Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 55 of 290
Found at i:17218188 original size:15 final size:15
Alignment explanation
Indices: 17218164--17218193 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17218154 TGGAGATCGA
*
17218164 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
17218179 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
17218194 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:17221573 original size:15 final size:15
Alignment explanation
Indices: 17221553--17221583 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17221543 GTCATGTAAG
17221553 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
17221568 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
17221583 T
1 T
17221584 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:17221773 original size:17 final size:17
Alignment explanation
Indices: 17221740--17221778 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
17221730 TAAGCTTTTG
17221740 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
17221757 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
17221774 ATTTT
1 ATTTT
17221779 CCACAGTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:17227122 original size:37 final size:37
Alignment explanation
Indices: 17227080--17227155 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
17227070 CTTCAGAGAC
*
17227080 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGTTT
1 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
17227117 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
1 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
17227154 AT
1 AT
17227156 AGTATGGGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (37 bp):
ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
Found at i:17229090 original size:26 final size:26
Alignment explanation
Indices: 17229061--17229142 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
17229051 TGGTACAAAT
17229061 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
17229087 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
17229113 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17229139 TGAT
1 TGAT
17229143 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:17230804 original size:27 final size:27
Alignment explanation
Indices: 17230764--17230922 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
17230754 AGGAAGCGTC
*
17230764 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
17230791 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
17230817 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
17230845 CTGGTGGCTTTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
17230872 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
17230899 CTGGTGACTCCGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
17230923 GCAGCCTCGC
Statistics
Matches: 116, Mismatches: 9, Indels: 14
0.83 0.06 0.10
Matches are distributed among these distances:
26 11 0.09
27 101 0.87
28 4 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:17230843 original size:54 final size:54
Alignment explanation
Indices: 17230761--17230922 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
17230751 TGGAGGAAGC
17230761 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
17230815 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
17230869 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTCCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
17230922 G
1 G
17230923 GCAGCCTCGC
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 13 0.13
54 87 0.87
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:17230916 original size:81 final size:80
Alignment explanation
Indices: 17230764--17230922 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 80
17230754 AGGAAGCGTC
* *
17230764 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
17230829 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
17230845 CTGGTGGCTTTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
* *
17230908 CCGTCACAATATCTG
64 ACGCCACAATATCTG
17230923 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 16 0.23
81 53 0.77
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
GCCACAATATCTGAT
Found at i:17233690 original size:15 final size:15
Alignment explanation
Indices: 17233666--17233702 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
17233656 ACTCCATTCC
*
17233666 CTTTACTCATGGTAA
1 CTTTAGTCATGGTAA
17233681 CTTTAGTCATGGTAA
1 CTTTAGTCATGGTAA
17233696 CTTTAGT
1 CTTTAGT
17233703 TATTGTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (15 bp):
CTTTAGTCATGGTAA
Found at i:17238898 original size:29 final size:30
Alignment explanation
Indices: 17238866--17238922 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
17238856 ACCATGAATA
* *
17238866 TAATTAAACTAACAA-ATTCAACCAAAAAT
1 TAATGAAACTAACAAGACTCAACCAAAAAT
*
17238895 TAATGACACTAACAAGACTCAACCAAAA
1 TAATGAAACTAACAAGACTCAACCAAAA
17238923 GTAATCGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.56, C:0.21, G:0.04, T:0.19
Consensus pattern (30 bp):
TAATGAAACTAACAAGACTCAACCAAAAAT
Found at i:17245369 original size:31 final size:32
Alignment explanation
Indices: 17245296--17245375 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
17245286 GAAATTTAGT
* *
17245296 TTGTTGGATTTTGAAATTATTATGTCTTAAAT
1 TTGTTGGATATTGAAATTATTATGTCTTAAAC
* * *
17245328 TTGTTAGATATTGAATTTATTATGT-TTAAGC
1 TTGTTGGATATTGAAATTATTATGTCTTAAAC
17245359 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
17245376 GACTGACAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 19 0.46
32 22 0.54
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTCTTAAAC
Found at i:17247051 original size:16 final size:16
Alignment explanation
Indices: 17247030--17247064 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
17247020 TAAATTTTAA
17247030 TTAATTAAGAGATATT
1 TTAATTAAGAGATATT
17247046 TTAATTAAGAGATATT
1 TTAATTAAGAGATATT
17247062 TTA
1 TTA
17247065 GTTATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (16 bp):
TTAATTAAGAGATATT
Found at i:17250872 original size:3 final size:3
Alignment explanation
Indices: 17250864--17250897 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
17250854 GGAATACTAT
17250864 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
17250898 TAATAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:17251080 original size:24 final size:24
Alignment explanation
Indices: 17251039--17251085 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
17251029 CGAGTAAAGA
*
17251039 AATAAAAATAAAATAATA-ACAAC
1 AATAAAAATAAAAAAATACACAAC
17251062 AATAATAAATAAAAAAATACACAA
1 AATAA-AAATAAAAAAATACACAA
17251086 ATAAAAGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (24 bp):
AATAAAAATAAAAAAATACACAAC
Found at i:17251088 original size:23 final size:22
Alignment explanation
Indices: 17251038--17251091 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
17251028 ACGAGTAAAG
*
17251038 AAATAAAAATAAAATAATAACA
1 AAATAAAAATAAAAAAATAACA
17251060 ACAATAATAAATAAAAAAAT-ACA
1 A-AATAA-AAATAAAAAAATAACA
17251083 CAAATAAAA
1 -AAATAAAA
17251092 GAGCATAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 3 0.11
23 13 0.46
24 12 0.43
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (22 bp):
AAATAAAAATAAAAAAATAACA
Found at i:17251139 original size:15 final size:16
Alignment explanation
Indices: 17251119--17251153 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17251109 TATTTAAGCG
17251119 TAAAAAGA-AAAAAAA
1 TAAAAAGATAAAAAAA
*
17251134 TAAAAAGATAAATAAA
1 TAAAAAGATAAAAAAA
17251150 TAAA
1 TAAA
17251154 TGCTCGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (16 bp):
TAAAAAGATAAAAAAA
Found at i:17255661 original size:103 final size:104
Alignment explanation
Indices: 17255448--17255817 Score: 629
Period size: 104 Copynumber: 3.6 Consensus size: 104
17255438 TTGTATATAA
** *
17255448 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
17255513 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
17255552 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
17255616 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
17255656 A-GGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
17255719 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
17255759 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
17255818 ATAACGGTTA
Statistics
Matches: 254, Mismatches: 7, Indels: 10
0.94 0.03 0.04
Matches are distributed among these distances:
103 102 0.40
104 151 0.59
105 1 0.00
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:17263127 original size:25 final size:25
Alignment explanation
Indices: 17263094--17263142 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
17263084 TGTGAAAAGG
*
17263094 GGGTTGCTATGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
17263119 GGGTTGCTAAGTGCTGATTCCCCG
1 GGGTTGCTAAGTGCTGATTCCCCG
17263143 GTTCATTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (25 bp):
GGGTTGCTAAGTGCTGATTCCCCGA
Found at i:17263148 original size:102 final size:105
Alignment explanation
Indices: 17263015--17263381 Score: 597
Period size: 104 Copynumber: 3.6 Consensus size: 105
17263005 TTGTATATAA
** *
17263015 AGGGGTTGCTGTGTGCTGATTCCCCGATTCA-TGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
17263079 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
17263118 A-GGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCT--GTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
17263180 TGAAATGTGAAAA-GGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
17263219 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
17263283 TTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
17263323 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
17263382 ATAACGGTTA
Statistics
Matches: 249, Mismatches: 7, Indels: 15
0.92 0.03 0.06
Matches are distributed among these distances:
100 20 0.08
101 40 0.16
102 66 0.27
103 14 0.06
104 108 0.43
105 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:17263234 original size:27 final size:27
Alignment explanation
Indices: 17263192--17263243 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
17263182 AAATGTGAAA
*
17263192 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
17263219 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
17263244 GGTTCATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:17264676 original size:4 final size:4
Alignment explanation
Indices: 17264669--17264693 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17264659 AATAAATAGA
17264669 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
17264694 TCTTTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:17267356 original size:12 final size:12
Alignment explanation
Indices: 17267339--17267364 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17267329 TTTCACATAC
17267339 TAATTTAATTCA
1 TAATTTAATTCA
17267351 TAATTTAATTCA
1 TAATTTAATTCA
17267363 TA
1 TA
17267365 CGTTCTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATTTAATTCA
Found at i:17267568 original size:27 final size:27
Alignment explanation
Indices: 17267503--17267599 Score: 108
Period size: 27 Copynumber: 3.5 Consensus size: 27
17267493 GAATATCCAA
*
17267503 CCCAAACACACCCAGAATAATATAAATCCT
1 CCCAAACACA-CCAGTATAATAT--ATCCT
*
17267533 -CCATAACACACCAGTATAATATAGCCT
1 CCCA-AACACACCAGTATAATATATCCT
*
17267560 CCCAAACACACCGGTAT-ATCATATCCT
1 CCCAAACACACCAGTATAAT-ATATCCT
17267587 CCCAAACACACCA
1 CCCAAACACACCA
17267600 ATAAGGCATT
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.03
27 34 0.58
28 3 0.05
29 14 0.24
30 6 0.10
ACGTcount: A:0.41, C:0.36, G:0.05, T:0.18
Consensus pattern (27 bp):
CCCAAACACACCAGTATAATATATCCT
Found at i:17268130 original size:17 final size:18
Alignment explanation
Indices: 17268100--17268133 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17268090 AATTTTTATT
*
17268100 CAATTTATTCCCTAATTC
1 CAATTTAATCCCTAATTC
17268118 CAATTTAAT-CCTAATT
1 CAATTTAATCCCTAATT
17268134 AACTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTAATCCCTAATTC
Found at i:17269028 original size:15 final size:14
Alignment explanation
Indices: 17269008--17269037 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
17268998 TTTAAATCAA
17269008 ATAATAATAATTATT
1 ATAATAATAA-TATT
17269023 ATAATAATAATATT
1 ATAATAATAATATT
17269037 A
1 A
17269038 ACAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATAATAATATT
Found at i:17273480 original size:14 final size:14
Alignment explanation
Indices: 17273458--17273490 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
17273448 TAAAAAAATC
17273458 TTATAATTTAATTA
1 TTATAATTTAATTA
*
17273472 TTATCATTTAATTA
1 TTATAATTTAATTA
17273486 TTATA
1 TTATA
17273491 TAAAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATAATTTAATTA
Found at i:17281814 original size:21 final size:21
Alignment explanation
Indices: 17281788--17281830 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
17281778 GAAGACTAAA
17281788 AAAGTATAAATTTAAAATTAT
1 AAAGTATAAATTTAAAATTAT
17281809 AAAGTATAAATTTAAAATTAT
1 AAAGTATAAATTTAAAATTAT
17281830 A
1 A
17281831 TGAGAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (21 bp):
AAAGTATAAATTTAAAATTAT
Found at i:17282479 original size:18 final size:18
Alignment explanation
Indices: 17282452--17282491 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17282442 TTGATTTTCA
* *
17282452 TTTATATTCTTTTATTTG
1 TTTATATTCTTGTATGTG
*
17282470 TTTATGTTCTTGTATGTG
1 TTTATATTCTTGTATGTG
17282488 TTTA
1 TTTA
17282492 ACTTCTCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTATATTCTTGTATGTG
Found at i:17284734 original size:149 final size:152
Alignment explanation
Indices: 17284527--17284835 Score: 391
Period size: 153 Copynumber: 2.0 Consensus size: 152
17284517 GAAAAGTTTA
17284527 AATTTTTTTAAGAAAAAGAGAGTTTAGATTTTAAAAAATAAAAATATGTTTTTCTTTAGTCA-TT
1 AATTTTTTTAAGAAAAAGAGAGTTTAGATTTTAAAAAATAAAAATATGTTTTTCTTTAGTCATTT
* *
17284591 TCAAATGGAAAGTTTAAA-TTTTTAAAATAA-ATTTTGA-TTTTTTAACTATTTCGAAATAAAAA
66 TCAAA-GAAAAGTTTAAATTTTTTAAAATAATATTTTGATTTTTTTAACTAATTCGAAATAAAAA
* *
17284653 TTTTGATTTTTAAGAAAAATAGT
130 CTTTGATTTGTAAGAAAAATAGT
* *
17284676 AATTTTTTTTAGAAAAAGGAGAAAGTTTAGATTTT-TAAAATAAAAAT-T-TATTTT-TTTAGTC
1 AATTTTTTTAAGAAAAA-GAG--AGTTTAGATTTTAAAAAATAAAAATATGT-TTTTCTTTAGTC
* * * *
17284737 ATTTTTAAAGAAAAGTTTAAATTTTTTAAAGTAATTTTTTTTATTTTTTTAACTAATTCGAAATA
62 ATTTTCAAAGAAAAGTTTAAATTTTTTAAAATAA-TATTTTGATTTTTTTAACTAATTCGAAATA
* *
17284802 AAAGCTTTGATTTGTAAGAAAAGTAGT
126 AAAACTTTGATTTGTAAGAAAAATAGT
*
17284829 GATTTTT
1 AATTTTT
17284836 AAAAAAAAAA
Statistics
Matches: 138, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
149 36 0.26
150 25 0.18
151 11 0.08
152 17 0.12
153 49 0.36
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.46
Consensus pattern (152 bp):
AATTTTTTTAAGAAAAAGAGAGTTTAGATTTTAAAAAATAAAAATATGTTTTTCTTTAGTCATTT
TCAAAGAAAAGTTTAAATTTTTTAAAATAATATTTTGATTTTTTTAACTAATTCGAAATAAAAAC
TTTGATTTGTAAGAAAAATAGT
Found at i:17285083 original size:12 final size:12
Alignment explanation
Indices: 17285063--17285094 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
17285053 CGTTTCATCG
17285063 CACACGGCCTAC
1 CACACGGCCTAC
*
17285075 CACATGGCCTAC
1 CACACGGCCTAC
17285087 CACACGGC
1 CACACGGC
17285095 TGTGTAGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.25, C:0.47, G:0.19, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:17290527 original size:20 final size:20
Alignment explanation
Indices: 17290504--17290544 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17290494 CATGCCCATA
*
17290504 TGGCTTAGGACACGCCCGTG
1 TGGCTCAGGACACGCCCGTG
*
17290524 TGGCTCAGGACACGTCCGTG
1 TGGCTCAGGACACGCCCGTG
17290544 T
1 T
17290545 CCTCCACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.29, G:0.34, T:0.22
Consensus pattern (20 bp):
TGGCTCAGGACACGCCCGTG
Found at i:17292480 original size:48 final size:48
Alignment explanation
Indices: 17292403--17292829 Score: 421
Period size: 48 Copynumber: 8.9 Consensus size: 48
17292393 GTAAAATGTT
* * *
17292403 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * * * * *
17292451 AATGCCATATCCCAGACATGGTCTGACACTAGCTCCCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
**
17292499 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-AT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATATCAAGGCC
* * *
17292547 GATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * **
17292595 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAGGCC
** * * *
17292643 GATGTTATATCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * **
17292691 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAGGCC
* * * * ** *
17292739 GATGTCATATCCCAGAAATGGTCTTACACTAGCACACATATCAACACT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * **
17292787 GATGTCATGTCCTAGACATGGTCTTAGACTAAATCACATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
17292830 CATGTTCGCA
Statistics
Matches: 303, Mismatches: 68, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
46 5 0.02
47 6 0.02
48 283 0.93
49 5 0.02
50 4 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
Found at i:17292525 original size:96 final size:96
Alignment explanation
Indices: 17292403--17292812 Score: 579
Period size: 96 Copynumber: 4.3 Consensus size: 96
17292393 GTAAAATGTT
* * *
17292403 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-GTCGAGGCCAATGCCATATCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT-GTGGCCGATGCCATATCCCAGA
* * * * * *
17292467 CATGGTCTGACACTAGCTCCCGTCTCAATGCC
65 CATGGTCTTACACTAGCACACATATCAACGCC
* * * * *
17292499 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATGTGGCCGATGCCATGTCCTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGGCCGATGCCATATCCCAGAC
17292564 ATGGTCTTACACTAGCACACATATCAACGCC
66 ATGGTCTTACACTAGCACACATATCAACGCC
* **
17292595 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGTTATATCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGGCCGATGCCATATCCCAGAC
17292660 ATGGTCTTACACTAGCACACATATCAACGCC
66 ATGGTCTTACACTAGCACACATATCAACGCC
* * * *
17292691 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGTCATATCCCAGAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGGCCGATGCCATATCCCAGAC
* *
17292756 ATGGTCTTACACTAGCACACATATCAACACT
66 ATGGTCTTACACTAGCACACATATCAACGCC
* *
17292787 GATGTCATGTCCTAGACATGGTCTTA
1 GATGCCATGTCCCAGACATGGTCTTA
17292813 GACTAAATCA
Statistics
Matches: 285, Mismatches: 28, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
96 284 1.00
97 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGTGGCCGATGCCATATCCCAGAC
ATGGTCTTACACTAGCACACATATCAACGCC
Found at i:17296077 original size:38 final size:39
Alignment explanation
Indices: 17295986--17296079 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 39
17295976 CGGTACCTTT
* *
17295986 TGGTGTGTAGGGTTGGATAGGTTGATTATATCCCCATACT
1 TGGTGTGTAGGGTTGGATAGGTTAATTATATCCCCA-ACA
* * *
17296026 TGGTGTGTAGGGTTGGGTGGGTTAATTCTATCCCC-ACA
1 TGGTGTGTAGGGTTGGATAGGTTAATTATATCCCCAACA
*
17296064 TGGTGTGTTGGGTTGG
1 TGGTGTGTAGGGTTGG
17296080 TCGGAGATGG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
38 17 0.35
40 31 0.65
ACGTcount: A:0.15, C:0.12, G:0.36, T:0.37
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATAGGTTAATTATATCCCCAACA
Found at i:17298101 original size:37 final size:37
Alignment explanation
Indices: 17298000--17298102 Score: 107
Period size: 37 Copynumber: 2.8 Consensus size: 37
17297990 TAGTTTACTT
* *
17298000 GATGCCATAGTCCAACTATGGTCTTACACAAAATCAC
1 GATGCCATAGCCCAACTATGGTCTTACATAAAATCAC
* * * * * *** *
17298037 AATGCCATAGCCCAGCTAAGATATTACATGTCATTAC
1 GATGCCATAGCCCAACTATGGTCTTACATAAAATCAC
17298074 GATGCCATAGCCCAACTATGGTCTTACAT
1 GATGCCATAGCCCAACTATGGTCTTACAT
17298103 TCCATACTTT
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (37 bp):
GATGCCATAGCCCAACTATGGTCTTACATAAAATCAC
Found at i:17301039 original size:48 final size:48
Alignment explanation
Indices: 17300964--17301393 Score: 407
Period size: 48 Copynumber: 9.0 Consensus size: 48
17300954 AGGGTAAAAT
* *
17300964 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* * * * * * * *
17301012 GTCGATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* * * * * **
17301060 ACCGATGTCATGTCCCAAACATGGTCTTACATTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAAG
* * * *
17301108 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* * **
17301156 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAAG
* * * *
17301204 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* * * **
17301252 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCCCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAAG
** * * * * * *
17301300 GCTAATGCCATATCACAGACATAGTCTTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
* **
17301348 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAATCACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
17301394 CATGTTCGCA
Statistics
Matches: 299, Mismatches: 77, Indels: 12
0.77 0.20 0.03
Matches are distributed among these distances:
47 6 0.02
48 288 0.96
49 5 0.02
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAG
Found at i:17301135 original size:96 final size:96
Alignment explanation
Indices: 17300964--17301381 Score: 577
Period size: 96 Copynumber: 4.4 Consensus size: 96
17300954 AGGGTAAAAT
* * * * *
17300964 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-GTCGAGGTCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCATATCCC
* * * * * *
17301028 AAACATAGTCTTACACTAGCTCTCGTCTCAAT
65 AGACATAGTCTTACACTAGCACACATATCAAC
* * * * * *
17301060 ACCGATGTCATGTCCCAAACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCCATGTCCTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
* *
17301125 GACATGGTCTTACACTAGCACACATATCAAT
66 GACATAGTCTTACACTAGCACACATATCAAC
*
17301156 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
*
17301221 GACATGGTCTTACACTAGCACACATATCAAC
66 GACATAGTCTTACACTAGCACACATATCAAC
* * ** *
17301252 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCCCTCATAATGTGGCTAATGCCATATCACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
17301317 GACATAGTCTTACACTAGCACACATATCAAC
66 GACATAGTCTTACACTAGCACACATATCAAC
*
17301348 GCCGATGCCATGTCCTAGACATGGTCTTACACTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG
17301382 AATCACATAT
Statistics
Matches: 289, Mismatches: 32, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
96 288 1.00
97 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATATCCCA
GACATAGTCTTACACTAGCACACATATCAAC
Found at i:17311097 original size:43 final size:43
Alignment explanation
Indices: 17311007--17311099 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
17310997 TGATTACATG
* * * *
17311007 TAAGACCATGTCTGGGACATTGGCATCGTATTGAGATTATGTG
1 TAAGACCATGTCTAGGACATTGGCATCGTAATCAGATTATGTA
*
17311050 TAAGACCATGTCTAGGATATTGGCATCGTTAATCA-ATT-TCGTA
1 TAAGACCATGTCTAGGACATTGGCATCG-TAATCAGATTAT-GTA
17311093 TAAGACC
1 TAAGACC
17311100 TTGTTTGGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
42 1 0.02
43 38 0.88
44 4 0.09
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
TAAGACCATGTCTAGGACATTGGCATCGTAATCAGATTATGTA
Found at i:17320053 original size:19 final size:21
Alignment explanation
Indices: 17320015--17320059 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
17320005 AATTATGATA
*
17320015 ATTTTTAATTTTTTATAAA-T
1 ATTTTTAATTTTTGATAAATT
17320035 ATTTTTAATTTTTGA-AAATT
1 ATTTTTAATTTTTGATAAATT
17320055 ATTTT
1 ATTTT
17320060 GATTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTTTTAATTTTTGATAAATT
Found at i:17320066 original size:20 final size:19
Alignment explanation
Indices: 17320017--17320067 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
17320007 TTATGATAAT
17320017 TTTTAATTTTTTATAAATA
1 TTTTAATTTTTTATAAATA
*
17320036 TTTTTAATTTTTGA-AAATTA
1 -TTTTAATTTTTTATAAA-TA
*
17320056 TTTTGATTTTTT
1 TTTTAATTTTTT
17320068 TTGTTGAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTAATTTTTTATAAATA
Found at i:17321280 original size:3 final size:3
Alignment explanation
Indices: 17321274--17321344 Score: 124
Period size: 3 Copynumber: 23.7 Consensus size: 3
17321264 CCAAAGGAGG
* *
17321274 AAT AAT AAA AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17321322 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
17321345 GGAGAAGGAG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17321352 original size:6 final size:6
Alignment explanation
Indices: 17321343--17321438 Score: 102
Period size: 6 Copynumber: 15.5 Consensus size: 6
17321333 TAATAATAAT
*
17321343 AAGGAG AAGGAG AAGGAG AAGGAG CAGGAG AAGGAG AAGAAGAAG AAGGAG
1 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAG--G-AG AAGGAG
* * * * **
17321394 AAGGAG AAGGAA AAGAAG AAGAAA AAAAAG AAGGAG AAGGAG AAG
1 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAG
17321439 AAAAAGAAGA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
6 70 0.91
7 1 0.01
8 1 0.01
9 5 0.06
ACGTcount: A:0.57, C:0.01, G:0.42, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:17321391 original size:27 final size:27
Alignment explanation
Indices: 17321343--17321447 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
17321333 TAATAATAAT
17321343 AAGGAGAAGGAGAAG--G-AGAAGGAG
1 AAGGAGAAGGAGAAGAAGAAGAAGGAG
*
17321367 CAGGAGAAGGAGAAGAAGAAGAAGGAG
1 AAGGAGAAGGAGAAGAAGAAGAAGGAG
* **
17321394 AAGGAGAAGGAAAAGAAGAAGAAAAAAAAG
1 AAGGAGAAGG---AGAAGAAGAAGAAGGAG
*
17321424 AAGGAGAAGGAGAAGAAAAAGAAG
1 AAGGAGAAGGAGAAGAAGAAGAAG
17321448 AAAGCTTTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
24 14 0.21
26 1 0.01
27 28 0.42
30 24 0.36
ACGTcount: A:0.59, C:0.01, G:0.40, T:0.00
Consensus pattern (27 bp):
AAGGAGAAGGAGAAGAAGAAGAAGGAG
Found at i:17322157 original size:23 final size:23
Alignment explanation
Indices: 17322131--17322176 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
17322121 TTCGGTGTTT
17322131 TCCCACTACACGCTTCAACGTTG
1 TCCCACTACACGCTTCAACGTTG
* *
17322154 TCCCATTACACGCTTCGACGTTG
1 TCCCACTACACGCTTCAACGTTG
17322177 CTTCGCTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.37, G:0.15, T:0.28
Consensus pattern (23 bp):
TCCCACTACACGCTTCAACGTTG
Found at i:17324680 original size:24 final size:22
Alignment explanation
Indices: 17324627--17324681 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
17324617 TATATATATC
17324627 ATTTAT-TTATTTTAAAAAACT
1 ATTTATATTATTTTAAAAAACT
*
17324648 ATACATATATTATTATTAAAAATACT
1 AT--TTATATTATT-TTAAAAA-ACT
17324674 ATTTATAT
1 ATTTATAT
17324682 AAAAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.07
23 3 0.11
24 10 0.37
25 7 0.26
26 5 0.19
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTATATTATTTTAAAAAACT
Found at i:17324768 original size:24 final size:24
Alignment explanation
Indices: 17324718--17324782 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
17324708 TTCCTATCTA
* *
17324718 TATTATATTTTCTTATATAACATT
1 TATTATATTTTATTATATAACACT
**
17324742 TATTATATTTTATTATATATTACT
1 TATTATATTTTATTATATAACACT
*
17324766 TATTATTTTTTA-TATAT
1 TATTATATTTTATTATAT
17324783 GTTATGTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 5 0.14
24 31 0.86
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATATTTTATTATATAACACT
Found at i:17324824 original size:21 final size:21
Alignment explanation
Indices: 17324795--17324841 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17324785 TATGTATATC
*
17324795 GTATATTATCTAATATATTAT
1 GTATATTATATAATATATTAT
* *
17324816 GTATGTTATATATTATATTAT
1 GTATATTATATAATATATTAT
*
17324837 TTATA
1 GTATA
17324842 ATTTTAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (21 bp):
GTATATTATATAATATATTAT
Found at i:17325058 original size:21 final size:20
Alignment explanation
Indices: 17325031--17325082 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
17325021 TTTTAAACCA
17325031 ATATATT-TTA-TTTTTA-T
1 ATATATTATTATTTTTTATT
17325048 ATATAATTATTATTTTTTATT
1 ATAT-ATTATTATTTTTTATT
17325069 ATATATTATATATT
1 ATATATTAT-TATT
17325083 ATATATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.13
18 3 0.10
19 3 0.10
20 11 0.37
21 9 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATATATTATTATTTTTTATT
Found at i:17325062 original size:19 final size:19
Alignment explanation
Indices: 17325038--17325103 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
17325028 CCAATATATT
17325038 TTATTTTTATATATAATTA
1 TTATTTTTATATATAATTA
17325057 TTATTTTT-TAT-T-ATATA
1 TTATTTTTATATATAAT-TA
* *
17325074 TTATATATTATATATTAAATA
1 TTAT-TTTTATATA-TAATTA
*
17325095 CTATTTTTA
1 TTATTTTTA
17325104 AAATTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.05
17 7 0.19
18 6 0.16
19 11 0.30
20 4 0.11
21 6 0.16
22 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATTTTTATATATAATTA
Found at i:17325075 original size:7 final size:7
Alignment explanation
Indices: 17325031--17325090 Score: 56
Period size: 7 Copynumber: 9.1 Consensus size: 7
17325021 TTTTAAACCA
17325031 ATATATT
1 ATATATT
*
17325038 TTAT-TT
1 ATATATT
*
17325044 TTATA-T
1 ATATATT
17325050 ATA-ATT
1 ATATATT
17325056 AT-TATT
1 ATATATT
* *
17325062 TTTTATT
1 ATATATT
17325069 ATATATT
1 ATATATT
17325076 ATATATT
1 ATATATT
17325083 ATATATT
1 ATATATT
17325090 A
1 A
17325091 AATACTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 1 0.02
6 16 0.36
7 27 0.61
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (7 bp):
ATATATT
Found at i:17325089 original size:21 final size:21
Alignment explanation
Indices: 17325031--17325090 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 21
17325021 TTTTAAACCA
*
17325031 ATATATTTTAT-TTTTATA-T
1 ATATATTATATATTTTATATT
*
17325050 ATA-ATTAT-TATTTTTTATT
1 ATATATTATATATTTTATATT
*
17325069 ATATATTATATATTATATATT
1 ATATATTATATATTTTATATT
17325090 A
1 A
17325091 AATACTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 1 0.03
18 10 0.30
19 7 0.21
20 5 0.15
21 10 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATATTATATATTTTATATT
Found at i:17325115 original size:25 final size:28
Alignment explanation
Indices: 17325080--17325130 Score: 81
Period size: 25 Copynumber: 1.9 Consensus size: 28
17325070 TATATTATAT
17325080 ATTATATATTAAATA-C-TATTTTTAAA
1 ATTATATATTAAATATCATATTTTTAAA
17325106 ATTAT-TATTAAATATCATATTTTTA
1 ATTATATATTAAATATCATATTTTTA
17325131 TTTGTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
27 8 0.35
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTATATATTAAATATCATATTTTTAAA
Found at i:17325205 original size:17 final size:18
Alignment explanation
Indices: 17325172--17325206 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17325162 ACTCACTTTA
*
17325172 TTTTATATTTTTATATAC
1 TTTTATATTTGTATATAC
17325190 TTTTATA-TTGTATATAC
1 TTTTATATTTGTATATAC
17325207 CATTTATGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTATATTTGTATATAC
Found at i:17334104 original size:205 final size:205
Alignment explanation
Indices: 17333746--17334329 Score: 1069
Period size: 205 Copynumber: 2.8 Consensus size: 205
17333736 ATAGGCCGCA
* * * *
17333746 ACATAACAGATCTCACCTTCAGATGTTTCTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGT
* * * * *
17333811 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
66 GTTTACAAGGAACAAATCAAAGACATAGATGATTTGGCTTTCACGTGCTTACGATGAAGCAAATC
*
17333876 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCGTCTCTATTTCAACG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTATTTCAACG
17333941 GAGAGCAGAT
196 GAGAGCAGAT
17333951 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGT
17334016 GTTTACAAGGAACAAATCAAAGACATAGATGATTTGGCTTTCACGTGCTTACGATGAAGCAAATC
66 GTTTACAAGGAACAAATCAAAGACATAGATGATTTGGCTTTCACGTGCTTACGATGAAGCAAATC
17334081 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTATTTCAACG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTATTTCAACG
17334146 GAGAGCAGAT
196 GAGAGCAGAT
17334156 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGT
17334221 GTTTACAAGGAACAAATCAAAGACATAGATGATTTGGCTTTCACGTGCTTACGATGAAGCAAATC
66 GTTTACAAGGAACAAATCAAAGACATAGATGATTTGGCTTTCACGTGCTTACGATGAAGCAAATC
*
17334286 TAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
17334330 AAGCAGATTT
Statistics
Matches: 368, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
205 368 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (205 bp):
ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGACATTCTTGT
GTTTACAAGGAACAAATCAAAGACATAGATGATTTGGCTTTCACGTGCTTACGATGAAGCAAATC
TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTATTTCAACG
GAGAGCAGAT
Found at i:17336012 original size:24 final size:22
Alignment explanation
Indices: 17335959--17336013 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
17335949 TATATATATC
17335959 ATTTAT-TTATTTTAAAAAACT
1 ATTTATATTATTTTAAAAAACT
*
17335980 ATACATATATTATTATTAAAAATACT
1 AT--TTATATTATT-TTAAAAA-ACT
17336006 ATTTATAT
1 ATTTATAT
17336014 AAAAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.07
23 3 0.11
24 10 0.37
25 7 0.26
26 5 0.19
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTATATTATTTTAAAAAACT
Found at i:17336100 original size:24 final size:24
Alignment explanation
Indices: 17336050--17336113 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
17336040 TTCCTATCTA
* *
17336050 TATTATATTTTCTTATATAACATT
1 TATTATATTTTATTATATAACACT
**
17336074 TATTATATTTTATTATATATTACT
1 TATTATATTTTATTATATAACACT
17336098 TATTAT-TTTTA-TATAT
1 TATTATATTTTATTATAT
17336114 GTTATGTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.14
23 5 0.14
24 26 0.72
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTATATTTTATTATATAACACT
Found at i:17336155 original size:21 final size:21
Alignment explanation
Indices: 17336126--17336172 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17336116 TATGTATATC
*
17336126 GTATATTATCTAATATATTAT
1 GTATATTATATAATATATTAT
* *
17336147 GTATGTTATATATTATATTAT
1 GTATATTATATAATATATTAT
*
17336168 TTATA
1 GTATA
17336173 ATTTTAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (21 bp):
GTATATTATATAATATATTAT
Found at i:17336247 original size:4 final size:4
Alignment explanation
Indices: 17336238--17336266 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
17336228 ACACATTTCA
17336238 TTAT TTAT TTAT TTAT TTAT TTA- TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
17336267 GTTATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:17336253 original size:12 final size:11
Alignment explanation
Indices: 17336232--17336266 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
17336222 TTATATACAC
17336232 ATTTCATTATTT
1 ATTT-ATTATTT
17336244 ATTTATTTATTT
1 ATTTA-TTATTT
17336256 ATTTATTATTT
1 ATTTATTATTT
17336267 GTTATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTTATTATTT
Found at i:17336388 original size:21 final size:20
Alignment explanation
Indices: 17336361--17336412 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
17336351 TTTTAAACCA
17336361 ATATATT-TTA-TTTTTA-T
1 ATATATTATTATTTTTTATT
17336378 ATATAATTATTATTTTTTATT
1 ATAT-ATTATTATTTTTTATT
17336399 ATATATTATATATT
1 ATATATTAT-TATT
17336413 ATATATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.13
18 3 0.10
19 3 0.10
20 11 0.37
21 9 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATATATTATTATTTTTTATT
Found at i:17336392 original size:19 final size:19
Alignment explanation
Indices: 17336368--17336433 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
17336358 CCAATATATT
17336368 TTATTTTTATATATAATTA
1 TTATTTTTATATATAATTA
17336387 TTATTTTT-TAT-T-ATATA
1 TTATTTTTATATATAAT-TA
* *
17336404 TTATATATTATATATTAAATA
1 TTAT-TTTTATATA-TAATTA
*
17336425 CTATTTTTA
1 TTATTTTTA
17336434 AAATTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.05
17 7 0.19
18 6 0.16
19 11 0.30
20 4 0.11
21 6 0.16
22 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATTTTTATATATAATTA
Found at i:17336405 original size:7 final size:7
Alignment explanation
Indices: 17336361--17336420 Score: 56
Period size: 7 Copynumber: 9.1 Consensus size: 7
17336351 TTTTAAACCA
17336361 ATATATT
1 ATATATT
*
17336368 TTAT-TT
1 ATATATT
*
17336374 TTATA-T
1 ATATATT
17336380 ATA-ATT
1 ATATATT
17336386 AT-TATT
1 ATATATT
* *
17336392 TTTTATT
1 ATATATT
17336399 ATATATT
1 ATATATT
17336406 ATATATT
1 ATATATT
17336413 ATATATT
1 ATATATT
17336420 A
1 A
17336421 AATACTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 1 0.02
6 16 0.36
7 27 0.61
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (7 bp):
ATATATT
Found at i:17336419 original size:21 final size:21
Alignment explanation
Indices: 17336361--17336420 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 21
17336351 TTTTAAACCA
*
17336361 ATATATTTTAT-TTTTATA-T
1 ATATATTATATATTTTATATT
*
17336380 ATA-ATTAT-TATTTTTTATT
1 ATATATTATATATTTTATATT
*
17336399 ATATATTATATATTATATATT
1 ATATATTATATATTTTATATT
17336420 A
1 A
17336421 AATACTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 1 0.03
18 10 0.30
19 7 0.21
20 5 0.15
21 10 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATATTATATATTTTATATT
Found at i:17336445 original size:25 final size:28
Alignment explanation
Indices: 17336410--17336460 Score: 81
Period size: 25 Copynumber: 1.9 Consensus size: 28
17336400 TATATTATAT
17336410 ATTATATATTAAATA-C-TATTTTTAAA
1 ATTATATATTAAATATCATATTTTTAAA
17336436 ATTAT-TATTAAATATCATATTTTTA
1 ATTATATATTAAATATCATATTTTTA
17336461 TTTGTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
27 8 0.35
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTATATATTAAATATCATATTTTTAAA
Found at i:17336535 original size:17 final size:18
Alignment explanation
Indices: 17336502--17336536 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17336492 ACTCACTTTA
*
17336502 TTTTATATTTTTATATAC
1 TTTTATATTTGTATATAC
17336520 TTTTATA-TTGTATATAC
1 TTTTATATTTGTATATAC
17336537 CATTTATGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTATATTTGTATATAC
Found at i:17342071 original size:39 final size:39
Alignment explanation
Indices: 17342013--17342089 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
17342003 AAGACACTGA
* *
17342013 AAATGTATCCGGGCTAAAGTCTCGCAGGCT-TCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTCT-GTGCTGG
17342052 AAATGTATCCGGGCCAAAGTCCCGCAGGCTCTGTGCTG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTCTGTGCTG
17342090 ATAATATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 34 0.97
40 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCCAAAGTCCCGCAGGCTCTGTGCTGG
Found at i:17347741 original size:39 final size:39
Alignment explanation
Indices: 17347687--17347879 Score: 343
Period size: 39 Copynumber: 5.0 Consensus size: 39
17347677 AAGACACTGA
17347687 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
17347726 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
17347765 AAATATAT-CGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
17347803 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
17347842 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
17347880 ATAATATAAT
Statistics
Matches: 147, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
38 37 0.25
39 110 0.75
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:17347792 original size:77 final size:78
Alignment explanation
Indices: 17347687--17347879 Score: 343
Period size: 77 Copynumber: 2.5 Consensus size: 78
17347677 AAGACACTGA
*
17347687 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGCA
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCGCA
17347752 GGCTTCGTGCTGG
66 GGCTTCGTGCTGG
*
17347765 AAATATAT-CGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCGCA
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCGCA
17347829 GGCTTCGTGCTGG
66 GGCTTCGTGCTGG
* *
17347842 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
17347880 ATAATATAAT
Statistics
Matches: 109, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
77 75 0.69
78 34 0.31
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (78 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCGCA
GGCTTCGTGCTGG
Found at i:17350197 original size:33 final size:33
Alignment explanation
Indices: 17350160--17350238 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
17350150 ATTTTCAATT
** *
17350160 GTACACTCGTGGTACACACTCCCTTTTCCAGTG
1 GTACACTCAAGGTACACACTCCCTTTTCCAGTA
* * *
17350193 GTACACTCAAGGTGCACATTTCCTTTTCCAGTA
1 GTACACTCAAGGTACACACTCCCTTTTCCAGTA
17350226 GTACACTCAAGGT
1 GTACACTCAAGGT
17350239 GTACGTTTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (33 bp):
GTACACTCAAGGTACACACTCCCTTTTCCAGTA
Found at i:17350239 original size:33 final size:33
Alignment explanation
Indices: 17350181--17350258 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
17350171 GTACACACTC
*
17350181 CCTTTTCCAGTGGTACACTCAAGGTGCACATTT
1 CCTTTTCCAGTAGTACACTCAAGGTGCACATTT
* *
17350214 CCTTTTCCAGTAGTACACTCAAGGTGTACGTTT
1 CCTTTTCCAGTAGTACACTCAAGGTGCACATTT
17350247 CCTTTTCCAGTA
1 CCTTTTCCAGTA
17350259 ATACCTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.36
Consensus pattern (33 bp):
CCTTTTCCAGTAGTACACTCAAGGTGCACATTT
Found at i:17364938 original size:10 final size:10
Alignment explanation
Indices: 17364907--17364945 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
17364897 TAATAATTAA
17364907 ATTTATAATTT
1 ATTTA-AATTT
*
17364918 ATTTAATTTT
1 ATTTAAATTT
*
17364928 ATATAAATTT
1 ATTTAAATTT
17364938 ATTTAAAT
1 ATTTAAAT
17364946 ATTTTGATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 19 0.79
11 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:17365990 original size:126 final size:125
Alignment explanation
Indices: 17365764--17366145 Score: 554
Period size: 126 Copynumber: 3.0 Consensus size: 125
17365754 TTTCTGCAAG
* * * *
17365764 AATAATTCTGAGCAGACGTTTCT-AGA-AAATAGTGTTGGAAAACGCTTCAAGTAGGATGCACTG
1 AATAATTTTGAGTAGACGTTTCTGA-ACAAATAGTG-TCGAAAAC-CTTCAAGCAGGATGCACTG
* * *
17365827 TCAGCAAAATTTCTAGAAAAAGCTCCCACGTGAACGCTCTTTTGCTACAGTA-TCTCGTAGAAA
63 TCAGCAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGT-TCGTAGAAA
*
17365890 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACACTTTAAGCAGGATGCACTGTC
1 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAAC-CTTCAAGCAGGATGCACTGTC
* * *
17365955 AGCAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTCGCTATAGTAGTTCATAGAAA
65 AGCAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * *
17366016 AATAATTTTGATTAGACGTTTTTGAACAAATAATGTCGAAAACGTTCAAGCAGGATGCACTGTCA
1 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACCTTCAAGCAGGATGCACTGTCA
*
17366081 GCAAAATTTCTGGAAAAAGCTCCCACATGGACGTTCTTTTGCTACAGTAGTTCGTAGAAA
66 GCAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
17366141 AATAA
1 AATAA
17366146 GGCTATAAAT
Statistics
Matches: 232, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
125 81 0.35
126 141 0.61
127 10 0.04
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (125 bp):
AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACCTTCAAGCAGGATGCACTGTCA
GCAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:17369675 original size:18 final size:18
Alignment explanation
Indices: 17369641--17369676 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17369631 AAAAGGAAAC
* *
17369641 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAAGATAT
17369659 ATATAAGGGCTAAGATAT
1 ATATAAGGGCTAAGATAT
17369677 GCACCTGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.31
Consensus pattern (18 bp):
ATATAAGGGCTAAGATAT
Found at i:17370281 original size:7 final size:7
Alignment explanation
Indices: 17370271--17370303 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
17370261 CATAATACAT
17370271 AATACTA
1 AATACTA
17370278 AATACTA
1 AATACTA
17370285 AATACTA
1 AATACTA
17370292 AATACTA
1 AATACTA
17370299 AATAC
1 AATAC
17370304 GAAACGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:17371360 original size:48 final size:46
Alignment explanation
Indices: 17371287--17371419 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 46
17371277 TGCAAACATT
* **
17371287 ATAAATGAAAAAAAATCAAGCAGTATTGAAATTGTAATTATAA-TTGC
1 ATAAATGAAAAAATATCAAATAGTATTGAAATT-TAATTA-AATTTGC
*
17371334 ATAAATGAATAAAATATCAAATAGTATTGCAAATTTCATTAAATTTGC
1 ATAAATGAA-AAAATATCAAATAGTATTG-AAATTTAATTAAATTTGC
* *
17371382 ATAAATTAAAATAATATCGAATAGTATTGAAAATTTAA
1 ATAAATGAAAA-AATATCAAATAGTATTG-AAATTTAA
17371420 AATTATCACT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
47 13 0.18
48 56 0.76
49 5 0.07
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (46 bp):
ATAAATGAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTGC
Found at i:17380155 original size:30 final size:30
Alignment explanation
Indices: 17380121--17380181 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
17380111 AACCAGAGGG
17380121 TTTACAGTATCAGAAAAAGAGGACTATGTT
1 TTTACAGTATCAGAAAAAGAGGACTATGTT
17380151 TTTACAGTATCAGAAAAAGAGGACTATGTT
1 TTTACAGTATCAGAAAAAGAGGACTATGTT
17380181 T
1 T
17380182 GCTTGCTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (30 bp):
TTTACAGTATCAGAAAAAGAGGACTATGTT
Found at i:17383061 original size:16 final size:17
Alignment explanation
Indices: 17383035--17383079 Score: 74
Period size: 16 Copynumber: 2.7 Consensus size: 17
17383025 GTTTAATTGG
17383035 TTTAGTTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
17383052 TTTA-TTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
*
17383068 TTTAGTTATTTA
1 TTTAGTTGTTTA
17383080 ATTTCCAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:17386974 original size:15 final size:15
Alignment explanation
Indices: 17386933--17386976 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
17386923 TTAAAATATA
17386933 ATAAAAAATATATTT
1 ATAAAAAATATATTT
17386948 ATAAGAATAATA-ATTAT
1 ATAA-AA-AATATATT-T
17386965 ATAAAAAATATA
1 ATAAAAAATATA
17386977 AAATATATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAAAAAATATATTT
Found at i:17387475 original size:18 final size:18
Alignment explanation
Indices: 17387452--17387565 Score: 160
Period size: 18 Copynumber: 6.3 Consensus size: 18
17387442 AAGATTACAA
17387452 AATCATATCTAAGATTGC
1 AATCATATCTAAGATTGC
17387470 AATCATATCTAAGATTG-
1 AATCATATCTAAGATTGC
* *
17387487 TATCATATCTAAGACTGC
1 AATCATATCTAAGATTGC
17387505 AATCATATCTAAGATTG-
1 AATCATATCTAAGATTGC
*
17387522 TATCATATCTAAGATTGC
1 AATCATATCTAAGATTGC
*
17387540 ATATCACATCTAAGATTGC
1 A-ATCATATCTAAGATTGC
17387559 ATATCAT
1 A-ATCAT
17387566 TGAAGATTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
17 31 0.36
18 32 0.38
19 22 0.26
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (18 bp):
AATCATATCTAAGATTGC
Found at i:17387492 original size:35 final size:35
Alignment explanation
Indices: 17387453--17387557 Score: 183
Period size: 35 Copynumber: 3.0 Consensus size: 35
17387443 AGATTACAAA
17387453 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
1 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
*
17387488 ATCATATCTAAGACTGCAATCATATCTAAGATTGT
1 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
*
17387523 ATCATATCTAAGATTGCATATCACATCTAAGATTG
1 ATCATATCTAAGATTGCA-ATCATATCTAAGATTG
17387558 CATATCATTG
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 51 0.77
36 15 0.23
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.35
Consensus pattern (35 bp):
ATCATATCTAAGATTGCAATCATATCTAAGATTGT
Found at i:17387493 original size:17 final size:18
Alignment explanation
Indices: 17387453--17387565 Score: 158
Period size: 17 Copynumber: 6.3 Consensus size: 18
17387443 AGATTACAAA
*
17387453 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCT
17387471 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCT
* *
17387488 ATCATATCTAAGACTGCA
1 ATCATATCTAAGATTGCT
17387506 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCT
17387523 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGC-T
*
17387542 ATCACATCTAAGATTGCAT
1 ATCATATCTAAGATTGC-T
17387561 ATCAT
1 ATCAT
17387566 TGAAGATTAT
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
17 31 0.36
18 31 0.36
19 23 0.27
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (18 bp):
ATCATATCTAAGATTGCT
Found at i:17388603 original size:119 final size:119
Alignment explanation
Indices: 17388392--17389008 Score: 1081
Period size: 119 Copynumber: 5.2 Consensus size: 119
17388382 ATCTGCTATA
*
17388392 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACATAAGAATACCAAATCATCT
1 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
17388457 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACG
66 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACG
* *
17388511 TCTGAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAAGAATATCAAATCATCT
1 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
*
17388576 TGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCTGCTATATCTGAGAACG
66 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACG
*
17388630 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCT
1 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
* * * * *
17388695 TGGATCTGCTTTAGTATAAACATCTAAAGGTTAGATCTACTATATCTAAGATCG
66 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACG
17388749 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
1 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
* * *
17388814 TAGATCTGCTTCAGTCTAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACA
66 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACG
* *
17388868 TCTGAGAGCCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCT
1 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
* *
17388933 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAAAACG
66 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACG
17388987 TCTGAGAGTCAAATCTGCTATG
1 TCTGAGAGTCAAATCTGCTATG
17389009 CTACGGCCTA
Statistics
Matches: 468, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 468 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (119 bp):
TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACG
Found at i:17388696 original size:238 final size:237
Alignment explanation
Indices: 17388208--17389008 Score: 1341
Period size: 238 Copynumber: 3.4 Consensus size: 237
17388198 GCTATGTCTT
* * *
17388208 CACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAGGGCTAGATCTGCTATA
1 CACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
17388273 TCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
66 TCTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
17388338 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGCTAGATCTGC--TA--T----A-TC
131 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACTC
*
17388394 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAA
196 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAA
*
17388436 CATAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
1 CACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
17388501 TCTGAGAACGTCTGAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAAGAATAT
66 TCTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
17388566 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCTGCTATATCTGAGAACGT
131 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAAC-T
17388631 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAA
195 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAA
* * *
17388674 CACAAGAATACCAAATCATCTTGGATCTGCTTTAGTATAAACATCTAAAGGTTAGATCTACTATA
1 CACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
17388739 TCTAAGATCGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
66 TCTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
17388804 CAAATCATCTTAGATCTGCTTCAGTCTAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACAT
131 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAAC-T
*
17388869 CTGAGAGCCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAA
195 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAA
17388912 CACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
1 CACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
17388977 TTTGAAAACGTCTGAGAGTCAAATCTGCTATG
66 TCTGAGAACGTCTGAGAGTCAAATCTGCTATG
17389009 CTACGGCCTA
Statistics
Matches: 533, Mismatches: 30, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
228 171 0.32
230 2 0.00
232 1 0.00
236 1 0.00
238 358 0.67
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (237 bp):
CACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
TCTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACTC
TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAA
Found at i:17388917 original size:357 final size:347
Alignment explanation
Indices: 17388208--17389008 Score: 1332
Period size: 357 Copynumber: 2.3 Consensus size: 347
17388198 GCTATGTCTT
* * *
17388208 CACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAGGGCTAGATCTGCTATA
1 CACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
17388273 TCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
66 TCTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
17388338 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATATCTGAGAGTCA
131 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGCTAGATCTACTATATCTGAGAGTCA
* *
17388403 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAACATAAGAATACCAAATCATCTTGGATCTGCTT
196 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTAGATCTGCTT
* *
17388468 CAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACGTCTGAGAGTCAAATCTGCTATA
261 CAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACATCTGAGAGCCAAATCTGCTATA
17388533 TCCTCGATTTGTTCCTTGTAAA
326 TCCTCGATTTGTTCCTTGTAAA
* *
17388555 CACAAGAATATCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCTGCTATA
1 CACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
17388620 TCTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
66 TCTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
17388685 CAAATCATCTTGGATCTGCTTTAGTATAAACATCTAAAGGTTAGATCTACTATATCTAAGATCGT
131 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGCTAGATCTAC--TA--T---A---T
17388750 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
186 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
*
17388815 AGATCTGCTTCAGTCTAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACATCTGAGAGCCAA
251 AGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACATCTGAGAGCCAA
* *
17388880 ATCTGCTATGTCCTCGATTTGTTTCTTGTAAA
316 ATCTGCTATATCCTCGATTTGTTCCTTGTAAA
17388912 CACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
1 CACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
17388977 TTTGAAAACGTCTGAGAGTCAAATCTGCTATG
66 TCTGAGAACGTCTGAGAGTCAAATCTGCTATG
17389009 CTACGGCCTA
Statistics
Matches: 422, Mismatches: 22, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
347 169 0.40
349 2 0.00
351 1 0.00
354 1 0.00
357 249 0.59
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (347 bp):
CACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
TCTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGCTAGATCTACTATATCTGAGAGTCA
AATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTAGATCTGCTT
CAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACATCTGAGAGCCAAATCTGCTATA
TCCTCGATTTGTTCCTTGTAAA
Found at i:17389925 original size:7 final size:7
Alignment explanation
Indices: 17389913--17389964 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 7
17389903 GGCCTCTCCA
17389913 TTTTTTC
1 TTTTTTC
17389920 TTTTTTC
1 TTTTTTC
17389927 TTTTTTCTC
1 -TTTTT-TC
*
17389936 TTTTTTAT
1 TTTTTT-C
17389944 TTTTTTC
1 TTTTTTC
*
17389951 TCTTTCTC
1 T-TTTTTC
17389959 TTTTTT
1 TTTTTT
17389965 TTCCTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 13 0.35
8 22 0.59
9 2 0.05
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:17389941 original size:23 final size:25
Alignment explanation
Indices: 17389913--17389974 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
17389903 GGCCTCTCCA
*
17389913 TTTTTT-CTTTTTTCT-TTTTTCTC
1 TTTTTTACTTTTTTCTCTTTCTCTC
* *
17389936 TTTTTTATTTTTTTCTCTTTCTCTT
1 TTTTTTACTTTTTTCTCTTTCTCTC
*
17389961 TTTTTTCCTTTTTT
1 TTTTTTACTTTTTT
17389975 TTTGAAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 6 0.19
24 8 0.25
25 18 0.56
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (25 bp):
TTTTTTACTTTTTTCTCTTTCTCTC
Found at i:17389947 original size:17 final size:16
Alignment explanation
Indices: 17389913--17389977 Score: 80
Period size: 17 Copynumber: 4.1 Consensus size: 16
17389903 GGCCTCTCCA
*
17389913 TTTTT-TCTTTTTTCT
1 TTTTTCTCTTTTTTTT
17389928 TTTTTCTCTTTTTTATT
1 TTTTTCTCTTTTTT-TT
*
17389945 TTTTTCTCTTTCTCTTT
1 TTTTTCTCTTT-TTTTT
17389962 TTTTTC-CTTTTTTTT
1 TTTTTCTCTTTTTTTT
17389977 T
1 T
17389978 GAAATATAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
15 10 0.23
16 12 0.27
17 20 0.45
18 2 0.05
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTCTCTTTTTTTT
Found at i:17389973 original size:10 final size:11
Alignment explanation
Indices: 17389927--17389976 Score: 52
Period size: 10 Copynumber: 4.5 Consensus size: 11
17389917 TTCTTTTTTC
17389927 TTTTTTCTCTT
1 TTTTTTCTCTT
17389938 TTTTATT-T-TT
1 TTTT-TTCTCTT
17389948 TTCTCTTTCTCTT
1 TT-T-TTTCTCTT
17389961 TTTTTTC-CTT
1 TTTTTTCTCTT
17389971 TTTTTT
1 TTTTTT
17389977 TGAAATATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
10 13 0.38
11 12 0.35
12 5 0.15
13 4 0.12
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTCTCTT
Found at i:17395935 original size:17 final size:18
Alignment explanation
Indices: 17395905--17395954 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
17395895 TAAATTTAAA
*
17395905 ATATAATAAAAATATATT
1 ATATAAAAAAAATATATT
* *
17395923 -TATAAGAATAATA-ATT
1 ATATAAAAAAAATATATT
17395939 ATATAAAAAAAATATA
1 ATATAAAAAAAATATA
17395955 AAATATATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 3 0.12
17 22 0.85
18 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
ATATAAAAAAAATATATT
Found at i:17396451 original size:18 final size:18
Alignment explanation
Indices: 17396428--17396541 Score: 160
Period size: 18 Copynumber: 6.3 Consensus size: 18
17396418 AAGATTACAA
17396428 AATCATATCTAAGATTGC
1 AATCATATCTAAGATTGC
17396446 AATCATATCTAAGATTG-
1 AATCATATCTAAGATTGC
*
17396463 TATCATATCTAAGATTGC
1 AATCATATCTAAGATTGC
*
17396481 AATCATATCTAATATTG-
1 AATCATATCTAAGATTGC
*
17396498 TATCATATCTAAGATTGC
1 AATCATATCTAAGATTGC
*
17396516 ATATCACATCTAAGATTGC
1 A-ATCATATCTAAGATTGC
17396535 ATATCAT
1 A-ATCAT
17396542 TGAAGATTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
17 31 0.36
18 32 0.38
19 22 0.26
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (18 bp):
AATCATATCTAAGATTGC
Found at i:17396468 original size:35 final size:35
Alignment explanation
Indices: 17396429--17396533 Score: 183
Period size: 35 Copynumber: 3.0 Consensus size: 35
17396419 AGATTACAAA
17396429 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
1 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
*
17396464 ATCATATCTAAGATTGCAATCATATCTAATATTGT
1 ATCATATCTAAGATTGCAATCATATCTAAGATTGT
*
17396499 ATCATATCTAAGATTGCATATCACATCTAAGATTG
1 ATCATATCTAAGATTGCA-ATCATATCTAAGATTG
17396534 CATATCATTG
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 52 0.79
36 14 0.21
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (35 bp):
ATCATATCTAAGATTGCAATCATATCTAAGATTGT
Found at i:17396469 original size:17 final size:18
Alignment explanation
Indices: 17396429--17396541 Score: 158
Period size: 17 Copynumber: 6.3 Consensus size: 18
17396419 AGATTACAAA
*
17396429 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCT
17396447 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCT
*
17396464 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCT
*
17396482 ATCATATCTAATATTG-T
1 ATCATATCTAAGATTGCT
17396499 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGC-T
*
17396518 ATCACATCTAAGATTGCAT
1 ATCATATCTAAGATTGC-T
17396537 ATCAT
1 ATCAT
17396542 TGAAGATTAT
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
17 31 0.36
18 31 0.36
19 23 0.27
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (18 bp):
ATCATATCTAAGATTGCT
Found at i:17397114 original size:10 final size:10
Alignment explanation
Indices: 17397087--17397136 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
17397077 TTAACTTCTA
17397087 AAAGATAAAT
1 AAAGATAAAT
*
17397097 ACAA-ATAATT
1 A-AAGATAAAT
17397107 AAAGATAAAT
1 AAAGATAAAT
17397117 AAAGATAAAT
1 AAAGATAAAT
17397127 GAAA-ATAAAT
1 -AAAGATAAAT
17397137 CCTAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:17398498 original size:18 final size:18
Alignment explanation
Indices: 17398475--17398510 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17398465 TGGGCATCAT
17398475 CAACAACCAAAATAGCAG
1 CAACAACCAAAATAGCAG
*
17398493 CAACAACGAAAATAGCAG
1 CAACAACCAAAATAGCAG
17398511 ATAAAATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.14, T:0.06
Consensus pattern (18 bp):
CAACAACCAAAATAGCAG
Found at i:17399525 original size:13 final size:13
Alignment explanation
Indices: 17399507--17399532 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17399497 AAATAATTAG
17399507 TAACATCAGTTCC
1 TAACATCAGTTCC
17399520 TAACATCAGTTCC
1 TAACATCAGTTCC
17399533 AATACGTAAA
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:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
TAACATCAGTTCC
Found at i:17400592 original size:23 final size:23
Alignment explanation
Indices: 17400560--17400606 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
17400550 TGGAACAAGA
*
17400560 GCTGTTTGGCTGCAGGGTTATGG
1 GCTGTATGGCTGCAGGGTTATGG
*
17400583 GCTGTATGGCTGTAGGGTTATGG
1 GCTGTATGGCTGCAGGGTTATGG
17400606 G
1 G
17400607 TCTTCTCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.11, C:0.11, G:0.45, T:0.34
Consensus pattern (23 bp):
GCTGTATGGCTGCAGGGTTATGG
Found at i:17400688 original size:15 final size:13
Alignment explanation
Indices: 17400671--17400727 Score: 62
Period size: 15 Copynumber: 4.2 Consensus size: 13
17400661 ATTTTTTATT
17400671 AATAA-TAAAATA
1 AATAATTAAAATA
17400683 AATAATTAAGTAATA
1 AATAATTAA--AATA
17400698 AATAATTAAAATA
1 AATAATTAAAATA
*
17400711 AAGTAATAAATAATA
1 AA-TAATTAA-AATA
17400726 AA
1 AA
17400728 ATTGAAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 5 0.13
13 9 0.23
14 6 0.15
15 19 0.49
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (13 bp):
AATAATTAAAATA
Found at i:17400716 original size:21 final size:20
Alignment explanation
Indices: 17400690--17400729 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
17400680 ATAAATAATT
17400690 AAGTAATAAATAATTAAAATA
1 AAGTAATAAATAA-TAAAATA
17400711 AAGTAATAAATAATAAAAT
1 AAGTAATAAATAATAAAAT
17400730 TGAAAAACAA
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:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
AAGTAATAAATAATAAAATA
Found at i:17400724 original size:28 final size:27
Alignment explanation
Indices: 17400671--17400727 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
17400661 ATTTTTTATT
*
17400671 AATAATAAAATAAATAATTAAGTAATA
1 AATAATAAAATAAATAATTAAATAATA
17400698 AATAATTAAAATAAAGTAA-TAAATAATA
1 AATAA-TAAAATAAA-TAATTAAATAATA
17400726 AA
1 AA
17400728 ATTGAAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 5 0.19
28 19 0.70
29 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (27 bp):
AATAATAAAATAAATAATTAAATAATA
Found at i:17408422 original size:10 final size:10
Alignment explanation
Indices: 17408395--17408443 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
17408385 TTAACTTCTA
17408395 AAAGATAAAT
1 AAAGATAAAT
17408405 ACAA-ATAAAT
1 A-AAGATAAAT
*
17408415 AAAGATAATT
1 AAAGATAAAT
17408425 AAAGATAAAT
1 AAAGATAAAT
17408435 AAAGATAAA
1 AAAGATAAA
17408444 AGAAAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:17408452 original size:20 final size:20
Alignment explanation
Indices: 17408407--17408454 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
17408397 AGATAAATAC
*
17408407 AAATAAATAAAGATAATTAA
1 AAATAAATAAAGATAATAAA
*
17408427 AGATAAATAAAGATAA-AAGA
1 AAATAAATAAAGATAATAA-A
17408447 AAATAAAT
1 AAATAAAT
17408455 CCTAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
AAATAAATAAAGATAATAAA
Found at i:17410218 original size:27 final size:27
Alignment explanation
Indices: 17410163--17410242 Score: 144
Period size: 27 Copynumber: 3.0 Consensus size: 27
17410153 ACGGAAAAGA
17410163 AGATTGATGAGGGAGTT-GACCATGTC
1 AGATTGATGAGGGAGTTAGACCATGTC
*
17410189 AGATTGATGAGGGAGTTAGACCATTTC
1 AGATTGATGAGGGAGTTAGACCATGTC
17410216 AGATTGATGAGGGAGTTAGACCATGTC
1 AGATTGATGAGGGAGTTAGACCATGTC
17410243 CAGAGAACAT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
26 17 0.33
27 34 0.67
ACGTcount: A:0.29, C:0.11, G:0.33, T:0.28
Consensus pattern (27 bp):
AGATTGATGAGGGAGTTAGACCATGTC
Found at i:17412812 original size:50 final size:50
Alignment explanation
Indices: 17412688--17413037 Score: 409
Period size: 50 Copynumber: 7.0 Consensus size: 50
17412678 GTAACCGAAG
* * * * *
17412688 CTATCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
17412737 CAATCTGGTACACGTAGTAGCCTGCACTTTGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * *
17412787 CCATCTGATACACGTAGTAGGCTGCAGTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * * * * * * *
17412837 GTTGTCGGGTACGCATAGTAGCCTGTACTTAGTACTATACATGCGACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
*
17412888 CTATTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * *
17412938 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCT-ACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACG-TGACCTAA
* *
17412988 CTATCTGGTACACGTAGTAGCCTACATTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
17413038 AACCATCTTA
Statistics
Matches: 249, Mismatches: 46, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
49 42 0.17
50 171 0.69
51 35 0.14
52 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:17412935 original size:151 final size:150
Alignment explanation
Indices: 17412694--17412977 Score: 487
Period size: 151 Copynumber: 1.9 Consensus size: 150
17412684 GAAGCTATCT
*
17412694 GGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGCC
* * *
17412759 TGCACTTTGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGGCTGCAGTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
17412824 ACACGTGATTGAAGTTGTCG
131 ACACGTGATTGAAGTTGTCG
* * * *
17412844 GGTACGCATAGTAGCCTGTACTTAGTACTATACATGCGACCTAACTATTTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCTGGTACACGTAGTAGC
17412909 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
65 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
17412974 CACA
130 CACA
17412978 TGCTACCTAA
Statistics
Matches: 125, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
150 38 0.30
151 87 0.70
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
ACACGTGATTGAAGTTGTCG
Found at i:17416787 original size:5 final size:5
Alignment explanation
Indices: 17416777--17416825 Score: 82
Period size: 5 Copynumber: 9.8 Consensus size: 5
17416767 AATGAATAAG
17416777 TTATA TTATA TTATA TTATA TTATA TTATA TT-TA TTATA TTATTA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA-TA TTAT
17416826 TTTAAAGGCC
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.10
5 33 0.79
6 5 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:17417143 original size:49 final size:49
Alignment explanation
Indices: 17417071--17417177 Score: 205
Period size: 49 Copynumber: 2.2 Consensus size: 49
17417061 ATTATTGATA
17417071 TCTCATATCCAAATATCCTTTAATGGAGATTTTGTACTTTTAGTTCCTT
1 TCTCATATCCAAATATCCTTTAATGGAGATTTTGTACTTTTAGTTCCTT
*
17417120 TCTCATATCCAAATATCCTTTAATGGAGATTTTGTTCTTTTAGTTCCTT
1 TCTCATATCCAAATATCCTTTAATGGAGATTTTGTACTTTTAGTTCCTT
17417169 TCTCATATC
1 TCTCATATC
17417178 ACTTCACTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 57 1.00
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.48
Consensus pattern (49 bp):
TCTCATATCCAAATATCCTTTAATGGAGATTTTGTACTTTTAGTTCCTT
Found at i:17420043 original size:17 final size:18
Alignment explanation
Indices: 17420021--17420055 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17420011 GATATGATAC
*
17420021 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
17420038 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
17420056 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:17420344 original size:22 final size:21
Alignment explanation
Indices: 17420309--17420384 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
17420299 AAAAGGTATC
* *
17420309 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
17420330 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
17420353 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
17420372 TGC-AATCATATCT
1 TACAAATCATATCT
17420385 ATTGATCATA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:17420369 original size:19 final size:19
Alignment explanation
Indices: 17420345--17420430 Score: 116
Period size: 19 Copynumber: 4.9 Consensus size: 19
17420335 AATCATATCT
17420345 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17420364 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
17420382 TCT---ATTG---ATCATA
1 TCTAAGATTGCATATCATA
17420395 TCT-AGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17420413 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
17420431 TGAAGATTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.15
15 8 0.13
18 18 0.30
19 26 0.43
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17420396 original size:31 final size:31
Alignment explanation
Indices: 17420358--17420416 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
17420348 AAGATTGCAT
17420358 ATCATATCTAAGATTGCA-ATCATATCTATTG
1 ATCATATCT-AGATTGCATATCATATCTATTG
17420389 ATCATATCTAGATTGCATATCATATCTA
1 ATCATATCTAGATTGCATATCATATCTA
17420417 AGATTGCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (31 bp):
ATCATATCTAGATTGCATATCATATCTATTG
Found at i:17420792 original size:15 final size:16
Alignment explanation
Indices: 17420772--17420801 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17420762 GATATGATAC
17420772 TAAAAT-TATAAAAAT
1 TAAAATATATAAAAAT
17420787 TAAAATATATAAAAA
1 TAAAATATATAAAAA
17420802 ATCAGGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAATATATAAAAAT
Found at i:17421148 original size:17 final size:18
Alignment explanation
Indices: 17421095--17421166 Score: 110
Period size: 19 Copynumber: 3.9 Consensus size: 18
17421085 AATCATATCT
17421095 TCTAAGATTGCTTATCATA
1 TCTAAGATTGC-TATCATA
*
17421114 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
17421132 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
17421149 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
17421167 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 17 0.35
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:17421151 original size:35 final size:37
Alignment explanation
Indices: 17421088--17421166 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
17421078 ATTACAAAAT
17421088 CATATC-T-TCTAAGATTGCTTATCATATCTAAGATTG
1 CATATCATATCTAAGATTGC-TATCATATCTAAGATTG
17421124 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCTATCATATCTAAGATTG
17421159 CATATCAT
1 CATATCAT
17421167 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGCTATCATATCTAAGATTG
Found at i:17421164 original size:14 final size:15
Alignment explanation
Indices: 17421109--17421164 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
17421099 AGATTGCTTA
17421109 TCATATCTAAGATTG
1 TCATATCTAAGATTG
17421124 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
17421142 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
17421159 -CATATC
1 TCATATC
17421165 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:17421580 original size:45 final size:45
Alignment explanation
Indices: 17421523--17421791 Score: 258
Period size: 45 Copynumber: 5.9 Consensus size: 45
17421513 CGATATCTAC
* * *
17421523 TATCTTTGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * *
17421568 TATCTTCAATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * *
17421613 T-TCTTCAATCTACTCCCCGTCTAATACAGAGATGTCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * *
17421657 TATCTCCGATTTGCTCCCCATCTAATACAGAGATGTCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * * * * * *
17421702 CATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAGATCTGT
1 TATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTGT
17421747 TAATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 T-A--TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
17421792 ATCTTGGATC
Statistics
Matches: 183, Mismatches: 31, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
43 5 0.03
44 44 0.24
45 103 0.56
46 1 0.01
48 19 0.10
49 5 0.03
50 6 0.03
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
Found at i:17421652 original size:89 final size:89
Alignment explanation
Indices: 17421531--17421700 Score: 241
Period size: 89 Copynumber: 1.9 Consensus size: 89
17421521 ACTATCTTTG
* * * **
17421531 ATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTTATCTTCAATCTGCTCCCTGTCTAATAC
1 ATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGCTCCCCATCTAATAC
17421596 AGAGACGCCAAATCTGCTTCTTCA
66 AGAGACGCCAAATCTGCTTCTTCA
* * * *
17421620 ATCTACTCCCCGTCTAATACAGAGATGTCAAATCTGTTATCTCCGATTTGCTCCCCATCTAATAC
1 ATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGCTCCCCATCTAATAC
* *
17421685 AGAGATGTCAAATCTG
66 AGAGACGCCAAATCTG
17421701 TCATCTTGGA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.31
Consensus pattern (89 bp):
ATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGCTCCCCATCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:17421860 original size:78 final size:78
Alignment explanation
Indices: 17421730--17421947 Score: 346
Period size: 78 Copynumber: 2.8 Consensus size: 78
17421720 ATGTAAACAC
*
17421730 ATGAAGGTCAGATCTGTTAATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCAGATCTGCT-ATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
17421795 TTGGATCTACTTCA
65 TTGGATCTACTTCA
* *
17421809 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
17421874 TGGATCTATTTCA
66 TGGATCTACTTCA
* * ** *
17421887 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAAATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
17421948 TGTTTCTTCG
Statistics
Matches: 128, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 111 0.87
79 17 0.13
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTACTTCA
Found at i:17422277 original size:220 final size:220
Alignment explanation
Indices: 17421888--17422478 Score: 941
Period size: 220 Copynumber: 2.7 Consensus size: 220
17421878 TCTATTTCAA
* *
17421888 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAAATGCCAAATCTGTTT
1 TGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTT
* *
17421953 CTTCGATTTGTTCTTTGACAGTACAGAGATGCCAAATCATCTTAGATCTACTTCAGCGTAAACAC
66 CTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACAC
* *
17422018 GTGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTT
131 GTGAAAGCCAAATCTGCTATGTCTTCGATCTGATCCTTGTCAACGCAAGGATGCCAAATCATCTT
*
17422083 GGGTCTACTTCGATGTGAAAACATC
196 GGATCTACTTCGATGTGAAAACATC
* **
17422108 TGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCAAATATGGAGATTTCAAATCTGTTT
1 TGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTT
17422173 CTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACAC
66 CTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACAC
17422238 GTGAAAGCCAAATCTGCTATGTCTTCGATCTGATCCTTGTCAACGCAAGGATGCCAAATCATCTT
131 GTGAAAGCCAAATCTGCTATGTCTTCGATCTGATCCTTGTCAACGCAAGGATGCCAAATCATCTT
*
17422303 GGATCTACTTTGATGTGAAAACATC
196 GGATCTACTTCGATGTGAAAACATC
** * *
17422328 CAAAGGTTAGATCTGCTATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTGTCT
1 TGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTT
* * ** * * * *
17422393 CTTCGATTTATTCTCTGACAATACAGAGATGTTAAATCATCTTGGATCCGCTTCAACGTAAACGT
66 CTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAAC-A
* *
17422458 C-TGAAGGTCAAATCTGCTATG
130 CGTGAAAGCCAAATCTGCTATG
17422479 CTTTAGCTTG
Statistics
Matches: 342, Mismatches: 28, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
220 341 1.00
221 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (220 bp):
TGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTT
CTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACAC
GTGAAAGCCAAATCTGCTATGTCTTCGATCTGATCCTTGTCAACGCAAGGATGCCAAATCATCTT
GGATCTACTTCGATGTGAAAACATC
Found at i:17432329 original size:17 final size:17
Alignment explanation
Indices: 17432307--17432339 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17432297 GATATGATAC
17432307 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
17432324 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
17432340 AATCAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:17432340 original size:18 final size:17
Alignment explanation
Indices: 17432307--17432340 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17432297 GATATGATAC
*
17432307 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
17432324 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
17432341 ATCAGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Done.