Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 261 of 311
Found at i:86732637 original size:19 final size:19
Alignment explanation
Indices: 86732613--86732650 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
86732603 GAAATGAATA
*
86732613 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
86732632 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
86732651 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:86732932 original size:2 final size:2
Alignment explanation
Indices: 86732927--86732957 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
86732917 ATTATATATA
86732927 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
86732958 ACATAAACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:86733852 original size:18 final size:17
Alignment explanation
Indices: 86733829--86733874 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
86733819 AGAGGTTAGG
*
86733829 TTTTTTTCTTTTTCTTCA
1 TTTTTTTATTTTT-TTCA
*
86733847 TTTTTTTATTTTTTTTA
1 TTTTTTTATTTTTTTCA
86733864 -TTTTTTATTTT
1 TTTTTTTATTTT
86733875 GGGTTGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 11 0.42
17 3 0.12
18 12 0.46
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTATTTTTTTCA
Found at i:86742387 original size:18 final size:18
Alignment explanation
Indices: 86742364--86742399 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
86742354 CGGACGGCTG
86742364 CATTATCCTCAACTTTGT
1 CATTATCCTCAACTTTGT
86742382 CATTATCCTCAACTTTGT
1 CATTATCCTCAACTTTGT
86742400 TAAGAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (18 bp):
CATTATCCTCAACTTTGT
Found at i:86743782 original size:131 final size:129
Alignment explanation
Indices: 86743538--86743868 Score: 429
Period size: 131 Copynumber: 2.6 Consensus size: 129
86743528 AAAATCGAAG
* * * **
86743538 CCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCTAGACATTGAACATTGCCTT-GTTTT--AGA
1 CCCAGCACGA-TAGGGCACGATTCC-CGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGA
** * * *
86743599 ATTTAGAAAACGTGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAA-GGGAAAATTGT
64 ATTTTTAAAACATGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGG-AAATTGC
86743663 AA
128 AA
*
86743665 CCCAGCACGATAGGGCACGATTCTCCGAATTGCCAAACATCAAACATTTCCTTCGTTTTAAAGAA
1 CCCAGCACGATAGGGCACGATTC-CCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAA
* *
86743730 TTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCTATTATTTTGAACAAACGGGAAATTGCA
65 TTTTTAAA-ACATGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTGCA
86743795 A
129 A
* * *
86743796 CCTAGCACGATTGGGCACGATTCCCCGAATTGCCAAGCATCAAACATTGCCTTCGTTTTAAAGAA
1 CCCAGCACGATAGGGCACGATT-CCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAA
86743861 TTTTTAAA
65 TTTTTAAA
86743869 TGAATAATTA
Statistics
Matches: 179, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
127 43 0.24
128 7 0.04
130 10 0.06
131 115 0.64
132 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (129 bp):
CCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAAT
TTTTAAAACATGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTGCAA
Found at i:86746466 original size:19 final size:19
Alignment explanation
Indices: 86746444--86746483 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
86746434 TTTAATTGGC
86746444 TTTTTATCTTTATT-TTATA
1 TTTTTATC-TTATTGTTATA
*
86746463 TTTTTTTCTTATTGTTATA
1 TTTTTATCTTATTGTTATA
86746482 TT
1 TT
86746484 ATTGCGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTTATCTTATTGTTATA
Found at i:86750780 original size:18 final size:18
Alignment explanation
Indices: 86750757--86750799 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
86750747 TTGATTGGTG
86750757 TAGGGTTAAGGTTTAGTT
1 TAGGGTTAAGGTTTAGTT
86750775 TAGGGTTAAGGTTTAGTT
1 TAGGGTTAAGGTTTAGTT
*
86750793 TATGGTT
1 TAGGGTT
86750800 TTTAGGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.47
Consensus pattern (18 bp):
TAGGGTTAAGGTTTAGTT
Found at i:86750880 original size:12 final size:13
Alignment explanation
Indices: 86750856--86750884 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
86750846 GGGTTAAGGG
86750856 TTAATTAATTAAA
1 TTAATTAATTAAA
86750869 TTAATT-ATTAAA
1 TTAATTAATTAAA
86750881 TTAA
1 TTAA
86750885 AAAAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATTAATTAAA
Found at i:86750884 original size:17 final size:17
Alignment explanation
Indices: 86750862--86750940 Score: 52
Period size: 17 Copynumber: 4.4 Consensus size: 17
86750852 AGGGTTAATT
86750862 AATTAAATTAATTATTA
1 AATTAAATTAATTATTA
** *
86750879 AATTAAAAAAATAATTA
1 AATTAAATTAATTATTA
* *
86750896 AATTAGGATTGAGGGTTAATT-
1 AATTA-AATT-A--ATT-ATTA
*
86750917 AATTAAATTAACTATTA
1 AATTAAATTAATTATTA
86750934 AATTAAA
1 AATTAAA
86750941 AAATCAATTA
Statistics
Matches: 45, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
16 3 0.07
17 27 0.60
18 1 0.02
19 2 0.04
20 3 0.07
21 6 0.13
22 3 0.07
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (17 bp):
AATTAAATTAATTATTA
Found at i:86750982 original size:55 final size:55
Alignment explanation
Indices: 86750829--86750957 Score: 215
Period size: 55 Copynumber: 2.3 Consensus size: 55
86750819 ATGTTTAAGG
* * *
86750829 AAAAAATAATTAAATTAGGGTTAAGGGTTAATTAATTAAATTAATTATTAAATTA
1 AAAAAATAATTAAATTAGGATTGAGGGTTAATTAATTAAATTAACTATTAAATTA
86750884 AAAAAATAATTAAATTAGGATTGAGGGTTAATTAATTAAATTAACTATTAAATT-
1 AAAAAATAATTAAATTAGGATTGAGGGTTAATTAATTAAATTAACTATTAAATTA
86750938 AAAAAATCAATTAAATTAGG
1 AAAAAAT-AATTAAATTAGG
86750958 GCTTAGGGTT
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
54 7 0.10
55 63 0.90
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.36
Consensus pattern (55 bp):
AAAAAATAATTAAATTAGGATTGAGGGTTAATTAATTAAATTAACTATTAAATTA
Found at i:86753588 original size:273 final size:272
Alignment explanation
Indices: 86753096--86753919 Score: 1222
Period size: 273 Copynumber: 3.0 Consensus size: 272
86753086 AAGGTAGCAG
* *
86753096 TAAG-AGAATCATTGC-AATTGCGTTTGTAATAACACCGGCAGAGTCAGCTGATGACTAGGATTT
1 TAAGAAGAATCATT-CTAATTGCGTTTGCAATAACACCGG-GGAGTCAGCTGATGACTAGGATTT
* *
86753159 CTTTCTTTCTAGGTTAAGGAGGCATGTCTGCCCCCAACCTGATATATGCGTTATATAGAATGGGG
64 CTTTCTTTCTAGGTTAAGGAGGCATGTCTGCCCCCAACCTGATATATGCGTTATATCGGATGGGG
* *
86753224 TACTGGAATACTAGCCACAATTGAATGACAATGGAGCCAATGGCATCGCACACACCATCGGTATT
129 TACTGGAATACTAGCC-GAATTGAATGACAATGAAGCCAATGGCATCGCACACACCATCGGTATT
* * * *
86753289 GCCTAAGGCACGTTGCGTCCAACTACTACAGACAATATCAATCTACAACTAAACGATGGCAAGTG
193 GCCTAAGGCACGTTGCGTCCAACTACTACGGGCAATATCGATCTACAACTGAACGATGGCAAGTG
*
86753354 AACAACATGGGTATT
258 ACCAACATGGGTATT
*
86753369 TAAGAAGAATCATTCTAATTGCGTTTGCAATAACACCGGGGAGACAGCTGATGACTAGGATTTCT
1 TAAGAAGAATCATTCTAATTGCGTTTGCAATAACACCGGGGAGTCAGCTGATGACTAGGATTTCT
* * *
86753434 TTCTTTCTAGGTTAAGGAGGCATGTTTGCCCCTAACCTCATATATGCGTTATATCGGATAGGGGT
66 TTCTTTCTAGGTTAAGGAGGCATGTCTGCCCCCAACCTGATATATGCGTTATATCGGAT-GGGGT
*
86753499 ACTGGAATACTAGCCGAATTGAATGACAATGAAGCCAATGACATCGCACACACCATCGGTATTGC
130 ACTGGAATACTAGCCGAATTGAATGACAATGAAGCCAATGGCATCGCACACACCATCGGTATTGC
*
86753564 CTAAGGCACGTTGCGTCCAACTACTACGGGCAATATCGATCTACAACTGAACGATGACAAGTGAC
195 CTAAGGCACGTTGCGTCCAACTACTACGGGCAATATCGATCTACAACTGAACGATGGCAAGTGAC
* *
86753629 CAACATAGTTATT
260 CAACATGGGTATT
* ** *
86753642 TAAGGAA-AATCATTCTAATTGCATTTGCAATAACACCAATGGAGTCAGCTGATAACTAGGATTT
1 TAA-GAAGAATCATTCTAATTGCGTTTGCAATAACACC-GGGGAGTCAGCTGATGACTAGGATTT
*
86753706 CTTTCTTTCTAGGTTAAGGAGGCATGTCTGCCCCCAACCTGATATATGCGTTATATCAGATCGGG
64 CTTTCTTTCTAGGTTAAGGAGGCATGTCTGCCCCCAACCTGATATATGCGTTATATCGGAT-GGG
* * * * *
86753771 GTACTGCAATACTAGCTGCAATTGAATGTCATTGAAGCCAATGGCATCACACACACCATCGGTAT
128 GTACTGGAATACTAGCCG-AATTGAATGACAATGAAGCCAATGGCATCGCACACACCATCGGTAT
* * * * * * * *
86753836 TGCCTAAGACACGTTGCATCTAACTACAATGGGCAATATCGATCTACAACTGAATGACGGCAAAT
192 TGCCTAAGGCACGTTGCGTCCAACTACTACGGGCAATATCGATCTACAACTGAACGATGGCAAGT
86753901 GACCAACATGGGTATT
257 GACCAACATGGGTATT
86753917 TAA
1 TAA
86753920 TCTTTATTAA
Statistics
Matches: 499, Mismatches: 46, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
273 232 0.46
274 152 0.30
275 115 0.23
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (272 bp):
TAAGAAGAATCATTCTAATTGCGTTTGCAATAACACCGGGGAGTCAGCTGATGACTAGGATTTCT
TTCTTTCTAGGTTAAGGAGGCATGTCTGCCCCCAACCTGATATATGCGTTATATCGGATGGGGTA
CTGGAATACTAGCCGAATTGAATGACAATGAAGCCAATGGCATCGCACACACCATCGGTATTGCC
TAAGGCACGTTGCGTCCAACTACTACGGGCAATATCGATCTACAACTGAACGATGGCAAGTGACC
AACATGGGTATT
Found at i:86755057 original size:129 final size:129
Alignment explanation
Indices: 86754891--86755268 Score: 598
Period size: 131 Copynumber: 2.9 Consensus size: 129
86754881 ACATTTATTT
* * * *
86754891 TAATAAAAATTATTGGTTAATTTAAAAGAACATTTATTGTATTAAAATTTAAAAAAGTAAAGTAC
1 TAATAAAAA-TATT-GCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
*
86754956 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAA-TAAATATAAAA
64 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAA
86755020 A
129 A
* *
86755021 TAATAAAAATATTAGCTAATTAAAAAGAACATTTATTTTAATAAAGTTAAAAAAAGTAAAGTACA
1 TAATAAAAATATT-GCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
*
86755086 ATTAAAATATTAAAAACAACTTTTATTTTACTAATTGAAACTATATAAAAAATTAAATATAAAAA
65 ATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAAA
*
86755151 TAATAAAAAATATTGCCTAATTTAAAAGAATATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
1 TAAT-AAAAATATTG-CTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
*
86755216 AATTAAAATATTAAAAATAACTTTTATTTTATT-ATATGAAACTATATAAAAAA
64 AATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TGAAACTATATAAAAAA
86755269 AGTTTCTACA
Statistics
Matches: 230, Mismatches: 14, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
129 99 0.43
130 28 0.12
131 103 0.45
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (129 bp):
TAATAAAAATATTGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACAA
TTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAAA
Found at i:86755232 original size:131 final size:128
Alignment explanation
Indices: 86754891--86755268 Score: 587
Period size: 129 Copynumber: 2.9 Consensus size: 128
86754881 ACATTTATTT
* * * * *
86754891 TAATAAAAATTATTGGTTAATTTAAAAGAACATTTATTGTATTAAAATTTAAAAAAGTAAAGTAC
1 TAATAAAAAATATT-GCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
*
86754956 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAAAA
65 AATTAAAATATTAAAAACAACTTTTATTTTA-TAATTGAAACTATATAAAAAATAAATATAAAAA
* *
86755021 TAAT-AAAAATATTAGCTAATTAAAAAGAACATTTATTTTAATAAAGTTAAAAAAAGTAAAGTAC
1 TAATAAAAAATATT-GCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
86755085 AATTAAAATATTAAAAACAACTTTTATTTTACTAATTGAAACTATATAAAAAATTAAATATAAAA
65 AATTAAAATATTAAAAACAACTTTTATTTTA-TAATTGAAACTATATAAAAAA-TAAATATAAAA
86755150 A
128 A
*
86755151 TAATAAAAAATATTGCCTAATTTAAAAGAATATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
1 TAATAAAAAATATTG-CTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
* *
86755216 AATTAAAATATTAAAAATAACTTTTATTTTATTATATGAAACTATATAAAAAA
65 AATTAAAATATTAAAAACAACTTTTATTTTATAAT-TGAAACTATATAAAAAA
86755269 AGTTTCTACA
Statistics
Matches: 229, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
129 103 0.45
130 24 0.10
131 102 0.45
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (128 bp):
TAATAAAAAATATTGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
ATTAAAATATTAAAAACAACTTTTATTTTATAATTGAAACTATATAAAAAATAAATATAAAAA
Found at i:86755429 original size:22 final size:22
Alignment explanation
Indices: 86755371--86755434 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
86755361 CCTTAGTTCA
*
86755371 GCTTCCGGCGGGGGTTGTGGTT
1 GCTTCCGGCGGGGATTGTGGTT
*
86755393 GC-TCCGGTGGGGATTGTGGTT
1 GCTTCCGGCGGGGATTGTGGTT
86755414 -CTTCCGGCAGGGGATT-TGGTT
1 GCTTCCGGC-GGGGATTGTGGTT
86755435 ATGGGTGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.73
22 9 0.24
ACGTcount: A:0.05, C:0.17, G:0.45, T:0.33
Consensus pattern (22 bp):
GCTTCCGGCGGGGATTGTGGTT
Found at i:86755705 original size:18 final size:18
Alignment explanation
Indices: 86755679--86755721 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
86755669 GACTAGGAAA
* *
86755679 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
*
86755697 AGGATACATATAAGGGCT
1 AGGATACATAAAAGGGCT
86755715 AGGATAC
1 AGGATAC
86755722 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:86759663 original size:7 final size:7
Alignment explanation
Indices: 86759653--86759696 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
86759643 TTATATACGT
86759653 AATACTA
1 AATACTA
86759660 AATACTA
1 AATACTA
86759667 AATACTAA
1 AATACT-A
86759675 AATACTA
1 AATACTA
*
86759682 AATACAA
1 AATACTA
86759689 AATGACTA
1 AAT-ACTA
86759697 TTTTATTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 23 0.70
8 10 0.30
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (7 bp):
AATACTA
Found at i:86759679 original size:15 final size:15
Alignment explanation
Indices: 86759653--86759696 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
86759643 TTATATACGT
86759653 AATACT-AAATACTA
1 AATACTAAAATACTA
86759667 AATACTAAAATACTA
1 AATACTAAAATACTA
86759682 AATAC-AAAATGACTA
1 AATACTAAAAT-ACTA
86759697 TTTTATTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (15 bp):
AATACTAAAATACTA
Found at i:86759679 original size:22 final size:23
Alignment explanation
Indices: 86759653--86759696 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
86759643 TTATATACGT
*
86759653 AATACTAAATACTAAAT-ACTAA
1 AATACTAAATACAAAATGACTAA
86759675 AATACTAAATACAAAATGACTA
1 AATACTAAATACAAAATGACTA
86759697 TTTTATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (23 bp):
AATACTAAATACAAAATGACTAA
Found at i:86760945 original size:11 final size:11
Alignment explanation
Indices: 86760864--86760938 Score: 125
Period size: 11 Copynumber: 6.8 Consensus size: 11
86760854 TGAAAAAATT
86760864 GAGAGAATTTG
1 GAGAGAATTTG
86760875 GAGAGAATTTG
1 GAGAGAATTTG
86760886 GAGAGAATTTG
1 GAGAGAATTTG
86760897 GAGAGAA-TTG
1 GAGAGAATTTG
86760907 TGAGAGAATTTG
1 -GAGAGAATTTG
*
86760919 GAGAGAATTTA
1 GAGAGAATTTG
86760930 GAGAGAATT
1 GAGAGAATT
86760939 GTGAGAGGAC
Statistics
Matches: 61, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
10 3 0.05
11 55 0.90
12 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.35, T:0.27
Consensus pattern (11 bp):
GAGAGAATTTG
Found at i:86764898 original size:26 final size:26
Alignment explanation
Indices: 86764869--86764924 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
86764859 TATATGTGAA
*
86764869 TTTAATATATATTATATTAAAATAAG
1 TTTAATATATATTATACTAAAATAAG
* *
86764895 TTTACTTTATATTATACTAAAATAAG
1 TTTAATATATATTATACTAAAATAAG
86764921 TTTA
1 TTTA
86764925 CTTAATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (26 bp):
TTTAATATATATTATACTAAAATAAG
Found at i:86764925 original size:26 final size:26
Alignment explanation
Indices: 86764876--86764932 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
86764866 GAATTTAATA
*
86764876 TATATTATATTAAAATAAGTTTACTT
1 TATATTATACTAAAATAAGTTTACTT
86764902 TATATTATACTAAAATAAGTTTACTT
1 TATATTATACTAAAATAAGTTTACTT
*
86764928 AATAT
1 TATAT
86764933 ATAAGTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (26 bp):
TATATTATACTAAAATAAGTTTACTT
Found at i:86770515 original size:85 final size:85
Alignment explanation
Indices: 86770409--86770575 Score: 255
Period size: 85 Copynumber: 2.0 Consensus size: 85
86770399 GCATAAAATA
** *
86770409 TGGTTTAATCACGAACCAAGTGTTAGTTTGTTTAATCT-ACAAATATGTTGTGCACCTACAACAA
1 TGGTTTAATCACGAACCAAGTGGCAGTTTGTTTAATCTGA-AAATATGTTGTGCACCCACAACAA
*
86770473 GTGGTAGTAACTGCAAATATG
65 GTGGTAGTAACTACAAATATG
* * *
86770494 TGGTTTGATTACGAACCAAGTGGCAGTTTGTTTAATTTGAAAATATGTTGTGCACCCACAACAAG
1 TGGTTTAATCACGAACCAAGTGGCAGTTTGTTTAATCTGAAAATATGTTGTGCACCCACAACAAG
86770559 TGGTAGTAACTACAAAT
66 TGGTAGTAACTACAAAT
86770576 TTGCTGTAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
85 73 0.99
86 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (85 bp):
TGGTTTAATCACGAACCAAGTGGCAGTTTGTTTAATCTGAAAATATGTTGTGCACCCACAACAAG
TGGTAGTAACTACAAATATG
Found at i:86772233 original size:12 final size:11
Alignment explanation
Indices: 86772210--86772264 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
86772200 TTAAATTAAT
*
86772210 AAATACTATTA
1 AAATAATATTA
86772221 AAATAAGTATTA
1 AAATAA-TATTA
*
86772233 AATTTAATATT-
1 AA-ATAATATTA
*
86772244 AAA-ACTATTA
1 AAATAATATTA
86772254 AAATAATATTA
1 AAATAATATTA
86772265 TTTTTGGAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
9 5 0.14
10 3 0.09
11 13 0.37
12 11 0.31
13 3 0.09
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (11 bp):
AAATAATATTA
Found at i:86772255 original size:33 final size:29
Alignment explanation
Indices: 86772195--86772264 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 29
86772185 TTAATCACTT
*
86772195 TAATATTAAATTAATAAATACTATTAAAA
1 TAATATTAAATTAATAAAAACTATTAAAA
86772224 TAAGTATTAAATTTAATATTAAAACTATTAAAA
1 TAA-TATTAAA-TTAATA--AAAACTATTAAAA
86772257 TAATATTA
1 TAATATTA
86772265 TTTTTGGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 3 0.08
30 7 0.19
31 6 0.17
32 5 0.14
33 15 0.42
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (29 bp):
TAATATTAAATTAATAAAAACTATTAAAA
Found at i:86789394 original size:33 final size:33
Alignment explanation
Indices: 86789367--86789560 Score: 193
Period size: 33 Copynumber: 5.9 Consensus size: 33
86789357 CCTTTCCAAG
*
86789367 TGGTACACAAAAAGTATACCTTTCCTTTAT-ATA
1 TGGTACACACAAAGTATACCTTTCCTTT-TCATA
* * *
86789400 TAGTATACACAAAGTGTACCTTTCCTTTTCATA
1 TGGTACACACAAAGTATACCTTTCCTTTTCATA
*
86789433 TGGTATACACAAAGTATACCTTTCCTTTTCATA
1 TGGTACACACAAAGTATACCTTTCCTTTTCATA
* *
86789466 TGGTATACACAAAGTATACATTTCCTTTTCA-A
1 TGGTACACACAAAGTATACCTTTCCTTTTCATA
* * **
86789498 -GTGTACACACAAAGTGTACATAACCTTTTCA-A
1 TG-GTACACACAAAGTATACCTTTCCTTTTCATA
* *
86789530 -GTGTACACATATAA-TGTACCTTTCCTTTTCA
1 TG-GTACACACA-AAGTATACCTTTCCTTTTCA
86789561 AATTGTACCA
Statistics
Matches: 143, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
31 1 0.01
32 52 0.36
33 90 0.63
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (33 bp):
TGGTACACACAAAGTATACCTTTCCTTTTCATA
Found at i:86789447 original size:66 final size:65
Alignment explanation
Indices: 86789351--86789512 Score: 213
Period size: 66 Copynumber: 2.5 Consensus size: 65
86789341 ACTTGAGGTG
* *
86789351 TACA-TTCCTTTCCAAGTGGTACACAAAAAGTATACCTTTCCTTTAT-ATATAGTATACACAAAG
1 TACATTTCCTTTTCAA-TGGTACACACAAAGTATACCTTTCCTTT-TCATATAGTATACACAAAG
*
86789414 TG
64 TA
* * *
86789416 TACCTTTCCTTTTCATATGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAAGT
1 TACATTTCCTTTTCA-ATGGTACACACAAAGTATACCTTTCCTTTTCATATAGTATACACAAAGT
86789481 A
65 A
86789482 TACATTTCCTTTTCAA-GTGTACACACAAAGT
1 TACATTTCCTTTTCAATG-GTACACACAAAGT
86789513 GTACATAACC
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
64 1 0.01
65 17 0.20
66 66 0.78
67 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (65 bp):
TACATTTCCTTTTCAATGGTACACACAAAGTATACCTTTCCTTTTCATATAGTATACACAAAGTA
Found at i:86789568 original size:65 final size:65
Alignment explanation
Indices: 86789402--86789568 Score: 169
Period size: 65 Copynumber: 2.6 Consensus size: 65
86789392 TTTATATATA
* * * * * **
86789402 GTATACACAAAGTGTACCTTTCCTTTTCATATGGTATACACAAAGTATACCTTTCCTTTTCATAT
1 GTATACACAAAATGTACCTTTCCTTTTCAAATTGTACACACAAAGTATACATAACCTTTTCATA-
86789467 G
65 G
* * * * *
86789468 GTATACACAAAGTATACATTTCCTTTTC-AAGTGTACACACAAAGTGTACATAACCTTTTCA-A-
1 GTATACACAAAATGTACCTTTCCTTTTCAAATTGTACACACAAAGTATACATAACCTTTTCATAG
*
86789530 GTGTACACATATAATGTACCTTTCCTTTTCAAATTGTAC
1 GTATACACA-A-AATGTACCTTTCCTTTTCAAATTGTAC
86789569 CATTTGGGTA
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
62 8 0.10
63 1 0.01
64 16 0.19
65 32 0.39
66 26 0.31
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (65 bp):
GTATACACAAAATGTACCTTTCCTTTTCAAATTGTACACACAAAGTATACATAACCTTTTCATAG
Found at i:86806717 original size:21 final size:21
Alignment explanation
Indices: 86806675--86806725 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
86806665 GTTTATAACA
* *
86806675 TATTCAATTCTCATTTCTTGC
1 TATTCAAATCTCATTACTTGC
*
86806696 TGTTTCAAATCTCA-TACTTGC
1 T-ATTCAAATCTCATTACTTGC
86806717 TATTCAAAT
1 TATTCAAAT
86806726 AGCTTTTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 7 0.28
21 8 0.32
22 10 0.40
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (21 bp):
TATTCAAATCTCATTACTTGC
Found at i:86810479 original size:15 final size:15
Alignment explanation
Indices: 86810459--86810493 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
86810449 TCAAACTGAT
*
86810459 ACACAGACCCAACTA
1 ACACAGAACCAACTA
86810474 ACACAGAACCAACTA
1 ACACAGAACCAACTA
86810489 ACACA
1 ACACA
86810494 CCAATTTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.51, C:0.37, G:0.06, T:0.06
Consensus pattern (15 bp):
ACACAGAACCAACTA
Found at i:86812039 original size:11 final size:11
Alignment explanation
Indices: 86812025--86812055 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
86812015 GAAATTTTCG
86812025 CAAAATTCTAT
1 CAAAATTCTAT
86812036 CAAAATTCTAT
1 CAAAATTCTAT
86812047 CAAAATTCT
1 CAAAATTCT
86812056 TTGTTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (11 bp):
CAAAATTCTAT
Found at i:86812309 original size:48 final size:47
Alignment explanation
Indices: 86812190--86812335 Score: 161
Period size: 49 Copynumber: 3.0 Consensus size: 47
86812180 AGTGATAACT
** *
86812190 TTAAATTTTTAATACTATTCGATATTTTTTTAATTTATGCAAAATT-TAA
1 TTAAATTTGCAATACTATT-GATATTTTATTAATTTATGC--AATTATAA
*
86812239 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTTGCAATACTA-TTGATATTTTATTAATTTATGCAATTATAA
*
86812287 TTACAATTT-CAATACTACTTGATTTTTTTTATTAATTTATGCAATTATA
1 TTA-AATTTGCAATACTA-TTGA--TATTTTATTAATTTATGCAATTATA
86812336 TTTTATTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
47 4 0.05
48 18 0.21
49 38 0.45
50 25 0.29
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (47 bp):
TTAAATTTGCAATACTATTGATATTTTATTAATTTATGCAATTATAA
Found at i:86813546 original size:16 final size:17
Alignment explanation
Indices: 86813517--86813549 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
86813507 TAAAAGAATT
86813517 AAAGGAATAAAGAAACA
1 AAAGGAATAAAGAAACA
*
86813534 AAAGGAA-ATAGAAACA
1 AAAGGAATAAAGAAACA
86813550 GAATTGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.70, C:0.06, G:0.18, T:0.06
Consensus pattern (17 bp):
AAAGGAATAAAGAAACA
Found at i:86813590 original size:12 final size:12
Alignment explanation
Indices: 86813573--86813603 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
86813563 GAAGCAGGGG
86813573 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
86813585 AGAAAAAGGGAA
1 AGAAAAAGAGAA
86813597 AGAAAAA
1 AGAAAAA
86813604 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:86830221 original size:20 final size:20
Alignment explanation
Indices: 86830196--86830268 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
86830186 ACCATTATGT
86830196 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAAATTTA
* *
86830216 ATCAATTAACCCTAAACCCTAA
1 ATCAATTAACCCTAAA--TTTA
86830238 ATCAA-T--CCCT-AATTTA
1 ATCAATTAACCCTAAATTTA
86830254 ATCAATTAACCCTAA
1 ATCAATTAACCCTAA
86830269 TACCCTAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
16 7 0.16
17 1 0.02
18 2 0.05
19 8 0.19
20 17 0.40
21 1 0.02
22 7 0.16
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (20 bp):
ATCAATTAACCCTAAATTTA
Found at i:86830289 original size:34 final size:36
Alignment explanation
Indices: 86830210--86830289 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 36
86830200 ATTAACCCTA
86830210 AATTTAATCAATTAACCCTAAACCCTAAATCAATCCCT
1 AATTTAATCAATTAACCCTAAACCCTAAATC-AT-CCT
86830248 AATTTAATCAATTAACCCTAATACCCTAAA-C-T-CT
1 AATTTAATCAATTAACCCTAA-ACCCTAAATCATCCT
86830282 AATTTAAT
1 AATTTAAT
86830290 ATTTAGTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
34 10 0.24
36 1 0.02
38 22 0.54
39 8 0.20
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (36 bp):
AATTTAATCAATTAACCCTAAACCCTAAATCATCCT
Found at i:86830411 original size:23 final size:23
Alignment explanation
Indices: 86830384--86830429 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
86830374 CAACCCTAAC
*
86830384 TTAAAAAACCCTAATCCTAAATT
1 TTAAAAAACCCTAACCCTAAATT
**
86830407 TTAAAAAACTTTAACCCTAAATT
1 TTAAAAAACCCTAACCCTAAATT
86830430 AATTAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (23 bp):
TTAAAAAACCCTAACCCTAAATT
Found at i:86830431 original size:21 final size:21
Alignment explanation
Indices: 86830375--86830431 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
86830365 AAACATTTAC
*
86830375 AACCCTAACTTAAAAAACCCT
1 AACCCTAAATTAAAAAACCCT
* **
86830396 AATCCTAAATTTTAAAAAACTTT
1 AACCCTAAA--TTAAAAAACCCT
86830419 AACCCTAAATTAA
1 AACCCTAAATTAA
86830432 TTAAATAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 11 0.38
23 18 0.62
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (21 bp):
AACCCTAAATTAAAAAACCCT
Found at i:86835294 original size:35 final size:35
Alignment explanation
Indices: 86835253--86835320 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
86835243 AATAATGGAA
86835253 AATAATGATAA-AATAATAATAAACTAAATAATAAT
1 AATAATGATAACAATAAT-ATAAACTAAATAATAAT
* **
86835288 AATAATGCTAACAATAATATAATGTAAATAATA
1 AATAATGATAACAATAATATAAACTAAATAATA
86835321 TGACAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 23 0.79
36 6 0.21
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (35 bp):
AATAATGATAACAATAATATAAACTAAATAATAAT
Found at i:86835303 original size:18 final size:17
Alignment explanation
Indices: 86835253--86835320 Score: 63
Period size: 18 Copynumber: 4.1 Consensus size: 17
86835243 AATAATGGAA
*
86835253 AATAATGATAAAATAAT
1 AATAATGCTAAAATAAT
*
86835270 AATAA-ACTAAATAATAAT
1 AATAATGCT-AA-AATAAT
86835288 AATAATGCTAACAATAAT
1 AATAATGCTAA-AATAAT
86835306 -ATAATG-T-AAATAAT
1 AATAATGCTAAAATAAT
86835320 A
1 A
86835321 TGACAAAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 6 0.14
15 1 0.02
16 2 0.05
17 13 0.30
18 19 0.44
19 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (17 bp):
AATAATGCTAAAATAAT
Found at i:86837165 original size:99 final size:99
Alignment explanation
Indices: 86836994--86837180 Score: 248
Period size: 99 Copynumber: 1.9 Consensus size: 99
86836984 CGTAACTTCA
** * * * * *
86836994 ACCTGCCCCACTGCAACTTCAGGGGGATAAGGTTTGTGATTTCAATCTGCTTCGCTGCAACTTTA
1 ACCTGCCCCACTGCAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTGCTTCACTACAACTTCA
86837059 GGAAGATAAGATTCACCATGGTATACTTGGCCCG
66 GGAAGATAAGATTCACCATGGTATACTTGGCCCG
* * * *
86837093 ACCTGCTCCACTGTAACTTCAGGGAAATAAGGTTAGTGGCTTCGATCTGCTTCACTACAACTTCA
1 ACCTGCCCCACTGCAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTGCTTCACTACAACTTCA
* * *
86837158 GGGAGATAGGATTCGCCATGGTA
66 GGAAGATAAGATTCACCATGGTA
86837181 GATTTGATCT
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
99 74 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (99 bp):
ACCTGCCCCACTGCAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTGCTTCACTACAACTTCA
GGAAGATAAGATTCACCATGGTATACTTGGCCCG
Found at i:86840108 original size:12 final size:12
Alignment explanation
Indices: 86840091--86840116 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
86840081 TCTAAGGAGG
86840091 ATCCTCTTGAGA
1 ATCCTCTTGAGA
86840103 ATCCTCTTGAGA
1 ATCCTCTTGAGA
86840115 AT
1 AT
86840117 ATTCTTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (12 bp):
ATCCTCTTGAGA
Found at i:86850484 original size:35 final size:35
Alignment explanation
Indices: 86850443--86850510 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
86850433 AATAATGGAA
86850443 AATAATGATAA-AATAATAATAAACTAAATAATAAT
1 AATAATGATAACAATAAT-ATAAACTAAATAATAAT
* **
86850478 AATAATGCTAACAATAATATAATGTAAATAATA
1 AATAATGATAACAATAATATAAACTAAATAATA
86850511 CGACAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 23 0.79
36 6 0.21
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (35 bp):
AATAATGATAACAATAATATAAACTAAATAATAAT
Found at i:86850493 original size:18 final size:17
Alignment explanation
Indices: 86850443--86850510 Score: 63
Period size: 18 Copynumber: 4.1 Consensus size: 17
86850433 AATAATGGAA
*
86850443 AATAATGATAAAATAAT
1 AATAATGCTAAAATAAT
*
86850460 AATAA-ACTAAATAATAAT
1 AATAATGCT-AA-AATAAT
86850478 AATAATGCTAACAATAAT
1 AATAATGCTAA-AATAAT
86850496 -ATAATG-T-AAATAAT
1 AATAATGCTAAAATAAT
86850510 A
1 A
86850511 CGACAAAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 6 0.14
15 1 0.02
16 2 0.05
17 13 0.30
18 19 0.44
19 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (17 bp):
AATAATGCTAAAATAAT
Found at i:86856194 original size:20 final size:19
Alignment explanation
Indices: 86856155--86856196 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
86856145 ATTAATAATT
86856155 TAATATATTTATAAATATA
1 TAATATATTTATAAATATA
86856174 TAAT-TATTATATAACATATA
1 TAATATATT-TATAA-ATATA
86856194 TAA
1 TAA
86856197 CTAATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATATATTTATAAATATA
Found at i:86856204 original size:20 final size:19
Alignment explanation
Indices: 86856164--86856204 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
86856154 TTAATATATT
* *
86856164 TATAAATATATAATTATTA
1 TATAAATATATAACTAATA
86856183 TATAACATATATAACTAATA
1 TATAA-ATATATAACTAATA
86856203 TA
1 TA
86856205 ATATTCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TATAAATATATAACTAATA
Found at i:86857067 original size:18 final size:17
Alignment explanation
Indices: 86857028--86857078 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
86857018 TTGAGATTAG
*
86857028 TTTT-TTTTTCTTTATT
1 TTTTATTTTTCTTTATA
86857044 TCTTTATTTTTCTTATATA
1 T-TTTATTTTTCTT-TATA
* *
86857063 TTTTAATATTCTTTAT
1 TTTTATTTTTCTTTAT
86857079 GAAAAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 1 0.03
17 6 0.21
18 18 0.62
19 4 0.14
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTTTTCTTTATA
Found at i:86859512 original size:6 final size:7
Alignment explanation
Indices: 86859494--86859519 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
86859484 CACTCCCTTT
86859494 TAAAAAA
1 TAAAAAA
86859501 TAAAAAA
1 TAAAAAA
86859508 TAAAAAA
1 TAAAAAA
86859515 TAAAA
1 TAAAA
86859520 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:86861553 original size:24 final size:24
Alignment explanation
Indices: 86861526--86861579 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
86861516 TTTCTTTCCT
*
86861526 TTGCATT-CATCCCATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
**
86861550 TTGCATTGCATCATGTGCATTGCA
1 TTGCATTGCATCACATGCATTGCA
86861574 TTGCAT
1 TTGCAT
86861580 CATTTGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:86861568 original size:19 final size:19
Alignment explanation
Indices: 86861546--86861589 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
86861536 CCCATGCATT
86861546 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
*
86861565 TGCATTGCATTGCATCATT
1 TGCATTGCATTGCATCATG
86861584 TGCATT
1 TGCATT
86861590 AGATTTTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:86865711 original size:88 final size:88
Alignment explanation
Indices: 86865562--86865785 Score: 333
Period size: 88 Copynumber: 2.6 Consensus size: 88
86865552 AGCTGAAGAT
* * * *
86865562 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGTAGATCGAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGCCAGGGAGCAGATCGAAGACATAGCTAATTTGGAT
*
86865627 TTCACATGTTTACGTTAAAGCAG
66 TTCACATGTTTACGTTAAAGCAA
*
86865650 ATCCAAGATGATTTGGCATCTCTGTATCAGCCAGGGAGCAGATCGAAGACATAGCTGATTTGGAT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGCCAGGGAGCAGATCGAAGACATAGCTAATTTGGAT
* *
86865715 TTCACGTGTTTACGTTAAAGTAA
66 TTCACATGTTTACGTTAAAGCAA
* * * *
86865738 ATCCAAGATGATTTGGCATCTCTGTAGCGGCGA-AGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGCCAGGGAGCAGATCGAAGA
86865786 TAACAGATTT
Statistics
Matches: 124, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
87 14 0.11
88 110 0.89
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGCCAGGGAGCAGATCGAAGACATAGCTAATTTGGAT
TTCACATGTTTACGTTAAAGCAA
Found at i:86865804 original size:44 final size:44
Alignment explanation
Indices: 86865747--86865837 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
86865737 AATCCAAGAT
86865747 GATTTGGCATCTCTGTAGCGGCGAAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGAAGAGCAGATCGAAGATAACA
* **
86865791 GATTTGGCGTCTCTGTAGCGGCGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGAAGAGCAGATCGAAGATAACA
86865835 GAT
1 GAT
86865838 CAAAGATAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.21
Consensus pattern (44 bp):
GATTTGGCATCTCTGTAGCGGCGAAGAGCAGATCGAAGATAACA
Found at i:86865838 original size:14 final size:14
Alignment explanation
Indices: 86865819--86865851 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
86865809 CGGCGGGGAG
*
86865819 CAGATCGAAGATAA
1 CAGATCAAAGATAA
86865833 CAGATCAAAGATAA
1 CAGATCAAAGATAA
86865847 CAGAT
1 CAGAT
86865852 TTGGCGTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.52, C:0.15, G:0.18, T:0.15
Consensus pattern (14 bp):
CAGATCAAAGATAA
Found at i:86865856 original size:58 final size:58
Alignment explanation
Indices: 86865775--86865889 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
86865765 CGGCGAAGAG
* *
86865775 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGGGAGCAGATCGAAGATAA
1 CAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGGGAACAGATCGAAGATAA
86865833 CAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGGGAACAGATCGAAGATA
1 CAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGGGAACAGATCGAAGATA
86865890 GCATATTTGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.19
Consensus pattern (58 bp):
CAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGGGAACAGATCGAAGATAA
Found at i:86865879 original size:44 final size:44
Alignment explanation
Indices: 86865833--86866393 Score: 798
Period size: 44 Copynumber: 12.8 Consensus size: 44
86865823 TCGAAGATAA
* * *
86865833 CAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGGGAA
1 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* * * * *
86865877 CAGATCGAAGATAGCATATTTGGTGTCTCTATAGCGGCAGAGAG
1 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* *
86865921 CAGATCGAAGATAACAAATTTAGCGTCTCTGTAGCGGCGGAGAG
1 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* * *
86865965 CAGATCGAAAATAACAGATTTGGCATCTCTGTAGCGACGGAGAG
1 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* * * *
86866009 TAGATCGAAGATAGCAGATTTGGCGTCTTTGTAGCGGCGGAAAG
1 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* * * *
86866053 CAGATCGAAGATAGCAGATTTGGCGTCTCTTTAGCAGCGGAAAG
1 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
*
86866097 CAGATTGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
1 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* *
86866141 CAGATCAAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAG
1 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
86866185 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
1 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
** *
86866229 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGTAGAGAA
1 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* * *
86866273 CATATCAAAGATAACAGATTTGGCGTCTCTATAGCGGCGGAGAG
1 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* * *
86866317 CAAATCAAAGATAACAGATTTGGTGTCTCTGTAGCGGCGGAGAG
1 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* * *
86866361 TAGATCGAAGATAACGGATTTGGCATCTCTGTA
1 CAGATCGAAGATAACAGATTTGGCGTCTCTGTA
86866394 TTAGACGGGG
Statistics
Matches: 459, Mismatches: 58, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 459 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (44 bp):
CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
Found at i:86865923 original size:102 final size:102
Alignment explanation
Indices: 86865747--86866375 Score: 320
Period size: 88 Copynumber: 6.9 Consensus size: 102
86865737 AATCCAAGAT
* *
86865747 GATTTGGCATCTCTGTAGCGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCATCTCTGTAGCGGCGAAGAACAGATCGAAGATAACAGATTTGGCGTCTCTATAGCGG
* *
86865812 CGGGGAGCAGATCGAAGATAACAGATCAAAGATAACA
66 CAGAGAGCAGATCGAAGATAACAGATCAAAGATAACA
* ** * * *
86865849 GATTTGGCGTCTCTGTAGCGGCGGGGAACAGATCGAAGATAGCATATTTGGTGTCTCTATAGCGG
1 GATTTGGCATCTCTGTAGCGGCGAAGAACAGATCGAAGATAACAGATTTGGCGTCTCTATAGCGG
86865914 CAGAGAGCAGATCGAAGAT---A-A-C-------A-A
66 CAGAGAGCAGATCGAAGATAACAGATCAAAGATAACA
* * * * * * * *
86865938 -ATTTAGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAAATAACAGATTTGGCATCTCTGTAGCGA
1 GATTTGGCATCTCTGTAGCGGCGAAGAACAGATCGAAGATAACAGATTTGGCGTCTCTATAGCGG
*
86866002 C-G-GAG-AG-T---AGAT--C-G----AAGATAGCA
66 CAGAGAGCAGATCGAAGATAACAGATCAAAGATAACA
* * * * *
86866025 GATTTGGCGTCTTTGTAGCGGCGGAA-AGCAGATCGAAGATAGCAGATTTGGCGTCTCTTTA---
1 GATTTGGCATCTCTGTAGCGGC-GAAGAACAGATCGAAGATAACAGATTTGGCGTCTCTATAGCG
* **
86866086 GC----AGC-G---G-A-A-AGCAGATTGAAGATAACA
65 GCAGAGAGCAGATCGAAGATAACAGATCAAAGATAACA
* * * * * *
86866113 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCATCTCTGTAGCGGCGAAGAACAGATCGAAGATAACAGATTTGGCGTCTCTATAGCGG
86866178 C-G-GAG-AG--C--AGAT--C-G----AAGATAACA
66 CAGAGAGCAGATCGAAGATAACAGATCAAAGATAACA
* * * *
86866201 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCATCTCTGTAGCGGCGAAGAACAGATCGAAGATAACAGATTTGGCGTCTCTATAGCGG
*
86866266 --TAGAG-A-A-C----AT-----ATCAAAGATAACA
66 CAGAGAGCAGATCGAAGATAACAGATCAAAGATAACA
* * * * * * * *
86866289 GATTTGGCGTCTCTATAGCGGCGGAGAGCAAATCAAAGATAACAGATTTGGTGTCTCTGTAGCGG
1 GATTTGGCATCTCTGTAGCGGCGAAGAACAGATCGAAGATAACAGATTTGGCGTCTCTATAGCGG
* *
86866354 CGGAGAGTAGATCGAAGATAAC
66 CAGAGAGCAGATCGAAGATAAC
86866376 GGATTTGGCA
Statistics
Matches: 437, Mismatches: 42, Indels: 98
0.76 0.07 0.17
Matches are distributed among these distances:
81 4 0.01
82 1 0.00
83 5 0.01
84 2 0.00
85 3 0.01
86 5 0.01
87 4 0.01
88 314 0.72
89 3 0.01
90 5 0.01
91 3 0.01
92 2 0.00
93 6 0.01
94 1 0.00
97 3 0.01
98 1 0.00
99 1 0.00
102 74 0.17
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (102 bp):
GATTTGGCATCTCTGTAGCGGCGAAGAACAGATCGAAGATAACAGATTTGGCGTCTCTATAGCGG
CAGAGAGCAGATCGAAGATAACAGATCAAAGATAACA
Found at i:86867986 original size:6 final size:7
Alignment explanation
Indices: 86867968--86867993 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
86867958 CACTCCCTTT
86867968 TAAAAAA
1 TAAAAAA
86867975 TAAAAAA
1 TAAAAAA
86867982 TAAAAAA
1 TAAAAAA
86867989 TAAAA
1 TAAAA
86867994 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:86870199 original size:6 final size:7
Alignment explanation
Indices: 86870181--86870206 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
86870171 CACTCCCTTT
86870181 TAAAAAA
1 TAAAAAA
86870188 TAAAAAA
1 TAAAAAA
86870195 TAAAAAA
1 TAAAAAA
86870202 TAAAA
1 TAAAA
86870207 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:86873626 original size:9 final size:9
Alignment explanation
Indices: 86873612--86873653 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
86873602 GTGAGTAAAG
86873612 GAGAAGAAA
1 GAGAAGAAA
86873621 GAGAAG---
1 GAGAAGAAA
86873627 GAGAAGAAA
1 GAGAAGAAA
86873636 GAGAAGAGAA
1 GAGAAGA-AA
86873646 GAGAAGAA
1 GAGAAGAA
86873654 GAAGAAGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
6 6 0.21
9 14 0.48
10 9 0.31
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (9 bp):
GAGAAGAAA
Found at i:86873629 original size:15 final size:15
Alignment explanation
Indices: 86873609--86873676 Score: 84
Period size: 15 Copynumber: 4.5 Consensus size: 15
86873599 CCAGTGAGTA
86873609 AAGGAGAAGAAAGAG
1 AAGGAGAAGAAAGAG
86873624 AAGGAGAAGAAAGAG
1 AAGGAGAAGAAAGAG
86873639 AA-GAGAAGAGAAGAAG
1 AAGGAGAAGA-AAG-AG
* * *
86873655 AAGAAGGAGAAGGAG
1 AAGGAGAAGAAAGAG
86873670 AAGGAGA
1 AAGGAGA
86873677 GGGCATAAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
14 7 0.16
15 27 0.60
16 6 0.13
17 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (15 bp):
AAGGAGAAGAAAGAG
Found at i:86873630 original size:6 final size:6
Alignment explanation
Indices: 86873609--86873676 Score: 60
Period size: 6 Copynumber: 12.2 Consensus size: 6
86873599 CCAGTGAGTA
86873609 AAGGAG AA-GA- AA-GAG AAGGAG AA-GA- AA-GAG AA-GAG AAGAGAAG
1 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAG-G-AG
*
86873652 AAGAAG AAGGAG AAGGAG AAGGAG A
1 AAGGAG AAGGAG AAGGAG AAGGAG A
86873677 GGGCATAAGG
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
4 8 0.15
5 13 0.24
6 27 0.50
7 1 0.02
8 5 0.09
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:86875469 original size:14 final size:14
Alignment explanation
Indices: 86875450--86875483 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
86875440 GACATTTTTT
86875450 TTCTAATGATACTA
1 TTCTAATGATACTA
86875464 TTCTAATGATACTA
1 TTCTAATGATACTA
86875478 TTCTAA
1 TTCTAA
86875484 CGTGTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (14 bp):
TTCTAATGATACTA
Found at i:86876686 original size:62 final size:62
Alignment explanation
Indices: 86876620--86876840 Score: 397
Period size: 62 Copynumber: 3.6 Consensus size: 62
86876610 TTAATTGCAG
* *
86876620 CATTAAAACTTGGAACAAACTTTATAATATAAATTTTGTTATATAAATTAAATACATTACAA
1 CATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACATTACAA
* *
86876682 CATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATATATAACAA
1 CATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACATTACAA
86876744 CATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACATTACAA
1 CATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACATTACAA
*
86876806 CAATAAAAATTGGAACAAACTTTGTAATATAAATT
1 CATTAAAAATTGGAACAAACTTTGTAATATAAATT
86876841 AGGTACATTG
Statistics
Matches: 152, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 152 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.36
Consensus pattern (62 bp):
CATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACATTACAA
Found at i:86879784 original size:30 final size:30
Alignment explanation
Indices: 86879750--86879810 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
86879740 CCTTAAACTC
86879750 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
86879780 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
86879810 A
1 A
86879811 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:86882629 original size:23 final size:25
Alignment explanation
Indices: 86882603--86882649 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
86882593 TATCATTCAT
*
86882603 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
86882626 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
86882650 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:86882970 original size:46 final size:46
Alignment explanation
Indices: 86882910--86883175 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
86882900 TTTGACGTGA
* * * * * *
86882910 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
86882956 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
86883002 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
86883048 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
86883094 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
86883132 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
86883176 AGAGCACACT
Statistics
Matches: 198, Mismatches: 13, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 151 0.76
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:86883140 original size:38 final size:38
Alignment explanation
Indices: 86883089--86883164 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
86883079 CATTTCATAT
86883089 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
86883127 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
86883165 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:86887600 original size:19 final size:19
Alignment explanation
Indices: 86887568--86887633 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
86887558 ACCCAAATAA
**
86887568 GTTGCTATGCTGTTATTTT
1 GTTGCTATTTTGTTATTTT
*
86887587 GTTGCTATTTTGTTGTTTT
1 GTTGCTATTTTGTTATTTT
* * * *
86887606 GCTACCATTTTGTTATTAT
1 GTTGCTATTTTGTTATTTT
*
86887625 ATTGCTATT
1 GTTGCTATT
86887634 ATTTTGTTGT
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.14, C:0.11, G:0.17, T:0.59
Consensus pattern (19 bp):
GTTGCTATTTTGTTATTTT
Found at i:86905113 original size:76 final size:75
Alignment explanation
Indices: 86904924--86905333 Score: 496
Period size: 73 Copynumber: 5.5 Consensus size: 75
86904914 ATTTCTACGG
* * * * *
86904924 TTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGACTGACATGTTGAGGTATTTT
1 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC-TCA-AGACACGTTGAGGTATTTT
*
86904989 CAATTTCTGCCT
64 CAATTTCTGTCT
* *
86905001 TTC--AAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
*
86905064 ATTCCTGTCT
66 ATTTCTGTCT
* * * *
86905074 TTCAAAAAAATTCAACTCATACTGCAAGAAGCGAGTTGAGCCTTAAGACACGTTGAGGTATTTTC
1 TTCAAAAAAA-TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
86905139 AATTTCTGTCT
65 AATTTCTGTCT
** *
86905150 TTC-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCA
1 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
86905214 A-TT-TGTCT
66 ATTTCTGTCT
* ** * *
86905222 TTCAAAATAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-
1 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTC
* *
86905286 GATCTCTGT-T
65 AATTTCTGTCT
* *
86905296 TTC--AAAAATCAACTCATATTGCGAGAGGTGAGTGGAGC
1 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
86905334 TTCGGATCAC
Statistics
Matches: 296, Mismatches: 30, Indels: 19
0.86 0.09 0.06
Matches are distributed among these distances:
72 40 0.14
73 82 0.28
74 60 0.20
75 46 0.16
76 65 0.22
77 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (75 bp):
TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
ATTTCTGTCT
Found at i:86906173 original size:18 final size:18
Alignment explanation
Indices: 86906150--86906205 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
86906140 CCACTACTAA
86906150 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
86906168 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
86906180 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
86906198 CTCCACTA
1 CTCCACTA
86906206 CCTACTCCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 1 0.03
16 1 0.03
17 3 0.10
18 15 0.50
ACGTcount: A:0.25, C:0.48, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:86906182 original size:30 final size:30
Alignment explanation
Indices: 86906148--86906225 Score: 138
Period size: 30 Copynumber: 2.6 Consensus size: 30
86906138 TGCCACTACT
86906148 AACTCCACTAGCCACACTTGCTCCACCACC
1 AACTCCACTAGCCACACTTGCTCCACCACC
*
86906178 AACTCCACTAGCCACACTTGCTCCACTACC
1 AACTCCACTAGCCACACTTGCTCCACCACC
*
86906208 TACTCCACTAGCCACACT
1 AACTCCACTAGCCACACT
86906226 CCACCACCAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.27, C:0.47, G:0.06, T:0.19
Consensus pattern (30 bp):
AACTCCACTAGCCACACTTGCTCCACCACC
Found at i:86906794 original size:25 final size:25
Alignment explanation
Indices: 86906754--86906906 Score: 96
Period size: 25 Copynumber: 6.0 Consensus size: 25
86906744 ATTCTAAATT
* *
86906754 CTATATTACGTATATATATATATTATA
1 CTATATTATGTATATATAT-T-TAATA
* *
86906781 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
* * *
86906806 CTATATTATTTATATATTTTTTTTACATG
1 CTATATTATGTATATA---TATTTA-ATA
* *
86906835 TTATCTTATGTATATAT-TTTAAT-
1 CTATATTATGTATATATATTTAATA
* * * *
86906858 -TATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATATTTAATA
* *
86906882 CTATATTATGTACATATTTTTAATA
1 CTATATTATGTATATATATTTAATA
86906907 TTATCACGTA
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
22 14 0.14
23 4 0.04
24 2 0.02
25 42 0.42
26 2 0.02
27 16 0.16
28 5 0.05
29 15 0.15
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:86906865 original size:22 final size:22
Alignment explanation
Indices: 86906835--86906942 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
86906825 TTTTTACATG
*
86906835 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
86906857 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
86906882 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * *
86906905 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
86906925 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
86906943 ATGTAGTATT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 2 0.03
22 17 0.25
23 12 0.18
24 13 0.19
25 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:86906909 original size:20 final size:20
Alignment explanation
Indices: 86906884--86906942 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
86906874 TTTTTACACT
86906884 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
86906904 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
86906927 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
86906943 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:86909692 original size:28 final size:26
Alignment explanation
Indices: 86909660--86909721 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 26
86909650 TGTAAGAATT
86909660 TAAAATAAATAATATATACATAAAAATG
1 TAAAATAAATAATATATA-A-AAAAATG
* *
86909688 TAAAATAAATAATATATAAAATAATT
1 TAAAATAAATAATATATAAAAAAATG
86909714 TAAAATAA
1 TAAAATAA
86909722 TATGTAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 13 0.41
27 1 0.03
28 18 0.56
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
TAAAATAAATAATATATAAAAAAATG
Found at i:86915980 original size:5 final size:5
Alignment explanation
Indices: 86915942--86915996 Score: 58
Period size: 5 Copynumber: 11.0 Consensus size: 5
86915932 TATAAATTTA
* * * *
86915942 ATTAT GTTAA ATTAT AATA- ATTAT ATTAGA ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTA-T ATTAT ATTAT ATTAT ATTAT
86915992 ATTAT
1 ATTAT
86915997 GAAAGAAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
4 3 0.08
5 33 0.82
6 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (5 bp):
ATTAT
Found at i:86916415 original size:5 final size:5
Alignment explanation
Indices: 86916400--86916441 Score: 68
Period size: 5 Copynumber: 8.4 Consensus size: 5
86916390 AAGTAAATAG
86916400 ATATT -TATT ATATT ATATT ATATT ATATT ATATT ATTATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT A-TATT AT
86916442 TATTGTTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.11
5 26 0.74
6 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATATT
Found at i:86917000 original size:11 final size:11
Alignment explanation
Indices: 86916984--86917008 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
86916974 GAATTTAAAG
86916984 TAGAAATTGAA
1 TAGAAATTGAA
86916995 TAGAAATTGAA
1 TAGAAATTGAA
86917006 TAG
1 TAG
86917009 GAAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (11 bp):
TAGAAATTGAA
Found at i:86917403 original size:69 final size:75
Alignment explanation
Indices: 86917309--86917484 Score: 186
Period size: 77 Copynumber: 2.3 Consensus size: 75
86917299 AACGTGAACA
* * *
86917309 GATTGGAAATTAAAAGTGATTTGAATT-AAGT-AATTG-ATT-T-ATG-AATTATGTGAATATTT
1 GATTGGAAACT-AAAGTGATTTGAATTGAA-TAAATTGAATTATGAAGAAAATATGTGAATATTT
86917368 GAAA-GTATATT
64 GAAATGTATATT
*
86917379 GATTGGAAACTAAAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTATT
1 GATTGGAAACTAAAGTGATTTGAATTGAAT-AAATTGAATT--ATGAAGAAAATATGTGAATATT
86917444 TGAAATGTATATT
63 TGAAATGTATATT
* *
86917457 GATTGAAAAGTAATTAGTGATTTGAATT
1 GATTGGAAACTAA--AGTGATTTGAATT
86917485 TGATTGGAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
69 16 0.18
70 12 0.14
71 5 0.06
72 3 0.03
75 1 0.01
76 2 0.02
77 18 0.20
78 18 0.20
80 13 0.15
ACGTcount: A:0.41, C:0.01, G:0.20, T:0.38
Consensus pattern (75 bp):
GATTGGAAACTAAAGTGATTTGAATTGAATAAATTGAATTATGAAGAAAATATGTGAATATTTGA
AATGTATATT
Found at i:86917837 original size:21 final size:21
Alignment explanation
Indices: 86917811--86917896 Score: 111
Period size: 21 Copynumber: 4.1 Consensus size: 21
86917801 AGCTTTGCTG
86917811 ATCAGGCA-CTATATGTGTCGT
1 ATCAGGCACCT-TATGTGTCGT
*
86917832 ATCAGGCACCTCATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
* *
86917853 ATCAGGCACCTTGTGTATCGT
1 ATCAGGCACCTTATGTGTCGT
* *
86917874 TTCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
86917895 AT
1 AT
86917897 ACTGTTTCTG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 53 0.96
22 2 0.04
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (21 bp):
ATCAGGCACCTTATGTGTCGT
Found at i:86920257 original size:32 final size:32
Alignment explanation
Indices: 86920219--86920282 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
86920209 AAATATATTA
86920219 AAAACATAAAACAATGGTCATCTTCAACCATT
1 AAAACATAAAACAATGGTCATCTTCAACCATT
86920251 AAAACATAAAACAATGGTCATCTTCAACCATT
1 AAAACATAAAACAATGGTCATCTTCAACCATT
86920283 CTTTCCTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.25
Consensus pattern (32 bp):
AAAACATAAAACAATGGTCATCTTCAACCATT
Found at i:86923297 original size:27 final size:26
Alignment explanation
Indices: 86923257--86923310 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
86923247 CTATATGATT
86923257 TTTTTAAAGATT-AAGTTAAAATTTTA
1 TTTTTAAAGATTAAAG-TAAAATTTTA
* *
86923283 TTTTTAGAGAGTTAAAGTATAATTTTA
1 TTTTTAAAGA-TTAAAGTAAAATTTTA
86923310 T
1 T
86923311 CATTATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.38
27 12 0.50
28 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (26 bp):
TTTTTAAAGATTAAAGTAAAATTTTA
Found at i:86935337 original size:21 final size:21
Alignment explanation
Indices: 86935295--86935337 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
86935285 TTTTCTGAAT
* ***
86935295 ATTTTTATTAATTATTTTTAA
1 ATTTTTATGAATTATACGTAA
86935316 ATTTTTATGAATTATACGTAA
1 ATTTTTATGAATTATACGTAA
86935337 A
1 A
86935338 CTATCACGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTTTATGAATTATACGTAA
Found at i:86938615 original size:21 final size:21
Alignment explanation
Indices: 86938591--86938633 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
86938581 TTCTGATTTG
*
86938591 TTAAAATTTCTTGAGATTTTT
1 TTAAAATTTCTTGACATTTTT
* *
86938612 TTAAATTTTTTTGACATTTTT
1 TTAAAATTTCTTGACATTTTT
86938633 T
1 T
86938634 GTATTTTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.63
Consensus pattern (21 bp):
TTAAAATTTCTTGACATTTTT
Found at i:86939208 original size:22 final size:21
Alignment explanation
Indices: 86939161--86939208 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
86939151 AGAAAAAATT
* * *
86939161 ATTAAAGGTGTTTTTTTTATA
1 ATTAAAAGTGTTTTTTTAAGA
86939182 ATTAAAAGTGTTTTTTTAAGA
1 ATTAAAAGTGTTTTTTTAAGA
86939203 AGTTAA
1 A-TTAA
86939209 TGAAAGGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (21 bp):
ATTAAAAGTGTTTTTTTAAGA
Found at i:86940687 original size:30 final size:31
Alignment explanation
Indices: 86940663--86940721 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
86940653 GTAAATACTT
* * *
86940663 AAAATTTGAGGGATTAA-AGTGTAAATATAA
1 AAAATTTAAAGGACTAATAGTGTAAATATAA
86940693 AAAATTTAAAGGACTAATAGTGTAAATAT
1 AAAATTTAAAGGACTAATAGTGTAAATAT
86940722 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.31
Consensus pattern (31 bp):
AAAATTTAAAGGACTAATAGTGTAAATATAA
Found at i:86946850 original size:132 final size:132
Alignment explanation
Indices: 86946438--86946959 Score: 471
Period size: 132 Copynumber: 4.0 Consensus size: 132
86946428 TAGAAAATAC
* * * * *
86946438 GAGTGAAATTCCGAAGAGATATTCGATTGTTTTGAACAAACGAGAGATTGCAACCCAGCACGATA
1 GAGTGAAATT-TGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
* * * **
86946503 GGGCACGATT-CTCGAATTGCCAAACATCGAAC-ATAGCCTTTGTTTTAAAGGGTTTTCTTAAAA
65 GGGCACGATTCCTCGAATTGCCAAACATCAAACTATTGCCTTCGTTTTAAA-GAATTT-TTAAAA
*
86946566 AACAT
128 GACAT
** * * * * ** * *
86946571 GAGTGAAAACCTAAAGGAATATTCGATCATTTTGAACAAACGAAAAATCACAACCCAGCATGATA
1 GAGTG-AAATTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
* * * ** * * * * *
86946636 GAGCATGATTCC-CGAATTGTCAAACA-CCGAGTATTGCCTTCATTTTAGAGGATTTTTAGAAGA
65 GGGCACGATTCCTCGAATTGCCAAACATCAAACTATTGCCTTCGTTTTAAAGAATTTTTAAAAGA
*
86946699 CCT
130 CAT
* * * * * * *
86946702 GAATGGAATCTCGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACATGTTA
1 GAGTGAAAT-TTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
* * *
86946767 GGGCACGATTCCGCGAATTGCCAAATATCAAACT-TTGCCTTCGTTTTAAAGAATTTTTAAAAGG
65 GGGCACGATTCCTCGAATTGCCAAACATCAAACTATTGCCTTCGTTTTAAAGAATTTTTAAAAGA
86946831 CAT
130 CAT
* * * *
86946834 GAGTGAAAGTTTGAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTA
1 GAGTGAAA-TTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
* * * * * **
86946899 GGGCACTATTCCTCAAATTGCCAAATATCAAA-TCTCGTTTTCGTTTTAAAGAATTTTTAAA
65 GGGCACGATTCCTCGAATTGCCAAACATCAAACTATTGCCTTCGTTTTAAAGAATTTTTAAA
86946960 TGAATACTTA
Statistics
Matches: 313, Mismatches: 68, Indels: 17
0.79 0.17 0.04
Matches are distributed among these distances:
130 2 0.01
131 66 0.21
132 155 0.50
133 86 0.27
134 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (132 bp):
GAGTGAAATTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAG
GGCACGATTCCTCGAATTGCCAAACATCAAACTATTGCCTTCGTTTTAAAGAATTTTTAAAAGAC
AT
Found at i:86946957 original size:264 final size:264
Alignment explanation
Indices: 86946449--86946957 Score: 547
Period size: 264 Copynumber: 1.9 Consensus size: 264
86946439 AGTGAAATTC
* * *
86946449 CGAAGAGATATTCGATTGTTTTGAACAAACGAGAGATTGCAACCCAGCACGATAGGGCACGATTC
1 CGAAGAGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTC
* * * **
86946514 TCGAATTGCCAAACATCGAACATAGCCTTTGTTTTAAAGGGTTTTCTTAAAAAACATGAGTGAAA
66 GCGAATTGCCAAACATCAAACATAGCCTTCGTTTTAAAGGAATTTCTTAAAAAACATGAGTGAAA
* * *
86946579 ACCTAAAGGAATATTCGATCATTTTGAACAAACGAAAAATCACAACCCAGCATGATAGAGCATGA
131 ACCTAAAGGAATATTCGATCATTTCGAACAAACGAAAAATCACAACCCAACACGATAGAGCATGA
* * * * * * *
86946644 TTCCCGAATTGTCAAACACCGAGTATTGCCTTCATTTTAGAGGATTTTTAGAAGACCTGAATGGA
196 TTCCCAAATTGCCAAACACCAAATATCGCCTTCATTTTAAAGAATTTTTAGAAGACCTGAATGGA
86946709 ATCT
261 ATCT
* * * * *
86946713 CGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACATGTTAGGGCACGATTC
1 CGAAGAGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGCACGATT-
* * * **
86946778 CGCGAATTGCCAAATATCAAACTTTGCCTTCGTTTTAAA-GAATTT-TTAAAAGGCATGAGTGAA
65 CGCGAATTGCCAAACATCAAACATAGCCTTCGTTTTAAAGGAATTTCTTAAAAAACATGAGTGAA
*** * * * * ** ** * *
86946841 AGTTTGAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACT
130 AACCTAAAGGAATATTCGATCATTTCGAACAAACGAAAAATCACAACCCAACACGATAGAGCA-T
* * * ** *
86946906 -ATTCCTCAAATTGCCAAATATCAAATCTCGTTTTCGTTTTAAAGAATTTTTA
194 GATTCC-CAAATTGCCAAACACCAAATATCGCCTTCATTTTAAAGAATTTTTA
86946958 AATGAATACT
Statistics
Matches: 195, Mismatches: 47, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
263 68 0.35
264 94 0.48
265 33 0.17
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (264 bp):
CGAAGAGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTC
GCGAATTGCCAAACATCAAACATAGCCTTCGTTTTAAAGGAATTTCTTAAAAAACATGAGTGAAA
ACCTAAAGGAATATTCGATCATTTCGAACAAACGAAAAATCACAACCCAACACGATAGAGCATGA
TTCCCAAATTGCCAAACACCAAATATCGCCTTCATTTTAAAGAATTTTTAGAAGACCTGAATGGA
ATCT
Found at i:86949789 original size:44 final size:44
Alignment explanation
Indices: 86949736--86950035 Score: 424
Period size: 44 Copynumber: 6.8 Consensus size: 44
86949726 ATTATTTTCA
*
86949736 ATCTGCTCTCTGCCAATACAGAGATGCCAAATCTG-TCATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT-ATCTTCG
* * *
86949780 ATTTGCTCTCCGCCAATACCA-AGACGCCAAATCTGCTATCTTCA
1 ATCTGCTCTCTGCCAATA-CAGAGACGCCAAATCTGCTATCTTCG
*
86949824 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTTG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* * * *
86949868 ATCTGCTTTCTGCCAATACAGAGACGCCAAATTTGTTATCTTTG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
*
86949912 ATCTGCTTTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* * *
86949956 ATCTGCTCTCTGTCAACACAGAGATGCCAAATCTGCTATCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
* * *
86950000 ATCTGCTCTCTGTCAACACAGAGATGCCAAATCTGC
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGC
86950036 AGGATTCGCC
Statistics
Matches: 235, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
43 2 0.01
44 230 0.98
45 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (44 bp):
ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCTTCG
Found at i:86953576 original size:23 final size:23
Alignment explanation
Indices: 86953550--86953642 Score: 80
Period size: 23 Copynumber: 3.8 Consensus size: 23
86953540 GATGGATTAT
86953550 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATTCTGGTGTGTTTGGGAGG
*
86953573 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGGAGG
* *
86953601 ATTATACTGGTGTGTTTTGGTAGG
1 ATTATTCTGGTGTG-TTTGGGAGG
* *
86953625 A-CATTTTGGTGTGTTTGG
1 ATTATTCTGGTGTGTTTGG
86953643 ATGGAATCCG
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
22 5 0.09
23 18 0.32
24 9 0.16
25 3 0.05
26 3 0.05
27 2 0.04
28 17 0.30
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.45
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGGAGG
Found at i:86953576 original size:28 final size:28
Alignment explanation
Indices: 86953523--86953606 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
86953513 CACTTTGTGC
*
86953523 TATTCTGGTGTATTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
86953552 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
86953580 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
86953607 CTGGTGTGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 33 0.66
29 17 0.34
ACGTcount: A:0.20, C:0.04, G:0.30, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:86953880 original size:21 final size:21
Alignment explanation
Indices: 86953823--86953883 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
86953813 AGGCACTTTA
*
86953823 TATGTCGTATTTCAGGCACCTTG
1 TATGTCG--TTTCAGGCACCTCG
***
86953846 TATGTCGCAACAGGCACCTCG
1 TATGTCGTTTCAGGCACCTCG
*
86953867 TGTGTCGTTTCAGGCAC
1 TATGTCGTTTCAGGCAC
86953884 TTATGTGTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 23 0.77
23 7 0.23
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.31
Consensus pattern (21 bp):
TATGTCGTTTCAGGCACCTCG
Found at i:86969142 original size:131 final size:132
Alignment explanation
Indices: 86969003--86969282 Score: 325
Period size: 131 Copynumber: 2.1 Consensus size: 132
86968993 AAAATCACAG
* * * * * * **
86969003 CCCAACACGATAGGGCATGATTCC-CGAATTGT-CAAACACCGAGCATTGCCTTCATTTTAGAGG
1 CCCAACACGTTAGGGCACGACTCCGCGAATT-TCCAAACACCAAACATTGCCTTCATTTTAAAAA
* * * *
86969066 ATTTTTAGAAGACCTGAATGAAA-TCTCGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATT
65 ATTTTTAAAAGACATGAATGAAAGT-TCGAAGGGATATTCGATTATTTCGAGCAAACGAGAAATT
86969130 GAAA
129 GAAA
* * * *
86969134 CCCAACACGTTA-GGCACGACTCCGCGAATTTCCAAATATCAAACTTTGCCTTCGTTTTAAAAAA
1 CCCAACACGTTAGGGCACGACTCCGCGAATTTCCAAACACCAAACATTGCCTTCATTTTAAAAAA
* * * * *
86969198 TTTTTAAAAGGCATGAGTGAAAGTTTGAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGC
66 TTTTTAAAAGACATGAATGAAAGTTCGAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGA
86969263 AA
131 AA
86969265 CCCAACACGTTAGGGCAC
1 CCCAACACGTTAGGGCAC
86969283 TATTCTACGA
Statistics
Matches: 124, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
130 10 0.08
131 108 0.87
132 6 0.05
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (132 bp):
CCCAACACGTTAGGGCACGACTCCGCGAATTTCCAAACACCAAACATTGCCTTCATTTTAAAAAA
TTTTTAAAAGACATGAATGAAAGTTCGAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGA
AA
Found at i:86978945 original size:8 final size:8
Alignment explanation
Indices: 86978932--86978967 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
86978922 AACTCTATTA
86978932 CGGTGTTG
1 CGGTGTTG
86978940 CGGTGTTG
1 CGGTGTTG
86978948 CGGTGTTG
1 CGGTGTTG
86978956 CGGTGTTG
1 CGGTGTTG
86978964 CGGT
1 CGGT
86978968 TTCGGTACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.00, C:0.14, G:0.50, T:0.36
Consensus pattern (8 bp):
CGGTGTTG
Found at i:86982603 original size:132 final size:132
Alignment explanation
Indices: 86982467--86982711 Score: 384
Period size: 132 Copynumber: 1.9 Consensus size: 132
86982457 AGGAATCTCA
* * *
86982467 AAGGGATGTTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
1 AAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
* *
86982532 TGAATTGCCAAATATCAAA-CTTTGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAGT
66 CGAATTGCCAAATATCAAATC-TCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAGT
86982596 TTG
130 TTG
* *
86982599 AAGGGATATTCGATTATTTCGAGCAAACGTGAAATTGCAACCCAACACGTTAGGGCACTATTCCG
1 AAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
** *
86982664 CGAATTGCCAAATATCAAATCTCGTTTTCGTTTTTAAGAATTTTTAAA
66 CGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAA
86982712 TGAATACTTA
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
132 101 0.99
133 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (132 bp):
AAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
CGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAGTT
TG
Found at i:86985039 original size:5 final size:5
Alignment explanation
Indices: 86985029--86985103 Score: 50
Period size: 5 Copynumber: 14.8 Consensus size: 5
86985019 AATTTCTCCT
* *
86985029 TTTTC TTTTC TTTTC TTCTT- TCTTTC -TTTC TATTTC GTTTC TTCTC
1 TTTTC TTTTC TTTTC TT-TTC T-TTTC TTTTC T-TTTC TTTTC TTTTC
*
86985075 TGTTTC TTTTTC TTGT- TTTTC -TTTC TTTT
1 T-TTTC -TTTTC TTTTC TTTTC TTTTC TTTT
86985104 ATTTATTCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 18
0.70 0.08 0.23
Matches are distributed among these distances:
4 11 0.20
5 29 0.53
6 14 0.25
7 1 0.02
ACGTcount: A:0.01, C:0.20, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:86985047 original size:22 final size:22
Alignment explanation
Indices: 86985022--86985084 Score: 56
Period size: 26 Copynumber: 2.7 Consensus size: 22
86985012 AAACCCTAAT
*
86985022 TTCTCCTTTTTCTTTTCTTTTC
1 TTCTCCTTTTTCTTTTCGTTTC
*
86985044 TTCTTTCTTTCTTTCTATTTCGTTTC
1 TTC--TCCTT-TTTCT-TTTCGTTTC
*
86985070 TTCT-CTGTTTCTTTT
1 TTCTCCTTTTTCTTTT
86985085 TCTTGTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
21 3 0.09
22 8 0.24
23 1 0.03
24 5 0.15
25 5 0.15
26 11 0.33
ACGTcount: A:0.02, C:0.24, G:0.03, T:0.71
Consensus pattern (22 bp):
TTCTCCTTTTTCTTTTCGTTTC
Found at i:86985050 original size:26 final size:26
Alignment explanation
Indices: 86985030--86985102 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 26
86985020 ATTTCTCCTT
*
86985030 TTTCT-TTTCTTTTCTTCTTTCTTTC
1 TTTCTATTTCGTTTCTTCTTTCTTTC
* *
86985055 TTTCTATTTCGTTTCTTCTCTGTTTC
1 TTTCTATTTCGTTTCTTCTTTCTTTC
86985081 TTT-T-TCTT-GTTT-TTCTTTCTTT
1 TTTCTAT-TTCGTTTCTTCTTTCTTT
86985103 TATTTATTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
23 8 0.20
24 5 0.12
25 8 0.20
26 20 0.49
ACGTcount: A:0.01, C:0.21, G:0.04, T:0.74
Consensus pattern (26 bp):
TTTCTATTTCGTTTCTTCTTTCTTTC
Found at i:86985279 original size:3 final size:3
Alignment explanation
Indices: 86985271--86985295 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
86985261 TTGATGAAAT
86985271 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
86985296 GTAAATATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:86993389 original size:47 final size:46
Alignment explanation
Indices: 86993286--86993425 Score: 136
Period size: 47 Copynumber: 2.9 Consensus size: 46
86993276 TTTTACTAAA
* * * ** * *
86993286 ATGCCATAGCTCAGCTATGGTCTTACATCTTATACACATATCACACCG
1 ATGCCATATCCCAGATATGGTCTTACA-CAAAT-CACTTATCACTCCG
86993334 ATGCCATATCCCAGATATGGTCTTACACAAATGCACTTATCACTCCG
1 ATGCCATATCCCAGATATGGTCTTACACAAAT-CACTTATCACTCCG
* * * *
86993381 ATGCCATATCCCATATATGATTTTACACGGAAATCACTTGTCACT
1 ATGCCATATCCCAGATATGGTCTTACAC--AAATCACTTATCACT
86993426 TGTAGCCGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
47 40 0.51
48 34 0.44
49 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (46 bp):
ATGCCATATCCCAGATATGGTCTTACACAAATCACTTATCACTCCG
Found at i:86993462 original size:31 final size:31
Alignment explanation
Indices: 86993427--86993513 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
86993417 CTTGTCACTT
* *
86993427 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
86993458 GTAGCTGAAGCTACCACTTTTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
* *
86993489 GTAACTGAAACTACCACTTTTCACT
1 GTAGCTGAAGCTACCACTTTTCACT
86993514 TGTCATTAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
GTAGCTGAAGCTACCACTTTTCACTGATCAG
Found at i:86993593 original size:50 final size:50
Alignment explanation
Indices: 86993533--86993715 Score: 339
Period size: 50 Copynumber: 3.7 Consensus size: 50
86993523 TCCTTAATCG
86993533 GATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCA
1 GATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCA
86993583 GATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCA
1 GATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCA
* *
86993633 GATAAGTGTAGCCGAAGCTATCATTTATCTCTTTCACTTGTTCTTGATCA
1 GATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCA
*
86993683 GATAAGTGTAGTCGAAGCTATCACTTATCACTT
1 GATAAGTGTAGCCGAAGCTATCACTTATCACTT
86993716 GTTGCCATGG
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 128 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (50 bp):
GATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTCTTGATCA
Found at i:87010054 original size:39 final size:39
Alignment explanation
Indices: 87009976--87010066 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 39
87009966 CACATTAAAA
87009976 AATAT-ATA-AAAATATAAAAATATATATATAAATTCAG
1 AATATAATATAAAATATAAAAATATATATATAAATTCAG
*
87010013 AATA-AATATAAAATATAGAAAA-A-ATATATAAATTTATAG
1 AATATAATATAAAATATA-AAAATATATATATAAA-TT-CAG
*
87010052 AATATAAGATAAAAT
1 AATATAATATAAAAT
87010067 TTACAAAAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
37 16 0.35
38 11 0.24
39 10 0.22
40 9 0.20
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (39 bp):
AATATAATATAAAATATAAAAATATATATATAAATTCAG
Found at i:87011500 original size:7 final size:7
Alignment explanation
Indices: 87011484--87011517 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
87011474 CCAGTCCATC
*
87011484 GGCCTTA
1 GGCCTCA
87011491 GGCCTCA
1 GGCCTCA
87011498 GGCCTCA
1 GGCCTCA
87011505 GGCCTCA
1 GGCCTCA
87011512 GGCCTC
1 GGCCTC
87011518 TTAGCTAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.41, G:0.29, T:0.18
Consensus pattern (7 bp):
GGCCTCA
Found at i:87012778 original size:20 final size:23
Alignment explanation
Indices: 87012730--87012780 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
87012720 GATTGGATTA
87012730 ATTTATAATTTATTATATTAAATT
1 ATTTA-AATTTATTATATTAAATT
*
87012754 ATTTAAATTTA-TAT-TTAAGTT
1 ATTTAAATTTATTATATTAAATT
87012775 -TTTAAA
1 ATTTAAA
87012781 ATATTTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.23
21 6 0.23
22 3 0.12
23 6 0.23
24 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTTAAATTTATTATATTAAATT
Found at i:87014268 original size:20 final size:20
Alignment explanation
Indices: 87014240--87014278 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
87014230 ATATATTAAT
* *
87014240 TAAATTTTATTAAATGAAAA
1 TAAAATTTAATAAATGAAAA
87014260 TAAAATTTAATAAATGAAA
1 TAAAATTTAATAAATGAAA
87014279 TTACATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TAAAATTTAATAAATGAAAA
Found at i:87024106 original size:14 final size:14
Alignment explanation
Indices: 87024087--87024116 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
87024077 CAAGTTAAAA
87024087 AGGTTATATAACTT
1 AGGTTATATAACTT
87024101 AGGTTATATAACTT
1 AGGTTATATAACTT
87024115 AG
1 AG
87024117 ATGTCCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (14 bp):
AGGTTATATAACTT
Found at i:87026118 original size:50 final size:50
Alignment explanation
Indices: 87026028--87026123 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
87026018 CACCTTCCTT
*
87026028 TTTAATTCAATATCATCCATTCCCATGAAGACGCGAGCATCAATCAGTCA
1 TTTAATTCAATATCATCCATTCCCATGAAGACGAGAGCATCAATCAGTCA
* * * * *
87026078 TTTAATTCAATGTCATCCGTTCCCATGAAGATGAGGGCATCGATCA
1 TTTAATTCAATATCATCCATTCCCATGAAGACGAGAGCATCAATCA
87026124 AAGTTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (50 bp):
TTTAATTCAATATCATCCATTCCCATGAAGACGAGAGCATCAATCAGTCA
Found at i:87031562 original size:34 final size:34
Alignment explanation
Indices: 87031524--87031592 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
87031514 ATAACAAAGA
87031524 AAAAACTATCAAGGGAATTAAGGTTAAATAATGT
1 AAAAACTATCAAGGGAATTAAGGTTAAATAATGT
* *
87031558 AAAAATTATCAAGGGAATTAAGGTTAGATAATGT
1 AAAAACTATCAAGGGAATTAAGGTTAAATAATGT
87031592 A
1 A
87031593 CAGAAACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28
Consensus pattern (34 bp):
AAAAACTATCAAGGGAATTAAGGTTAAATAATGT
Found at i:87042253 original size:13 final size:13
Alignment explanation
Indices: 87042231--87042266 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
87042221 CTACATGATC
87042231 AATT-TTATAATA
1 AATTATTATAATA
87042243 AATTATTATAATA
1 AATTATTATAATA
*
87042256 AATCATTATAA
1 AATTATTATAA
87042267 AATAGAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTATTATAATA
Found at i:87049601 original size:24 final size:24
Alignment explanation
Indices: 87049533--87049591 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
87049523 TTTAGTATTT
87049533 TTTCCTTTTTTCTCTTCTTTTAAG
1 TTTCCTTTTTTCTCTTCTTTTAAG
87049557 TTTCCTTTTTTCTCTTCTTTTAAG
1 TTTCCTTTTTTCTCTTCTTTTAAG
87049581 TTTCCTTTTTT
1 TTTCCTTTTTT
87049592 TTCCCTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.07, C:0.20, G:0.03, T:0.69
Consensus pattern (24 bp):
TTTCCTTTTTTCTCTTCTTTTAAG
Found at i:87050072 original size:56 final size:55
Alignment explanation
Indices: 87049986--87050134 Score: 221
Period size: 56 Copynumber: 2.7 Consensus size: 55
87049976 GTTACGCAGG
87049986 AATCAAATTGCTAAAAGATAATATGCCATAATAATATC-CTATAATATCCTATTAGA
1 AATCAAATTGCTAAAAGATAATAT-CCATAATAATATCTC-ATAATATCCTATTAGA
* *
87050042 AATCAAATTGCTAATAA-ATAATATCTCATAACAATATCTCATAATATCCTATTAGG
1 AATCAAATTGCTAA-AAGATAATATC-CATAATAATATCTCATAATATCCTATTAGA
87050098 AATCAAATTGCTAAAAGATAATATCCCATAATAATAT
1 AATCAAATTGCTAAAAGATAATAT-CCATAATAATAT
87050135 TCTAACACCC
Statistics
Matches: 85, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
55 3 0.04
56 78 0.92
57 4 0.05
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (55 bp):
AATCAAATTGCTAAAAGATAATATCCATAATAATATCTCATAATATCCTATTAGA
Found at i:87050079 original size:13 final size:13
Alignment explanation
Indices: 87050061--87050085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87050051 GCTAATAAAT
87050061 AATATCTCATAAC
1 AATATCTCATAAC
87050074 AATATCTCATAA
1 AATATCTCATAA
87050086 TATCCTATTA
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:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AATATCTCATAAC
Found at i:87057170 original size:14 final size:15
Alignment explanation
Indices: 87057151--87057179 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
87057141 TAAAAAAGGC
87057151 AAGATTAAAT-GAAA
1 AAGATTAAATCGAAA
87057165 AAGATTAAATCGAAA
1 AAGATTAAATCGAAA
87057180 CCATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.03, G:0.14, T:0.21
Consensus pattern (15 bp):
AAGATTAAATCGAAA
Found at i:87057331 original size:19 final size:19
Alignment explanation
Indices: 87057282--87057332 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
87057272 ACTTAAAGCA
*
87057282 TAAATTGAAAATAAATAAG
1 TAAATTGAAAATAAAGAAG
* * *
87057301 -AGAATGGGAAATAAAGGAG
1 TA-AATTGAAAATAAAGAAG
87057320 TAAATTGAAAATA
1 TAAATTGAAAATA
87057333 TAACAAAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (19 bp):
TAAATTGAAAATAAAGAAG
Found at i:87058932 original size:93 final size:93
Alignment explanation
Indices: 87058826--87058994 Score: 225
Period size: 93 Copynumber: 1.8 Consensus size: 93
87058816 CAACCCACTG
* * *
87058826 CAACTTCATGGGTATAG-GAATTGTAGCTTCAACTTGCTCCACTGCAA-TTTCAGGAAGATAAGA
1 CAACTTCAAGGGTATAGAG-ATTGTAGCTTCAACTTACTCCACTGCAACTTCCAGG-AGATAAGA
*
87058889 TTCGCTATTGTAGCTTCATTCAACCCCTTA
64 TTCGCTATGGTAGCTTCATTCAACCCCTTA
* * * * *
87058919 CAACTTCAAGGGTATAGAGTTTGTAGCTTTATCTTACTCCACTGTAACTTCCAGGATATAAGATT
1 CAACTTCAAGGGTATAGAGATTGTAGCTTCAACTTACTCCACTGCAACTTCCAGGAGATAAGATT
87058984 CGCTATGGTAG
66 CGCTATGGTAG
87058995 ATGTAACACC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
93 58 0.89
94 7 0.11
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (93 bp):
CAACTTCAAGGGTATAGAGATTGTAGCTTCAACTTACTCCACTGCAACTTCCAGGAGATAAGATT
CGCTATGGTAGCTTCATTCAACCCCTTA
Found at i:87060367 original size:47 final size:47
Alignment explanation
Indices: 87060304--87060974 Score: 1099
Period size: 47 Copynumber: 14.3 Consensus size: 47
87060294 CCCTTCGGGA
* * *
87060304 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
87060351 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
87060398 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
87060445 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
87060492 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
87060539 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
87060586 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
87060633 TTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
87060680 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
87060727 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
87060774 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
87060821 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
87060868 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
87060915 TTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
87060962 CTTATCACATATA
1 CTTATCACATATA
87060975 CATATCTTGT
Statistics
Matches: 582, Mismatches: 42, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 582 1.00
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:87060830 original size:22 final size:22
Alignment explanation
Indices: 87060802--87060877 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
87060792 TTTCACATTC
87060802 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
87060824 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
87060848 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
87060871 ATCACAT
1 ATCACAT
87060878 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:87063690 original size:44 final size:44
Alignment explanation
Indices: 87063440--87063691 Score: 167
Period size: 44 Copynumber: 5.6 Consensus size: 44
87063430 TCAATCCGAC
* ** *
87063440 CCACTGTAACTTCAGGG-GTATAGGATTTGTAGCTTCAATC-TGAT
1 CCACTGCAACTTCAGGGAG-ATAAAATTTGTAGCTTC-ATCTTGCT
* * *
87063484 TCACTGCAACTTCAGGGATATAGGAA-TTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGAGATA-AAATTTGTAGCTTCATCTTGCT
* * * *
87063528 CCACTGTAACTTCAGGGAGATAAGATTCGCCACTGTAGTTTCAATC-AGC-
1 CCACTGCAACTTCAGGGAGATAAAATT------TGTAGCTTC-ATCTTGCT
* *
87063577 CCACTGGAACTTCAGGG-GTATAGAATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGAG-ATAAAATTTGTAGCTTCATCTTGCT
* * * * * *
87063621 CCATTACAACTTTAAGGG-TACAAAATTTGTAGCTTCATCTTGTT
1 CCACTGCAAC-TTCAGGGAGATAAAATTTGTAGCTTCATCTTGCT
*
87063665 CCACTGCAATTTCAGGGAGATAAAATT
1 CCACTGCAACTTCAGGGAGATAAAATT
87063692 CCTTATGGTA
Statistics
Matches: 161, Mismatches: 31, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
42 3 0.02
43 20 0.12
44 94 0.58
45 8 0.05
48 1 0.01
49 22 0.14
50 10 0.06
51 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAAATTTGTAGCTTCATCTTGCT
Found at i:87063803 original size:138 final size:138
Alignment explanation
Indices: 87063424--87063881 Score: 417
Period size: 138 Copynumber: 3.3 Consensus size: 138
87063414 GGATGTCACA
* * * * *
87063424 GTAGATTCAATCCGACCCACTGTAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGA-TTCAC
1 GTAGATTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAACCT-ACTCCAT
* * * * * * *
87063488 TGCAACTTCAGGGATATAGGAATTGTAGCTTCATCTTGCTCCACTGTAACTTCAGGGAGATAAGA
65 TGCAACTTCAGGGGTACAAGATTTGTAGCTTCATCTTGTTCCACTGCAACTTCAGGGAGATAAAA
87063553 TTCGCCACT
130 TTCGCCACT
* * * * * * *
87063562 GTAGTTTCAAT-CAGCCCACTGGAACTTCAGGGGTATAGAATTTGTAGCTTCATCTTGCTCCATT
1 GTAGATTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAACCTACTCCATT
* * * * *
87063626 ACAACTTTAAGGGTACAAAATTTGTAGCTTCATCTTGTTCCACTGCAATTTCAGGGAGATAAAAT
66 GCAACTTCAGGGGTACAAGATTTGTAGCTTCATCTTGTTCCACTGCAACTTCAGGGAGATAAAAT
*
87063691 TC-CTTA-T
131 TCGC-CACT
* * * *
87063698 GGTAGATTCAATCCAACCCACTGCAACATCAAGGGTATAGGATTTTTAGCTTTAACCTACTCCAT
1 -GTAGATTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAACCTACTCCAT
* * * * * * * *
87063763 TGCAACTTCAGGGGTGCAAGATTTGTAGATTAAAT-ATGTTCCACTGCAGCTTTAAGGAGATAAG
65 TGCAACTTCAGGGGTACAAGATTTGTAGCTT-CATCTTGTTCCACTGCAACTTCAGGGAGATAAA
* *
87063827 ATTTGCTA-T
129 ATTCGCCACT
* * * * *
87063836 AGT-GATTTCAATCTAGCCCACTACAACTTTAGGGGTATGGGATTTG
1 -GTAGA-TTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTG
87063882 CGGTGTCACT
Statistics
Matches: 255, Mismatches: 58, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
136 2 0.01
137 110 0.43
138 140 0.55
139 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (138 bp):
GTAGATTCAATCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAACCTACTCCATT
GCAACTTCAGGGGTACAAGATTTGTAGCTTCATCTTGTTCCACTGCAACTTCAGGGAGATAAAAT
TCGCCACT
Found at i:87064445 original size:37 final size:37
Alignment explanation
Indices: 87064404--87064477 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
87064394 TTAGGAGCAA
*
87064404 AGCTCGAAATGAAAAGATTAATCACAATATCAAACAT
1 AGCTCGAAATGAAAAGATTAATCACAATACCAAACAT
87064441 AGCTCGAAATGAAAAGATTAATCACAATACCAAACAT
1 AGCTCGAAATGAAAAGATTAATCACAATACCAAACAT
87064478 TGTTAAAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.51, C:0.18, G:0.11, T:0.20
Consensus pattern (37 bp):
AGCTCGAAATGAAAAGATTAATCACAATACCAAACAT
Done.