG
1 TATAGGCACTATGTGTGCAACCCACAAAATTCATCATATGTTGATGAACGACCG
** * *
901776 TATAGGCACTATGTGTGCAACCCACAAAATTCATCATGGGTTAATGAATGA-CG
1 TATAGGCACTATGTGTGCAACCCACAAAATTCATCATATGTTGATGAACGACCG
*
901829 TATTGGCACTA
1 TATAGGCACTA
901840 CGTATGCATC
Statistics
Matches: 156, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
53 62 0.40
54 94 0.60
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (54 bp):
TATAGGCACTATGTGTGCAACCCACAAAATTCATCATATGTTGATGAACGACCG
Found at i:901802 original size:107 final size:107
Alignment explanation
Indices: 901615--901839 Score: 362
Period size: 107 Copynumber: 2.1 Consensus size: 107
901605 CTATGTGTAC
* *
901615 TATAGGCACTATGTGTATAACCCACAAAATTCATCATATGTTGATGAACGATCGTATAGGCACTA
1 TATAGGCACTATGTGTACAACCCACAAAATTCATCATATGTTGATGAACGACCGTATAGGCACTA
* *
901680 TGTGTGCAACCCACAAAATTCATCATATGTTGATGAATGACTG
66 TGTGTGCAACCCACAAAATTCATCATAGGTTAATGAATGAC-G
* *
901723 TATAGGCACTATGTGTGCAACCCACAGAATTCATC-TATGTTGATGAACGACCGTATAGGCACTA
1 TATAGGCACTATGTGTACAACCCACAAAATTCATCATATGTTGATGAACGACCGTATAGGCACTA
*
901787 TGTGTGCAACCCACAAAATTCATCATGGGTTAATGAATGACG
66 TGTGTGCAACCCACAAAATTCATCATAGGTTAATGAATGACG
*
901829 TATTGGCACTA
1 TATAGGCACTA
901840 CGTATGCATC
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
106 11 0.10
107 66 0.61
108 32 0.29
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (107 bp):
TATAGGCACTATGTGTACAACCCACAAAATTCATCATATGTTGATGAACGACCGTATAGGCACTA
TGTGTGCAACCCACAAAATTCATCATAGGTTAATGAATGACG
Found at i:912539 original size:19 final size:19
Alignment explanation
Indices: 912515--912555 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
912505 CGACCCGACG
912515 ACCCGCTTGAT-CTGATCTA
1 ACCCGCTTGATCCT-ATCTA
*
912534 ACCCGCTTTATCCTATCTA
1 ACCCGCTTGATCCTATCTA
912553 ACC
1 ACC
912556 TGACCCGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.22, C:0.37, G:0.10, T:0.32
Consensus pattern (19 bp):
ACCCGCTTGATCCTATCTA
Found at i:915412 original size:19 final size:19
Alignment explanation
Indices: 915390--915426 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
915380 CTAACCAACC
*
915390 TGATCTAATTTAACCCAAT
1 TGATCCAATTTAACCCAAT
*
915409 TGATCCGATTTAACCCAA
1 TGATCCAATTTAACCCAA
915427 CCCGTAACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (19 bp):
TGATCCAATTTAACCCAAT
Found at i:931389 original size:129 final size:129
Alignment explanation
Indices: 931159--931416 Score: 516
Period size: 129 Copynumber: 2.0 Consensus size: 129
931149 CGCAAGCGAA
931159 CTTGGAGCATTGCAAGAGCTGCCATTGCTGCCCACTCTCCATTTTACATTGTTTATTTGGACTTG
1 CTTGGAGCATTGCAAGAGCTGCCATTGCTGCCCACTCTCCATTTTACATTGTTTATTTGGACTTG
931224 GTTCTGACTTGATTTTCATGGGAACTTCTCTTTGATTGAACTCCGTTGAAAGGTGTAATAGAAG
66 GTTCTGACTTGATTTTCATGGGAACTTCTCTTTGATTGAACTCCGTTGAAAGGTGTAATAGAAG
931288 CTTGGAGCATTGCAAGAGCTGCCATTGCTGCCCACTCTCCATTTTACATTGTTTATTTGGACTTG
1 CTTGGAGCATTGCAAGAGCTGCCATTGCTGCCCACTCTCCATTTTACATTGTTTATTTGGACTTG
931353 GTTCTGACTTGATTTTCATGGGAACTTCTCTTTGATTGAACTCCGTTGAAAGGTGTAATAGAAG
66 GTTCTGACTTGATTTTCATGGGAACTTCTCTTTGATTGAACTCCGTTGAAAGGTGTAATAGAAG
931417 ATGGATATAT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (129 bp):
CTTGGAGCATTGCAAGAGCTGCCATTGCTGCCCACTCTCCATTTTACATTGTTTATTTGGACTTG
GTTCTGACTTGATTTTCATGGGAACTTCTCTTTGATTGAACTCCGTTGAAAGGTGTAATAGAAG
Found at i:931852 original size:56 final size:56
Alignment explanation
Indices: 931785--931898 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
931775 CCTCAAGTTG
*
931785 AGGCATAAAAATTAATTATACTTAGCTTGTTACATAAATAAACTCTATTTTCGTTT
1 AGGCATAAAAATTAATTATACTTAGCTTGTTACATAAATAAACTCTATTTTCATTT
931841 AGGCATAAAAATTAATTATACTTAGCTTGTTACATAAATAAACTCTATTTTCATTT
1 AGGCATAAAAATTAATTATACTTAGCTTGTTACATAAATAAACTCTATTTTCATTT
931897 AG
1 AG
931899 TGTCTTTGGG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (56 bp):
AGGCATAAAAATTAATTATACTTAGCTTGTTACATAAATAAACTCTATTTTCATTT
Found at i:931877 original size:29 final size:29
Alignment explanation
Indices: 931788--931878 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
931778 CAAGTTGAGG
931788 CATAAAAATTAATTATACTTAGCTTGTTA
1 CATAAAAATTAATTATACTTAGCTTGTTA
* * * ** *
931817 CAT--AAATAAACTCTA-TTTTCGT-TTA
1 CATAAAAATTAATTATACTTAGCTTGTTA
931842 GGCATAAAAATTAATTATACTTAGCTTGTTA
1 --CATAAAAATTAATTATACTTAGCTTGTTA
931873 CATAAA
1 CATAAA
931879 TAAACTCTAT
Statistics
Matches: 44, Mismatches: 12, Indels: 12
0.65 0.18 0.18
Matches are distributed among these distances:
25 3 0.07
26 4 0.09
27 12 0.27
29 18 0.41
30 4 0.09
31 3 0.07
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.40
Consensus pattern (29 bp):
CATAAAAATTAATTATACTTAGCTTGTTA
Found at i:932295 original size:3 final size:3
Alignment explanation
Indices: 932282--932332 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
932272 TTACTTAGAT
*
932282 TAA TCAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
932328 TAA TA
1 TAA TA
932333 TGAGGGCACA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:937370 original size:25 final size:25
Alignment explanation
Indices: 937339--937387 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
937329 TGAAAAACAA
*
937339 TTTATGAGAAACAATAGTATATATT
1 TTTATGAAAAACAATAGTATATATT
* *
937364 TTTATGAAAAATAATATTATATAT
1 TTTATGAAAAACAATAGTATATAT
937388 ATATATGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (25 bp):
TTTATGAAAAACAATAGTATATATT
Found at i:937394 original size:25 final size:25
Alignment explanation
Indices: 937341--937394 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
937331 AAAAACAATT
* * *
937341 TATGAGAAACAATAGTATATATTTT
1 TATGAAAAACAATAGTATATATATA
* *
937366 TATGAAAAATAATATTATATATATA
1 TATGAAAAACAATAGTATATATATA
937391 TATG
1 TATG
937395 TATGTATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (25 bp):
TATGAAAAACAATAGTATATATATA
Found at i:943612 original size:31 final size:31
Alignment explanation
Indices: 943504--943624 Score: 129
Period size: 31 Copynumber: 3.9 Consensus size: 31
943494 AGACTATACA
*
943504 TATGTTCTACGGAACATATGGACAGAATTACC
1 TATGTTCTACGGAACATATGGACAG-TTTACC
* *
943536 TATG-TCTTTC-GAGACATATGGACAGTATACC
1 TATGTTC-TACGGA-ACATATGGACAGTTTACC
*
943567 TATGTTCTAAGGAACATATGGACAGTTTACC
1 TATGTTCTACGGAACATATGGACAGTTTACC
* * * *
943598 TAGGTTCTTCGGAACCTCTGGACAGTT
1 TATGTTCTACGGAACATATGGACAGTT
943625 GCCAAGGATC
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
31 52 0.70
32 22 0.30
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (31 bp):
TATGTTCTACGGAACATATGGACAGTTTACC
Found at i:947412 original size:22 final size:22
Alignment explanation
Indices: 947386--947427 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
947376 CTGAATAAAC
*
947386 TTATATAAAAT-TTATAAAAATT
1 TTATAGAAAATATT-TAAAAATT
947408 TTATAGAAAATATTTAAAAA
1 TTATAGAAAATATTTAAAAA
947428 CTTGTTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TTATAGAAAATATTTAAAAATT
Found at i:947608 original size:32 final size:32
Alignment explanation
Indices: 947571--947631 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
947561 CAACACCCTC
* *
947571 AAGACGTCGGGAGATTCCAAACAAAACGCTTG
1 AAGACGCCGGGAGATCCCAAACAAAACGCTTG
* *
947603 AAGACGCCGGGAGATCCCAAGCAAGACGC
1 AAGACGCCGGGAGATCCCAAACAAAACGC
947632 CAAAAAAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.36, C:0.26, G:0.28, T:0.10
Consensus pattern (32 bp):
AAGACGCCGGGAGATCCCAAACAAAACGCTTG
Found at i:954606 original size:2 final size:2
Alignment explanation
Indices: 954599--954668 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
954589 TCATAATAAA
954599 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
954641 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
954669 AATAAGCCTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:956964 original size:12 final size:13
Alignment explanation
Indices: 956939--956967 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
956929 ATTAAATCGA
956939 AAAAGAATTTTTG
1 AAAAGAATTTTTG
956952 AAAAGAA-TTTTG
1 AAAAGAATTTTTG
956964 AAAA
1 AAAA
956968 ATTATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (13 bp):
AAAAGAATTTTTG
Found at i:956968 original size:13 final size:14
Alignment explanation
Indices: 956937--956968 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
956927 CAATTAAATC
956937 GAAAAAGAATTTTT
1 GAAAAAGAATTTTT
956951 G-AAAAGAA-TTTT
1 GAAAAAGAATTTTT
956963 GAAAAA
1 GAAAAA
956969 TTATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.29
13 11 0.65
14 1 0.06
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (14 bp):
GAAAAAGAATTTTT
Found at i:957049 original size:19 final size:20
Alignment explanation
Indices: 957027--957071 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
957017 TTATAAAAAG
957027 TAATTAAAAGA-TAATTTTT
1 TAATTAAAAGATTAATTTTT
957046 TAA-T-AAAGATTAATTTTT
1 TAATTAAAAGATTAATTTTT
957064 TAATTAAA
1 TAATTAAA
957072 CTAAAGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 12 0.52
19 4 0.17
20 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
TAATTAAAAGATTAATTTTT
Found at i:962469 original size:14 final size:14
Alignment explanation
Indices: 962450--962482 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
962440 TATATCATTT
962450 AAAATTATATTTTA-
1 AAAATTA-ATTTTAG
962464 AAAATTAATTTTAG
1 AAAATTAATTTTAG
962478 AAAAT
1 AAAAT
962483 AAAAGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
AAAATTAATTTTAG
Found at i:971173 original size:23 final size:22
Alignment explanation
Indices: 971143--971224 Score: 87
Period size: 23 Copynumber: 3.7 Consensus size: 22
971133 TCGAGGGTTC
971143 TATGTGGTCCTTCGGGACAAAA
1 TATGTGGTCCTTCGGGACAAAA
* *
971165 TTATGTGGTCATTTGGGACAAAA
1 -TATGTGGTCCTTCGGGACAAAA
* *
971188 CTATGTGGTTCTTCAGGAC-AAA
1 -TATGTGGTCCTTCGGGACAAAA
971210 TATGTGG-CACTTCGG
1 TATGTGGTC-CTTCGG
971225 TGCACATTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
21 12 0.24
22 3 0.06
23 34 0.69
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (22 bp):
TATGTGGTCCTTCGGGACAAAA
Found at i:978978 original size:30 final size:30
Alignment explanation
Indices: 978944--979010 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
978934 TAAAATTTAG
*
978944 AAAAGTTTA-AGGACCAAAAAGT-TAATTTTT
1 AAAAGTTTAGA-GACC-AAAAGTGTAATTTCT
*
978974 AAAAGTTTAGAGATCAAAAGTGTAATTTCT
1 AAAAGTTTAGAGACCAAAAGTGTAATTTCT
979004 AAAAGTT
1 AAAAGTT
979011 AGGTGTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 6 0.18
30 26 0.79
31 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (30 bp):
AAAAGTTTAGAGACCAAAAGTGTAATTTCT
Found at i:981701 original size:34 final size:34
Alignment explanation
Indices: 981590--981690 Score: 157
Period size: 34 Copynumber: 3.0 Consensus size: 34
981580 ATAATTGGTA
* *
981590 GTACTAGAGTATCTAGCAAAAGAACATAGTACAT
1 GTACTAGAGTATCTAGCAAAGGCACATAGTACAT
* **
981624 GTACTAGAGTGTCTAGCAAAGGCACATAAAACAT
1 GTACTAGAGTATCTAGCAAAGGCACATAGTACAT
981658 GTACTAGAGTATCTAGCAAAGGCACATAGTACA
1 GTACTAGAGTATCTAGCAAAGGCACATAGTACA
981691 GGCATTAGAG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.22
Consensus pattern (34 bp):
GTACTAGAGTATCTAGCAAAGGCACATAGTACAT
Found at i:985850 original size:15 final size:15
Alignment explanation
Indices: 985832--985864 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
985822 CAATGAAGTC
985832 CATATAAGGCTAAAA
1 CATATAAGGCTAAAA
*
985847 CATATAAGGCTAGAA
1 CATATAAGGCTAAAA
985862 CAT
1 CAT
985865 GCCAAAGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.21
Consensus pattern (15 bp):
CATATAAGGCTAAAA
Found at i:994302 original size:15 final size:15
Alignment explanation
Indices: 994282--994313 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
994272 AGTCGCCCCT
994282 CCTCCTCCTCCACCA
1 CCTCCTCCTCCACCA
*
994297 CCTCCTCCTCCTCCA
1 CCTCCTCCTCCACCA
994312 CC
1 CC
994314 ACGGCCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.69, G:0.00, T:0.22
Consensus pattern (15 bp):
CCTCCTCCTCCACCA
Found at i:994302 original size:18 final size:18
Alignment explanation
Indices: 994279--994315 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
994269 CGTAGTCGCC
994279 CCTCCTCCTCCTCCACCA
1 CCTCCTCCTCCTCCACCA
994297 CCTCCTCCTCCTCCACCA
1 CCTCCTCCTCCTCCACCA
994315 C
1 C
994316 GGCCCAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.68, G:0.00, T:0.22
Consensus pattern (18 bp):
CCTCCTCCTCCTCCACCA
Found at i:999838 original size:11 final size:11
Alignment explanation
Indices: 999815--999853 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
999805 TTTAGTGGGT
999815 GGGCGGATACG
1 GGGCGGATACG
* *
999826 GGGTGGATGCG
1 GGGCGGATACG
999837 GGGCGGATACG
1 GGGCGGATACG
999848 GGGCGG
1 GGGCGG
999854 GTAAGGTCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.13, C:0.15, G:0.62, T:0.10
Consensus pattern (11 bp):
GGGCGGATACG
Found at i:1000888 original size:11 final size:11
Alignment explanation
Indices: 1000874--1000922 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
1000864 TTTGTTAGAG
1000874 TGTTATTAGTT
1 TGTTATTAGTT
*
1000885 TGTTA-TGGTT
1 TGTTATTAGTT
*
1000895 TGTTATTAGCT
1 TGTTATTAGTT
*
1000906 TGTTATTTGTT
1 TGTTATTAGTT
1000917 TGTTAT
1 TGTTAT
1000923 GCTTTGTTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 9 0.28
11 23 0.72
ACGTcount: A:0.14, C:0.02, G:0.20, T:0.63
Consensus pattern (11 bp):
TGTTATTAGTT
Found at i:1000900 original size:21 final size:22
Alignment explanation
Indices: 1000874--1000922 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
1000864 TTTGTTAGAG
*
1000874 TGTTATTAGTTTGTTA-TGGTT
1 TGTTATTAGCTTGTTATTGGTT
*
1000895 TGTTATTAGCTTGTTATTTGTT
1 TGTTATTAGCTTGTTATTGGTT
1000917 TGTTAT
1 TGTTAT
1000923 GCTTTGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.14, C:0.02, G:0.20, T:0.63
Consensus pattern (22 bp):
TGTTATTAGCTTGTTATTGGTT
Found at i:1003574 original size:31 final size:31
Alignment explanation
Indices: 1003539--1003615 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
1003529 GAGTCGAGGG
* * *
1003539 TTACCTCTTTCTTTCAAGACATATGGATAGT
1 TTACCTATTTCTTTCAAGACATATGAAAAGT
* * *
1003570 TTACCTATGTCCTTCGAGACATATGAAAAGT
1 TTACCTATTTCTTTCAAGACATATGAAAAGT
1003601 TTACCTATGTTCTTT
1 TTACCTAT-TTCTTT
1003616 GGAACATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 33 0.89
32 4 0.11
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (31 bp):
TTACCTATTTCTTTCAAGACATATGAAAAGT
Found at i:1007262 original size:31 final size:31
Alignment explanation
Indices: 1007210--1007301 Score: 130
Period size: 31 Copynumber: 3.0 Consensus size: 31
1007200 GAGTCGAGGG
* *
1007210 TTACCTATGTCTTTCGAGACATATGGATAGT
1 TTACCTATGTCCTTCGGGACATATGGATAGT
* *
1007241 TTAGCTATGTCCTTCGGGACATATGGAAAGT
1 TTACCTATGTCCTTCGGGACATATGGATAGT
* *
1007272 TTACCTATGTTCTTCGGAACATATGGATAG
1 TTACCTATGTCCTTCGGGACATATGGATAG
1007302 GTCCTTCGAG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (31 bp):
TTACCTATGTCCTTCGGGACATATGGATAGT
Found at i:1007308 original size:22 final size:21
Alignment explanation
Indices: 1007283--1007332 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
1007273 TACCTATGTT
* *
1007283 CTTCGGAACATATGGATAGGTC
1 CTTCGGAA-ACATGCATAGGTC
1007305 CTTCGAGAAACATGCATAGGTC
1 CTTCG-GAAACATGCATAGGTC
1007327 CTTCGG
1 CTTCGG
1007333 GATATTTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.84
23 3 0.12
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (21 bp):
CTTCGGAAACATGCATAGGTC
Found at i:1007580 original size:36 final size:38
Alignment explanation
Indices: 1007533--1007605 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 38
1007523 AATATAGATG
1007533 ATAAGATGAAAA-AG-AGATTAATGATAATGTATAAAT
1 ATAAGATGAAAATAGAAGATTAATGATAATGTATAAAT
1007569 ATAAGATGAAAATAGATAGATTAATGATAATGTATAA
1 ATAAGATGAAAATAGA-AGATTAATGATAATGTATAA
1007606 GAAAGTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
36 12 0.35
37 2 0.06
39 20 0.59
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (38 bp):
ATAAGATGAAAATAGAAGATTAATGATAATGTATAAAT
Found at i:1009127 original size:11 final size:11
Alignment explanation
Indices: 1009113--1009158 Score: 60
Period size: 10 Copynumber: 4.4 Consensus size: 11
1009103 AATGTTAGAG
1009113 TGTTATTAGTT
1 TGTTATTAGTT
*
1009124 TGTTA-TGGTT
1 TGTTATTAGTT
*
1009134 TGTTATTAGCT
1 TGTTATTAGTT
1009145 TGTTATT-GTT
1 TGTTATTAGTT
1009155 TGTT
1 TGTT
1009159 GGTTACTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 15 0.50
11 15 0.50
ACGTcount: A:0.13, C:0.02, G:0.22, T:0.63
Consensus pattern (11 bp):
TGTTATTAGTT
Found at i:1009167 original size:21 final size:21
Alignment explanation
Indices: 1009113--1009158 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1009103 AATGTTAGAG
*
1009113 TGTTATTAGTTTGTTATGGTT
1 TGTTATTAGCTTGTTATGGTT
*
1009134 TGTTATTAGCTTGTTATTGTT
1 TGTTATTAGCTTGTTATGGTT
1009155 TGTT
1 TGTT
1009159 GGTTACTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.02, G:0.22, T:0.63
Consensus pattern (21 bp):
TGTTATTAGCTTGTTATGGTT
Found at i:1010424 original size:15 final size:16
Alignment explanation
Indices: 1010404--1010435 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1010394 TTTAAAATTA
1010404 TAAACATTATT-TAAT
1 TAAACATTATTATAAT
1010419 TAAACATTATTATAAT
1 TAAACATTATTATAAT
1010435 T
1 T
1010436 GTTATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAACATTATTATAAT
Found at i:1011476 original size:85 final size:85
Alignment explanation
Indices: 1011328--1011506 Score: 322
Period size: 85 Copynumber: 2.1 Consensus size: 85
1011318 AACAGATAAA
*
1011328 TACATAATCATACTCACATCTATCCCTTCATCCATGACTGCTCAAACTTTTGTTCATATCCTTGC
1 TACACAATCATACTCACATCTATCCCTTCATCCATGACTGCTCAAACTTTTGTTCATATCCTTGC
1011393 TTCACCTTTCATAAAATTCG
66 TTCACCTTTCATAAAATTCG
* * *
1011413 TACACAATCATACTTACATCTATCCCTTCATCCATGACTGGTCAAACTTTTGTTCCTATCCTTGC
1 TACACAATCATACTCACATCTATCCCTTCATCCATGACTGCTCAAACTTTTGTTCATATCCTTGC
1011478 TTCACCTTTCATAAAATTCG
66 TTCACCTTTCATAAAATTCG
1011498 TACACAATC
1 TACACAATC
1011507 CTCGTCCAAT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 90 1.00
ACGTcount: A:0.27, C:0.30, G:0.06, T:0.37
Consensus pattern (85 bp):
TACACAATCATACTCACATCTATCCCTTCATCCATGACTGCTCAAACTTTTGTTCATATCCTTGC
TTCACCTTTCATAAAATTCG
Done.