Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 89 of 211
Found at i:27634941 original size:25 final size:25
Alignment explanation
Indices: 27634913--27634990 Score: 111
Period size: 25 Copynumber: 3.1 Consensus size: 25
27634903 TGAGTTGAAG
* *
27634913 ATCGGTATGCTCTCCCGAGCTATGA
1 ATCGGTACGCTCTCACGAGCTATGA
*
27634938 ATCGGTACGCTCTCATGAGCTATGA
1 ATCGGTACGCTCTCACGAGCTATGA
* *
27634963 ATCGGTACGCTCTCACAAGCTATAA
1 ATCGGTACGCTCTCACGAGCTATGA
27634988 ATC
1 ATC
27634991 AGTAACCCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (25 bp):
ATCGGTACGCTCTCACGAGCTATGA
Found at i:27649947 original size:13 final size:14
Alignment explanation
Indices: 27649929--27649958 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
27649919 GACTTATTTA
27649929 TTTATTTA-TTGGT
1 TTTATTTATTTGGT
27649942 TTTATTTATTTGGT
1 TTTATTTATTTGGT
27649956 TTT
1 TTT
27649959 GGGCCCGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (14 bp):
TTTATTTATTTGGT
Found at i:27650168 original size:43 final size:41
Alignment explanation
Indices: 27650112--27650215 Score: 138
Period size: 43 Copynumber: 2.5 Consensus size: 41
27650102 TCCACGGTGT
* *
27650112 CTTGTTGCTTCAATGCACTCCACTGCACTTCAA-AGAGATACAG
1 CTTGTAGCTTCAATCCACTCCACTGCACTTCAACAG-G--ACAG
*
27650155 CTTGTAGCTTCAATCCACTCCACTGCACTTCAACAGGACGG
1 CTTGTAGCTTCAATCCACTCCACTGCACTTCAACAGGACAG
*
27650196 CTTGTAGCTTCAATCAACTC
1 CTTGTAGCTTCAATCCACTC
27650216 TGCTGCAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 22 0.39
43 32 0.57
44 2 0.04
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (41 bp):
CTTGTAGCTTCAATCCACTCCACTGCACTTCAACAGGACAG
Found at i:27650796 original size:88 final size:88
Alignment explanation
Indices: 27650682--27650901 Score: 298
Period size: 88 Copynumber: 2.5 Consensus size: 88
27650672 GGGTGACAGG
* *
27650682 ATCTGCAATCTTCAACCTACTCCACTATTGCTCAGGGAGATAAGGCTT-GTACTTTCGATCTACT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGG-TTGGTACTTTCGATCTACT
* * *
27650746 TCGCTGTCAGTACTGAAAGACAAA
65 TCACTGCCAGTACAGAAAGACAAA
* ** * *
27650770 ATCTACAATCTTCGACCTACTCCACTACTGCTCAGGGAGATAAGGTTGGTGGTTTTGATCTGCTT
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGTTGGTACTTTCGATCTACTT
* *
27650835 CACTGCCAGTACAGGAAGACAAG
66 CACTGCCAGTACAGAAAGACAAA
* *
27650858 ATCTACAATCTTCAACATACTCCACTCCTGCTCAGGGAGATAAG
1 ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAG
27650902 ACTAGTGGCT
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 2 0.02
88 114 0.98
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (88 bp):
ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGTTGGTACTTTCGATCTACTT
CACTGCCAGTACAGAAAGACAAA
Found at i:27650919 original size:88 final size:88
Alignment explanation
Indices: 27650676--27650923 Score: 291
Period size: 88 Copynumber: 2.8 Consensus size: 88
27650666 TGCTTAGGGT
* * * * * *
27650676 GACAGGATCTGCAATCTTCAACCTACTCCACTATTGCTCAGGGAGATAAGGCTTGT-ACTTTCGA
1 GACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGC-TTAGA
* * * *
27650740 TCTACTTCGCTGTCAGTACTGAAA
65 TCTGCTTCACTGCCAGTACAGAAA
* * * * * *
27650764 GACAAAATCTACAATCTTCGACCTACTCCACTACTGCTCAGGGAGATAAGGTTGGTGGTTTTGAT
1 GACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAGAT
*
27650829 CTGCTTCACTGCCAGTACAGGAA
66 CTGCTTCACTGCCAGTACAGAAA
* * * *
27650852 GACAAGATCTACAATCTTCAACATACTCCACTCCTGCTCAGGGAGATAAGACTAGTGGCTTAAAT
1 GACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAGAT
27650917 CTGCTTC
66 CTGCTTC
27650924 CCTACTACCT
Statistics
Matches: 134, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
88 134 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (88 bp):
GACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAGAT
CTGCTTCACTGCCAGTACAGAAA
Found at i:27650940 original size:88 final size:87
Alignment explanation
Indices: 27650676--27651037 Score: 264
Period size: 88 Copynumber: 4.1 Consensus size: 87
27650666 TGCTTAGGGT
* * * * * **
27650676 GACAGGATCTGCAATCTTCAACCTACTCCACTATTGCTCAGGGAGATAAGGCTTGT-ACTTTCGA
1 GACAAGATCTACAATCTTCAA-CTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGC-TTAAA
* * ** * * *
27650740 TCTACTTCGCTGTCAGTACTGAAA
64 TCTGCTTCACTACCACTACAGGAA
* * * * * **
27650764 GACAAAATCTACAATCTTCGACCTACTCCACTACTGCTCAGGGAGATAAGGTTGGTGGTTTTGAT
1 GACAAGATCTACAATCTTC-AACTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAAT
* *
27650829 CTGCTTCACTGCCAGTACAGGAA
65 CTGCTTCACTACCACTACAGGAA
* *
27650852 GACAAGATCTACAATCTTCAACATACTCCACTCCTGCTCAGGGAGATAAGACTAGTGGCTTAAAT
1 GACAAGATCTACAATCTTCAAC-TACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAAT
* * **
27650917 CTGCTTCCCTACTACCT-TGGGAA
65 CTGCTTCACTACCA-CTACAGGAA
* ** * * * * *
27650940 GATAAGAT-TCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGT-GCTTTCA
1 GACAAGATCT-ACAATC-TTCAACTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGC-TTAA
**
27651003 ATCTGCTTCACTACCGGTACAGGAA
63 ATCTGCTTCACTACCACTACAGGAA
*
27651028 GACAAAATCT
1 GACAAGATCT
27651038 GTTATATTCA
Statistics
Matches: 217, Mismatches: 48, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
87 6 0.03
88 204 0.94
89 7 0.03
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (87 bp):
GACAAGATCTACAATCTTCAACTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATC
TGCTTCACTACCACTACAGGAA
Found at i:27651312 original size:89 final size:89
Alignment explanation
Indices: 27650988--27651312 Score: 373
Period size: 89 Copynumber: 3.7 Consensus size: 89
27650978 TAGGGAGATA
* * * * * * *
27650988 AGGCTAGTGCTTTCAATCTGCTTCACTACCGGTACAGGAAGACAAAATCTGTTATATTCAGTCTG
1 AGGCTGGTGTTTTCAATCTGCTTCACTACCAGTACAGGAAGACAAGATTTGCTATCTTCAGTCTG
* * *
27651053 CTCTGCTGCAAACTCAGGGAAGCG
66 CTCCGCTGCAAACTCAGAGAGGCG
* * * * *
27651077 AGGCTGGTGTATTCAATTTGCTTCGCTACCGGTACAGGAAGACAAGATTTGCTATCTTCAATCTG
1 AGGCTGGTGTTTTCAATCTGCTTCACTACCAGTACAGGAAGACAAGATTTGCTATCTTCAGTCTG
* * *
27651142 TTTCGCTGCAAACTCAGTGAGGCG
66 CTCCGCTGCAAACTCAGAGAGGCG
* * * * * *
27651166 AGGCTGGTGTTTTCGATCTGTTTCACTACCAATATAGGAAGACAAGATATGTTATCTTCAGTCTG
1 AGGCTGGTGTTTTCAATCTGCTTCACTACCAGTACAGGAAGACAAGATTTGCTATCTTCAGTCTG
*
27651231 CTCCGCTCCAAACTCAGAGAGGCG
66 CTCCGCTGCAAACTCAGAGAGGCG
* * * *
27651255 AGG-TAGGTGTTTTCGATCTGCTTCACTGCCAGTACAAGAAGACAAGATTTGCAATCTT
1 AGGCT-GGTGTTTTCAATCTGCTTCACTACCAGTACAGGAAGACAAGATTTGCTATCTT
27651313 TAACCTACTC
Statistics
Matches: 197, Mismatches: 38, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
88 1 0.01
89 196 0.99
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (89 bp):
AGGCTGGTGTTTTCAATCTGCTTCACTACCAGTACAGGAAGACAAGATTTGCTATCTTCAGTCTG
CTCCGCTGCAAACTCAGAGAGGCG
Found at i:27654131 original size:27 final size:27
Alignment explanation
Indices: 27654101--27654183 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
27654091 GTAATGGCTG
27654101 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
* ** ****
27654128 ATGTGAT-AAGGTCTAA-TG-GCCGA-
1 ATGTGATGAATGTGAAAGTGTATATAT
27654151 -TGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
27654177 ATGTGAT
1 ATGTGAT
27654184 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 6 0.16
24 3 0.08
25 3 0.08
26 6 0.16
27 13 0.35
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.35
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATATAT
Found at i:27654154 original size:49 final size:49
Alignment explanation
Indices: 27654092--27654327 Score: 331
Period size: 47 Copynumber: 4.9 Consensus size: 49
27654082 TAGTATGGCG
* *
27654092 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
27654141 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
27654190 TAATGGCCGATGTGATAAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * *
27654237 TAATGGCCGATGTGATGAATGTGAAAGT-T-TATATATCTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
27654284 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
27654328 TCCCGAAGGG
Statistics
Matches: 169, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
47 90 0.53
48 2 0.01
49 77 0.46
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:27655767 original size:40 final size:40
Alignment explanation
Indices: 27655709--27656211 Score: 758
Period size: 40 Copynumber: 12.6 Consensus size: 40
27655699 GAGTGAAATG
*
27655709 TCCGGGCTAA-ATCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTC-CGAAGAGCATTCGTGCTAGTGATGTA
*
27655749 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* *
27655789 TCCAGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
27655829 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
27655869 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
27655909 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
27655949 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* *
27655989 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
27656029 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
27656069 TCCGGGCTAAG-TCTCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTTC-CGAAGAGCATTCGTGCTAGTGATGTA
* * *
27656109 TCCGGACTAAGCTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* *** * * * *
27656149 TCCGTGCTAAACCCCGAAGAGCATTTGTGCTGGTGTTATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* *
27656189 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTTCCGAAGAGCA
27656212 ATCATGCTGG
Statistics
Matches: 436, Mismatches: 24, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.00
40 431 0.99
41 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:27659919 original size:49 final size:49
Alignment explanation
Indices: 27659857--27660092 Score: 358
Period size: 47 Copynumber: 4.9 Consensus size: 49
27659847 TAGTATGGCG
*
27659857 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
27659906 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
27659955 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
27660002 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
27660049 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
27660093 TCCCGAATGG
Statistics
Matches: 175, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
47 95 0.54
48 1 0.01
49 79 0.45
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:27662118 original size:54 final size:53
Alignment explanation
Indices: 27662033--27662140 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 53
27662023 CTCTCCATTT
* *
27662033 TCTTTTTCTTTCTTTTTTTGACTCAAAGCGCCCTTTGTAGGTTTTCACCTTGG
1 TCTTTTTCTTTATTTTTTTGACTCAAAGCGCCCTTTGCAGGTTTTCACCTTGG
* *
27662086 TCTTTTT-TTTATTTTTTTAGGACTCAAGGCGCCCTTTGCGGGTTTTCACCTTGG
1 TCTTTTTCTTTATTTTTTT--GACTCAAAGCGCCCTTTGCAGGTTTTCACCTTGG
27662140 T
1 T
27662141 TTCTTCCTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
52 10 0.20
53 7 0.14
54 32 0.65
ACGTcount: A:0.11, C:0.21, G:0.18, T:0.50
Consensus pattern (53 bp):
TCTTTTTCTTTATTTTTTTGACTCAAAGCGCCCTTTGCAGGTTTTCACCTTGG
Found at i:27668112 original size:18 final size:18
Alignment explanation
Indices: 27668091--27668125 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27668081 AATGTAAAGT
27668091 AAAGAGAAGAAAAAAATA
1 AAAGAGAAGAAAAAAATA
*
27668109 AAAGAGTAGAAAAAAAT
1 AAAGAGAAGAAAAAAAT
27668126 CTTTTGAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (18 bp):
AAAGAGAAGAAAAAAATA
Found at i:27668716 original size:43 final size:41
Alignment explanation
Indices: 27668660--27668763 Score: 136
Period size: 43 Copynumber: 2.5 Consensus size: 41
27668650 TCCACTGTGT
* * *
27668660 CTTGTTGCTTCAATGCACTCCACTACACTTCAAAGAGATACGG
1 CTTGTAGCTTCAATCCACTCCACTACACTTCAAAG-G-GACGG
* *
27668703 CTTGTAGCTTCAATCCACTCCACTGCACTTCAACGGGACGG
1 CTTGTAGCTTCAATCCACTCCACTACACTTCAAAGGGACGG
*
27668744 CTTGTACCTTCAATCCACTC
1 CTTGTAGCTTCAATCCACTC
27668764 TGTTGCAACT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 23 0.42
42 1 0.02
43 31 0.56
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (41 bp):
CTTGTAGCTTCAATCCACTCCACTACACTTCAAAGGGACGG
Found at i:27669002 original size:13 final size:14
Alignment explanation
Indices: 27668984--27669013 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
27668974 GACTTATTTA
27668984 TTTATTTA-TTGGT
1 TTTATTTATTTGGT
27668997 TTTATTTATTTGGT
1 TTTATTTATTTGGT
27669011 TTT
1 TTT
27669014 GGGCCCGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (14 bp):
TTTATTTATTTGGT
Found at i:27672254 original size:49 final size:48
Alignment explanation
Indices: 27672187--27672362 Score: 199
Period size: 49 Copynumber: 3.6 Consensus size: 48
27672177 CAAAACTATG
* * * *
27672187 TCCCAGACATAGTCTTACATGGGATGTTCCCTTTACTGCCAATGTCATA
1 TCCCAGATATGGTTTTACATGGGA-GTTCCCTTTACTGCCAATGCCATA
* * * * * *
27672236 TCCCAAATATGGTTTTACATGGGAGTTCTCATATCAGTGCCCATGCCATG
1 TCCCAGATATGGTTTTACATGGGAGTTC-CCT-TTACTGCCAATGCCATA
* * *
27672286 TCCCAGACATAGTCTTACATGGGATGTTCCCTTTACTGCCAATGCCATA
1 TCCCAGATATGGTTTTACATGGGA-GTTCCCTTTACTGCCAATGCCATA
27672335 TCCCAGATATGGTTTTACATGGGAGTTC
1 TCCCAGATATGGTTTTACATGGGAGTTC
27672363 TCATATCGGT
Statistics
Matches: 102, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
48 8 0.08
49 56 0.55
50 34 0.33
51 4 0.04
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (48 bp):
TCCCAGATATGGTTTTACATGGGAGTTCCCTTTACTGCCAATGCCATA
Found at i:27672304 original size:50 final size:50
Alignment explanation
Indices: 27672184--27672519 Score: 275
Period size: 50 Copynumber: 6.6 Consensus size: 50
27672174 TGCCAAAACT
* * * * *
27672184 ATGTCCCAGACATAGTCTTACATGGGATGTTC-CCT-TTACTGCCAATGTC
1 ATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCAGTGCCAATGCC
* * * * *
27672233 ATATCCCAAATATGGTTTTACATGGGAGTTCTCATATCAGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTGCCAATGCC
* * * *
27672283 ATGTCCCAGACATAGTCTTACATGGGATGTTC-CCT-TTACTGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCAGTGCCAATGCC
* * * * *
27672332 ATATCCCAGATATGGTTTTACATGGGAGTTCTCATATCGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTGCCAATGCC
* * ** ** * * *
27672382 ATGTCCTAGACATGGTCTCACGGGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTGCCAATGCC
** **
27672432 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCTTATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC-A-G-TGCCAATGCC
*
27672488 ATGTCCCAGACATGGTCTTACATGGGATTTCT
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCT
27672520 TTACCCAAAA
Statistics
Matches: 225, Mismatches: 51, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
48 8 0.04
49 60 0.27
50 113 0.50
51 4 0.02
53 2 0.01
55 1 0.00
56 37 0.16
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTGCCAATGCC
Found at i:27672355 original size:99 final size:99
Alignment explanation
Indices: 27672184--27672399 Score: 387
Period size: 99 Copynumber: 2.2 Consensus size: 99
27672174 TGCCAAAACT
*
27672184 ATGTCCCAGACATAGTCTTACATGGGATGTTCCCTTTACTGCCAATGTCATATCCCAAATATGGT
1 ATGTCCCAGACATAGTCTTACATGGGATGTTCCCTTTACTGCCAATGCCATATCCCAAATATGGT
27672249 TTTACATGGGAGTTCTCATATCAGTGCCCATGCC
66 TTTACATGGGAGTTCTCATATCAGTGCCCATGCC
*
27672283 ATGTCCCAGACATAGTCTTACATGGGATGTTCCCTTTACTGCCAATGCCATATCCCAGATATGGT
1 ATGTCCCAGACATAGTCTTACATGGGATGTTCCCTTTACTGCCAATGCCATATCCCAAATATGGT
*
27672348 TTTACATGGGAGTTCTCATATCGGTGCCCATGCC
66 TTTACATGGGAGTTCTCATATCAGTGCCCATGCC
* *
27672382 ATGTCCTAGACATGGTCT
1 ATGTCCCAGACATAGTCT
27672400 CACGGGGGAC
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 112 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.32
Consensus pattern (99 bp):
ATGTCCCAGACATAGTCTTACATGGGATGTTCCCTTTACTGCCAATGCCATATCCCAAATATGGT
TTTACATGGGAGTTCTCATATCAGTGCCCATGCC
Found at i:27676608 original size:45 final size:44
Alignment explanation
Indices: 27676508--27676684 Score: 207
Period size: 45 Copynumber: 4.0 Consensus size: 44
27676498 CTACGTGTAC
27676508 CGGGTACCATTGATTATAAAGGTGGTTGCTG-GTGCTGATTCCA
1 CGGGTACCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCA
* *
27676551 CGGGGTATCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCA
1 C-GGGTACCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCA
* * *
27676596 TCGGGTACCATTGATTATGAAGGTGGTTGCTATGTTCTGATTCCA
1 -CGGGTACCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCA
** * * * *
27676641 CCTAGTATCATTGACTATAAGGGTGG-TGCTGTGTGTTGA-TCCA
1 -CGGGTACCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCA
27676684 C
1 C
27676685 CGTGTATCTG
Statistics
Matches: 114, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
44 38 0.33
45 69 0.61
46 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.36
Consensus pattern (44 bp):
CGGGTACCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCA
Found at i:27676674 original size:89 final size:89
Alignment explanation
Indices: 27676508--27676680 Score: 240
Period size: 89 Copynumber: 1.9 Consensus size: 89
27676498 CTACGTGTAC
* * *
27676508 CGGGTACCATTGATTATAAAGGTGGTTGCTGGTGCTGATTCCACGGGGTATCATTGATTATAAAG
1 CGGGTACCATTGATTATAAAGGTGGTTGCTGGTGCTGATTCCACCGAGTATCATTGACTATAAAG
*
27676573 GTGGTTGTTGTGTGCTGATTCCAT
66 GTGGTTGCTGTGTGCTGATTCCAT
* * * * *
27676597 CGGGTACCATTGATTATGAAGGTGGTTGCTATGTTCTGATTCCACCTAGTATCATTGACTATAAG
1 CGGGTACCATTGATTATAAAGGTGGTTGCT-GGTGCTGATTCCACCGAGTATCATTGACTATAAA
*
27676662 GGTGG-TGCTGTGTGTTGAT
65 GGTGGTTGCTGTGTGCTGAT
27676681 CCACCGTGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 41 0.56
90 32 0.44
ACGTcount: A:0.20, C:0.14, G:0.29, T:0.36
Consensus pattern (89 bp):
CGGGTACCATTGATTATAAAGGTGGTTGCTGGTGCTGATTCCACCGAGTATCATTGACTATAAAG
GTGGTTGCTGTGTGCTGATTCCAT
Found at i:27681707 original size:16 final size:17
Alignment explanation
Indices: 27681683--27681723 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
27681673 TCGTCGCATT
*
27681683 CCTACCGCTATCGCAC-
1 CCTATCGCTATCGCACG
*
27681699 CCTATCGCTATTGCACG
1 CCTATCGCTATCGCACG
27681716 CCTATCGC
1 CCTATCGC
27681724 CACTGAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.17, C:0.44, G:0.15, T:0.24
Consensus pattern (17 bp):
CCTATCGCTATCGCACG
Found at i:27696019 original size:21 final size:20
Alignment explanation
Indices: 27695973--27696020 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
27695963 TGTTGAGAAG
* *
27695973 GAAGTTGTTGCTGTAGAAGA
1 GAAGTTGTTGCTGAAGAAAA
27695993 GAAAGTTGTTGCTGAAGAAAAA
1 G-AAGTTGTTGCTGAAG-AAAA
27696015 GAAGTT
1 GAAGTT
27696021 AAATAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 19 0.79
22 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.31, T:0.27
Consensus pattern (20 bp):
GAAGTTGTTGCTGAAGAAAA
Found at i:27697532 original size:40 final size:40
Alignment explanation
Indices: 27697488--27697711 Score: 226
Period size: 40 Copynumber: 5.6 Consensus size: 40
27697478 GCTACTCGTT
* * *
27697488 CAAATGCCTTCGGAACATAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
27697528 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
27697568 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGTTATAGTAACTCGCA
* * *
27697608 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * *
27697647 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
27697688 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
27697712 ACATCATTCA
Statistics
Matches: 155, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
38 3 0.02
39 28 0.18
40 109 0.70
41 15 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:27697600 original size:80 final size:79
Alignment explanation
Indices: 27697488--27697712 Score: 258
Period size: 80 Copynumber: 2.8 Consensus size: 79
27697478 GCTACTCGTT
* * * *
27697488 CAAATGCCTTCGGAACATAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
*
27697553 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
27697568 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
*
27697632 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * * *
27697647 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTTAGTAACTT-GCACAAATGCCTTCGGGACTTAGCCC
27697710 GGA
63 GGA
27697713 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.02
79 55 0.45
80 62 0.50
81 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:27705799 original size:40 final size:40
Alignment explanation
Indices: 27705762--27705985 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
27705752 GCTACTCGTT
* *
27705762 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
27705802 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
27705842 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
27705882 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
27705920 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
27705961 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
27705986 CATCATTCAA
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 25 0.15
39 21 0.13
40 106 0.64
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:27705945 original size:118 final size:119
Alignment explanation
Indices: 27705764--27705985 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
27705754 TACTCGTTCA
*
27705764 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
27705829 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
27705883 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
27705945 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
27705986 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:27714029 original size:40 final size:40
Alignment explanation
Indices: 27713959--27714216 Score: 256
Period size: 40 Copynumber: 6.5 Consensus size: 40
27713949 AAATCACATA
* * **
27713959 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGAACTTAACCCGGATTTAG-TAACTCGCACAAATG
* *
27713998 CCTTCGGAACATAGCCCGG-TTATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAACCCGGATT-TAGTAACTCGCACAAATG
*
27714038 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
* *
27714078 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
1 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
* * * *
27714118 CCTTCGG-GCTTAGCCCGGAATTAGTATCTCGCACAAATG
1 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
* ** * * * *
27714157 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGAACTTAACCCGGATTTAGTAAC-TCGCACAAATG
* *
27714197 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGAACTTAACCCGGA
27714217 CATCATTCAA
Statistics
Matches: 187, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
39 47 0.25
40 130 0.70
41 10 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
Found at i:27714096 original size:80 final size:80
Alignment explanation
Indices: 27713992--27714216 Score: 287
Period size: 80 Copynumber: 2.8 Consensus size: 80
27713982 GCTACTCGTT
* * *
27713992 CAAATGCCTTCGGAACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
27714057 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* *
27714072 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
27714135 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * *
27714151 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
27714214 GGA
64 GGA
27714217 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 4 0.03
79 55 0.44
80 65 0.52
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:27714176 original size:119 final size:120
Alignment explanation
Indices: 27713994--27714216 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
27713984 TACTCGTTCA
*
27713994 AATGCCTTCGGAACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGAACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
27714059 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
27714114 AATGCCTTCGG-GCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGAACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
27714176 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
27714217 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.74
120 19 0.21
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGAACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:27720734 original size:18 final size:18
Alignment explanation
Indices: 27720713--27720752 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27720703 GATTGAGAGT
* * *
27720713 GAAAAGGAATGTGAAACA
1 GAAAAGAAAAGTGAAAAA
27720731 GAAAAGAAAAGTGAAAAA
1 GAAAAGAAAAGTGAAAAA
27720749 GAAA
1 GAAA
27720753 TTGAAGAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.03, G:0.25, T:0.07
Consensus pattern (18 bp):
GAAAAGAAAAGTGAAAAA
Found at i:27724543 original size:18 final size:18
Alignment explanation
Indices: 27724522--27724561 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27724512 GATTGAGAGT
* * *
27724522 GAAAAGGAATGTGAAACA
1 GAAAAGAAAAGTGAAAAA
27724540 GAAAAGAAAAGTGAAAAA
1 GAAAAGAAAAGTGAAAAA
27724558 GAAA
1 GAAA
27724562 TTGAAGAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.03, G:0.25, T:0.07
Consensus pattern (18 bp):
GAAAAGAAAAGTGAAAAA
Found at i:27732127 original size:18 final size:17
Alignment explanation
Indices: 27732106--27732148 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 17
27732096 GTTTGACACT
27732106 TATTGTTTGCAAAGCTCA
1 TATTGTTTGCAAAGCT-A
*
27732124 TATTGTGTGCAAAGCTA
1 TATTGTTTGCAAAGCTA
27732141 TATTGTTT
1 TATTGTTT
27732149 TGAGAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.44
Consensus pattern (17 bp):
TATTGTTTGCAAAGCTA
Found at i:27735638 original size:44 final size:43
Alignment explanation
Indices: 27735475--27735684 Score: 214
Period size: 43 Copynumber: 4.9 Consensus size: 43
27735465 TTTTAGAAAT
** * *
27735475 AAACGCCGCTAAAGGTCATGACCTTTAGCAGCGCTTTGA-AAAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTT-ACACAA
* *
27735518 AAACGCCGCTAAAGAACAGGACCTTTAGCGGCGCTTT-CATAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACACAA
* * *
27735560 AAGAAGCCACTAAAGAACATGACCTTTAGCGGCGCTTTACCCAA
1 AA-ACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACACAA
* *
27735604 AAACGCTGCTAAAGAAACATGATCTTTAGCGGCGCTTTTATCAC--
1 AAACGCCGCTAAAG-AACATGACCTTTAGCGGCGC-TTTA-CACAA
* *
27735648 AAACGCAGCTAAA-AAGCATGACCTTTAGCGACGCTTT
1 AAACGCCGCTAAAGAA-CATGACCTTTAGCGGCGCTTT
27735685 TATAGAAAAT
Statistics
Matches: 142, Mismatches: 18, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
42 10 0.07
43 90 0.63
44 36 0.25
45 4 0.03
46 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACACAA
Found at i:27735670 original size:87 final size:86
Alignment explanation
Indices: 27735491--27735684 Score: 225
Period size: 87 Copynumber: 2.2 Consensus size: 86
27735481 CGCTAAAGGT
*
27735491 CATGACCTTTAGCAGCGCTTTGAAAAAAAACGCCGCTAAAGAACAGGACCTTTAGCGGCGCTTTC
1 CATGACCTTTAGCGGCGCTTTGAAAAAAAACGCCGCTAAAGAACAGGACCTTTAGCGGCGCTTTC
27735556 ATAAAAGAAGCCACTAAAGAA
66 ATAAAAGAAGCCACTAAAGAA
** * * *
27735577 CATGACCTTTAGCGGCGCTTT-ACCCAAAAACGCTGCTAAAGAAACATGATCTTTAGCGGCGCTT
1 CATGACCTTTAGCGGCGCTTTGA-AAAAAAACGCCGCTAAAG-AACAGGACCTTTAGCGGCGCTT
* * *
27735641 TTATCACA-AA-CGCAGCTAAA-AA
64 TCATAAAAGAAGC-CA-CTAAAGAA
*
27735663 GCATGACCTTTAGCGACGCTTT
1 -CATGACCTTTAGCGGCGCTTT
27735685 TATAGAAAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
85 2 0.02
86 41 0.44
87 50 0.54
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (86 bp):
CATGACCTTTAGCGGCGCTTTGAAAAAAAACGCCGCTAAAGAACAGGACCTTTAGCGGCGCTTTC
ATAAAAGAAGCCACTAAAGAA
Found at i:27738345 original size:22 final size:22
Alignment explanation
Indices: 27738317--27738360 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
27738307 ATAGTGCCCG
27738317 GCTCCAGATCCATGAGAACAGC
1 GCTCCAGATCCATGAGAACAGC
27738339 GCTCCAGATCCATGAGAACAGC
1 GCTCCAGATCCATGAGAACAGC
27738361 ACGTGGGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.14
Consensus pattern (22 bp):
GCTCCAGATCCATGAGAACAGC
Found at i:27739294 original size:14 final size:15
Alignment explanation
Indices: 27739273--27739308 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
27739263 TCCCAACCCT
27739273 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
27739287 T-AATCCATAATCCC
1 TAAATCCATAATCCC
27739301 TAAATCCA
1 TAAATCCA
27739309 AACTCCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 12 0.60
15 6 0.30
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:27739525 original size:7 final size:7
Alignment explanation
Indices: 27739515--27739556 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
27739505 AACCTTAAAT
27739515 CCCTAAC
1 CCCTAAC
27739522 CCCTAAC
1 CCCTAAC
27739529 CCCTAAAC
1 CCCT-AAC
*
27739537 ACCTAAC
1 CCCTAAC
27739544 CCCTAAC
1 CCCTAAC
27739551 CCCTAA
1 CCCTAA
27739557 ACCTTAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.14
Consensus pattern (7 bp):
CCCTAAC
Found at i:27739526 original size:22 final size:22
Alignment explanation
Indices: 27739500--27739558 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
27739490 ACCCTTAAAT
*
27739500 CCCTAAACCTTAAATC-CCTAAC
1 CCCTAAACCCTAAA-CACCTAAC
*
27739522 CCCTAACCCCTAAACACCTAAC
1 CCCTAAACCCTAAACACCTAAC
*
27739544 CCCTAACCCCTAAAC
1 CCCTAAACCCTAAAC
27739559 CTTAAATCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.36, C:0.47, G:0.00, T:0.17
Consensus pattern (22 bp):
CCCTAAACCCTAAACACCTAAC
Found at i:27739559 original size:15 final size:15
Alignment explanation
Indices: 27739490--27739559 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
27739480 TCCTAACCTG
* *
27739490 ACCCTTAAATCCCTA
1 ACCCCTAAACCCCTA
* * *
27739505 AACCTTAAATCCCTA
1 ACCCCTAAACCCCTA
27739520 ACCCCT-AACCCCTAA
1 ACCCCTAAACCCCT-A
*
27739535 ACACCT-AACCCCTA
1 ACCCCTAAACCCCTA
27739549 ACCCCTAAACC
1 ACCCCTAAACC
27739560 TTAAATCTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.26
15 35 0.74
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.19
Consensus pattern (15 bp):
ACCCCTAAACCCCTA
Found at i:27740079 original size:41 final size:40
Alignment explanation
Indices: 27739966--27740079 Score: 174
Period size: 41 Copynumber: 2.8 Consensus size: 40
27739956 TAAAATATTT
* *
27739966 TTAGCGGCGCTTTTTCCAAAAACGCCACTAAAAACCAGGCA
1 TTAGCGGCGC-TTTTCCAAAAACGCCGCTAAAGACCAGGCA
* *
27740007 TTAGCGGCACTTTTCCAAAAACGCCGCTAAAGACCTGGGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACC-AGGCA
27740048 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAG
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAG
27740080 CCACGAAAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
40 23 0.34
41 44 0.66
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGGCA
Found at i:27740167 original size:40 final size:39
Alignment explanation
Indices: 27740117--27740193 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
27740107 TGGGCTTATG
*
27740117 TTTTTCGCGGCATTTTTAAAAAAAACGCCACTAATGCTTA
1 TTTTTAGCGGCATTTTT-AAAAAAACGCCACTAATGCTTA
* **
27740157 TTTTTAGCGGCGTTTTTTGAAAAACGCCACTAATGCT
1 TTTTTAGCGGCATTTTTAAAAAAACGCCACTAATGCT
27740194 CAATCTTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
39 18 0.55
40 15 0.45
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (39 bp):
TTTTTAGCGGCATTTTTAAAAAAACGCCACTAATGCTTA
Found at i:27740191 original size:39 final size:39
Alignment explanation
Indices: 27740137--27740255 Score: 116
Period size: 40 Copynumber: 3.0 Consensus size: 39
27740127 CATTTTTAAA
27740137 AAAAACGCCACTAATGCTTATTTTTAGCGGCGTTTTTTG
1 AAAAACGCCACTAATGCTTATTTTTAGCGGCGTTTTTTG
* * * **
27740176 AAAAACGCCACTAATGCTCAATCTTTT-GTGGCG-ATTTCC
1 AAAAACGCCACTAATGCT-TAT-TTTTAGCGGCGTTTTTTG
* * *
27740215 ATAAAGCGCCGCTAATGCTTGATTTTTACCGGCGTTTTTTG
1 A-AAAACGCCACTAATGCTT-ATTTTTAGCGGCGTTTTTTG
27740256 TCCAAACGCC
Statistics
Matches: 61, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
39 26 0.43
40 28 0.46
41 7 0.11
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (39 bp):
AAAAACGCCACTAATGCTTATTTTTAGCGGCGTTTTTTG
Found at i:27768872 original size:50 final size:50
Alignment explanation
Indices: 27768810--27768980 Score: 155
Period size: 50 Copynumber: 3.3 Consensus size: 50
27768800 CAATGTCCTA
* * ** * * *
27768810 TCCCAGATATGGTCTTAAATGAGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTAAAGGAGACCTCTCATATCGATGCCAACGCCATG
** * *
27768860 TCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGATGCCAACGCCATG
1 TCCCAGACATGGTCTTAAAGGAGACCTCTCATATCGATGCCAACGCCATG
* *
27768910 TCCCAGACATGGTATTACATGG-GACCTCTCATAACCTCAATGATGCCAACGCCATG
1 TCCCAGACATGGTCTTA-AAGGAGACCTCTCAT-A--TC---GATGCCAACGCCATG
27768966 TCCCAGACATGGTCT
1 TCCCAGACATGGTCT
27768981 CACATGGGAT
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
50 65 0.66
51 2 0.02
53 2 0.02
56 29 0.30
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTAAAGGAGACCTCTCATATCGATGCCAACGCCATG
Found at i:27780371 original size:500 final size:499
Alignment explanation
Indices: 27779417--27780396 Score: 1744
Period size: 500 Copynumber: 2.0 Consensus size: 499
27779407 ATAGCTCAAA
*
27779417 CATTGATCATCATAAATACCGAGTTTTTGTTGTTGATAGTGTGAGCATTCTCCGACATCTTTAAG
1 CATTGATCATCATAAATACCGAGTTGTTGTTGTTGATAGTGTGAGCATTCTCCGACATCTTTAAG
*
27779482 ATTTCCTAATTTTCTTGTAATACTATAAAAGAAGGAAAATAAAGGAAGTAAGCATAAAGCTTAGT
66 ATTTCCGAATTTTCTTGTAATACTATAAAAGAAGGAAAATAAAGGAAGTAAGCATAAAGCTTAGT
* * *
27779547 AAGTTTACAAGCAAATAAATAACAGCATTTAACACAAATAAATATACTCAAGTGTCATGATCTCT
131 AAGTTTAAAAGAAAATAAATAACAACATTTAACACAAATAAATATACTCAAGTGTCATGATCTCT
*
27779612 AATTTCCTCTTTACTTAATCTCTTACTCGTTCACTTACTTGTTTACTTAGATAACTAATGATTAT
196 AATTTCCTCTTTACTTAATCTCTTACCCGTTCACTTACTTGTTTACTTAGATAACTAATGATTAT
* *
27779677 AACTTACTTTTCTCTTGATGAAATGTTTGTTTTCAATTGATAACATAATATGTTCTTAACTCTTA
261 AACTTACTTTTCTCTTGATGAAATGTTGGTTCTCAATTGATAACATAATATGTTCTTAACTCTTA
27779742 TAACTCACCTGAATTTGCTATTTATGCTTTTACCTGAACTTTCATGGAACATAATTTGTTTACTA
326 TAACTCACCTGAATTTGCTATTTATGCTTTTACCTGAACTTTCATGGAACATAATTTGTTTACTA
27779807 GCCCGTTGAGCCACATTGGAATAATAAGGATACTTGGGTCTCTTTTCTAATAATAACATGCCAAA
391 GCCCGTTGAGCCACATTGGAATAATAAGGATACTTGGGTCTCTTTTCTAATAATAACATGCCAAA
* *
27779872 GCCATGTCCCAGACATGGTCTTACATGGGTTCTTCTAATAATAT
456 GACATATCCCAGACATGGTCTTACATGGGTTCTTCTAATAATAT
* *
27779916 CATTGATCATCATAAAATACCGAGTTGTTGTTGTTGATAGTGTGAGCGTTCTCCGACGTCTTTAA
1 CATTGATCATCAT-AAATACCGAGTTGTTGTTGTTGATAGTGTGAGCATTCTCCGACATCTTTAA
* * * *
27779981 GATTTTCGACTTTTCTTGTAATACTATAAAGGAAGGAAAATAAAGGAAGTAAGCATAAAGTTTAG
65 GATTTCCGAATTTTCTTGTAATACTATAAAAGAAGGAAAATAAAGGAAGTAAGCATAAAGCTTAG
*
27780046 TGAGTTTAAAAGAAAATAAATAACAACATTTAACACAAATAAATATACTCAAGTGTCATGATCTC
130 TAAGTTTAAAAGAAAATAAATAACAACATTTAACACAAATAAATATACTCAAGTGTCATGATCTC
*
27780111 TAATTTCCTCTTTACTTAATCTCTTACCCGTTCACTTACTTGTTTACTTAGATAACTCATGATTA
195 TAATTTCCTCTTTACTTAATCTCTTACCCGTTCACTTACTTGTTTACTTAGATAACTAATGATTA
* *
27780176 TAACTTACTTTTCTCTTGCTGAAATGTTGGTTCTCAATTGATAACATAGTATGTTCTTAACTCTT
260 TAACTTACTTTTCTCTTGATGAAATGTTGGTTCTCAATTGATAACATAATATGTTCTTAACTCTT
* * *
27780241 TTAACTCACCTGAATTTGCTATTTATGCTTTTACCTGAACTTTCATGGAATATAATTTTTTTACT
325 ATAACTCACCTGAATTTGCTATTTATGCTTTTACCTGAACTTTCATGGAACATAATTTGTTTACT
27780306 AGCCCGTTGAGCCACATTGGAATAATAAGGATACTTGGGTCTCTTTTCTAATAATAACATGCCAA
390 AGCCCGTTGAGCCACATTGGAATAATAAGGATACTTGGGTCTCTTTTCTAATAATAACATGCCAA
27780371 AGACATATCCCAGACATGGTCTTACA
455 AGACATATCCCAGACATGGTCTTACA
27780397 CGGGATGTTT
Statistics
Matches: 457, Mismatches: 23, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
499 13 0.03
500 444 0.97
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37
Consensus pattern (499 bp):
CATTGATCATCATAAATACCGAGTTGTTGTTGTTGATAGTGTGAGCATTCTCCGACATCTTTAAG
ATTTCCGAATTTTCTTGTAATACTATAAAAGAAGGAAAATAAAGGAAGTAAGCATAAAGCTTAGT
AAGTTTAAAAGAAAATAAATAACAACATTTAACACAAATAAATATACTCAAGTGTCATGATCTCT
AATTTCCTCTTTACTTAATCTCTTACCCGTTCACTTACTTGTTTACTTAGATAACTAATGATTAT
AACTTACTTTTCTCTTGATGAAATGTTGGTTCTCAATTGATAACATAATATGTTCTTAACTCTTA
TAACTCACCTGAATTTGCTATTTATGCTTTTACCTGAACTTTCATGGAACATAATTTGTTTACTA
GCCCGTTGAGCCACATTGGAATAATAAGGATACTTGGGTCTCTTTTCTAATAATAACATGCCAAA
GACATATCCCAGACATGGTCTTACATGGGTTCTTCTAATAATAT
Found at i:27780489 original size:50 final size:50
Alignment explanation
Indices: 27780427--27780611 Score: 163
Period size: 50 Copynumber: 3.6 Consensus size: 50
27780417 CAATGTCATA
* ** * * *
27780427 TCCCAGATATGGTCTTAAATGGGAGTTCTCATATCGGTGCCCATGCAATG
1 TCCCAGACATGGTCTTAAATGGGACCTCTCATATCGATGCCAACGCAATG
*** * *
27780477 TCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGATGCCAACGCCATG
1 TCCCAGACATGGTCTTAAATGGGACCTCTCATATCGATGCCAACGCAATG
* * *
27780527 TCCCAGACATGGTATTACATGGGACCTCTCATAACCTCAATGATGCCAACGCCATG
1 TCCCAGACATGGTCTTAAATGGGACCTCTCAT-A--TC---GATGCCAACGCAATG
* * *
27780583 TCCCAAACATGGTCTTACATGGGATCTCT
1 TCCCAGACATGGTCTTAAATGGGACCTCT
27780612 TTACCCAAAT
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
50 67 0.61
53 2 0.02
56 41 0.37
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTAAATGGGACCTCTCATATCGATGCCAACGCAATG
Found at i:27784218 original size:37 final size:36
Alignment explanation
Indices: 27784167--27784312 Score: 150
Period size: 37 Copynumber: 4.0 Consensus size: 36
27784157 ACATAAGTAG
* * *
27784167 TCCAACCGA-AACACGCCAAATGCTCATAAGAGTTAT
1 TCCAACTGATAACACGCCAAATGCTCA-AAGAGCTAA
* *
27784203 TCCAACTAATAACACGCCAAGTGCTCCAAAGAGCTAA
1 TCCAACTGATAACACGCCAAATGCT-CAAAGAGCTAA
* *
27784240 TCCAACTGATAACACACCAAATGCTCCGAAGAGCTAA
1 TCCAACTGATAACACGCCAAATGCT-CAAAGAGCTAA
* * * *
27784277 TCGAACCGATAACACGCCAAATACTTCGAAGAGCTA
1 TCCAACTGATAACACGCCAAATGC-TCAAAGAGCTA
27784313 TATATTTGCC
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
36 7 0.07
37 84 0.89
38 3 0.03
ACGTcount: A:0.40, C:0.29, G:0.14, T:0.17
Consensus pattern (36 bp):
TCCAACTGATAACACGCCAAATGCTCAAAGAGCTAA
Found at i:27784309 original size:74 final size:73
Alignment explanation
Indices: 27784167--27784312 Score: 166
Period size: 74 Copynumber: 2.0 Consensus size: 73
27784157 ACATAAGTAG
* * * * * * *
27784167 TCCAACCGAAACACGCCAAATGCTCATAAGAGTTATTCCAACTAATAACACGCCAAGTGCTCCAA
1 TCCAACCGAAACACACCAAATGCTCAGAAGAGCTAATCCAACCAATAACACGCCAAATACTCCAA
27784232 AGAGCTAA
66 AGAGCTAA
* * * * * *
27784240 TCCAACTGATAACACACCAAATGCTCCGAAGAGCTAATCGAACCGATAACACGCCAAATACTTCG
1 TCCAACCGA-AACACACCAAATGCTCAGAAGAGCTAATCCAACCAATAACACGCCAAATACTCCA
27784305 AAGAGCTA
65 AAGAGCTA
27784313 TATATTTGCC
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
73 8 0.14
74 51 0.86
ACGTcount: A:0.40, C:0.29, G:0.14, T:0.17
Consensus pattern (73 bp):
TCCAACCGAAACACACCAAATGCTCAGAAGAGCTAATCCAACCAATAACACGCCAAATACTCCAA
AGAGCTAA
Found at i:27791416 original size:20 final size:20
Alignment explanation
Indices: 27791391--27791430 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27791381 TTCACCTCTT
27791391 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
27791411 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
27791431 AAGACCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:27799571 original size:44 final size:44
Alignment explanation
Indices: 27799398--27799927 Score: 421
Period size: 44 Copynumber: 12.0 Consensus size: 44
27799388 GAGCAGGTTG
*** *
27799398 AAAGATAACAGATCTTGTCTTCATGTATTGGT-GTGAAGTAGATC
1 AAAGA-AACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
* * * *
27799442 AGAA-AAAGCAGATCTTGCCTTCCCATACTGATGGCGAAGCAGATC
1 A-AAGAAA-CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
*** *
27799487 AAAGAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
1 AAAGAAA-CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
* * * * *
27799531 AAAGAAATAGATTTTGTCTCCCCATACTGGTGGTGGAGTAGGTC
1 AAAGAAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
* * *** *
27799575 GAAGAAACAAGATCGTGTCTTCATGTACTGG-CGTGAAGTAGATC
1 AAAGAAAC-AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
* *
27799619 AAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTA-AGTC
1 AAAGAAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGA-TC
* * *** * *
27799663 GAAGAAAACAGATCGTGTCTTCATGTACTGG-CGTGATGTAGATC
1 AAAG-AAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
* * *
27799707 AAAGATATCAGATCTTG-CCTCCCGATACTGGTGGTGAAGCAGATC
1 AAAGA-AACAGATCTTGTCTTCCC-ATACTGGTGGTGAAGTAGATC
* *
27799752 AAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATC
1 AAAGAAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
* * *** *
27799796 GAAGAAAATAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC
1 AAAG-AAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
* * * *
27799840 AAAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATC
1 AAAGA-AACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
* * * * *
27799885 AAAGATACATATTTTATCTTCCCATACTAGG-GGCGAAGTAGAT
1 AAAGAAACAGATCTTGTCTTCCCATACT-GGTGGTGAAGTAGAT
27799928 TGAAGATTAC
Statistics
Matches: 375, Mismatches: 93, Indels: 36
0.74 0.18 0.07
Matches are distributed among these distances:
43 42 0.11
44 203 0.54
45 130 0.35
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
AAAGAAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
Found at i:27799601 original size:88 final size:87
Alignment explanation
Indices: 27799385--27799815 Score: 477
Period size: 88 Copynumber: 4.9 Consensus size: 87
27799375 CTGAGCAGTA
* * *
27799385 GTGGAGCAGGTTGAAAGATAACAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCAGAA-AAA
1 GTGGAGCAGGTCG-AAGA-AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA-AAGAAA
* * * *
27799449 GCAGATCTTGCCTTCCCATACTGATG
63 -TAGATCTTGTCTCCCCATACTGGTG
* * * *
27799475 GCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAATA
1 GTGGAGCAGGTCGAAGAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAATA
*
27799540 GATTTTGTCTCCCCATACTGGTG
65 GATCTTGTCTCCCCATACTGGTG
* * *
27799563 GTGGAGTAGGTCGAAGAAACAAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACA
1 GTGGAGCAGGTCGAAGAAAC-AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAATA
27799628 GATCTTGTCTCCCCATACTGGTG
65 GATCTTGTCTCCCCATACTGGTG
* * * * *
27799651 GTGGAGTAAGTCGAAGAAAACAGATCGTGTCTTCATGTACTGGCGTGATGTAGATCAAAGATATC
1 GTGGAGCAGGTCGAAG-AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAT-
* *
27799716 AGATCTTGCCTCCCGATACTGGTG
64 AGATCTTGTCTCCCCATACTGGTG
* * * * *** * * *
27799740 GTGAAGCAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAAT
1 GTGGAGCAGGTCGAAGAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG-AAAT
27799805 AGATCTTGTCT
64 AGATCTTGTCT
27799816 TCATGTACTG
Statistics
Matches: 292, Mismatches: 42, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
87 1 0.00
88 178 0.61
89 102 0.35
90 11 0.04
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (87 bp):
GTGGAGCAGGTCGAAGAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAATAG
ATCTTGTCTCCCCATACTGGTG
Found at i:27799925 original size:133 final size:133
Alignment explanation
Indices: 27799407--27799933 Score: 555
Period size: 133 Copynumber: 4.0 Consensus size: 133
27799397 GAAAGATAAC
* * *
27799407 AGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCAGAA-AAAGCAGATCTTGCCTTCCCATACT
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA-AAGAAACCAGATCTTGCCTTCCCATACT
* * *** * *
27799471 GATGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG
65 GGTGGCGAAGCAGATCAAAGAAA-CAGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAG
27799535 -AAAT
129 AAAAT
* * *** * * * * * * * ***
27799539 AGATTTTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGAAACAAGATCGTGTCTTCATGTACT
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAAACCAGATCTTGCCTTCCCATACT
* * * *
27799604 GG-CGTGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTA-AGTCGAAG
65 GGTGGCGAAGCAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGAAGTAGA-TCGAAG
*
27799667 AAAAC
129 AAAAT
* * * *
27799672 AGATCGTGTCTTCATGTACTGGCGTGATGTAGATCAAAGATATCAGATCTTGCC-TCCCGATACT
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACCAGATCTTGCCTTCCC-ATACT
* *
27799736 GGTGGTGAAGCAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGA
65 GGTGGCGAAGCAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGA
27799801 AAAT
130 AAAT
*
27799805 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGCCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACCAGATCTTGCCTTCCCATACTG
* * * * * * *
27799870 GTGGCGAAGCAGATCAAAGATACATATTTTATCTTCCCATACTAGG-GGCGAAGTAGATTGAAGA
66 GTGGCGAAGCAGATCAAAGAAACAGATCTTGTCTCCCCATACT-GGTGGTGAAGTAGATCGAAGA
27799934 TTACAGATAT
Statistics
Matches: 322, Mismatches: 63, Indels: 19
0.80 0.16 0.05
Matches are distributed among these distances:
131 22 0.07
132 75 0.23
133 218 0.68
134 7 0.02
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (133 bp):
AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACCAGATCTTGCCTTCCCATACTG
GTGGCGAAGCAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAA
AAT
Found at i:27800125 original size:45 final size:44
Alignment explanation
Indices: 27800061--27800150 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 44
27800051 ATCGATCGAA
*
27800061 AAAGCAGATCTTGACTTCATGTACTGGTGACGAAGCAGATCAAAG
1 AAAGCAGATCTTGACTTCATGTACTGGCG-CGAAGCAGATCAAAG
* * *
27800106 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
1 AAAGCAGATCTTGACTTCATGTACTGGCGCGAAGCAGATCAAAG
27800150 A
1 A
27800151 TAGTAGGTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 14 0.34
45 27 0.66
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (44 bp):
AAAGCAGATCTTGACTTCATGTACTGGCGCGAAGCAGATCAAAG
Found at i:27800165 original size:44 final size:45
Alignment explanation
Indices: 27800061--27800167 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 45
27800051 ATCGATCGAA
* * *
27800061 AAAGCAGATCTTGACTTCATGTACTGGTGACGAAGCAGATCAAAG
1 AAAGCAGATCCTGTCTTCATGTACTGGCGACGAAGCAGATCAAAG
* * *
27800106 AAAGCAGATCTTGTCTTCATGTACTGGCG-TGAAGTAGATCAAAG
1 AAAGCAGATCCTGTCTTCATGTACTGGCGACGAAGCAGATCAAAG
* * *
27800150 ATAGTAGGTCCTGTCTTC
1 AAAGCAGATCCTGTCTTC
27800168 CTATATCGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
44 27 0.50
45 27 0.50
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (45 bp):
AAAGCAGATCCTGTCTTCATGTACTGGCGACGAAGCAGATCAAAG
Found at i:27802189 original size:6 final size:6
Alignment explanation
Indices: 27802175--27802217 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
27802165 AAAAATTTTG
*
27802175 TATATA TATACA TATACA TATACA TATACA TATACA TATACA T
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA T
27802218 TTTCATATGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (6 bp):
TATACA
Found at i:27805355 original size:9 final size:9
Alignment explanation
Indices: 27805341--27805375 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
27805331 GTTAAACGAA
27805341 TCGAGTTAT
1 TCGAGTTAT
*
27805350 TCGAGTTAA
1 TCGAGTTAT
27805359 TCGAGTTAT
1 TCGAGTTAT
27805368 TCGAGTTA
1 TCGAGTTA
27805376 AGTCAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:27805362 original size:18 final size:18
Alignment explanation
Indices: 27805339--27805376 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
27805329 GAGTTAAACG
27805339 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
27805357 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
27805375 AA
1 AA
27805377 GTCAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:27805683 original size:30 final size:31
Alignment explanation
Indices: 27805649--27805709 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
27805639 AAAACCTTTT
*
27805649 ATTTTCCCCCAAAATTTTTACTCCC-TCCCA
1 ATTTTCCCCCAAAACTTTTACTCCCTTCCCA
* *
27805679 ATTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 ATTTTCCCCCAAAACTTTTACTCCCTTCCCA
27805710 TCCCACCTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.39
Consensus pattern (31 bp):
ATTTTCCCCCAAAACTTTTACTCCCTTCCCA
Found at i:27814508 original size:20 final size:20
Alignment explanation
Indices: 27814484--27814537 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
27814474 TAATTTGTCT
27814484 TGTCTTAATTAAATTAAATGA
1 TGTCTTAATTAAATTAAAT-A
* **
27814505 -GTCTTGATTTTATTAAATA
1 TGTCTTAATTAAATTAAATA
27814524 TGTCTTAAATTAAA
1 TGTCTT-AATTAAA
27814538 ACATGAATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.80
21 4 0.16
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (20 bp):
TGTCTTAATTAAATTAAATA
Found at i:27829498 original size:38 final size:38
Alignment explanation
Indices: 27829421--27829499 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
27829411 TGAATTATAC
**
27829421 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGTCGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTACCGG
*
27829459 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTATTACCGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTACCGG
27829497 TGT
1 TGT
27829500 AATAAAAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.16, C:0.19, G:0.27, T:0.38
Consensus pattern (38 bp):
TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTACCGG
Found at i:27833432 original size:14 final size:14
Alignment explanation
Indices: 27833413--27833442 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27833403 TAATTATAAC
*
27833413 ATTTTTATATTTTA
1 ATTTTTAGATTTTA
27833427 ATTTTTAGATTTTA
1 ATTTTTAGATTTTA
27833441 AT
1 AT
27833443 AAATTATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
ATTTTTAGATTTTA
Found at i:27840434 original size:59 final size:59
Alignment explanation
Indices: 27840358--27840487 Score: 174
Period size: 59 Copynumber: 2.2 Consensus size: 59
27840348 AATAAATAGA
* * *
27840358 AAATTAAATCTATTTTAAAACATTTTTAAAATTGGGATTTAAATATTTTATATA-AGTTTT
1 AAATTAAAT-TAATTTAAAACATTTTTAAAATTGGAATTTAAATATTTTATATAGA-TTTC
* * *
27840418 AAATTAAATTAATTTAATATATTTTTAAAATTTGAATTTAAATATTTTATATAGATTTC
1 AAATTAAATTAATTTAAAACATTTTTAAAATTGGAATTTAAATATTTTATATAGATTTC
27840477 AAA-TAAATTAA
1 AAATTAAATTAA
27840488 ATAGAATTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
58 8 0.13
59 45 0.71
60 10 0.16
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (59 bp):
AAATTAAATTAATTTAAAACATTTTTAAAATTGGAATTTAAATATTTTATATAGATTTC
Found at i:27840459 original size:34 final size:35
Alignment explanation
Indices: 27840394--27840460 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
27840384 TAAAATTGGG
* *
27840394 ATTTAAATATTTTATATAAGTTTTAAATTAAATTA
1 ATTTAAATATTTTATATAAATTTGAAATTAAATTA
*
27840429 ATTTAATATATTTT-TA-AAATTTGAATTTAAAT
1 ATTTAA-ATATTTTATATAAATTTGAAATTAAAT
27840461 ATTTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 13 0.46
35 8 0.29
36 7 0.25
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (35 bp):
ATTTAAATATTTTATATAAATTTGAAATTAAATTA
Found at i:27841499 original size:35 final size:35
Alignment explanation
Indices: 27841460--27841580 Score: 179
Period size: 35 Copynumber: 3.5 Consensus size: 35
27841450 AAAAAGTATT
* *
27841460 GGTGTTGCGGCGGGATGTTAAATGAATGAGATATC
1 GGTGTTGTGGCAGGATGTTAAATGAATGAGATATC
*
27841495 GGTGTTGTGGCAGGATGCTAAATGAATGAGATATC
1 GGTGTTGTGGCAGGATGTTAAATGAATGAGATATC
* * *
27841530 GGTGTTGTGGCGGGATGTTAAACGAATAAGATATC
1 GGTGTTGTGGCAGGATGTTAAATGAATGAGATATC
*
27841565 GATGTTGTGGCAGGAT
1 GGTGTTGTGGCAGGAT
27841581 TGTAACAGCC
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 77 1.00
ACGTcount: A:0.26, C:0.08, G:0.36, T:0.29
Consensus pattern (35 bp):
GGTGTTGTGGCAGGATGTTAAATGAATGAGATATC
Found at i:27843842 original size:35 final size:35
Alignment explanation
Indices: 27843803--27843961 Score: 149
Period size: 35 Copynumber: 4.5 Consensus size: 35
27843793 TGAAGTATCA
* * *
27843803 GTGTTGTGGCAGGATGTTAAATGAATAAGATGTTG
1 GTGTTGTGGCAGGATGTTAAACGAATGAGATATTG
* *
27843838 GTGTTGTGGCGAGG-TGACTAAATGAATGAGATATTG
1 GTGTTGTGGC-AGGATG-TTAAACGAATGAGATATTG
* * * * **
27843874 GTATTATGGCGGGATGTTAAACAAATGAGATATCA
1 GTGTTGTGGCAGGATGTTAAACGAATGAGATATTG
** * *
27843909 GTGTTAAGGTAGGATGTTAAACGATTGAGATATTG
1 GTGTTGTGGCAGGATGTTAAACGAATGAGATATTG
*
27843944 GTGTTGTGGCGGGATGTT
1 GTGTTGTGGCAGGATGTT
27843962 GAAGGTATTG
Statistics
Matches: 98, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
35 69 0.70
36 29 0.30
ACGTcount: A:0.28, C:0.05, G:0.34, T:0.33
Consensus pattern (35 bp):
GTGTTGTGGCAGGATGTTAAACGAATGAGATATTG
Found at i:27843875 original size:36 final size:36
Alignment explanation
Indices: 27843785--27843959 Score: 128
Period size: 35 Copynumber: 5.0 Consensus size: 36
27843775 ACAAGGATAT
** *
27843785 TAAATGAATGA-AGTATCAGTGTTGTGGC-AGGATGT
1 TAAATGAATGAGA-TATTGGTGTTGTGGCGAGGATGC
* *
27843820 TAAATGAATAAGATGTTGGTGTTGTGGCGAGG-TGAC
1 TAAATGAATGAGATATTGGTGTTGTGGCGAGGATG-C
* * *
27843856 TAAATGAATGAGATATTGGTATTATGGCG-GGATGT
1 TAAATGAATGAGATATTGGTGTTGTGGCGAGGATGC
** ** ** * *
27843891 TAAACAAATGAGATATCAGTGTTAAGG-TAGGATGT
1 TAAATGAATGAGATATTGGTGTTGTGGCGAGGATGC
* *
27843926 TAAACGATTGAGATATTGGTGTTGTGGCG-GGATG
1 TAAATGAATGAGATATTGGTGTTGTGGCGAGGATG
27843960 TTGAAGGTAT
Statistics
Matches: 110, Mismatches: 24, Indels: 12
0.75 0.16 0.08
Matches are distributed among these distances:
35 79 0.72
36 31 0.28
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (36 bp):
TAAATGAATGAGATATTGGTGTTGTGGCGAGGATGC
Found at i:27846890 original size:10 final size:10
Alignment explanation
Indices: 27846875--27846899 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27846865 ATGGTCATGT
27846875 GCATAACATA
1 GCATAACATA
27846885 GCATAACATA
1 GCATAACATA
27846895 GCATA
1 GCATA
27846900 GCACATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (10 bp):
GCATAACATA
Found at i:27855447 original size:17 final size:17
Alignment explanation
Indices: 27855421--27855453 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27855411 AGTAGGGAAA
*
27855421 GGTTGGATTTTGTTTTC
1 GGTTGAATTTTGTTTTC
27855438 GGTTGAATTTTGTTTT
1 GGTTGAATTTTGTTTT
27855454 TTGTCTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.03, G:0.27, T:0.61
Consensus pattern (17 bp):
GGTTGAATTTTGTTTTC
Found at i:27886102 original size:12 final size:12
Alignment explanation
Indices: 27886085--27886109 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27886075 TTCTAAACTC
27886085 TCATTAAAAGTT
1 TCATTAAAAGTT
27886097 TCATTAAAAGTT
1 TCATTAAAAGTT
27886109 T
1 T
27886110 TCAAGGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TCATTAAAAGTT
Found at i:27888733 original size:27 final size:25
Alignment explanation
Indices: 27888703--27888755 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 25
27888693 AAGAAATGAG
27888703 CAAGAAAGAGTTAGCCAAGGTACAATA
1 CAAG-AAG-GTTAGCCAAGGTACAATA
27888730 C---AAGGTTAGCCAAGGTACAATA
1 CAAGAAGGTTAGCCAAGGTACAATA
27888752 CAAG
1 CAAG
27888756 GCAGCAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
22 19 0.83
23 3 0.13
27 1 0.04
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (25 bp):
CAAGAAGGTTAGCCAAGGTACAATA
Found at i:27888740 original size:22 final size:22
Alignment explanation
Indices: 27888712--27888756 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
27888702 GCAAGAAAGA
27888712 GTTAGCCAAGGTACAATACAAG
1 GTTAGCCAAGGTACAATACAAG
27888734 GTTAGCCAAGGTACAATACAAG
1 GTTAGCCAAGGTACAATACAAG
27888756 G
1 G
27888757 CAGCAAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (22 bp):
GTTAGCCAAGGTACAATACAAG
Found at i:27889827 original size:70 final size:70
Alignment explanation
Indices: 27889722--27889863 Score: 257
Period size: 70 Copynumber: 2.0 Consensus size: 70
27889712 ACGGACCATC
* *
27889722 CCGAATTTGAAGCGTTACATTAGCCACCTAAGTGACTCTCCAGCTAACGACCTCCCAAGATACAT
1 CCGAATTTGAAGCGTTACATTAGCCACCTAAGTGACTCTCCAGCTAACGACCTCCCAAGACACAC
27889787 CCCGA
66 CCCGA
*
27889792 CCGAATTTGAAGCGTTACATTAGCCACCTAAGTGACTCTCCGGCTAACGACCTCCCAAGACACAC
1 CCGAATTTGAAGCGTTACATTAGCCACCTAAGTGACTCTCCAGCTAACGACCTCCCAAGACACAC
27889857 CCCGA
66 CCCGA
27889862 CC
1 CC
27889864 TTATAACACC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.29, C:0.35, G:0.16, T:0.20
Consensus pattern (70 bp):
CCGAATTTGAAGCGTTACATTAGCCACCTAAGTGACTCTCCAGCTAACGACCTCCCAAGACACAC
CCCGA
Found at i:27893452 original size:88 final size:88
Alignment explanation
Indices: 27893294--27893856 Score: 542
Period size: 88 Copynumber: 6.4 Consensus size: 88
27893284 AAAAAATTGC
* * * * * * *
27893294 CAACTTTCGAACTTCAAAAATTTTTAGAATCTTATAGCTAGCAATTTAAAATCGCGACTCCCCTT
1 CAACCTTCAAACTTCAAAGATTTTCAGAATCTTAGAGCTAGCGATTTAAGATCGCGACTCCCCTT
* * * **
27893359 TAAGGTTCACCGATTTCATATTA
66 TAAGGTTCGCCGATTTAAGATCG
* * *
27893382 CAACAC-TCAAACTTTAAAGATATTCAGAATCTTAGAGCTAGCGATTTAAGATTGCGACTCCCCT
1 CAAC-CTTCAAACTTCAAAGATTTTCAGAATCTTAGAGCTAGCGATTTAAGATCGCGACTCCCCT
*
27893446 TTAAGGTTTTG-CGATTTCAA-ATCG
65 TTAAGG-TTCGCCGATTT-AAGATCG
* * *
27893470 CAACCTTCAAACTTCAAAGATTTTCAGAATCTTAAAGCTAGCGATTTAAGATCGTGACAT-CCTT
1 CAACCTTCAAACTTCAAAGATTTTCAGAATCTTAGAGCTAGCGATTTAAGATCGCGAC-TCCCCT
* ** *
27893534 TTAAGGTTTGTTGATTTAAGATTG
65 TTAAGGTTCGCCGATTTAAGATCG
* * * * *
27893558 CAACCTTCAAACTTCAAATACTTTCATAATCTTAGAACTAGCGATTTAAGATCGCGACTCCCTTT
1 CAACCTTCAAACTTCAAAGATTTTCAGAATCTTAGAGCTAGCGATTTAAGATCGCGACTCCCCTT
* *
27893623 TAAGGTTCGCCTATTTAAGATTG
66 TAAGGTTCGCCGATTTAAGATCG
* * * * * * * *
27893646 CAACCATCAAACTTCAAAGATTTTAAGAATCTTAGAGCTATCCATTTAAGACCGTGGCTCTCCTT
1 CAACCTTCAAACTTCAAAGATTTTCAGAATCTTAGAGCTAGCGATTTAAGATCGCGACTCCCCTT
* ** ** *
27893711 TATGGTTTTCTAATTTAATATCG
66 TAAGGTTCGCCGATTTAAGATCG
* * * * * * **
27893734 CAACCTTCAAACTTCAAAGATTTTCAAAACCATAGAGATAGCGATTTGAGATGGTAACTCCCCTT
1 CAACCTTCAAACTTCAAAGATTTTCAGAATCTTAGAGCTAGCGATTTAAGATCGCGACTCCCCTT
*
27893799 TCAA-GTTCGCCGATTTAAGATCA
66 T-AAGGTTCGCCGATTTAAGATCG
* * *
27893822 CAGCCTTCAAACTTTAAAGATTTTTAGAATCTTAG
1 CAACCTTCAAACTTCAAAGATTTTCAGAATCTTAG
27893857 TGTTAGTAAT
Statistics
Matches: 386, Mismatches: 80, Indels: 18
0.80 0.17 0.04
Matches are distributed among these distances:
87 8 0.02
88 373 0.97
89 5 0.01
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.34
Consensus pattern (88 bp):
CAACCTTCAAACTTCAAAGATTTTCAGAATCTTAGAGCTAGCGATTTAAGATCGCGACTCCCCTT
TAAGGTTCGCCGATTTAAGATCG
Found at i:27893871 original size:264 final size:264
Alignment explanation
Indices: 27893294--27893872 Score: 639
Period size: 264 Copynumber: 2.2 Consensus size: 264
27893284 AAAAAATTGC
* * *
27893294 CAACTTTCGAACTTCAAAAATTTTTAGAATCTTA-TAGCTAGCAATTTAAAATCGCGACTCCCCT
1 CAACCTTCAAACTTCAAAAATTTTTAGAATCTTAGT-GCTAGCAATTTAAGATCGCGACTCCCCT
* * * *
27893358 TTAAGGTTCACCGATTTCATATTACAACACTCAAACTTTAAAGATATTCAGAATCTTAGAGCTAG
65 TTAAGGTTCACCGATTTAAGATTACAACACTCAAACTTCAAAGATATTAAGAATCTTAGAGCTAG
* ** *
27893423 CGATTTAAGATTGCGACTCCCCTTTAAGGTTTTGCGATTTCAAATCGCAACCTTCAAACTTCAAA
130 CCATTTAAGACCGCGACTCCCCTTTAAGGTTTTGCAATTTCAAATCGCAACCTTCAAACTTCAAA
* * * * * * * **
27893488 GATTTTCAGAATCTTAAAGCTAGCGATTTAAGATCGTGACATCCTTTTAAGGTTTGTTGATTTAA
195 GATTTTCAAAACCATAAAGATAGCGATTTAAGATCGTAACATCCTTTCAAGGTTCGCCGATTTAA
**
27893553 GATTG
260 GATCA
* * * * ** * *
27893558 CAACCTTCAAACTTCAAATACTTTCATAATCTTAGAACTAGCGATTTAAGATCGCGACTCCCTTT
1 CAACCTTCAAACTTCAAAAATTTTTAGAATCTTAGTGCTAGCAATTTAAGATCGCGACTCCCCTT
* * * * *
27893623 TAAGGTTCGCCTATTTAAGATTGCAAC-CATCAAACTTCAAAGATTTTAAGAATCTTAGAGCTAT
66 TAAGGTTCACCGATTTAAGATTACAACAC-TCAAACTTCAAAGATATTAAGAATCTTAGAGCTAG
* * * *
27893687 CCATTTAAGACCGTGGCTCTCCTTTATGGTTTT-CTAATTT-AATATCGCAACCTTCAAACTTCA
130 CCATTTAAGACCGCGACTCCCCTTTAAGGTTTTGC-AATTTCAA-ATCGCAACCTTCAAACTTCA
* * *
27893750 AAGATTTTCAAAACCATAGAGATAGCGATTTGAGATGGTAAC-TCCCCTTTCAA-GTTCGCCGAT
193 AAGATTTTCAAAACCATAAAGATAGCGATTTAAGATCGTAACAT--CCTTTCAAGGTTCGCCGAT
27893813 TTAAGATCA
256 TTAAGATCA
* * * * *
27893822 CAGCCTTCAAACTTTAAAGATTTTTAGAATCTTAGTGTTAGTAATTTAAGA
1 CAACCTTCAAACTTCAAAAATTTTTAGAATCTTAGTGCTAGCAATTTAAGA
27893873 ATATCATTTC
Statistics
Matches: 256, Mismatches: 53, Indels: 12
0.80 0.17 0.04
Matches are distributed among these distances:
263 5 0.02
264 244 0.95
265 7 0.03
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (264 bp):
CAACCTTCAAACTTCAAAAATTTTTAGAATCTTAGTGCTAGCAATTTAAGATCGCGACTCCCCTT
TAAGGTTCACCGATTTAAGATTACAACACTCAAACTTCAAAGATATTAAGAATCTTAGAGCTAGC
CATTTAAGACCGCGACTCCCCTTTAAGGTTTTGCAATTTCAAATCGCAACCTTCAAACTTCAAAG
ATTTTCAAAACCATAAAGATAGCGATTTAAGATCGTAACATCCTTTCAAGGTTCGCCGATTTAAG
ATCA
Found at i:27896311 original size:27 final size:26
Alignment explanation
Indices: 27896257--27896316 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
27896247 CGAATATTGC
* *
27896257 AACATGGGGAGTCCGCCAGGACAGTA
1 AACATGGGGAGTCCACCAGAACAGTA
* *
27896283 AACATGGGGTAGTCTACCAGAACATTA
1 AACATGGGG-AGTCCACCAGAACAGTA
27896310 AACATGG
1 AACATGG
27896317 TGTTACATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.17
Consensus pattern (26 bp):
AACATGGGGAGTCCACCAGAACAGTA
Found at i:27896390 original size:27 final size:26
Alignment explanation
Indices: 27896360--27896413 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
27896350 CAACATGGGG
*
27896360 AGTCCACCGGGACAGCAAACAAGAGTT
1 AGTCCACCAGGACA-CAAACAAGAGTT
* * *
27896387 AGTCCGCCAGGACATAAACATGAGTT
1 AGTCCACCAGGACACAAACAAGAGTT
27896413 A
1 A
27896414 CATGTGTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
AGTCCACCAGGACACAAACAAGAGTT
Found at i:27896626 original size:93 final size:93
Alignment explanation
Indices: 27896223--27896755 Score: 628
Period size: 93 Copynumber: 5.7 Consensus size: 93
27896213 CCTTAAAAGA
** * * *
27896223 GGTTACATGTGTAAGACCATAG-TTCGAATATTGCAACATGGGGAGTCCG-CCAGGA-CAGTAAA
1 GGTTACATGTGTAAGACCATAGCTT-GGCTATGGCAACATGGGGAGTCTGTCGA-GATC-GTAAA
** *
27896285 CATGGGGTAGTCTACCAGAACATTAAACATG
63 CATGGGGTAGTCCGCCAGGACATTAAACATG
* * * *** * *
27896316 GTGTTACATGTGTATGACCATAGCTCGGCAATGGCAACATGGGGAGTCCACCGGGA-CAGCAAAC
1 G-GTTACATGTGTAAGACCATAGCTTGGCTATGGCAACATGGGGAGTCTGTCGAGATC-GTAAAC
* * *
27896380 AAGAGTTAGTCCGCCAGGACA-TAAACATG
64 ATGGGGTAGTCCGCCAGGACATTAAACATG
* * *
27896409 AGTTACATGTGTAAGACCATAGCTTGGCTATGGCAACATGAGGAGTCTGTCAAGATCGTAAACAT
1 GGTTACATGTGTAAGACCATAGCTTGGCTATGGCAACATGGGGAGTCTGTCGAGATCGTAAACAT
*
27896474 -AGGTAAGTCCGCACAGGACATTAAACATG
66 GGGGT-AGTCCGC-CAGGACATTAAACATG
* * *
27896503 GGTTATATGTGTAAGACCATAGCTTAGCTATGGCAACATGGGGAGTCTGTTGAGATCGTAAACAT
1 GGTTACATGTGTAAGACCATAGCTTGGCTATGGCAACATGGGGAGTCTGTCGAGATCGTAAACAT
* * * *
27896568 GGGGTAGTTCGTCAGGATATTAAATATG
66 GGGGTAGTCCGCCAGGACATTAAACATG
**
27896596 GGTTACATGTGTAAGACCATAGCTTGGCTATGAAAACATGGGGAGTCTGTCGAGATCGTAAACAT
1 GGTTACATGTGTAAGACCATAGCTTGGCTATGGCAACATGGGGAGTCTGTCGAGATCGTAAACAT
**
27896661 GGGGTAGTCCGCCAGGACATTAAATGTG
66 GGGGTAGTCCGCCAGGACATTAAACATG
* * *
27896689 GGTTACATGTGTAAGACCATAGTTTGGCTATGGAAACATGGGGAGTCTGTCGAGACCGTAAACAT
1 GGTTACATGTGTAAGACCATAGCTTGGCTATGGCAACATGGGGAGTCTGTCGAGATCGTAAACAT
27896754 GG
66 GG
27896756 AGTTGTCCTC
Statistics
Matches: 380, Mismatches: 52, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
91 3 0.01
92 58 0.15
93 179 0.47
94 135 0.36
95 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (93 bp):
GGTTACATGTGTAAGACCATAGCTTGGCTATGGCAACATGGGGAGTCTGTCGAGATCGTAAACAT
GGGGTAGTCCGCCAGGACATTAAACATG
Found at i:27900544 original size:21 final size:21
Alignment explanation
Indices: 27900502--27900546 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27900492 AGAACATACA
*
27900502 AATATGTGGACAAGCCACCAG
1 AATATGTGGACAAGCCAACAG
*
27900523 AATATGTGGATATA-CCAACAG
1 AATATGTGGACA-AGCCAACAG
27900544 AAT
1 AAT
27900547 GTGTAGATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (21 bp):
AATATGTGGACAAGCCAACAG
Found at i:27902081 original size:32 final size:32
Alignment explanation
Indices: 27902033--27902101 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
27902023 TAGCTCAGCT
*
27902033 CAGCTCGCCACACCACTCAGCTCACCACCGTC
1 CAGCTCGACACACCACTCAGCTCACCACCGTC
* * * *
27902065 TAGCTCGACACTCCACTCAGGTCACCACTGTC
1 CAGCTCGACACACCACTCAGCTCACCACCGTC
27902097 CAGCT
1 CAGCT
27902102 TGCCTACTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.22, C:0.46, G:0.14, T:0.17
Consensus pattern (32 bp):
CAGCTCGACACACCACTCAGCTCACCACCGTC
Found at i:27904118 original size:15 final size:15
Alignment explanation
Indices: 27904098--27904136 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
27904088 ATCGTTAAAA
27904098 TTATTATCATTGTAT
1 TTATTATCATTGTAT
27904113 TTATTA-CTATTGTAT
1 TTATTATC-ATTGTAT
*
27904128 TTGTTATCA
1 TTATTATCA
27904137 CGATATTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.59
Consensus pattern (15 bp):
TTATTATCATTGTAT
Found at i:27912272 original size:44 final size:42
Alignment explanation
Indices: 27912213--27912599 Score: 272
Period size: 44 Copynumber: 8.9 Consensus size: 42
27912203 GATCACATTT
*
27912213 AGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
*
27912257 AGTCTTGTCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATAGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
* * *
27912302 AATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAA-AA-CTGA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--A
* *
27912345 TAGTCTTATCTCCTTGAAGTTGTAGTGGAGAAGACTAAGTAAGCA
1 -AGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
*
27912390 AGTCTTATCTTCCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCA
1 AGTCTTATC-TCCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCA
* * *
27912435 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-TTAG-AGCCGA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * * * * *
27912478 TAATCCTATCTCCCTGAAGTTGCAGGGGAGCGGATTAA-AACCTTA
1 -AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--A
* * * * *
27912523 TA-TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 -AGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
*
27912563 AGTCTTATCTCCTTCAAGTTGCAGTGGAGCAGACTAA
1 AGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTAA
27912600 TGGAGTAGAT
Statistics
Matches: 279, Mismatches: 35, Indels: 59
0.75 0.09 0.16
Matches are distributed among these distances:
39 2 0.01
40 19 0.07
41 10 0.04
42 6 0.02
43 16 0.06
44 144 0.52
45 77 0.28
46 4 0.01
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (42 bp):
AGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:27912366 original size:89 final size:86
Alignment explanation
Indices: 27912129--27912517 Score: 278
Period size: 89 Copynumber: 4.5 Consensus size: 86
27912119 GGTAGCCAGT
* ** *
27912129 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATAAAAAT-CAAGGATCTTATCT-CTCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGCAA-G-TCTTATCTCCT-TGAAGT
* * * * ***
27912192 TACAG-AGAGCAGA-TCA-CATTT
63 TGCAGTGGAGCAGACTAAGTAGCA
* * * *
27912213 AGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTAAGCAA-GCAAGTCTTGTCCTCC-TGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATGCAAGTCTTAT-CTCCTTGAAGT
27912276 TGCAGT-GAGGCAGACTGAAGATAGCA
63 TGCAGTGGA-GCAGACT-AAG-TAGCA
*
27912302 AATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAACTG-ATAGTCTTATCTCCTTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-TGCA-AGTCTTATCTCCTTGAAGTT
* *
27912366 GTAGTGGAGAAGACTAAGTAAGCA
64 GCAGTGGAGCAGACTAAGT-AGCA
* * * * * * *
27912390 AGTCTTATCTTCCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAAT-GCAAGTCTTATCTCCTTGAAGTT
* *
27912455 GTAGTGGAGCAGA-TTAG-AGCCGA
64 GCAGTGGAGCAGACTAAGTAG-C-A
* * *
27912478 TAATCCTATCTCCCTGAAGTTGCAGGGGAGCGGATTAAAA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA
27912518 CCTTATATCT
Statistics
Matches: 243, Mismatches: 39, Indels: 42
0.75 0.12 0.13
Matches are distributed among these distances:
84 47 0.19
85 8 0.03
86 9 0.04
87 5 0.02
88 50 0.21
89 121 0.50
90 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (86 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGCAAGTCTTATCTCCTTGAAGTTGC
AGTGGAGCAGACTAAGTAGCA
Found at i:27912373 original size:133 final size:133
Alignment explanation
Indices: 27912212--27912508 Score: 450
Period size: 133 Copynumber: 2.2 Consensus size: 133
27912202 AGATCACATT
* *
27912212 TAGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTGTCCTCCTGAAGTT
1 TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTT
* *
27912277 GCAGTGAGGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAAC
66 GCAGTGAAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC
*
27912342 TGA
131 CGA
* * * * *
27912345 TAGTCTTATCTCCTTGAAGTTGTAGTGGAGAAGACTAAGTAAGCAAGTCTTATCTTCCTGAAGTT
1 TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTT
* * *
27912410 GCAGTGAAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAGAGC
66 GCAGTGAAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC
27912475 CGA
131 CGA
* * *
27912478 TAATCCTATCTCCCTGAAGTTGCAGGGGAGC
1 TAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
27912509 GGATTAAAAC
Statistics
Matches: 145, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 145 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (133 bp):
TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTT
GCAGTGAAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC
CGA
Found at i:27912529 original size:133 final size:131
Alignment explanation
Indices: 27912218--27912554 Score: 392
Period size: 133 Copynumber: 2.5 Consensus size: 131
27912208 CATTTAGTCT
* * * * *
27912218 TATCCCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTGTCCTCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGGGGAGAAGACTAAG-AACCAAGTCTTAT-CTCCTGAAGTTGCAGTG
* * * *
27912283 AGGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAACTGATAG
64 AAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGATAA
*
27912348 TCT
129 TCC
* * * *
27912351 TATCTCCTTGAAGTTGTAGTGGAGAAGACTAAGTAAGCAAGTCTTATCTTCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGGGGAGAAGACTAAG-AACCAAGTCTTATC-TCCTGAAGTTGCAGTG
* * *
27912416 AAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAGAGCCGATAA
64 AAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGATAA
27912481 TCC
129 TCC
** *
27912484 TATCTCCCTGAAGTTGCAGGGGAGCGGATTAA-AACCTTATA-TCTTATCTCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGGGGAGAAGACTAAGAACC--A-AGTCTTATCTC-CTGAAGTTGCAG
*
27912547 AG-AGCAGA
62 TGAAGCAGA
27912555 TCGCATCTAG
Statistics
Matches: 177, Mismatches: 22, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
131 3 0.02
132 9 0.05
133 164 0.93
134 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (131 bp):
TATCTCCCTGAAGTTGCAGGGGAGAAGACTAAGAACCAAGTCTTATCTCCTGAAGTTGCAGTGAA
GCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGATAATC
C
Found at i:27914133 original size:24 final size:24
Alignment explanation
Indices: 27914065--27914148 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 24
27914055 TATTTTTCTC
*
27914065 ATATTTATATATATACACATATTTTAT
1 ATATTT-TATATATA-A-ATATTATAT
*
27914092 TTATTTTGATAATATAAATATTATAT
1 ATATTTT-AT-ATATAAATATTATAT
* *
27914118 ATATTTTATATGTAAATCA-TATGT
1 ATATTTTATATATAAAT-ATTATAT
27914142 ATATTTT
1 ATATTTT
27914149 TAAGCTTCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
24 18 0.37
25 3 0.06
26 15 0.31
27 8 0.16
28 5 0.10
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATTTTATATATAAATATTATAT
Found at i:27914361 original size:15 final size:15
Alignment explanation
Indices: 27914341--27914379 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
27914331 ATCGTTAAAA
27914341 TTATTATCATTGTAT
1 TTATTATCATTGTAT
27914356 TTATTA-CTATTGTAT
1 TTATTATC-ATTGTAT
*
27914371 TTGTTATCA
1 TTATTATCA
27914380 CGATATTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.59
Consensus pattern (15 bp):
TTATTATCATTGTAT
Found at i:27918894 original size:21 final size:22
Alignment explanation
Indices: 27918868--27918913 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
27918858 AATCTATATA
27918868 TATACATGT-ATATTTATTTTT
1 TATACATGTAATATTTATTTTT
27918889 TATACATGTACATATTTATTTTT
1 TATACATGTA-ATATTTATTTTT
27918912 TA
1 TA
27918914 ACTAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.39
23 14 0.61
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (22 bp):
TATACATGTAATATTTATTTTT
Found at i:27919289 original size:24 final size:23
Alignment explanation
Indices: 27919240--27919289 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
27919230 TTTCTTTATT
* * *
27919240 TTTATTTTTTATTTTTTTGTTGA
1 TTTATTTTTCATATTTTTATTGA
*
27919263 TTTATGTTTTCATATTTTTATTTA
1 TTTAT-TTTTCATATTTTTATTGA
27919287 TTT
1 TTT
27919290 GATACTTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (23 bp):
TTTATTTTTCATATTTTTATTGA
Found at i:27919386 original size:19 final size:20
Alignment explanation
Indices: 27919345--27919386 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
27919335 ATTTCTATGC
* *
27919345 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
27919365 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
27919384 CAT
1 CAT
27919387 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:27921287 original size:37 final size:37
Alignment explanation
Indices: 27921226--27921304 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
27921216 TTATTACGAA
* * * *
27921226 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
27921263 GTCTTACCTAGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
27921300 GTCTT
1 GTCTT
27921305 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:27921500 original size:47 final size:47
Alignment explanation
Indices: 27921422--27921892 Score: 768
Period size: 47 Copynumber: 9.9 Consensus size: 47
27921412 CCCTTCGGGA
* * * * * *
27921422 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27921469 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27921516 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27921563 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27921610 CTTATCACATATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27921659 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27921707 C-TATCCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27921754 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27921802 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27921849 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
27921893 CGCCATACTA
Statistics
Matches: 404, Mismatches: 14, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
46 2 0.00
47 265 0.66
48 90 0.22
49 47 0.12
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27921735 original size:95 final size:93
Alignment explanation
Indices: 27921422--27921892 Score: 764
Period size: 95 Copynumber: 5.0 Consensus size: 93
27921412 CCCTTCGGGA
* * * * * * *
27921422 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATACAC
27921487 TTTCACATTCATCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
27921516 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACAC
27921581 TTTCACATTCATCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
*
27921610 CTTATCACATATATATACACTTTTACATTCATCACATCGGCCATTAGGCCTATCACATATATATA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCAC--ATATATA
27921675 CACTTTCACATTCATCACATCGGCCATTAGGC
62 CACTTTCACATTCATCACATCGGCCATTAGGC
*
27921707 C-TATCCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATAC
1 CTTAT-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCAC--ATATATAC
27921771 ACTTTCACATTCATCACATCGGCCATTAGGC
63 ACTTTCACATTCATCACATCGGCCATTAGGC
27921802 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACAC
27921867 TTTCACATTCATCACATCGGCCATTA
65 TTTCACATTCATCACATCGGCCATTA
27921893 CGCCATACTA
Statistics
Matches: 358, Mismatches: 11, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
93 2 0.01
94 128 0.36
95 135 0.38
96 51 0.14
97 42 0.12
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (93 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGC
Found at i:27922365 original size:21 final size:20
Alignment explanation
Indices: 27922339--27922378 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
27922329 AAATTTTATC
27922339 TTATAACCATTTTTCTAAAAT
1 TTATAACCA-TTTTCTAAAAT
**
27922360 TTATAATGATTTTCTAAAA
1 TTATAACCATTTTCTAAAA
27922379 ACAGAACAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (20 bp):
TTATAACCATTTTCTAAAAT
Found at i:27929970 original size:47 final size:47
Alignment explanation
Indices: 27929916--27930365 Score: 672
Period size: 47 Copynumber: 9.6 Consensus size: 47
27929906 TATTTGAATA
* *
27929916 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
27929963 AATGTGAATATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27930010 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27930057 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27930104 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27930151 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27930198 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
27930245 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
27930292 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
27930339 GATGTGGAA-GTGTATAAATGTGATAAG
1 AATGT-GAACATGTATATATGTGATAAG
27930366 TCCCGAAGGG
Statistics
Matches: 370, Mismatches: 30, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 365 0.99
48 4 0.01
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:27930243 original size:22 final size:22
Alignment explanation
Indices: 27930216--27930337 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
27930206 CATGTGTATG
27930216 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
27930238 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
27930263 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
27930285 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
27930310 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
27930332 TGTGAT
1 TGTGAT
27930338 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:27933087 original size:16 final size:16
Alignment explanation
Indices: 27933066--27933114 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
27933056 TTCGCTATAT
27933066 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
27933082 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
27933098 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
27933114 T
1 T
27933115 AGCGAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.37, C:0.04, G:0.37, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:27933144 original size:45 final size:44
Alignment explanation
Indices: 27933093--27933183 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 44
27933083 GGAATAGAGG
*
27933093 TGTAATGGAATAGAGGCGTAATAGCGAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAG-GAATC-ATGTGTTTGGTTGAA
* *
27933138 TGTAATGGAATAGAAGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAGGAATCATGTGTTTGGTTGAA
27933182 TG
1 TG
27933184 GAACAGAGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.43
45 23 0.55
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAAGCGTAATAGGAATCATGTGTTTGGTTGAA
Found at i:27933365 original size:16 final size:16
Alignment explanation
Indices: 27933328--27933369 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
27933318 TTAATCATAT
*
27933328 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
27933344 TT-AAATATATTATAA
1 TTAAAATATATTATAA
27933359 TTAAAATATAT
1 TTAAAATATAT
27933370 AATTTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:27933460 original size:66 final size:65
Alignment explanation
Indices: 27933387--27933585 Score: 215
Period size: 66 Copynumber: 3.2 Consensus size: 65
27933377 AAAAATTCTT
27933387 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTA
1 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTA
* ** * * * *
27933452 ACATAATTATTATT-AAATAT--A-TTA-T--AAT--TAAAATAT-ATAATTTAATA-A-AATTC
1 A-ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATT-
*
27933505 TT
64 TA
27933507 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
1 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT-
27933572 A
65 A
27933573 AATAATTAATATT
1 AATAATTAATATT
27933586 AAATATATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 29
0.70 0.11 0.20
Matches are distributed among these distances:
54 15 0.15
55 7 0.07
56 8 0.08
57 8 0.08
58 3 0.03
59 4 0.04
61 4 0.04
62 3 0.03
63 8 0.08
64 8 0.08
65 7 0.07
66 28 0.27
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (65 bp):
AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTA
Found at i:27933469 original size:120 final size:121
Alignment explanation
Indices: 27933326--27933623 Score: 530
Period size: 120 Copynumber: 2.5 Consensus size: 121
27933316 ATTTAATCAT
27933326 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTGAA-AAAATTCTTAAT
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTT-AATAAAATTCTTAAT
27933390 AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
65 AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
27933447 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
27933511 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * * *
27933567 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
27933624 TAAAATAATT
Statistics
Matches: 172, Mismatches: 3, Indels: 5
0.96 0.02 0.03
Matches are distributed among these distances:
119 2 0.01
120 164 0.95
121 6 0.03
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:27933487 original size:16 final size:16
Alignment explanation
Indices: 27933444--27933489 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
27933434 ACTATAAAAG
*
27933444 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
27933460 ATTATT-AAATATATT
1 ATAATTAAAATATATT
27933475 ATAATTAAAATATAT
1 ATAATTAAAATATAT
27933490 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:27933496 original size:14 final size:15
Alignment explanation
Indices: 27933444--27933498 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
27933434 ACTATAAAAG
27933444 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
27933460 ATTATTAAATATATT
1 ATAATTAAATATATT
27933475 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
27933488 ATAATTTAATA
1 ATAATTAAATA
27933499 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:27933621 original size:59 final size:58
Alignment explanation
Indices: 27933424--27933612 Score: 172
Period size: 59 Copynumber: 3.2 Consensus size: 58
27933414 CTCAAATCAT
* *
27933424 AATATATGATACTATAAAAGATAATTTAACATAATTATTATTAAATATATTATAATTAA
1 AATATATGATACTATAAAAGATAATTTAA-ATAATTAATATTAAATATATTTTAATTAA
* * * ** *
27933483 AATATAT-A-A-TTTAATA-A-AATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCA
1 AATATATGATACTATAAAAGATAATT-TAAATAATTAATATT-AAATAT--ATTT--T--AATTA
*
27933543 T
58 A
27933544 AATATATGATACTATAAAAGATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAAGATAATTT-AAATAATTAATATTAAATATATTTTAATTAA
27933603 AATATATGAT
1 AATATATGAT
27933613 TTAATAAAAT
Statistics
Matches: 100, Mismatches: 16, Indels: 28
0.69 0.11 0.19
Matches are distributed among these distances:
54 15 0.15
55 7 0.07
56 5 0.05
57 4 0.04
58 1 0.01
59 22 0.22
61 12 0.12
62 1 0.01
63 5 0.05
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAAGATAATTTAAATAATTAATATTAAATATATTTTAATTAA
Found at i:27933995 original size:30 final size:30
Alignment explanation
Indices: 27933959--27934019 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
27933949 AGAGAATACA
27933959 AACAAAAGAACCCATTTTTGAAGCACACAT
1 AACAAAAGAACCCATTTTTGAAGCACACAT
27933989 AACAAAAGAACCCATTTTTGAAGCACACAT
1 AACAAAAGAACCCATTTTTGAAGCACACAT
27934019 A
1 A
27934020 CTTTTTGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.23, G:0.10, T:0.20
Consensus pattern (30 bp):
AACAAAAGAACCCATTTTTGAAGCACACAT
Found at i:27938978 original size:17 final size:18
Alignment explanation
Indices: 27938941--27938978 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
27938931 GATTGAGAGT
* *
27938941 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
27938959 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
27938976 GAA
1 GAA
27938979 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:27938991 original size:13 final size:12
Alignment explanation
Indices: 27938960--27939014 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
27938950 TGTGAAACAG
*
27938960 AAAAGAAATTGA
1 AAAAGAAGTTGA
27938972 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
27938984 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
27938996 AAATG-AGTTAGA
1 AAAAGAAGTT-GA
27939008 AAAAGAA
1 AAAAGAA
27939015 ACAAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 21 0.62
13 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:27948119 original size:24 final size:23
Alignment explanation
Indices: 27948066--27948119 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
27948056 TGTAAATCAC
*
27948066 TAAATTGTTAAAAATTTTCTTAA
1 TAAATTATTAAAAATTTTCTTAA
* *
27948089 AACAATTATTAAAAATTTTCTTTAT
1 TA-AATTATTAAAAATTTTC-TTAA
27948114 TAAATT
1 TAAATT
27948120 TAAATATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 1 0.04
24 20 0.80
25 4 0.16
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (23 bp):
TAAATTATTAAAAATTTTCTTAA
Found at i:27953089 original size:45 final size:44
Alignment explanation
Indices: 27952980--27953702 Score: 412
Period size: 44 Copynumber: 16.6 Consensus size: 44
27952970 AGTCTGCCTT
27952980 ACTGCAACTTCA-GGAGGATAAGACTTGCTTATTTAGTCTGCTCC
1 ACTGCAACTTCAGGGA-GATAAGACTTGCTTATTTAGTCTGCTCC
* * ** * *
27953024 ACTGCAATTTTAGGGAGATAAGACTTGCCAATTTCAGTCTACCCC
1 ACTGCAACTTCAGGGAGATAAGACTTGCTTATTT-AGTCTGCTCC
* *
27953069 ATTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGCTCC
1 ACTGCAACTTCAGGGA-GATAAGACTTGCTTATTTAGTCTGCTCC
* **
27953113 ACTGCAACTTCAGGGAGATAAGACTAG---A-TGCGATCTGCT-C
1 ACTGCAACTTCAGGGAGATAAGACTTGCTTATTTAG-TCTGCTCC
* * ** * *
27953153 TCTGCAACTTCAGAGAGATAAGA-TCTGAGGT-TTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGACT-TG-CTTATTTAGTCTGCTCC
* * * *** *
27953197 ACTGTAACTTCA-GGAGGATAGGA-TTATCGGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGA-GATAAGACTT-GCTTATTTAGTCTGCTCC
* *
27953241 ACTGCAACTTCAGGGAGATAATACTTGC-CATCTTCAGTCTGC-CC
1 ACTGCAACTTCAGGGAGATAAGACTTGCTTAT-TT-AGTCTGCTCC
*
27953285 TACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGCTCC
1 -ACTGCAACTTCAGGGA-GATAAGACTTGCTTATTTAGTCTGCTCC
* * **
27953330 ACTGCAACTTCAGGGAGATAAGGCTAG---A-TGCGATCTGCT-C
1 ACTGCAACTTCAGGGAGATAAGACTTGCTTATTTAG-TCTGCTCC
* * * * * ** * *
27953370 TCTACAACTTTAGAGAGATAAGATTTGAGGT-TTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTTG-CTTATTTAGTCTGCTCC
* ** * *** *
27953414 ACTGCAACTTCAGTGAGATTGGA-TTATCGGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTT-GCTTATTTAGTCTGCTCC
* *
27953458 ACTGCAACTTCAGGGAGATAAGACTTGC-CATCTTCAGTCTGCCCC
1 ACTGCAACTTCAGGGAGATAAGACTTGCTTAT-TT-AGTCTGCTCC
*
27953503 ACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGCTCC
1 ACTGCAACTTCAGGGA-GATAAGACTTGCTTATTTAGTCTGCTCC
* * ** *
27953547 ACTGCAACTTCAAGGAGATAAGACTAG---A-TGCGATATGCT-C
1 ACTGCAACTTCAGGGAGATAAGACTTGCTTATTTAG-TCTGCTCC
* * ** * *
27953587 TCTGCAACTTCAGAGAGATAAGA-TCTGAGGT-TTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGACT-TG-CTTATTTAGTCTGCTCC
* * * *
27953631 ACTGCAACTTCAGGGAGATAGGACTAT-C-GACTTTAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGACT-TGCTTA-TTTAGTCTGCTCC
*
27953675 ACTGCTACTTCAGGGAGATAAGACTTGC
1 ACTGCAACTTCAGGGAGATAAGACTTGC
27953703 CATCTTCGAT
Statistics
Matches: 526, Mismatches: 102, Indels: 102
0.72 0.14 0.14
Matches are distributed among these distances:
39 2 0.00
40 72 0.14
41 20 0.04
43 24 0.05
44 286 0.54
45 120 0.23
46 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGACTTGCTTATTTAGTCTGCTCC
Found at i:27953360 original size:217 final size:217
Alignment explanation
Indices: 27952980--27953709 Score: 1180
Period size: 217 Copynumber: 3.4 Consensus size: 217
27952970 AGTCTGCCTT
* * *** * * *
27952980 ACTGCAACTTCAGGAGGATAAGACTT-GCTTATTTAGTCTGCTCCACTGCAATTTTAGGGAGATA
1 ACTGCAACTTCAGGAGGATAGGA-TTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* *
27953044 AGACTTGCCAAT-TTCAGTCTACCCCATTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCT
65 AGACTTGCC-ATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCT
27953108 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
129 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
27953173 AGATCTGAGGTTTTAATCCGCTCC
194 AGATCTGAGGTTTTAATCCGCTCC
*
27953197 ACTGTAACTTCAGGAGGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGAGGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* *
27953262 TACTTGCCATCTTCAGTCTGCCCTACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGC
66 GACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGC
* * *
27953327 TCCACTGCAACTTCAGGGAGATAAGGCTAGATGCGATCTGCTCTCTACAACTTTAGAGAGATAAG
131 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
*
27953392 ATTTGAGGTTTTAATCCGCTCC
196 ATCTGAGGTTTTAATCCGCTCC
*
27953414 ACTGCAACTTCAGTGA-GATTGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAG-GAGGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
27953478 AGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTG
65 AGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTG
* *
27953543 CTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAGAGAGATAA
130 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
27953608 GATCTGAGGTTTTAATCCGCTCC
195 GATCTGAGGTTTTAATCCGCTCC
* * * *
27953631 ACTGCAACTTCAGG-GAGATAGGACTATCGACTTTAATCTACTCCACTGCTACTTCAGGGAGATA
1 ACTGCAACTTCAGGAG-GATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
27953695 AGACTTGCCATCTTC
65 AGACTTGCCATCTTC
27953710 GATCTGCTCC
Statistics
Matches: 476, Mismatches: 32, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
216 5 0.01
217 469 0.99
218 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (217 bp):
ACTGCAACTTCAGGAGGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
GACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGC
TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
ATCTGAGGTTTTAATCCGCTCC
Found at i:27953564 original size:89 final size:88
Alignment explanation
Indices: 27952963--27953571 Score: 392
Period size: 89 Copynumber: 7.0 Consensus size: 88
27952953 GAATTAGTGT
** *
27952963 CATCTTCAGTCTGCCTTACTGCAACTTCAGGAGGATAAGACTTGCTTATTTAGTCTGCTCCACTG
1 CATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
* * *
27953028 CAATTTTAGGGAGATAAGACTTG
66 CAACTTCAAGGAGATAAGACTTG
* *
27953051 CCAAT-TTCAGTCTACCCCATTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCAC
1 -C-ATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCAC
* *
27953115 TGCAACTTCAGGGAGATAAGACTAG
64 TGCAACTTCAAGGAGATAAGACTTG
* * * * * * *
27953140 -A--TGC-GATCTG-CTCTCTGCAACTTCA-GAGAGATAAGATCTGAGGTT--TTAATCCGCTCC
1 CATCTTCAG-TCTGCCCCACTGCAACTTCAGGAG-GATAAGA-CT-TGCTTACTTAGTCTGCTCC
* * *
27953197 ACTGTAACTTC-AGGAGGATAGGA-TTAT
62 ACTGCAACTTCAAGGA-GATAAGACTT-G
** * * * * *
27953224 CGGCTTTAATCTGCTCCACTGCAACTTCAGG-GAGATAATACTTGC-CATCTTCAGTCTGC-CCT
1 CATCTTCAGTCTGCCCCACTGCAACTTCAGGAG-GATAAGACTTGCTTA-CTT-AGTCTGCTCC-
27953286 ACTGCAACTTC-AGGAGGATAAGACTTG
62 ACTGCAACTTCAAGGA-GATAAGACTTG
* * * * * * * *
27953313 CTTACTT-AGTCTGCTCCACTGCAACTTCAGG-GAGATAAGGCTAG-ATGC-GA-TCTGCT-CTC
1 CAT-CTTCAGTCTGCCCCACTGCAACTTCAGGAG-GATAAGACTTGCTTACTTAGTCTGCTCCAC
* * *
27953372 TACAACTT-TAGAGAGATAAGATTTG
64 TGCAACTTCAAG-GAGATAAGACTTG
* * * * ** * *
27953397 -AGGT-TTTAATCCGCTCCACTGCAACTTCAGTGA-GATTGGATTATCGGC-T--TTAATCTGCT
1 CA--TCTTCAGTCTGCCCCACTGCAACTTCAG-GAGGATAAGACT-T--GCTTACTTAGTCTGCT
*
27953456 CCACTGCAACTTCAGGGAGATAAGACTTG
60 CCACTGCAACTTCAAGGAGATAAGACTTG
27953485 CCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACT
1 -CATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACT
27953550 GCAACTTCAAGGAGATAAGACT
65 GCAACTTCAAGGAGATAAGACT
27953572 AGATGCGATA
Statistics
Matches: 403, Mismatches: 73, Indels: 88
0.71 0.13 0.16
Matches are distributed among these distances:
83 9 0.02
84 92 0.23
85 17 0.04
86 9 0.02
87 16 0.04
88 50 0.12
89 202 0.50
90 8 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (88 bp):
CATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
CAACTTCAAGGAGATAAGACTTG
Found at i:27955035 original size:8 final size:8
Alignment explanation
Indices: 27955011--27955059 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
27955001 ATCACTTTCA
27955011 TTTTG-TT
1 TTTTGTTT
**
27955018 TTTTACTT
1 TTTTGTTT
27955026 TTTTGTTT
1 TTTTGTTT
27955034 TTTTGTTT
1 TTTTGTTT
27955042 TTTTG--T
1 TTTTGTTT
27955048 TTTTGTTT
1 TTTTGTTT
27955056 TTTT
1 TTTT
27955060 ATATCTGAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
6 6 0.17
7 4 0.11
8 26 0.72
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (8 bp):
TTTTGTTT
Found at i:27955041 original size:23 final size:22
Alignment explanation
Indices: 27955011--27955059 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
27955001 ATCACTTTCA
27955011 TTTTGTTTTTTACT-TTTTTGTTT
1 TTTTGTTTTTT--TGTTTTTGTTT
27955034 TTTTGTTTTTTTGTTTTTGTTT
1 TTTTGTTTTTTTGTTTTTGTTT
27955056 TTTT
1 TTTT
27955060 ATATCTGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 1 0.04
22 13 0.52
23 11 0.44
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (22 bp):
TTTTGTTTTTTTGTTTTTGTTT
Found at i:27955832 original size:25 final size:25
Alignment explanation
Indices: 27955778--27955834 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
27955768 AAGAAAATCC
* **
27955778 AAAAGAATGAAAGAATAATTACTTG
1 AAAATAATGAAAGAATAATTACTCA
*
27955803 CAAATAATGAAAGAAT-ATTGACTCA
1 AAAATAATGAAAGAATAATT-ACTCA
27955828 AAAATAA
1 AAAATAA
27955835 ATGCCAAGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.23
Consensus pattern (25 bp):
AAAATAATGAAAGAATAATTACTCA
Found at i:27965770 original size:21 final size:21
Alignment explanation
Indices: 27965737--27965783 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
27965727 TTATAAAATT
27965737 TTTATTTTTAAT-A-TTATAA
1 TTTATTTTTAATAACTTATAA
27965756 TATTATTTTTAAATAACTTATAA
1 T-TTATTTTT-AATAACTTATAA
27965779 TTTAT
1 TTTAT
27965784 AATATTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 8 0.33
21 3 0.12
22 5 0.21
23 7 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATTTTTAATAACTTATAA
Found at i:27973625 original size:31 final size:32
Alignment explanation
Indices: 27973590--27973663 Score: 109
Period size: 31 Copynumber: 2.4 Consensus size: 32
27973580 CATCGATACG
*
27973590 TAGTAAC-TGATATAATATGGTCACTGGTACA
1 TAGTAACTTGATATAATATAGTCACTGGTACA
*
27973621 TAGT-ACTTGATATAATATAGTCACTGTTACA
1 TAGTAACTTGATATAATATAGTCACTGGTACA
27973652 TAGT-ACTTGATA
1 TAGTAACTTGATA
27973664 CTTCAAAACC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 2 0.05
31 38 0.95
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
TAGTAACTTGATATAATATAGTCACTGGTACA
Found at i:27976969 original size:42 final size:42
Alignment explanation
Indices: 27976920--27977057 Score: 161
Period size: 42 Copynumber: 3.3 Consensus size: 42
27976910 CTGGCATCGT
*
27976920 AGTGCATCATCGGATAAATTGAAGGAAATATACTGGCA-ATTA
1 AGTGCATCATCGGATAAATTGAAGCAAATATACTGGCACA-TA
* * * * *
27976962 GGTGCATCATCGGACAAGTTGAAGCAATTATATTGGCACATA
1 AGTGCATCATCGGATAAATTGAAGCAAATATACTGGCACATA
* ** * *
27977004 AGTGCATCATCGGATGAACCGAACCAAATATACTTGCACATA
1 AGTGCATCATCGGATAAATTGAAGCAAATATACTGGCACATA
27977046 AGTGCATCATCG
1 AGTGCATCATCG
27977058 ACCAAACCAA
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
42 78 0.99
43 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (42 bp):
AGTGCATCATCGGATAAATTGAAGCAAATATACTGGCACATA
Found at i:27977075 original size:42 final size:42
Alignment explanation
Indices: 27976990--27977113 Score: 135
Period size: 42 Copynumber: 3.0 Consensus size: 42
27976980 TTGAAGCAAT
* * * **
27976990 TATATTGGCACATAAGTGCATCATCGGA-TGAACCGAACCAAA
1 TATATTAGCACATAAGTGCATCATC-GACTAAACCAAAGTAAA
*
27977032 TATACTT-GCACATAAGTGCATCATCGACCAAACCAAAGTAAA
1 TATA-TTAGCACATAAGTGCATCATCGACTAAACCAAAGTAAA
* * *
27977074 TATATTAACACATAATTGCATCATCGACTAAACTAAAGTA
1 TATATTAGCACATAAGTGCATCATCGACTAAACCAAAGTA
27977114 TAGACCCATA
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 4 0.06
42 64 0.91
43 2 0.03
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (42 bp):
TATATTAGCACATAAGTGCATCATCGACTAAACCAAAGTAAA
Found at i:27989364 original size:12 final size:12
Alignment explanation
Indices: 27989347--27989373 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27989337 CTTTCTTTCC
27989347 ATTATGTTTATT
1 ATTATGTTTATT
27989359 ATTATGTTTATT
1 ATTATGTTTATT
27989371 ATT
1 ATT
27989374 TATACTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (12 bp):
ATTATGTTTATT
Found at i:27993239 original size:17 final size:18
Alignment explanation
Indices: 27993219--27993253 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
27993209 GAGAAAATTA
27993219 TTGCTGAAGAA-AAAAAG
1 TTGCTGAAGAAGAAAAAG
27993236 TTGCTGAAGAAGAAAAAG
1 TTGCTGAAGAAGAAAAAG
27993254 AAAGAGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.51, C:0.06, G:0.26, T:0.17
Consensus pattern (18 bp):
TTGCTGAAGAAGAAAAAG
Found at i:28004477 original size:21 final size:20
Alignment explanation
Indices: 28004448--28004486 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
28004438 GAAAATTATT
28004448 TATTATTTTCTAATTTTCACA
1 TATTATTTT-TAATTTTCACA
* *
28004469 TATTCTTTTTCATTTTCA
1 TATTATTTTTAATTTTCA
28004487 AAAAATCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTATTTTTAATTTTCACA
Found at i:28008560 original size:20 final size:20
Alignment explanation
Indices: 28008523--28008570 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
28008513 TAAATTTTTA
*
28008523 TATTTT-ACCTTTATTATTT
1 TATTTTGACCTTTAATATTT
*
28008542 TATTTTGACTTTTAATATTT
1 TATTTTGACCTTTAATATTT
28008562 TATTGTTGA
1 TATT-TTGA
28008571 TGTAGCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 4 0.16
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (20 bp):
TATTTTGACCTTTAATATTT
Done.