Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 159 of 438
Found at i:48403731 original size:29 final size:31
Alignment explanation
Indices: 48403682--48403740 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
48403672 AATATGTATC
* *
48403682 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
48403711 TATTTATTCTAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
48403741 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:48408195 original size:16 final size:15
Alignment explanation
Indices: 48408174--48408211 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
48408164 CTTGGATTCT
48408174 TTTTTTTATCTTTTTA
1 TTTTTTTAT-TTTTTA
48408190 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
48408205 TTTTTTT
1 TTTTTTT
48408212 CTGGTTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTTATTTTTTA
Found at i:48408201 original size:6 final size:7
Alignment explanation
Indices: 48408175--48408210 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
48408165 TTGGATTCTT
48408175 TTTTTTA
1 TTTTTTA
48408182 TCTTTTTA
1 T-TTTTTA
48408190 TTTTTTTA
1 -TTTTTTA
48408198 TTTTTTA
1 TTTTTTA
48408205 TTTTTT
1 TTTTTT
48408211 TCTGGTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 14 0.52
8 12 0.44
9 1 0.04
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:48408211 original size:8 final size:8
Alignment explanation
Indices: 48408174--48408211 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
48408164 CTTGGATTCT
48408174 TTTTTTTA
1 TTTTTTTA
*
48408182 TCTTTTTA
1 TTTTTTTA
48408190 TTTTTTTA
1 TTTTTTTA
48408198 -TTTTTTA
1 TTTTTTTA
48408205 TTTTTTT
1 TTTTTTT
48408212 CTGGTTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:48411790 original size:23 final size:24
Alignment explanation
Indices: 48411737--48411787 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
48411727 TCGATATTGC
48411737 ATAAA-TT-TTTTTATCCTATATA
1 ATAAATTTATTTTTATCCTATATA
48411759 ATAAAATTTATTTTTATCCTATATA
1 AT-AAATTTATTTTTATCCTATATA
48411784 ATAA
1 ATAA
48411788 TTTTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 2 0.08
23 3 0.12
24 4 0.15
25 17 0.65
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (24 bp):
ATAAATTTATTTTTATCCTATATA
Found at i:48417567 original size:49 final size:49
Alignment explanation
Indices: 48417512--48417744 Score: 403
Period size: 49 Copynumber: 4.8 Consensus size: 49
48417502 TTTTACATTA
*
48417512 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
48417561 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
*
48417610 GCCATCAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * *
48417659 GGCATTAGGCCTCATCACATACACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* *
48417708 GCCATTAGGCCTTATCACATATATATACACTTTCACA
1 GCCATTAGGCCTCATCACATATACATACACTTTCACA
48417745 AATTTTAGTA
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 174 1.00
ACGTcount: A:0.31, C:0.33, G:0.09, T:0.27
Consensus pattern (49 bp):
GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
Found at i:48423956 original size:29 final size:29
Alignment explanation
Indices: 48423923--48424004 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
48423913 TGACGAGATA
*
48423923 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
48423952 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
48423981 GGCACTAAGTGTGCATGCTGGAAA
1 GGCACTAAGTGTGCATGCTGGAAA
48424005 AAAAAATAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAATATAT
Found at i:48426017 original size:16 final size:16
Alignment explanation
Indices: 48425996--48426028 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48425986 CATTCGTGTT
48425996 AGATGAACTGTCATGC
1 AGATGAACTGTCATGC
48426012 AGATGAACTGTCATGC
1 AGATGAACTGTCATGC
48426028 A
1 A
48426029 CACCCGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (16 bp):
AGATGAACTGTCATGC
Found at i:48431874 original size:29 final size:29
Alignment explanation
Indices: 48431841--48431922 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
48431831 TGACGAGATA
*
48431841 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
48431870 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
48431899 GGCACTAAGTGTGCATGCTGGAAA
1 GGCACTAAGTGTGCATGCTGGAAA
48431923 AAAAAAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAATATAT
Found at i:48437355 original size:18 final size:18
Alignment explanation
Indices: 48437310--48437347 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
48437300 CGTACATGAG
* *
48437310 AGAAACAAAAACAAAGAA
1 AGAAAAAAAAAAAAAGAA
48437328 AGAAAAAAAAAAAAAGAA
1 AGAAAAAAAAAAAAAGAA
48437346 AG
1 AG
48437348 GAAGAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAAAAAGAA
Found at i:48438645 original size:40 final size:40
Alignment explanation
Indices: 48438586--48438692 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
48438576 CAATTGAATG
* * * *
48438586 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
48438626 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
48438666 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
48438693 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:48438712 original size:40 final size:39
Alignment explanation
Indices: 48438627--48438753 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
48438617 CTGGAAATTA
* * *
48438627 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
48438665 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
48438707 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
48438747 TATCCGG
1 TATCCGG
48438754 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:48445389 original size:17 final size:18
Alignment explanation
Indices: 48445357--48445393 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
48445347 CGTACATGAG
*
48445357 AGAAACAAAAACAAAGAA
1 AGAAACAAAAAAAAAGAA
48445375 AGAAA-AAAAAAAAAGAA
1 AGAAACAAAAAAAAAGAA
48445392 AG
1 AG
48445394 GAAGAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (18 bp):
AGAAACAAAAAAAAAGAA
Found at i:48445401 original size:17 final size:18
Alignment explanation
Indices: 48445357--48445393 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
48445347 CGTACATGAG
*
48445357 AGAAACAAAAACAAAGAA
1 AGAAAAAAAAACAAAGAA
48445375 AGAAAAAAAAA-AAAGAA
1 AGAAAAAAAAACAAAGAA
48445392 AG
1 AG
48445394 GAAGAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAACAAAGAA
Found at i:48446691 original size:40 final size:40
Alignment explanation
Indices: 48446632--48446738 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
48446622 CAATTGAATG
* * * *
48446632 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
48446672 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
48446712 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
48446739 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:48446758 original size:40 final size:39
Alignment explanation
Indices: 48446673--48446799 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
48446663 CTGGAAATTA
* * *
48446673 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
48446711 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
48446753 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
48446793 TATCCGG
1 TATCCGG
48446800 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:48451866 original size:35 final size:35
Alignment explanation
Indices: 48451800--48451965 Score: 183
Period size: 35 Copynumber: 4.6 Consensus size: 35
48451790 TCCTCATTGA
* ** *
48451800 AATACCATACCTA-TTTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
48451834 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
48451874 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
48451909 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
48451944 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
48451966 CTTTGCCATG
Statistics
Matches: 115, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
34 12 0.10
35 73 0.63
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:48451919 original size:75 final size:72
Alignment explanation
Indices: 48451795--48451967 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 72
48451785 GGTTTTCCTC
** * * **
48451795 ATTGAAATACCATACCTATTTTTTCA-ACTCGGTATGGGAAATGCCATACCTACATTTCTTAACT
1 ATTGAAATACCATACCTA-CATTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACT
48451859 CAGTATGG
65 CAGTATGG
48451867 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACA-CTCAGTATGGGA-AATACCATACCTACATTTCACA
48451931 ACTCAGTATGG
62 ACTCAGTATGG
48451942 A-TG--ATACCATACCTACATTTCACACT
1 ATTGAAATACCATACCTACATTTCACACT
48451968 TTGCCATGGA
Statistics
Matches: 90, Mismatches: 6, Indels: 13
0.83 0.06 0.12
Matches are distributed among these distances:
69 2 0.02
70 21 0.23
72 1 0.01
73 11 0.12
74 17 0.19
75 38 0.42
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (72 bp):
ATTGAAATACCATACCTACATTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACTC
AGTATGG
Found at i:48458116 original size:15 final size:15
Alignment explanation
Indices: 48458096--48458129 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
48458086 GACTATGCGA
*
48458096 CCACCATATCCTACT
1 CCACCATATCCTACC
48458111 CCACCATATCCTACC
1 CCACCATATCCTACC
48458126 CCAC
1 CCAC
48458130 GAGCCTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.53, G:0.00, T:0.21
Consensus pattern (15 bp):
CCACCATATCCTACC
Found at i:48461653 original size:51 final size:49
Alignment explanation
Indices: 48461480--48461669 Score: 211
Period size: 49 Copynumber: 3.8 Consensus size: 49
48461470 AAAGCTATAT
* * * * * * * *
48461480 GGTACGCATAGTAGTCTACACATAGTGCTACACATGCGACCAATTATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTTTCG
* *
48461529 GGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATT-TTCG
* * *
48461579 GG-ACACATAGTAGCATGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATTTTCG
* *
48461629 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
48461670 TCACAATAGA
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 72 0.61
50 10 0.08
51 36 0.31
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTTTCG
Found at i:48464864 original size:24 final size:23
Alignment explanation
Indices: 48464812--48464866 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
48464802 CAACCGAATT
* *
48464812 TGCACACATAGTGCTCGTCACAC
1 TGCACACATAGTGCTAGTCAAAC
48464835 TCGCACACATAGTGCCATAGT-AAAC
1 T-GCACACATAGTG-C-TAGTCAAAC
48464860 TGCACAC
1 TGCACAC
48464867 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 18 0.67
25 5 0.19
26 3 0.11
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (23 bp):
TGCACACATAGTGCTAGTCAAAC
Found at i:48471068 original size:28 final size:28
Alignment explanation
Indices: 48471028--48471089 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
48471018 TTTTCCTCGT
*
48471028 CAGAAGAGGTTGCATTATAAAACCCAAA
1 CAGATGAGGTTGCATTATAAAACCCAAA
48471056 CAGATGAGGTTGCATTATAAAACCCAAA
1 CAGATGAGGTTGCATTATAAAACCCAAA
48471084 CAGATG
1 CAGATG
48471090 TATGAAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (28 bp):
CAGATGAGGTTGCATTATAAAACCCAAA
Found at i:48476984 original size:29 final size:29
Alignment explanation
Indices: 48476942--48476999 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
48476932 GTATTACAAC
48476942 AATCACTTGGTCCCTAGAAAAAGAGTTTT
1 AATCACTTGGTCCCTAGAAAAAGAGTTTT
48476971 AATCACTTGGTCCCTAGAAAAAGAGTTTT
1 AATCACTTGGTCCCTAGAAAAAGAGTTTT
48477000 CCACCATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (29 bp):
AATCACTTGGTCCCTAGAAAAAGAGTTTT
Found at i:48481530 original size:56 final size:56
Alignment explanation
Indices: 48481468--48481577 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 56
48481458 AAACTCAATT
* *
48481468 TAAGGCCCAAATGTGTATGTTTGCTATAATTGGAATTAGTTATTTAAAATTTATCA
1 TAAGGCCCAAATGTGTATGTTTACGATAATTGGAATTAGTTATTTAAAATTTATCA
48481524 TAAGGCCCAAATGTGTATGTTTACGATAATTGGAATTAGTTATTTAAAATTTAT
1 TAAGGCCCAAATGTGTATGTTTACGATAATTGGAATTAGTTATTTAAAATTTAT
48481578 ACTTAATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (56 bp):
TAAGGCCCAAATGTGTATGTTTACGATAATTGGAATTAGTTATTTAAAATTTATCA
Found at i:48489963 original size:20 final size:21
Alignment explanation
Indices: 48489924--48489980 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
48489914 GTTTTAAGAA
*
48489924 TTGTTTTAGTATCATTTTTAT
1 TTGTTTTAATATCATTTTTAT
*
48489945 TTGTTTTAATAT-TTTTTTAT
1 TTGTTTTAATATCATTTTTAT
*
48489965 GTT-TTTAAATAT-ATTT
1 -TTGTTTTAATATCATTT
48489981 GATTTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.68
Consensus pattern (21 bp):
TTGTTTTAATATCATTTTTAT
Found at i:48492693 original size:2 final size:2
Alignment explanation
Indices: 48492686--48492716 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
48492676 ATATGTAAGT
48492686 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48492717 GAGATTCGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48493310 original size:41 final size:41
Alignment explanation
Indices: 48493263--48493346 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
48493253 ATTTCAAGAT
48493263 TCGAATATGTGTGTATCAATTCTAAATTTATTCAAGACATC
1 TCGAATATGTGTGTATCAATTCTAAATTTATTCAAGACATC
48493304 TCGAATATGTGTGTATCAATTCTAAATTTATTCAAGACATC
1 TCGAATATGTGTGTATCAATTCTAAATTTATTCAAGACATC
48493345 TC
1 TC
48493347 ATTTGGGATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (41 bp):
TCGAATATGTGTGTATCAATTCTAAATTTATTCAAGACATC
Found at i:48496795 original size:18 final size:18
Alignment explanation
Indices: 48496772--48496809 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
48496762 ATAGATTTTA
48496772 AATGTTAGTTTACTAAAT
1 AATGTTAGTTTACTAAAT
48496790 AATGTTAGTTTACTAAAT
1 AATGTTAGTTTACTAAAT
48496808 AA
1 AA
48496810 ATAAATTAAG
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:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (18 bp):
AATGTTAGTTTACTAAAT
Found at i:48497771 original size:52 final size:51
Alignment explanation
Indices: 48497691--48497790 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 51
48497681 TCCGAGACAG
* *
48497691 ATATCAAATGAAAGGTTGAAAAGATTGTTACCCTAAAAGGGTTAACATCCA
1 ATATCAAATGAAAGCTTGAAAAGATTGTTACCCTAAAAGAGTTAACATCCA
* * *
48497742 ATATCAAATGAAAAGCTTGAAAAGGTTGTTACCTTGAAAGAGTTAACAT
1 ATATCAAATG-AAAGCTTGAAAAGATTGTTACCCTAAAAGAGTTAACAT
48497791 ATGAAAAGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 10 0.23
52 33 0.77
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (51 bp):
ATATCAAATGAAAGCTTGAAAAGATTGTTACCCTAAAAGAGTTAACATCCA
Found at i:48501109 original size:13 final size:14
Alignment explanation
Indices: 48501088--48501121 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
48501078 ATTATTTATC
*
48501088 ATTTCAATATAT-A
1 ATTTAAATATATAA
48501101 ATTTAAATATATAA
1 ATTTAAATATATAA
48501115 ATTTAAA
1 ATTTAAA
48501122 GCGACAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTTAAATATATAA
Found at i:48505661 original size:27 final size:27
Alignment explanation
Indices: 48505631--48505700 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
48505621 TTTACCAAAG
48505631 TTACCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
* * *
48505658 TTACCAAAATATCCTTGGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
48505685 TTACCAAAATACCCCT
1 TTACCAAAATACCCCT
48505701 GTAGAGTAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (27 bp):
TTACCAAAATACCCCTAGTTTGTAAAA
Found at i:48505932 original size:27 final size:27
Alignment explanation
Indices: 48505683--48505931 Score: 338
Period size: 27 Copynumber: 9.3 Consensus size: 27
48505673 TGGTTTGTAA
* *
48505683 AATTACCAAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
48505710 AATTACTGAAACACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
48505737 AA-TACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
48505763 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
48505790 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
48505817 AATTACCGAAATACCCCTGGAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
48505844 AATTATCGAAATACCCCTGGAGGGCAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
48505871 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
48505898 AATTACCAAAATACCCTTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
48505925 AATTACC
1 AATTACC
48505932 ATTTTGCCCC
Statistics
Matches: 199, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 23 0.12
27 176 0.88
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:48506172 original size:25 final size:25
Alignment explanation
Indices: 48506134--48506200 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
48506124 AGGAAGTGCT
*
48506134 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAATTTACCG
* *
48506159 AAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAATTTACCG
*
48506184 AAAAGGGCCTTGCCCCA
1 AAAAGGGCTTTGCCCCA
48506201 GTTATTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAATTTACCG
Found at i:48508609 original size:27 final size:27
Alignment explanation
Indices: 48508566--48508744 Score: 245
Period size: 27 Copynumber: 6.7 Consensus size: 27
48508556 CTCGATTTGT
* *
48508566 AAATTACCATTTTACCCTCGATTTATA
1 AAATTACCGTTTTACCCTCGATTTACA
* *
48508593 GAATTACCGTTTCACCCTCGATTT-CA
1 AAATTACCGTTTTACCCTCGATTTACA
* *
48508619 AAATTACCGTTTTACCCTTGATTTATA
1 AAATTACCGTTTTACCCTCGATTTACA
*
48508646 AAATTACCATTTTACCCTCGATTTACA
1 AAATTACCGTTTTACCCTCGATTTACA
* *
48508673 GAATTACCGTTTTACCTTCGATTTACA
1 AAATTACCGTTTTACCCTCGATTTACA
*
48508700 AAATTACCGTTTTACCTTC-AGTTTACA
1 AAATTACCGTTTTACCCTCGA-TTTACA
48508727 AAATTACCGTTTTACCCT
1 AAATTACCGTTTTACCCT
48508745 AGTTTGTAAA
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 23 0.17
27 111 0.83
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
AAATTACCGTTTTACCCTCGATTTACA
Found at i:48508676 original size:80 final size:81
Alignment explanation
Indices: 48508566--48508744 Score: 281
Period size: 80 Copynumber: 2.2 Consensus size: 81
48508556 CTCGATTTGT
*
48508566 AAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTT-CAAAATTACCGTT
1 AAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCGTT
* *
48508630 TTACCCTTGA-TTTATA
66 TTA-CCTTCAGTTTACA
* *
48508646 AAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCTTCGATTTACAAAATTACCGTT
1 AAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCGTT
48508711 TTACCTTCAGTTTACA
66 TTACCTTCAGTTTACA
*
48508727 AAATTACCGTTTTACCCT
1 AAATTACCATTTTACCCT
48508745 AGTTTGTAAA
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
80 53 0.58
81 38 0.42
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (81 bp):
AAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCGTT
TTACCTTCAGTTTACA
Found at i:48508779 original size:27 final size:27
Alignment explanation
Indices: 48508741--48508904 Score: 226
Period size: 27 Copynumber: 6.1 Consensus size: 27
48508731 TACCGTTTTA
*
48508741 CCCTAGTTTGTAAAATTACCAAGATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
48508768 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
*
48508795 CCCTAGTTTGTAAACTTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
*
48508822 CCCTAGTTTGTAAAATTACCGAAATA-
1 CCCTAGTTTGTAAAATTACCAAAATAC
*
48508848 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-AGTTTGTAAAATTACCAAAATAC
**
48508876 CCCT-GATTTACAAAATTA-CAGAAATAC
1 CCCTAG-TTTGTAAAATTACCA-AAATAC
48508903 CC
1 CC
48508905 TTGACTTTCT
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
26 6 0.05
27 114 0.92
28 4 0.03
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.29
Consensus pattern (27 bp):
CCCTAGTTTGTAAAATTACCAAAATAC
Found at i:48508901 original size:81 final size:81
Alignment explanation
Indices: 48508719--48508904 Score: 229
Period size: 81 Copynumber: 2.3 Consensus size: 81
48508709 TTTTACCTTC
**** *
48508719 AGTTTACAAAATTACCGTTTTA-CCCTAGTTTGTAAAATTACCAAGATACCCCTAGTTTGTAAAA
1 AGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAGATACCCCTAATTTGTAAAA
48508783 TTACCAAAATACCCCT
66 TTACCAAAATACCCCT
** *
48508799 AGTTTGTAAACTTACCAAAATACCCCTAGTTTGTAAAATTACCGAA-ATA-CCCTCAATTTGTAA
1 AGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACC-AAGATACCCCT-AATTTGTAA
48508862 AATTACCAAAATACCCCT
64 AATTACCAAAATACCCCT
48508880 -GATTTACAAAATTA-CAGAAATACCC
1 AG-TTTACAAAATTACCA-AAATACCC
48508905 TTGACTTTCT
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
80 22 0.24
81 66 0.73
82 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (81 bp):
AGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAGATACCCCTAATTTGTAAAA
TTACCAAAATACCCCT
Found at i:48508905 original size:54 final size:54
Alignment explanation
Indices: 48508719--48508987 Score: 224
Period size: 54 Copynumber: 5.0 Consensus size: 54
48508709 TTTTACCTTC
* *** *
48508719 AGTTTACAAAATTACCGTTTTACCCT-AGTTTGTAAAATTACCAAGATACCCCT
1 AGTTTACAAAATTACAGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCT
** *
48508772 AGTTTGTAAAATTACCA-AAATACCC-CTAGTTTGTAAACTTACCAAAATACCCCT
1 AGTTTACAAAATTA-CAGAAATACCCTC-AGTTTGTAAAATTACCAAAATACCCCT
** * *
48508826 AGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 AGTTTACAAAATTACAGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCT
* * * * **
48508880 -GATTTACAAAATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATT
1 AG-TTTACAAAATTACAGAAATACCC-TCAGTTTGT-AAAATTACCA-AAATACCCCT
* * ** * * *
48508936 GGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCC
1 AGTTTACAAAATTACAGAAATACCCTCAGTTTGTAAAATTACCAAAATACCC
48508988 TTGTAGGATG
Statistics
Matches: 175, Mismatches: 30, Indels: 21
0.77 0.13 0.09
Matches are distributed among these distances:
53 19 0.11
54 104 0.59
55 14 0.08
56 37 0.21
57 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AGTTTACAAAATTACAGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCT
Found at i:48508955 original size:27 final size:27
Alignment explanation
Indices: 48508833--48508967 Score: 103
Period size: 27 Copynumber: 4.9 Consensus size: 27
48508823 CCTAGTTTGT
* *** **
48508833 AAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
** * *
48508860 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
48508887 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
48508914 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
48508943 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
48508968 GTAGATTTAC
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
27 62 0.70
28 7 0.08
29 19 0.22
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:48509072 original size:27 final size:27
Alignment explanation
Indices: 48509021--48509084 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
48509011 ACCCCTAATA
*
48509021 GGTAAAA-AACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
48509047 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
48509074 GGTAAAATGAC
1 GGTAAAATGAC
48509085 GAATATGCCC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.19
27 24 0.77
28 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:48509926 original size:25 final size:24
Alignment explanation
Indices: 48509888--48509957 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
48509878 AGGAAGTGCT
*
48509888 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCTAGTTTACC
*
48509912 GAAAAGGGCTTTGCCCTAGTTTATC
1 -AAAAGGGCTTTGCCCTAGTTTACC
*
48509937 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCTAGTT
48509958 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCTAGTTTACC
Found at i:48509970 original size:24 final size:23
Alignment explanation
Indices: 48509888--48509984 Score: 77
Period size: 25 Copynumber: 4.0 Consensus size: 23
48509878 AGGAAGTGCT
* * *
48509888 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
*
48509912 GAAAAGGGCTTTGCCCTAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
48509937 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
48509961 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
48509985 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.06
24 13 0.21
25 46 0.73
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:48510173 original size:42 final size:42
Alignment explanation
Indices: 48510105--48510196 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
48510095 TAGTCTCCCC
* *
48510105 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCAGTGACATTACATGTGATATTG
*
48510147 AAATTGGCTTGCATACATCCAGTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCAGTGACATTACATGTGATATTG
48510189 AAATGGGC
1 AAATGGGC
48510197 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCAGTGACATTACATGTGATATTG
Found at i:48510258 original size:31 final size:31
Alignment explanation
Indices: 48510220--48510291 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
48510210 CGTTTACAGT
*
48510220 AAAGGCTTCATCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
** *
48510251 AAAGGCTTTGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
48510282 AAAGGCTTCA
1 AAAGGCTTCA
48510292 ACCGAGTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:48512608 original size:27 final size:27
Alignment explanation
Indices: 48512540--48512606 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
48512530 TTTACCAAAG
*
48512540 TTACCAAAATATCCTTAGTTTGTAAAA
1 TTACCAAAATACCCTTAGTTTGTAAAA
* *
48512567 TTCCCAAAATACCCTTGGTTTGT-AAA
1 TTACCAAAATACCCTTAGTTTGTAAAA
48512593 TTACCAAAATACCC
1 TTACCAAAATACCC
48512607 CTGTAGAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 16 0.44
27 20 0.56
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (27 bp):
TTACCAAAATACCCTTAGTTTGTAAAA
Found at i:48512716 original size:107 final size:108
Alignment explanation
Indices: 48512591--48512866 Score: 446
Period size: 107 Copynumber: 2.6 Consensus size: 108
48512581 TTGGTTTGTA
* ** * *
48512591 AATTACCAAAATACCCCTGTAGAGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAA
48512656 TACCCCTGTAAGGTAGAATTACCGAAATACCCCTG-AGGGTAG
66 TACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
48512698 AATTATCAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAA
*
48512763 TACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
66 TACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
48512806 AATTACCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTATAGGGTAAAATTACC
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACC
48512867 ATTTTGCCCC
Statistics
Matches: 156, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
107 93 0.60
108 63 0.40
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (108 bp):
AATTACCAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAA
TACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:48512867 original size:27 final size:27
Alignment explanation
Indices: 48512591--48512866 Score: 419
Period size: 27 Copynumber: 10.3 Consensus size: 27
48512581 TTGGTTTGTA
* *
48512591 AATTACCAAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
48512618 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
48512645 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
48512672 AATTACCGAAATACCCCTG-AGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
48512698 AATTATCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
48512725 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
48512752 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
48512779 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
48512806 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
48512833 AATTACCAAAATACCCTTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
48512860 AATTACC
1 AATTACC
48512867 ATTTTGCCCC
Statistics
Matches: 232, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
26 23 0.10
27 209 0.90
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:48513115 original size:25 final size:25
Alignment explanation
Indices: 48513069--48513138 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
48513059 AGGAAGTGCT
* *
48513069 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
48513094 AAAAGGG-TTTGGCTCCAGTTTACCG
1 AAAAGGGCTTT-GCCCCAGTTTACCG
48513119 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
48513139 ATTAAAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 2 0.05
25 34 0.87
26 3 0.08
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:48515526 original size:27 final size:27
Alignment explanation
Indices: 48515496--48515690 Score: 219
Period size: 27 Copynumber: 7.2 Consensus size: 27
48515486 ATTACTGAAA
* ** *
48515496 TACCCTCGATTTGTAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCGTTT
*
48515523 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCGTTT
* * * *
48515550 CACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCGTTT
* * * *
48515577 TACCCTCGACTTATAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCGTTT
*
48515604 TACCCTCAATTTAAAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCGTTT
* * *
48515631 TACCATCAATTTACAAAATTACCATTT
1 TACCCTCAATTTACAGAATTACCGTTT
* *
48515658 TACCCTCAGTTTACAAAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCGTTT
48515685 TACCCT
1 TACCCT
48515691 AGTTTGGGGT
Statistics
Matches: 143, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCGTTT
Found at i:48515570 original size:54 final size:54
Alignment explanation
Indices: 48515496--48515690 Score: 241
Period size: 54 Copynumber: 3.6 Consensus size: 54
48515486 ATTACTGAAA
** * * *
48515496 TACCCTCGATTTGTAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTACCATTT
* * * *
48515550 CACCCTCGATTTACAAAATTACTGTTTTACCCTCGACTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTACCATTT
* * * *
48515604 TACCCTCAATTTA-AAGAATTACCGTTTTACCATCAATTTACAAAATTACCATTT
1 TACCCTCGATTTACAA-AATTACCGTTTTACCCTCAATTTATAGAATTACCATTT
48515658 TACCCTC-AGTTTACAAAATTACCGTTTTACCCT
1 TACCCTCGA-TTTACAAAATTACCGTTTTACCCT
48515691 AGTTTGGGGT
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
53 3 0.03
54 115 0.96
55 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTACCATTT
Found at i:48515613 original size:81 final size:81
Alignment explanation
Indices: 48515478--48515690 Score: 275
Period size: 81 Copynumber: 2.6 Consensus size: 81
48515468 AATACTTTAG
* *** * *
48515478 TTTACCAAATTACTGAAATACCCTCGATTTGTAGAATTACCATTTTACCCTCAATTTATAGAATT
1 TTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAAAGAATT
* *
48515543 ACCGTTTCACCCTCGA
66 ACCGTTTCACCATCAA
*
48515559 TTTACAAAATTACTGTTTTACCCTCGACTTATAGAATTACCATTTTACCCTCAATTTAAAGAATT
1 TTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAAAGAATT
*
48515624 ACCGTTTTACCATCAA
66 ACCGTTTCACCATCAA
** * * *
48515640 TTTACAAAATTACCATTTTACCCTC-AGTTTACAAAATTACCGTTTTACCCT
1 TTTACAAAATTACTGTTTTACCCTCGA-TTTATAGAATTACCATTTTACCCT
48515691 AGTTTGGGGT
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 114 0.99
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.38
Consensus pattern (81 bp):
TTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAAAGAATT
ACCGTTTCACCATCAA
Found at i:48522085 original size:40 final size:40
Alignment explanation
Indices: 48522040--48522169 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
48522030 CGGATTATAA
48522040 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
48522080 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
48522120 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
48522160 CCGGATATAA
1 CCGGATATAA
48522170 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:48522184 original size:40 final size:40
Alignment explanation
Indices: 48522056--48522207 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
48522046 ATAAGCATGT
* * *
48522056 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
48522096 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
48522136 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
48522176 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
48522208 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:48522190 original size:80 final size:80
Alignment explanation
Indices: 48522056--48522207 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
48522046 ATAAGCATGT
* *
48522056 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
48522121 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
48522136 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
48522199 CCCGGATAT
64 CCCGGATAT
48522208 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:48530172 original size:38 final size:38
Alignment explanation
Indices: 48530074--48530182 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 38
48530064 TATAACATGT
** *
48530074 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAG-ACCACTA
48530114 GCACGAATGCCTTCGGGTCTTAGCCCGGATAG-CCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGACCACTA
*
48530152 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
48530183 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
37 2 0.03
38 30 0.48
40 31 0.49
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGACCACTA
Found at i:48530206 original size:78 final size:78
Alignment explanation
Indices: 48530074--48530222 Score: 194
Period size: 78 Copynumber: 1.9 Consensus size: 78
48530064 TATAACATGT
* *
48530074 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
48530139 CGGATAGCCACTA
66 CGGATAGCCACTA
* * ** * *
48530152 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
48530215 CCCGGATA
64 CCCGGATA
48530223 TCATTCAATC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 3 0.05
78 58 0.95
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATAGCCACTA
Found at i:48532864 original size:40 final size:39
Alignment explanation
Indices: 48532699--48532882 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
48532689 AAATTGAATG
* * *
48532699 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
48532739 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
48532779 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
48532819 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
48532858 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
48532883 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:48532907 original size:80 final size:81
Alignment explanation
Indices: 48532739--48532927 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
48532729 GCTGGAAATT
* * * *
48532739 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
48532804 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
48532820 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
48532883 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
48532899 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
48532928 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:48536597 original size:40 final size:40
Alignment explanation
Indices: 48536503--48536685 Score: 316
Period size: 40 Copynumber: 4.6 Consensus size: 40
48536493 CGGATGATAA
* *
48536503 CCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48536541 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48536581 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48536621 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48536661 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
48536686 AGCAAGTAGT
Statistics
Matches: 138, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
38 10 0.07
39 23 0.17
40 105 0.76
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48536700 original size:80 final size:80
Alignment explanation
Indices: 48536499--48536717 Score: 322
Period size: 80 Copynumber: 2.8 Consensus size: 80
48536489 TATTCGGATG
*
48536499 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCTAGT-GACTA-ATTCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATATTCGGGCTAAGTCCCGAAGGC
48536561 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* * *
48536577 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATTCGGGCTAAGTCCCGAAGGC
48536641 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* * *
48536657 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATTC-GGCTAAATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATTCGGGCTAAGTCCCGAAG
48536718 ATGCTTGGGT
Statistics
Matches: 127, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
78 14 0.11
79 37 0.29
80 76 0.60
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATTCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:48536985 original size:22 final size:21
Alignment explanation
Indices: 48536944--48536987 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
48536934 GAATGTGCAT
48536944 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
48536966 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
48536988 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:48541006 original size:15 final size:15
Alignment explanation
Indices: 48540986--48541016 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48540976 AAATATGAAA
48540986 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
48541001 GATATGTTTTGTATT
1 GATATGTTTTGGATT
48541016 G
1 G
48541017 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:48542725 original size:40 final size:39
Alignment explanation
Indices: 48542681--48542899 Score: 226
Period size: 40 Copynumber: 5.5 Consensus size: 39
48542671 GCTCGATTGT
* * *
48542681 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
48542721 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
48542761 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
48542801 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
48542841 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
48542882 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
48542900 ATACCATTCG
Statistics
Matches: 156, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.01
40 127 0.81
41 25 0.16
42 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:48542779 original size:80 final size:79
Alignment explanation
Indices: 48542681--48542901 Score: 271
Period size: 80 Copynumber: 2.7 Consensus size: 79
48542671 GCTCGATTGT
* * * * *
48542681 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
48542746 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
48542761 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
48542826 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
48542841 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
48542902 ACCATTCGAA
Statistics
Matches: 119, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 88 0.74
81 31 0.26
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATGC
Found at i:48550930 original size:39 final size:40
Alignment explanation
Indices: 48550791--48551007 Score: 240
Period size: 40 Copynumber: 5.5 Consensus size: 40
48550781 GCTCGATTGT
* * * * * * *
48550791 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * *
48550831 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
48550871 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
48550911 CTTC-GGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * * * * *
48550950 CTTCGGGAATTGA-CCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTGGTAAC-TCGCACAAATGC
*
48550990 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
48551008 ATACCATTCG
Statistics
Matches: 153, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 50 0.33
40 99 0.65
41 4 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
Found at i:48550984 original size:79 final size:80
Alignment explanation
Indices: 48550821--48551009 Score: 247
Period size: 79 Copynumber: 2.4 Consensus size: 80
48550811 ATAGTGATTC
* * *
48550821 GCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAACC
* * *
48550886 CGGTTTTGGTAACTC
66 CGGATTTAGTAACTA
* * * *
48550901 GCACAAATGCCTTC-GGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGA-C
1 GCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAACC
*
48550964 CGGATTTAGTCACTTA
66 CGGATTTAGTAAC-TA
*
48550980 GCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGACTTAGCCCGGAT
48551010 ACCATTCGAA
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
78 11 0.12
79 56 0.60
80 26 0.28
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAACC
CGGATTTAGTAACTA
Found at i:48553072 original size:45 final size:44
Alignment explanation
Indices: 48553022--48553154 Score: 130
Period size: 45 Copynumber: 3.0 Consensus size: 44
48553012 ATAGGATCCG
*
48553022 ATATGTGTTTTTGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
1 ATATGTG-TTTTGTGTAAGACCATGTATGGGACGTTGGCATCGAT
** * *
48553067 ATATGTGGTCATGTGTAAGACCATGTATGGGACATTAGCATCG-T
1 ATATGT-GTTTTGTGTAAGACCATGTATGGGACGTTGGCATCGAT
* * * *
48553111 AT-T-TGATTCGTGTAAGACCATGTTTCGGACAG-TGGCATCGAT
1 ATATGTGTTTTGTGTAAGACCATGTATGGGAC-GTTGGCATCGAT
48553153 AT
1 AT
48553155 GAGATAGCAT
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
41 27 0.38
42 4 0.06
43 1 0.01
44 3 0.04
45 36 0.50
46 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (44 bp):
ATATGTGTTTTGTGTAAGACCATGTATGGGACGTTGGCATCGAT
Found at i:48555240 original size:48 final size:48
Alignment explanation
Indices: 48555169--48555534 Score: 459
Period size: 48 Copynumber: 7.6 Consensus size: 48
48555159 AAATGAGCTT
* *
48555169 CTGTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATATGTGC
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGC
* *
48555217 CTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGT-C
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGC
* * * * *
48555264 CATGTGAAAGACCATGTTTGGGACATGGCATTGGTGATGATATCTATGC
1 C-TGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGC
* *
48555313 CTGTGTAAGACAATGTCTGGGACATGGCATCGGCGATGATATGTGTGC
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGC
* ** * * *
48555361 CTATGTAAGACCATGTCTAAGACATGGAATCGGTGACGATATGTATGC
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGC
** *
48555409 CAATGTAAGACCATGTTTGGGACATGGCATCGGTGATGATATGTGTG-
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGC
* *
48555456 CTAGTGTAAGACCATGTCTAGGACATGGCATCGGTGATGATATGTG-GA
1 CT-GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGC
* * *
48555504 TTCATGTAAGACCATGTCAGGGACATGGCAT
1 CT-GTGTAAGACCATGTCTGGGACATGGCAT
48555535 TGATACCTTA
Statistics
Matches: 275, Mismatches: 39, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
47 4 0.01
48 269 0.98
49 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (48 bp):
CTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGC
Found at i:48558879 original size:180 final size:182
Alignment explanation
Indices: 48558543--48558895 Score: 485
Period size: 180 Copynumber: 2.0 Consensus size: 182
48558533 ACGGAACTCC
* * * * * *
48558543 AAATTAAGATCCGTTAATTTTCCTAGAAATTAGGCTCATATATATTCTTACCATAAAATTTTCAG
1 AAATTAAGAACCGCTAATTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAAATTTTCAG
** * ** * *
48558608 AATTTTTTTGGTTTAGCCAATTAATACAGTTTATTCATTAAAGTTACCCTTGTTTCACTGTCCAA
66 AAAATTTTTGGTTTAGCCAATTAATACAATTTATTCATTAAAAATACCCCTGTTTCACTATCCAA
*
48558673 CAGTTCCAACCTCTCTTCACTAAAAATTATTTATCTCACGGTATGGGACACA
131 CAGTTCCAACCTCTCTTCAATAAAAATTATTTATCTCACGGTATGGGACACA
* *
48558725 AAATTAAGAACTGCTAATTTTCCCAGAAACTAGACTCACGTATATTCTTACCATAAAATTTT-A-
1 AAATTAAGAACCGCTAATTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAAATTTTCAG
* *
48558788 AAAATTTTTGGTTTAGCCAATTAGTACAATTTATTCATTAAAAATACCCCTGTTTCACTATCCGA
66 AAAATTTTTGGTTTAGCCAATTAATACAATTTATTCATTAAAAATACCCCTGTTTCACTATCCAA
** * * *
48558853 CAGTTCTGATCTTTCTTCAATAAAAATTATTTATCTCATGGTA
131 CAGTTCCAACCTCTCTTCAATAAAAATTATTTATCTCACGGTA
48558896 CTGACCTCAG
Statistics
Matches: 148, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
180 93 0.63
181 1 0.01
182 54 0.36
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (182 bp):
AAATTAAGAACCGCTAATTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAAATTTTCAG
AAAATTTTTGGTTTAGCCAATTAATACAATTTATTCATTAAAAATACCCCTGTTTCACTATCCAA
CAGTTCCAACCTCTCTTCAATAAAAATTATTTATCTCACGGTATGGGACACA
Found at i:48559519 original size:50 final size:50
Alignment explanation
Indices: 48559456--48559700 Score: 260
Period size: 50 Copynumber: 4.9 Consensus size: 50
48559446 CAAAGCTCTT
* * * * * *
48559456 TGGTACACATAGTAGCCTGCATTTACTACTACACATGTTACCCATCAATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATC
* * * *
48559506 TAGTACACGTAGTA-CGCTGCACTTAGTACTACACACATGACTTATCCATC
1 TGGTACACGTAGTAGC-CTGCACTTAGTACTACACACGTGACCTATCAATC
* * * ** *
48559556 TGATACACGTAGTAGCTTGCACTTAATACTACACACGTGATCGAAGTTAA-C
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATC
* * * *
48559607 GGGTACGCATAGTAGCCTGCACTTAGTACTACACAAGTGACCTATCAATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATC
*
48559657 CGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTA
48559701 AAACTGTCTT
Statistics
Matches: 157, Mismatches: 33, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
49 4 0.03
50 114 0.73
51 37 0.24
52 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (50 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATC
Found at i:48571137 original size:48 final size:48
Alignment explanation
Indices: 48571066--48571334 Score: 299
Period size: 48 Copynumber: 5.6 Consensus size: 48
48571056 AATGAGATTT
* * * * *
48571066 TGTGTAAGACCGTGTCTGAGACATGGCATCGGTGATGATATATGTGCT
1 TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCC
* * * *
48571114 TGTGTAAGACCATGTTTGGGACATGGCATCGACAATGATATATGTGCC
1 TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCC
* * * *
48571162 TGTGTAAGACCATGTTTGGGGCATGGCATCGACGATGATATGTGTTCC
1 TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCC
* * *
48571210 AGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATGTATGCC
1 TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCC
* * * * **
48571258 AGTGTAATACCATGTCTGGGACATGGCAACGGTGATGATATGTG-GAT
1 TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCC
*
48571305 TCATGTAAGACCATGTC-GAGGACATGGCAT
1 T-GTGTAAGACCATGTCTG-GGACATGGCAT
48571335 TGGTACCTTA
Statistics
Matches: 190, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
47 2 0.01
48 188 0.99
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (48 bp):
TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCC
Found at i:48574488 original size:40 final size:40
Alignment explanation
Indices: 48574443--48574609 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
48574433 CGGAATATAA
48574443 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
48574483 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
48574523 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
48574563 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
48574602 CCGGATAT
1 CCGGATAT
48574610 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.87
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48574593 original size:80 final size:79
Alignment explanation
Indices: 48574459--48574607 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
48574449 ATAATCACGT
* *
48574459 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
48574524 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
48574539 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
48574602 CCGGAT
64 CCGGAT
48574608 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:48582486 original size:40 final size:40
Alignment explanation
Indices: 48582441--48582606 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
48582431 CGGAATATAA
48582441 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
48582481 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
48582521 CCGGATGTAGCCACTAG-ACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
48582560 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
48582599 CCGGATAT
1 CCGGATAT
48582607 CATTCAATTT
Statistics
Matches: 100, Mismatches: 24, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
39 43 0.43
40 57 0.57
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48582590 original size:79 final size:78
Alignment explanation
Indices: 48582459--48582604 Score: 188
Period size: 79 Copynumber: 1.9 Consensus size: 78
48582449 AATCACGTGC
* *
48582459 ACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCCCG
1 ACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCCCG
48582524 GATGTAGCCACTAG
65 GATGTAGCCACTAG
* * * * *
48582538 ACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGCCC
1 ACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGCCC
48582601 GGAT
64 GGAT
48582605 ATCATTCAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
78 14 0.24
79 44 0.76
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (78 bp):
ACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCCGG
ATGTAGCCACTAG
Found at i:48583705 original size:38 final size:36
Alignment explanation
Indices: 48583663--48583841 Score: 229
Period size: 38 Copynumber: 4.9 Consensus size: 36
48583653 TGGATGATAA
* * *
48583663 CCGGGCTAAGTCCCGAAGGCATTTTGGCTAGTGATATT
1 CCGGGCTAAGTCCCGAAGGCATTGT-GCGAGTTATA-T
48583701 CCGGGCTAAGTCCCGAAGGCATTGTGCGA-TTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTATAT
48583736 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTCATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTT-ATAT
48583773 CCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAG-T--TATAT
* *
48583811 CCGGGCTATGTCCCGAAGGCATTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGT
48583842 CGCTATATCC
Statistics
Matches: 129, Mismatches: 5, Indels: 14
0.87 0.03 0.09
Matches are distributed among these distances:
34 10 0.08
35 19 0.15
36 15 0.12
37 28 0.22
38 38 0.29
39 19 0.15
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (36 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTATAT
Found at i:48586420 original size:40 final size:40
Alignment explanation
Indices: 48586375--48586541 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
48586365 CGGAATATAA
*
48586375 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
48586415 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
48586455 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
48586495 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
48586534 CCGGATAT
1 CCGGATAT
48586542 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48586525 original size:80 final size:79
Alignment explanation
Indices: 48586391--48586541 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
48586381 ATAACCATGT
*
48586391 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
48586456 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
48586471 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
48586534 CCGGATAT
64 CCGGATAT
48586542 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:48594373 original size:40 final size:40
Alignment explanation
Indices: 48594328--48594457 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
48594318 CGGAATATAA
48594328 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
48594368 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
48594408 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
48594448 CCGGATATAA
1 CCGGATATAA
48594458 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:48594472 original size:40 final size:40
Alignment explanation
Indices: 48594344--48594495 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
48594334 ATAAGCATGT
* * *
48594344 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
48594384 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
48594424 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
48594464 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
48594496 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:48594478 original size:80 final size:80
Alignment explanation
Indices: 48594344--48594495 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
48594334 ATAAGCATGT
* *
48594344 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
48594409 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
48594424 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
48594487 CCCGGATAT
64 CCCGGATAT
48594496 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:48599381 original size:18 final size:17
Alignment explanation
Indices: 48599358--48599394 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
48599348 GAACAAACTC
48599358 AAAAGTGACTCAAAAATA
1 AAAAGTGACT-AAAAATA
48599376 AAAAGTGACTAAAAATA
1 AAAAGTGACTAAAAATA
48599393 AA
1 AA
48599395 GTCAAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.65, C:0.08, G:0.11, T:0.16
Consensus pattern (17 bp):
AAAAGTGACTAAAAATA
Found at i:48609720 original size:13 final size:13
Alignment explanation
Indices: 48609702--48609727 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48609692 TTTTGTTTTA
48609702 TTAGTTTTCAATT
1 TTAGTTTTCAATT
48609715 TTAGTTTTCAATT
1 TTAGTTTTCAATT
48609728 AATAAATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TTAGTTTTCAATT
Found at i:48611738 original size:2 final size:2
Alignment explanation
Indices: 48611731--48611756 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48611721 ACTTATGAAC
48611731 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
48611757 GGTATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48619933 original size:18 final size:18
Alignment explanation
Indices: 48619905--48619960 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
48619895 GTCAAAATAC
48619905 AAAAT-TGGTATCGATAT
1 AAAATATGGTATCGATAT
48619922 AAAATATGGTATCGATA-
1 AAAATATGGTATCGATAT
*
48619939 AAATTCAATAGGTATCGATAT
1 AAAAT--AT-GGTATCGATAT
48619960 A
1 A
48619961 TTTTTAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 9 0.27
18 11 0.33
19 2 0.06
20 10 0.30
21 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (18 bp):
AAAATATGGTATCGATAT
Found at i:48620845 original size:32 final size:32
Alignment explanation
Indices: 48620804--48620869 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
48620794 CATTCTATCG
48620804 TATGATGTCATAGAGTCTTTCATTAATGGTCT
1 TATGATGTCATAGAGTCTTTCATTAATGGTCT
* **
48620836 TATGATGTCATGGAGTCTTTTGTTAATGGTCT
1 TATGATGTCATAGAGTCTTTCATTAATGGTCT
48620868 TA
1 TA
48620870 CTCATTATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.45
Consensus pattern (32 bp):
TATGATGTCATAGAGTCTTTCATTAATGGTCT
Found at i:48622840 original size:34 final size:34
Alignment explanation
Indices: 48622787--48622880 Score: 113
Period size: 34 Copynumber: 2.7 Consensus size: 34
48622777 GTTCCGGTTA
* *
48622787 GGGCCTTAGCCCCTTTTTCAGTAACAGCA-TCAGTCT
1 GGGCCTTAG-CCC-ATTTCAGTAACAG-AGGCAGTCT
48622823 GGG-CTTGAGCCCATTTCAGTAACAGAGGCAGTCT
1 GGGCCTT-AGCCCATTTCAGTAACAGAGGCAGTCT
48622857 GGGCCTTAGCCCATTTCAG-AACAG
1 GGGCCTTAGCCCATTTCAGTAACAG
48622881 TATGCAAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
33 6 0.11
34 33 0.62
35 9 0.17
36 5 0.09
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (34 bp):
GGGCCTTAGCCCATTTCAGTAACAGAGGCAGTCT
Found at i:48626966 original size:22 final size:22
Alignment explanation
Indices: 48626941--48627006 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
48626931 TTCCTGGGTG
*
48626941 GTATTTTGGTAGCCTTTATGGT
1 GTATTTTGATAGCCTTTATGGT
48626963 GTATTTTGATATGGCCTTTAT-G-
1 GTATTTTGATA--GCCTTTATGGT
* * *
48626985 GCATTTTGTTAGCCTCTATGGT
1 GTATTTTGATAGCCTTTATGGT
48627007 ATTCTAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 7 0.19
21 1 0.03
22 19 0.53
23 1 0.03
24 8 0.22
ACGTcount: A:0.15, C:0.12, G:0.24, T:0.48
Consensus pattern (22 bp):
GTATTTTGATAGCCTTTATGGT
Found at i:48627022 original size:42 final size:44
Alignment explanation
Indices: 48626943--48627031 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 44
48626933 CCTGGGTGGT
* * *
48626943 ATTTTGGTAGCCTTTATGGTGTATTTTGATATGGCCTTTATGGC
1 ATTTTGGTAGCCTCTATGGTGTATTCTAATATGGCCTTTATGGC
* *
48626987 ATTTTGTTAGCCTCTAT-G-GTATTCTAATATGGCCTTTGTGGC
1 ATTTTGGTAGCCTCTATGGTGTATTCTAATATGGCCTTTATGGC
48627029 ATT
1 ATT
48627032 CAGCTAGCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 24 0.60
43 1 0.03
44 15 0.38
ACGTcount: A:0.17, C:0.13, G:0.22, T:0.47
Consensus pattern (44 bp):
ATTTTGGTAGCCTCTATGGTGTATTCTAATATGGCCTTTATGGC
Found at i:48627554 original size:28 final size:28
Alignment explanation
Indices: 48627503--48627632 Score: 118
Period size: 28 Copynumber: 4.6 Consensus size: 28
48627493 TTCGATTTAT
* *
48627503 CAAGATCATTAAGGGCATCCGCCAAAAG
1 CAAGATCAATAAGGGTATCCGCCAAAAG
* *
48627531 CAAGATCAATAAAGGTATCAGCCAAAAG
1 CAAGATCAATAAGGGTATCCGCCAAAAG
* *
48627559 CAAGATCAGTAAGGGTATCCGTCAAAAG
1 CAAGATCAATAAGGGTATCCGCCAAAAG
* * * *
48627587 TATGA-CTAGTAAGGGTATTCGCCAAAAG
1 CAAGATC-AATAAGGGTATCCGCCAAAAG
* * * *
48627615 TATGATCAGTAAAGGTAT
1 CAAGATCAATAAGGGTAT
48627633 TTCCCAAGAA
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.01
28 85 0.98
29 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (28 bp):
CAAGATCAATAAGGGTATCCGCCAAAAG
Found at i:48627604 original size:56 final size:56
Alignment explanation
Indices: 48627503--48627632 Score: 138
Period size: 56 Copynumber: 2.3 Consensus size: 56
48627493 TTCGATTTAT
* *
48627503 CAAGATCATTAAGGGCATCCGCCAAAAGCAAGATCAATAAAGGTA-TCAGCCAAAAG
1 CAAGATCAGTAAGGGTATCCGCCAAAAGCAAGATCAATAAAGGTATTC-GCCAAAAG
* * * * *
48627559 CAAGATCAGTAAGGGTATCCGTCAAAAGTATGA-CTAGTAAGGGTATTCGCCAAAAG
1 CAAGATCAGTAAGGGTATCCGCCAAAAGCAAGATC-AATAAAGGTATTCGCCAAAAG
* * *
48627615 TATGATCAGTAAAGGTAT
1 CAAGATCAGTAAGGGTAT
48627633 TTCCCAAGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
55 1 0.02
56 59 0.95
57 2 0.03
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (56 bp):
CAAGATCAGTAAGGGTATCCGCCAAAAGCAAGATCAATAAAGGTATTCGCCAAAAG
Found at i:48628500 original size:61 final size:60
Alignment explanation
Indices: 48628331--48628523 Score: 206
Period size: 60 Copynumber: 3.2 Consensus size: 60
48628321 AAAGGAATGT
* * * *
48628331 CTTTGTGGAAAACTCTAGACAAGAAAGCCTTTGTGGCGCGTATTAAATGTAAAGGAACAC
1 CTTTGTGGAAAACTCTAGACAGGAAAGCCTTTCTGGCGAGTATTGAATGTAAAGGAACAC
* * * * * * *
48628391 CTTTTTGGAAAAATCTGGACAGGAAAGCCTTTTTGGCAAGTACTGAATGTAAAGGAGCAC
1 CTTTGTGGAAAACTCTAGACAGGAAAGCCTTTCTGGCGAGTATTGAATGTAAAGGAACAC
* ** * * **
48628451 CTTTGTGGCAAAACTCTAGATAGGAAAGCCTTTCTGATGGGTATTGAATGTAAATGAATGC
1 CTTTGTGG-AAAACTCTAGACAGGAAAGCCTTTCTGGCGAGTATTGAATGTAAAGGAACAC
*
48628512 ATTTGTGGAAAA
1 CTTTGTGGAAAA
48628524 AATCTAGAAG
Statistics
Matches: 107, Mismatches: 25, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
60 61 0.57
61 46 0.43
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (60 bp):
CTTTGTGGAAAACTCTAGACAGGAAAGCCTTTCTGGCGAGTATTGAATGTAAAGGAACAC
Found at i:48638437 original size:29 final size:29
Alignment explanation
Indices: 48638405--48638477 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
48638395 CTTCGAGCTC
* *
48638405 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
48638434 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
48638463 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
48638478 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:48639688 original size:24 final size:24
Alignment explanation
Indices: 48639647--48639702 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
48639637 TTTTTTTCCT
48639647 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTGTTTTTCTTCAT-TTCTC
* *
48639672 TTTCTTT-TTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCTTCATTTCTC
48639695 TATTCTTT
1 T-TTCTTT
48639703 CTACATAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.18
24 16 0.57
25 7 0.25
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTGTTTTTCTTCATTTCTC
Found at i:48643136 original size:24 final size:24
Alignment explanation
Indices: 48643095--48643150 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
48643085 TTTTTTTCCT
48643095 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTGTTTTTCTTCAT-TTCTC
* *
48643120 TTTCTTT-TTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCTTCATTTCTC
48643143 TATTCTTT
1 T-TTCTTT
48643151 CTACATAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.18
24 16 0.57
25 7 0.25
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTGTTTTTCTTCATTTCTC
Found at i:48654866 original size:29 final size:28
Alignment explanation
Indices: 48654834--48654936 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
48654824 GTGACGAGAT
* *
48654834 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
48654863 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
48654892 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
48654921 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48654937 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:48662027 original size:27 final size:27
Alignment explanation
Indices: 48661938--48662029 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
48661928 GGGGCAAAAT
* * *
48661938 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
48661965 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
48661992 GATATTTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
48662019 GGCAATTCTAC
1 GGTAATTCTAC
48662030 AACTTATCCA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:48679133 original size:27 final size:26
Alignment explanation
Indices: 48679085--48679136 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
48679075 ATGAGGCTGC
*
48679085 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
48679111 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
48679137 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:48679875 original size:27 final size:27
Alignment explanation
Indices: 48679786--48679877 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
48679776 GGGGCAAAAT
* * *
48679786 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
48679813 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
48679840 GGTATTTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
48679867 GGTAATTCTAC
1 GGTAATTCTAC
48679878 AACTTATCCA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:48685614 original size:49 final size:49
Alignment explanation
Indices: 48685494--48685616 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 49
48685484 GTCGATGTCG
* * *
48685494 TGTCCCACACAGGTCTTACACTAACTTTCATATATCGAGGTCAATGCAA
1 TGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAGGTCAATGCAA
* * * ** *
48685543 TGTCCCAAACAGGTCTGACACTGGCTCTCATCTATCG-GTGTTGATGCCA
1 TGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAG-GTCAATGCAA
*
48685592 TGTCCCAGACAGGTCTTACACTGAC
1 TGTCCCAAACAGGTCTTACACTGAC
48685617 ACACAACAAG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 1 0.02
49 60 0.98
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
TGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAGGTCAATGCAA
Found at i:48685740 original size:46 final size:44
Alignment explanation
Indices: 48685675--48685940 Score: 293
Period size: 46 Copynumber: 5.8 Consensus size: 44
48685665 ATATCCCGAG
* * *
48685675 GCCGATGCATGTCGCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTC--ATCAAT
* ** *
48685721 GCGGATGCATGTCTTAGACATGTGTTACACTGGCTCTCAT-AATGT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCAA--T
* * * *
48685766 GGCCAATGCATTTCCCAGATATGTCTTACACTGGCTCTCATAATAT
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCA-AT
*
48685812 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAT
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCA--TCAAT
48685859 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT-AATTT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCAA--T
*
48685904 GGCCGATGCTTGTCCCAGACATGTCTTACACTGGCTC
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
48685941 ACATACCACC
Statistics
Matches: 190, Mismatches: 20, Indels: 20
0.83 0.09 0.09
Matches are distributed among these distances:
43 4 0.02
44 2 0.01
45 2 0.01
46 176 0.93
47 3 0.02
48 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCAAT
Found at i:48685816 original size:138 final size:138
Alignment explanation
Indices: 48685674--48685945 Score: 438
Period size: 138 Copynumber: 2.0 Consensus size: 138
48685664 TATATCCCGA
* * * **
48685674 GGCCGATGCATGTCGCAGACATGTCTTACACTAGCTCTCGTCTCAATGCGGATGCATGTCTTAGA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCATGTCCCAGA
* *
48685739 CATGTGTTACACTGGCTCTCATAATGTGGCCAATGCATT-TCCCAGATATGTCTTACACTGGCTC
66 CATGTCTTACACTGGCTCTCATAATGTGGCCAATGC-TTGTCCCAGACATGTCTTACACTGGCTC
*
48685803 TCATAATAT
130 ACATAATAT
48685812 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCATGTCCCAGA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCATGTCCCAGA
* *
48685877 CATGTCTTACACTGGCTCTCATAATTTGGCCGATGCTTGTCCCAGACATGTCTTACACTGGCTCA
66 CATGTCTTACACTGGCTCTCATAATGTGGCCAATGCTTGTCCCAGACATGTCTTACACTGGCTCA
48685942 CATA
131 CATA
48685946 CCACCCAATG
Statistics
Matches: 123, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
137 2 0.02
138 121 0.98
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (138 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCATGTCCCAGA
CATGTCTTACACTGGCTCTCATAATGTGGCCAATGCTTGTCCCAGACATGTCTTACACTGGCTCA
CATAATAT
Found at i:48690527 original size:24 final size:24
Alignment explanation
Indices: 48690495--48690544 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
48690485 TTCATGGCCA
48690495 TATACAAAAAGATAAACATATTTT
1 TATACAAAAAGATAAACATATTTT
48690519 TATACAAAAAGATAAACATATTTT
1 TATACAAAAAGATAAACATATTTT
48690543 TA
1 TA
48690545 CATGCCTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (24 bp):
TATACAAAAAGATAAACATATTTT
Found at i:48695314 original size:20 final size:21
Alignment explanation
Indices: 48695275--48695314 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
48695265 GTCAATAGGA
48695275 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
48695296 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
48695315 GTTTCAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.40, G:0.30, T:0.20
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:48695974 original size:49 final size:49
Alignment explanation
Indices: 48695921--48696043 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 49
48695911 GTCGATGTCG
* * *
48695921 TGTCCCACACAGGTCCTACACTGACTTTCATATATCGAG-GCCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGCCGATGCCA
* * *
48695970 TGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCCGATGCCA
* *
48696019 TGTCCCAGAAAAGTCTTACACTGAC
1 TGTCCCAGACAGGTCTTACACTGAC
48696044 ACACAACAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 1 0.02
49 63 0.98
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCCGATGCCA
Found at i:48696039 original size:98 final size:97
Alignment explanation
Indices: 48695863--48696043 Score: 213
Period size: 98 Copynumber: 1.9 Consensus size: 97
48695853 GGGATAAGAT
* * * *
48695863 GCCGACGCCATGTCCTAGACATGGTCTTACACTGGCTAATACATTGAAGTCGATGTCGTGTCCCA
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAATACATCGAAGTCGATGCCATGTCCCA
* *
48695928 CACAGGTCCTACACTGACTTTCATATATCGAG
66 CAAAAGTCCTACACTGACTTTCATATATCGAG
* * **
48695960 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCT-CTCATCTATCGGTGTCGATGCCATGTC
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAAT-A-C-ATCGAAGTCGATGCCATGTC
* *
48696023 CCAGAAAAGTCTTACACTGAC
63 CCACAAAAGTCCTACACTGAC
48696044 ACACAACAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
95 1 0.01
96 16 0.23
97 20 0.29
98 32 0.46
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (97 bp):
GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAATACATCGAAGTCGATGCCATGTCCCA
CAAAAGTCCTACACTGACTTTCATATATCGAG
Found at i:48696202 original size:46 final size:46
Alignment explanation
Indices: 48696105--48696508 Score: 396
Period size: 46 Copynumber: 8.8 Consensus size: 46
48696095 TCCCAAGGCT
* ** * *
48696105 GATGCATGTCCCAAACATGTCTTACACTAACTCTCAT-CTCCAT-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT--GTGGCC
* * * *
48696151 GATGCATGTCCAAAACTTCTCTTACACTGGCTCTCATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCC
* *
48696197 AATGCATGTCCCAGACATGTCTTACACTGGCTTTCATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCC
* ** * * *
48696243 GATGCATATCTTAGACATAT-TTACACTAGCTCTCGTCTCAA--T-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTC--AT-AATGTGGCC
48696288 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCC
* * *
48696334 AATGCATGTCCCAGACATGTCATACACTGGCTTTCATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCC
* ** * * *
48696380 GATGCATATCTTAGACATAT-TTACACTAGCTCTCGTCTCAA--T-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTC--AT-AATGTGGCC
* *
48696425 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCACAATGTGGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCC
* *
48696471 GATGCTTGTCCCAGACATGTCTTACACTGGCTCACATA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATA
48696509 CCACTTAATG
Statistics
Matches: 292, Mismatches: 50, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
43 4 0.01
44 1 0.00
45 64 0.22
46 216 0.74
47 3 0.01
48 4 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCC
Found at i:48696293 original size:137 final size:137
Alignment explanation
Indices: 48696126--48696502 Score: 646
Period size: 137 Copynumber: 2.8 Consensus size: 137
48696116 CAAACATGTC
* * * * * * *
48696126 TTACACTAACTCTCATCTCCATGCCGATGCATGTCCAAAACTTCTCTTACACTGGCTCTCATAAT
1 TTACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT
48696191 GTGGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTTCATAATGTGGCCGATGCATATCTTA
66 GTGGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTTCATAATGTGGCCGATGCATATCTTA
48696256 GACATAT
131 GACATAT
48696263 TTACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT
1 TTACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT
*
48696328 GTGGCCAATGCATGTCCCAGACATGTCATACACTGGCTTTCATAATGTGGCCGATGCATATCTTA
66 GTGGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTTCATAATGTGGCCGATGCATATCTTA
48696393 GACATAT
131 GACATAT
*
48696400 TTACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCACAAT
1 TTACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT
* * *
48696465 GTGGTCGATGCTTGTCCCAGACATGTCTTACACTGGCT
66 GTGGCCAATGCATGTCCCAGACATGTCTTACACTGGCT
48696503 CACATACCAC
Statistics
Matches: 227, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 227 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (137 bp):
TTACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT
GTGGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTTCATAATGTGGCCGATGCATATCTTA
GACATAT
Found at i:48696404 original size:91 final size:92
Alignment explanation
Indices: 48696105--48696508 Score: 396
Period size: 91 Copynumber: 4.4 Consensus size: 92
48696095 TCCCAAGGCT
* ** * * * * *
48696105 GATGCATGTCCCAAACATGTCTTACACTAACTCTCAT-CTCCAT-GCCGATGCATGTCCAAAACT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT--GTGGCCGATGCATGTCCCAGACA
*
48696168 TCTCTTACACTGGCTCTCATAATGTGGCC
64 TGTCTTACACTGGCTCTCATAATGTGGCC
* * * ** *
48696197 AATGCATGTCCCAGACATGTCTTACACTGGCTTTCATAATGTGGCCGATGCATATCTTAGACATA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATG
* *
48696262 T-TTACACTAGCTCTCGTCTCAA--T-GCC
66 TCTTACACTGGCTCTC--AT-AATGTGGCC
*
48696288 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATG
* *
48696353 TCATACACTGGCTTTCATAATGTGGCC
66 TCTTACACTGGCTCTCATAATGTGGCC
* ** * * *
48696380 GATGCATATCTTAGACATAT-TTACACTAGCTCTCGTCTCAA--T-GCCGATGCATGTCCCAGAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTC--AT-AATGTGGCCGATGCATGTCCCAGAC
* *
48696441 ATGTCTTACACTGGCTCTCACAATGTGGTC
63 ATGTCTTACACTGGCTCTCATAATGTGGCC
* *
48696471 GATGCTTGTCCCAGACATGTCTTACACTGGCTCACATA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATA
48696509 CCACTTAATG
Statistics
Matches: 254, Mismatches: 45, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
89 3 0.01
90 2 0.01
91 149 0.59
92 93 0.37
93 3 0.01
94 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATG
TCTTACACTGGCTCTCATAATGTGGCC
Found at i:48697586 original size:21 final size:21
Alignment explanation
Indices: 48697548--48697587 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
48697538 TAGTCCTTTT
*
48697548 TAAAATTAAGCTCACAAATGC
1 TAAAATTAACCTCACAAATGC
48697569 TAAAATT-ACCTCACCAAAT
1 TAAAATTAACCTCA-CAAAT
48697588 TTTTCATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (21 bp):
TAAAATTAACCTCACAAATGC
Found at i:48697983 original size:50 final size:50
Alignment explanation
Indices: 48697924--48698024 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
48697914 CGTTAGAACC
48697924 TAAGGAAGCTATGAGAAAATAGTGCCCTAACTTACTTTCTGGTAAGATTT
1 TAAGGAAGCTATGAGAAAATAGTGCCCTAACTTACTTTCTGGTAAGATTT
48697974 TAAGGAAGCTATGAGAAAATAGTGCCCTAACTTACTTTCTGGTAAGATTT
1 TAAGGAAGCTATGAGAAAATAGTGCCCTAACTTACTTTCTGGTAAGATTT
48698024 T
1 T
48698025 CGAGGACGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (50 bp):
TAAGGAAGCTATGAGAAAATAGTGCCCTAACTTACTTTCTGGTAAGATTT
Found at i:48704844 original size:43 final size:43
Alignment explanation
Indices: 48704638--48704845 Score: 221
Period size: 44 Copynumber: 4.8 Consensus size: 43
48704628 TTCAATATGT
* *
48704638 GATTT-CGTGTTAGACCATGCCTGGGACATTGGCATCGATTTGA
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTT-A
*
48704681 GATTTACGTGAAAGACCATGTCTGGGACATTGGCATCGATTTGA
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTT-A
* *
48704725 GATTTACGTGTAAGACCATGTTTGGGACATTGGCATC-ATATA
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTTA
* * * *
48704767 TGATTT-CGTGTAAAACCCTGTCTAGGACAGTGGCATCGGTATTT-
1 -GATTTACGTGTAAGACCATGTCTGGGACATTGGCATC-G-ATTTA
* *
48704811 GA-TTACATGTAAGACC-TAGTCTGGGACGTTGGCAT
1 GATTTACGTGTAAGACCAT-GTCTGGGACATTGGCAT
48704846 TGTATGAGTT
Statistics
Matches: 141, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
42 30 0.21
43 38 0.27
44 70 0.50
45 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTTA
Found at i:48711350 original size:29 final size:29
Alignment explanation
Indices: 48711317--48711419 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
48711307 GTGACGAGAT
48711317 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
48711346 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
48711375 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
48711404 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
48711420 AGTTCGGAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:48713896 original size:27 final size:27
Alignment explanation
Indices: 48713866--48713929 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
48713856 GTCCGATATT
*
48713866 TATTGGGCCGTATGAGATTATTGAGCG
1 TATTGGGCCGTATGAGATTATTGAGCA
*
48713893 TATTGGGTCGTATGAGATTATTGAGCA
1 TATTGGGCCGTATGAGATTATTGAGCA
48713920 TATTGGGCCG
1 TATTGGGCCG
48713930 GTTGCTTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.11, G:0.33, T:0.34
Consensus pattern (27 bp):
TATTGGGCCGTATGAGATTATTGAGCA
Found at i:48717061 original size:22 final size:22
Alignment explanation
Indices: 48716999--48717066 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
48716989 TAATGGACAT
48716999 TGTGA-ATGTTT-TGAATATG-A
1 TGTGATATGTTTAT-AATATGTA
* *
48717019 TTTGATAATGTGTTAT-CTATGTA
1 TGTGAT-ATGT-TTATAATATGTA
48717042 TGTGATATGTTTATAATATGCTA
1 TGTGATATGTTTATAATATG-TA
48717065 TG
1 TG
48717067 AATAGTTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 16 0.43
23 12 0.32
24 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (22 bp):
TGTGATATGTTTATAATATGTA
Found at i:48720192 original size:20 final size:19
Alignment explanation
Indices: 48720156--48720206 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
48720146 AAGGGCTATT
*
48720156 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
48720175 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
48720195 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
48720207 GTTTCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:48720843 original size:46 final size:44
Alignment explanation
Indices: 48720776--48720895 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 44
48720766 TATGTGTGCT
*
48720776 AGTGTAAGACATGCCTGGGACATCCATTAACCA-CATT-ACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATCCA-T---CAGCATTGACGAGAGCC
* *
48720822 AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATCCATCAGCATT--GACGAGAGCC
*
48720868 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATCCATC
48720896 GGCCTCGAGA
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
45 1 0.01
46 60 0.90
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATCCATCAGCATTGACGAGAGCC
Found at i:48724009 original size:30 final size:30
Alignment explanation
Indices: 48723973--48724041 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
48723963 TTAAATTAGT
* *
48723973 AATAAT-ATAATTGTACTTTGATATC-TTAAA
1 AATAATAAT-ATTGTAATTTAAT-TCTTTAAA
*
48724003 AATAATAATATTTTAATTTAATTCTTTAAA
1 AATAATAATATTGTAATTTAATTCTTTAAA
48724033 AATAATAAT
1 AATAATAAT
48724042 GATATAAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 2 0.06
30 30 0.88
31 2 0.06
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (30 bp):
AATAATAATATTGTAATTTAATTCTTTAAA
Found at i:48726575 original size:24 final size:24
Alignment explanation
Indices: 48726547--48726598 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
48726537 TTTGTAGATC
* * *
48726547 AAATAAATTACGCTAATAAATGCT
1 AAATAAACTACACTAATAAATACT
* *
48726571 AAATATACTATACTAATAAATACT
1 AAATAAACTACACTAATAAATACT
48726595 AAAT
1 AAAT
48726599 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (24 bp):
AAATAAACTACACTAATAAATACT
Found at i:48730414 original size:2 final size:2
Alignment explanation
Indices: 48730402--48730439 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
48730392 CAAAATTCAC
48730402 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48730440 GCATTAGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.