Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 312 of 335
Found at i:92242695 original size:182 final size:179
Alignment explanation
Indices: 92242378--92242720 Score: 458
Period size: 182 Copynumber: 1.9 Consensus size: 179
92242368 CTAATGAACT
* * **
92242378 TGAATTTTGGGTTGTTTGATCAAGTAAGGGAAATTTGATGAAATTCATATTCAATGTAATTATTA
1 TGAATTTCGGGTTGTTGGATCAAGTAAGGGAAATTCAATGAAATTCATATTCAATGTAATTATTA
* * *
92242443 TTTATTCTCACTATTGCGAGGATAGCTCAGTTAGGAGAGCATCAGATGAAAGATCTAAAGGTCAC
66 TTTATTATCACAATTGCGAGGATAGCTCAGTTAGGAGAGCATCAAATGAAAGATCTAAAGGTCAC
* *
92242508 GTGTTTGATCCACGTTCATTGCATTTTAAAACATAAAGGAGAGTGTACA
131 GTGTTTGATCCAAGTTCATCGCATTTTAAAACATAAAGGAGAGTGTACA
* *
92242557 TGAATTTCGGGTTGTTGGATCAAGTAAGTGAAATTCAATTG-AATTCATCCTT-AATGTAATTAT
1 TGAATTTCGGGTTGTTGGATCAAGTAAGGGAAATTCAA-TGAAATTCAT-ATTCAATGTAATTAT
* * * * * *
92242620 TATTAATTTTAATCACAATTGTGAGGATAGCTCAGTTGGGAGAGCGTCAAATTG-ATGATCTAAT
64 TATT--TATT-ATCACAATTGCGAGGATAGCTCAGTTAGGAGAGCATCAAA-TGAAAGATCTAAA
92242684 GGTCACGTGTTTGATCCAAGTTCATCGCATTTTAAAA
125 GGTCACGTGTTTGATCCAAGTTCATCGCATTTTAAAA
92242721 ATATCGATAA
Statistics
Matches: 141, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
179 55 0.39
180 4 0.03
181 3 0.02
182 77 0.55
183 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (179 bp):
TGAATTTCGGGTTGTTGGATCAAGTAAGGGAAATTCAATGAAATTCATATTCAATGTAATTATTA
TTTATTATCACAATTGCGAGGATAGCTCAGTTAGGAGAGCATCAAATGAAAGATCTAAAGGTCAC
GTGTTTGATCCAAGTTCATCGCATTTTAAAACATAAAGGAGAGTGTACA
Found at i:92244849 original size:21 final size:21
Alignment explanation
Indices: 92244823--92244864 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
92244813 ATACTACCGA
92244823 GTATCGGTATCGGCATTCCGT
1 GTATCGGTATCGGCATTCCGT
92244844 GTATCGGTATCGGCATTCCGT
1 GTATCGGTATCGGCATTCCGT
92244865 AGAAGATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.24, G:0.29, T:0.33
Consensus pattern (21 bp):
GTATCGGTATCGGCATTCCGT
Found at i:92245010 original size:46 final size:46
Alignment explanation
Indices: 92244960--92245135 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
92244950 TGGTTGAGCA
* *
92244960 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
92245006 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * * *
92245053 TCCGAACTCATTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
92245099 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
92245136 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:92245116 original size:93 final size:93
Alignment explanation
Indices: 92244957--92245128 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
92244947 GGATGGTTGA
* * ***
92244957 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAGT
92245022 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
** * *
92245050 GCATCCGAACTCATTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAGT
92245115 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
92245129 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:92247731 original size:17 final size:17
Alignment explanation
Indices: 92247709--92247761 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 17
92247699 ATTCCAACAG
92247709 TATATAAATTCTGAAAAA
1 TATATAAATTCT-AAAAA
*
92247727 TTATAAAAAATT-TAAAAA
1 -TAT-ATAAATTCTAAAAA
92247745 TATATAAATTCTAAAAA
1 TATATAAATTCTAAAAA
92247762 ATCAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 6 0.20
17 9 0.30
18 5 0.17
19 4 0.13
20 6 0.20
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (17 bp):
TATATAAATTCTAAAAA
Found at i:92247781 original size:36 final size:35
Alignment explanation
Indices: 92247709--92247778 Score: 99
Period size: 34 Copynumber: 2.0 Consensus size: 35
92247699 ATTCCAACAG
*
92247709 TATATAAATTCTGAAAAATTATAAAAAATTTAAAAA
1 TATATAAATTCTGAAAAA-TATAAAAAATTAAAAAA
92247745 TATATAAATTCT-AAAAA-ATCAAAAAATTAAAAAA
1 TATATAAATTCTGAAAAATAT-AAAAAATTAAAAAA
92247779 AATTAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 2 0.06
34 13 0.41
35 5 0.16
36 12 0.38
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (35 bp):
TATATAAATTCTGAAAAATATAAAAAATTAAAAAA
Found at i:92248491 original size:41 final size:40
Alignment explanation
Indices: 92248429--92248516 Score: 158
Period size: 41 Copynumber: 2.2 Consensus size: 40
92248419 TAACACCTAT
*
92248429 AATAAACTCAAAATTAATATATATATATAAATTAGAAAAAA
1 AATAGACTCAAAATTAATATATATATATAAATTAG-AAAAA
92248470 AATAGACTCAAAATTAATATATATATATAAATTAGAAAAA
1 AATAGACTCAAAATTAATATATATATATAAATTAGAAAAA
92248510 AATAGAC
1 AATAGAC
92248517 ATTATACATA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 12 0.26
41 34 0.74
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.28
Consensus pattern (40 bp):
AATAGACTCAAAATTAATATATATATATAAATTAGAAAAA
Found at i:92256909 original size:98 final size:99
Alignment explanation
Indices: 92256736--92256928 Score: 271
Period size: 98 Copynumber: 2.0 Consensus size: 99
92256726 GAAATTCCTT
* * * * *
92256736 TGTGAATTCTCATTTTTGAGAGTAAGGTTGATTTAGGTGGATTTGAAATAAAGAAATAACCTAAG
1 TGTGAATTCCCATTTTCGAGAGTAAGGCTGACTTAGGTGGATTTGAAACAAAGAAATAACCTAAG
*** * *
92256801 GTTGCGTGGTTTGCCAGAC-TTAAGTTCTAATCC
66 GCCACATGGTTTACCAGACTTTAAGTTCTAATCC
* *
92256834 TGTGAATTCCCATTTTCGAGAGTAAGGCTGACTTAGGTGGATTTGAAGCAAAGAAATCACCTAAG
1 TGTGAATTCCCATTTTCGAGAGTAAGGCTGACTTAGGTGGATTTGAAACAAAGAAATAACCTAAG
92256899 GCCACATGGTTTACCAGACTTTAAGTTCTA
66 GCCACATGGTTTACCAGACTTTAAGTTCTA
92256929 GCAAAACAAC
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
98 72 0.88
99 10 0.12
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (99 bp):
TGTGAATTCCCATTTTCGAGAGTAAGGCTGACTTAGGTGGATTTGAAACAAAGAAATAACCTAAG
GCCACATGGTTTACCAGACTTTAAGTTCTAATCC
Found at i:92261440 original size:2 final size:2
Alignment explanation
Indices: 92261433--92261460 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
92261423 GCAACAACAA
92261433 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92261461 CAAGCCAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92263268 original size:74 final size:74
Alignment explanation
Indices: 92263174--92263320 Score: 276
Period size: 74 Copynumber: 2.0 Consensus size: 74
92263164 AAATAGTGTT
*
92263174 AGACTAAATACTTAAAATGTCAGTTGGTCTATCCACTTGCACAACATTTCTAAAATACCCATACC
1 AGACTAAATACTTAAAATGTCAGTTGGTCTATCCACTTGCACAACATTTCTAAAATACCCATAAC
92263239 TCAGTTTTC
66 TCAGTTTTC
*
92263248 AGACTAAATACTTAAAATGTCAGTTGGTCTATCCACTTTCACAACATTTCTAAAATACCCATAAC
1 AGACTAAATACTTAAAATGTCAGTTGGTCTATCCACTTGCACAACATTTCTAAAATACCCATAAC
92263313 TCAGTTTT
66 TCAGTTTT
92263321 TGTAACACCC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (74 bp):
AGACTAAATACTTAAAATGTCAGTTGGTCTATCCACTTGCACAACATTTCTAAAATACCCATAAC
TCAGTTTTC
Found at i:92263987 original size:46 final size:45
Alignment explanation
Indices: 92263927--92264230 Score: 366
Period size: 46 Copynumber: 7.0 Consensus size: 45
92263917 TTTGACATGA
* * * * * *
92263927 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
92263973 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
92264019 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
92264065 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
92264111 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
92264149 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
92264187 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
92264231 AGAGCACACT
Statistics
Matches: 235, Mismatches: 13, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
38 72 0.31
40 3 0.01
43 1 0.00
44 3 0.01
45 4 0.02
46 149 0.63
47 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:92264156 original size:38 final size:38
Alignment explanation
Indices: 92264105--92264218 Score: 228
Period size: 38 Copynumber: 3.0 Consensus size: 38
92264095 ACATTTTATA
92264105 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
92264143 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
92264181 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
92264219 ATTTCATATC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 76 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:92266382 original size:11 final size:11
Alignment explanation
Indices: 92266366--92266417 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
92266356 TATACTAAAT
92266366 AAATAATAATA
1 AAATAATAATA
*
92266377 AAATAAT-ATT
1 AAATAATAATA
* *
92266387 AAATATCTCATA
1 AAATA-ATAATA
*
92266399 AAATATTAATA
1 AAATAATAATA
92266410 AAATAATA
1 AAATAATA
92266418 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:92276598 original size:16 final size:16
Alignment explanation
Indices: 92276577--92276607 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92276567 GAGTTTGTTT
*
92276577 TATAATATATAAATTA
1 TATAATATAAAAATTA
92276593 TATAATATAAAAATT
1 TATAATATAAAAATT
92276608 TTGAAAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAATATAAAAATTA
Found at i:92276985 original size:35 final size:35
Alignment explanation
Indices: 92276943--92277016 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
92276933 AATTACAACG
*
92276943 TTTTACAGGAAATCTCACTGTTCATTCTTGGGTTT-
1 TTTTACAGGAAACCTCACTGTTCATTCTT-GGTTTC
* *
92276978 TTTTACAGGGAACCTTACTGTTCATTCTTGGTTTC
1 TTTTACAGGAAACCTCACTGTTCATTCTTGGTTTC
92277013 TTTT
1 TTTT
92277017 GGCAAGGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 5 0.14
35 30 0.86
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (35 bp):
TTTTACAGGAAACCTCACTGTTCATTCTTGGTTTC
Found at i:92277063 original size:37 final size:36
Alignment explanation
Indices: 92277022--92277214 Score: 85
Period size: 37 Copynumber: 5.3 Consensus size: 36
92277012 CTTTTGGCAA
92277022 GGAATCATTCTCGTTCATTTCTGTCTTTGCTCTGCAG
1 GGAATCA-TCTCGTTCATTTCTGTCTTTGCTCTGCAG
* * * ** * *
92277059 GGAATC-TCACTATTTA-TTCT-TGGTTGTTTTTGGCAG
1 GGAATCATCTC-GTTCATTTCTGTCTTTG-CTCT-GCAG
* *
92277095 GGAATCACTCTTGTTCATTTCTGTTTTTGCTCTGCAG
1 GGAATCA-TCTCGTTCATTTCTGTCTTTGCTCTGCAG
* * ** * *
92277132 GGAATC-TCACTATTCA-TTCT-TGGTTGCTTTTGGCAA
1 GGAATCATCTC-GTTCATTTCTGTCTTTGC-TCT-GCAG
* * * *
92277168 GGAATCACTCTTGTTCATTTTTGTCTTTGCTTTGTAG
1 GGAATCA-TCTCGTTCATTTCTGTCTTTGCTCTGCAG
92277205 GGAATC-TCTC
1 GGAATCATCTC
92277215 CTGTTTATAT
Statistics
Matches: 111, Mismatches: 31, Indels: 30
0.65 0.18 0.17
Matches are distributed among these distances:
34 9 0.08
35 20 0.18
36 26 0.23
37 31 0.28
38 16 0.14
39 9 0.08
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.45
Consensus pattern (36 bp):
GGAATCATCTCGTTCATTTCTGTCTTTGCTCTGCAG
Found at i:92277078 original size:73 final size:73
Alignment explanation
Indices: 92276983--92277212 Score: 336
Period size: 73 Copynumber: 3.2 Consensus size: 73
92276973 GGTTTTTTTA
* * * * *
92276983 CAGGGAACCTTACTGTTCATTCTTGGTTTCTTTTGGCAAGGAATCATTCTCGTTCATTTCTGTCT
1 CAGGGAATCTCACTATTCATTCTTGGTTTCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCT
92277048 TTGCTCTG
66 TTGCTCTG
* * *
92277056 CAGGGAATCTCACTATTTATTCTTGGTTGT-TTTTGGCAGGGAATCACTCTTGTTCATTTCTGTT
1 CAGGGAATCTCACTATTCATTCTTGGTT-TCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTC
92277120 TTTGCTCTG
65 TTTGCTCTG
* *
92277129 CAGGGAATCTCACTATTCATTCTTGGTTGCTTTTGGCAAGGAATCACTCTTGTTCATTTTTGTCT
1 CAGGGAATCTCACTATTCATTCTTGGTTTCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCT
*
92277194 TTGCTTTG
66 TTGCTCTG
*
92277202 TAGGGAATCTC
1 CAGGGAATCTC
92277213 TCCTGTTTAT
Statistics
Matches: 140, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
73 139 0.99
74 1 0.01
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (73 bp):
CAGGGAATCTCACTATTCATTCTTGGTTTCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCT
TTGCTCTG
Found at i:92277096 original size:36 final size:36
Alignment explanation
Indices: 92277055--92277173 Score: 104
Period size: 36 Copynumber: 3.3 Consensus size: 36
92277045 TCTTTGCTCT
92277055 GCAGGGAATCTCACTATTTATTCTTGGTTGTTTTTG
1 GCAGGGAATCTCACTATTTATTCTTGGTTGTTTTTG
* *
92277091 GCAGGGAA--TCACT-CTTGTTCATT--TCTGTTTTTG
1 GCAGGGAATCTCACTATTTATTC-TTGGT-TGTTTTTG
* *
92277124 CTCTGCAGGGAATCTCACTATTCATTCTTGGTTGCTTTTG
1 ----GCAGGGAATCTCACTATTTATTCTTGGTTGTTTTTG
*
92277164 GCAAGGAATC
1 GCAGGGAATC
92277174 ACTCTTGTTC
Statistics
Matches: 65, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
32 1 0.02
33 13 0.20
34 7 0.11
36 17 0.26
37 8 0.12
39 7 0.11
40 11 0.17
41 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (36 bp):
GCAGGGAATCTCACTATTTATTCTTGGTTGTTTTTG
Found at i:92277638 original size:20 final size:20
Alignment explanation
Indices: 92277601--92277640 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
92277591 ATTTATATAT
*
92277601 TATAAAAACATGATATAAAA
1 TATAAAAACATGAAATAAAA
**
92277621 TATAAAAAGTTGAAATAAAA
1 TATAAAAACATGAAATAAAA
92277641 CGAAATTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (20 bp):
TATAAAAACATGAAATAAAA
Found at i:92277733 original size:26 final size:26
Alignment explanation
Indices: 92277680--92277734 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
92277670 AGATTCCAAC
* * *
92277680 AATATATAAATTCTGAAAAATTATAA
1 AATATATAAATTCTAAAAAATCAAAA
92277706 AATATATAAATTCTAAAAAATCAAAA
1 AATATATAAATTCTAAAAAATCAAAA
92277732 AAT
1 AAT
92277735 TTAAAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (26 bp):
AATATATAAATTCTAAAAAATCAAAA
Found at i:92277739 original size:17 final size:17
Alignment explanation
Indices: 92277713--92277758 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
92277703 TAAAATATAT
92277713 AAATTCTAAAAAATCAAA
1 AAATT-TAAAAAATCAAA
**
92277731 AAATTTAAAAAATGTAA
1 AAATTTAAAAAATCAAA
92277748 AAATTTAAAAA
1 AAATTTAAAAA
92277759 TAATTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (17 bp):
AAATTTAAAAAATCAAA
Found at i:92277740 original size:9 final size:9
Alignment explanation
Indices: 92277713--92277758 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
92277703 TAAAATATAT
92277713 AAATTCTAAA
1 AAATT-TAAA
*
92277723 AAA-TCAAA
1 AAATTTAAA
92277731 AAATTTAAA
1 AAATTTAAA
*
92277740 AAATGT-AA
1 AAATTTAAA
92277748 AAATTTAAA
1 AAATTTAAA
92277757 AA
1 AA
92277759 TAATTGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
8 13 0.43
9 14 0.47
10 3 0.10
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (9 bp):
AAATTTAAA
Found at i:92277768 original size:18 final size:18
Alignment explanation
Indices: 92277729--92277777 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
92277719 TAAAAAATCA
92277729 AAAAATTT-AAAAAATGT
1 AAAAATTTAAAAAAATGT
92277746 AAAAATTTAAAAATAAT-T
1 AAAAATTTAAAAA-AATGT
*
92277764 GAAAATTTAGAAAA
1 AAAAATTTA-AAAA
92277778 CTTCAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 8 0.29
18 13 0.46
19 7 0.25
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAAATTTAAAAAAATGT
Found at i:92278163 original size:145 final size:145
Alignment explanation
Indices: 92277900--92278409 Score: 898
Period size: 145 Copynumber: 3.5 Consensus size: 145
92277890 TCCAATCAAG
92277900 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
1 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
92277965 CTCACCGCATTTTAGTTTTCTTTCTTTTAAAGATTTAATATTGAAATACTAATTATATTTTCTTC
66 CTCACCGCATTTTAGTTTTCTTTCTTTTAAAGATTTAATATTGAAATACTAATTATATTTTCTTC
92278030 CAAAAGAACAGCACT
131 CAAAAGAACAGCACT
92278045 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
1 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
*
92278110 CTCACCGCATTTTAATTTTCTTTCTTTTAAAGATTTAATATTGAAATACTAATTATATTTTCTTC
66 CTCACCGCATTTTAGTTTTCTTTCTTTTAAAGATTTAATATTGAAATACTAATTATATTTTCTTC
92278175 CAAAAGAACAGCACT
131 CAAAAGAACAGCACT
92278190 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
1 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
* * * *
92278255 CTCACCGCATTTTAGTTTTCTTTAATCTTTGAAAGATTTATTATTGAAATAGTAATCATATTTTC
66 CTCACCGCATTTTAGTTTTC-TT--TCTTTTAAAGATTTAATATTGAAATACTAATTATATTTTC
* *
92278320 TTCC-AAA-AAGAGTACT
128 TTCCAAAAGAACAGCACT
*
92278336 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCACGTGTTCGATCCACG
1 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
*
92278401 TTCACCGCA
66 CTCACCGCA
92278410 AGATTTTTAG
Statistics
Matches: 352, Mismatches: 10, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
145 228 0.65
146 81 0.23
147 3 0.01
148 40 0.11
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (145 bp):
TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
CTCACCGCATTTTAGTTTTCTTTCTTTTAAAGATTTAATATTGAAATACTAATTATATTTTCTTC
CAAAAGAACAGCACT
Found at i:92287206 original size:98 final size:99
Alignment explanation
Indices: 92287033--92287225 Score: 253
Period size: 98 Copynumber: 2.0 Consensus size: 99
92287023 GAAATTCCTT
* ** * * *
92287033 TGTGAATTCTCATTTTTGAGAGTAAGGTTGATTTAGGTGGATTTGAAATAAAGAAATAACCTAAG
1 TGTGAATTCCCATTTTCAAGAGTAAGGCTGACTTAGGTGGATTTGAAACAAAGAAATAACCTAAG
*** * * *
92287098 GTTGCGTGGTTTGCTAGAC-TTAAGTTCTAATCC
66 GCCACATGGTTTACCAGACTTTAAGTTCTAATCC
* *
92287131 TGTGAATTCCCATTTTCAAGAGTAAGGCTGACTTAGGTGGATTTGAAGCAAAGAAATCACCTAAG
1 TGTGAATTCCCATTTTCAAGAGTAAGGCTGACTTAGGTGGATTTGAAACAAAGAAATAACCTAAG
92287196 GCCACATGGTTTACCAGACTTTAAGTTCTA
66 GCCACATGGTTTACCAGACTTTAAGTTCTA
92287226 GCAAAACAAC
Statistics
Matches: 80, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
98 70 0.88
99 10 0.12
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (99 bp):
TGTGAATTCCCATTTTCAAGAGTAAGGCTGACTTAGGTGGATTTGAAACAAAGAAATAACCTAAG
GCCACATGGTTTACCAGACTTTAAGTTCTAATCC
Found at i:92293481 original size:25 final size:25
Alignment explanation
Indices: 92293453--92293503 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
92293443 TGCAATGAGT
*
92293453 TAAAATCTAAGTCGAACAATTTACG
1 TAAAATCTAAGTCAAACAATTTACG
92293478 TAAAATCTAAGTCAAACAATTTACG
1 TAAAATCTAAGTCAAACAATTTACG
92293503 T
1 T
92293504 TTTGGTCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (25 bp):
TAAAATCTAAGTCAAACAATTTACG
Found at i:92297462 original size:11 final size:11
Alignment explanation
Indices: 92297448--92297483 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
92297438 ATATCCCAAC
92297448 AATAATAACAA
1 AATAATAACAA
92297459 AATAATAACAA
1 AATAATAACAA
* *
92297470 TATAACAACAA
1 AATAATAACAA
92297481 AAT
1 AAT
92297484 GATAGCAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.19
Consensus pattern (11 bp):
AATAATAACAA
Found at i:92298619 original size:21 final size:21
Alignment explanation
Indices: 92298571--92298621 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
92298561 GCCCGATCAT
*
92298571 ATTAT-TTTTAAATTTATATG
1 ATTATATTTTAAATTTATATA
92298591 A-TATTATTTTAATATTTA-ATA
1 ATTA-TATTTTAA-ATTTATATA
92298612 ATTATATTTT
1 ATTATATTTT
92298622 TTATTTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.08
20 2 0.08
21 15 0.58
22 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTATATTTTAAATTTATATA
Found at i:92301370 original size:31 final size:31
Alignment explanation
Indices: 92301335--92301394 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
92301325 TTGTTTAGCT
92301335 ATATGCTCTGTTCATTCAATAAAATATGAAA
1 ATATGCTCTGTTCATTCAATAAAATATGAAA
92301366 ATATGCTCTGTTCATTCAATAAAATATGA
1 ATATGCTCTGTTCATTCAATAAAATATGA
92301395 TTTCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (31 bp):
ATATGCTCTGTTCATTCAATAAAATATGAAA
Found at i:92303157 original size:2 final size:2
Alignment explanation
Indices: 92303150--92303187 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
92303140 CACTTTAAAT
92303150 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
92303188 TATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:92304365 original size:84 final size:84
Alignment explanation
Indices: 92304200--92304366 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 84
92304190 TGGTGATGTG
** ** *
92304200 AGAATTTTTACTTTTAGTGACGTTAAAATGTGTCACAAAAAGATCACATTTTGTAATGTTCTAAA
1 AGAATTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAAGAGCACATTTTGTAATGTTCTAAA
* *
92304265 GCGTCATGAAATTTTTTTT
66 GCGTCACGAAAATTTTTTT
* *
92304284 AGAATTTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAA-AGCACATTTTGTGATGTTTTAA
1 AGAA-TTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAAGAGCACATTTTGTAATGTTCTAA
*
92304348 AGTGTCACGAAAATTTTTT
65 AGCGTCACGAAAATTTTTT
92304367 CATTACTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 39 0.54
85 33 0.46
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (84 bp):
AGAATTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAAGAGCACATTTTGTAATGTTCTAAA
GCGTCACGAAAATTTTTTT
Found at i:92308648 original size:21 final size:21
Alignment explanation
Indices: 92308606--92308648 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
92308596 ATTTTTAAAA
* *
92308606 ATTTTATATAACTTATTTATT
1 ATTTTATATAAATGATTTATT
92308627 ATTTTATA-AAATGATTTGATT
1 ATTTTATATAAATGATTT-ATT
92308648 A
1 A
92308649 GATATTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTTATATAAATGATTTATT
Found at i:92309454 original size:16 final size:16
Alignment explanation
Indices: 92309433--92309463 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92309423 TTTTTCTTTC
*
92309433 AAAAAAGTTCAAAAAA
1 AAAAAAGTCCAAAAAA
92309449 AAAAAAGTCCAAAAA
1 AAAAAAGTCCAAAAA
92309464 GTCAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAAAAGTCCAAAAAA
Found at i:92320721 original size:2 final size:2
Alignment explanation
Indices: 92320714--92320739 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
92320704 TCATTTAACC
92320714 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
92320740 ACTCATGAAC
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):
TA
Found at i:92322557 original size:43 final size:42
Alignment explanation
Indices: 92322495--92322680 Score: 255
Period size: 43 Copynumber: 4.3 Consensus size: 42
92322485 TTATTTAAAA
*
92322495 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAG-TCATGACCTTTAGCGGCGCTTTTCCCAC
*
92322538 AAACGCCGCTAAAGCTCATGACCTTTGGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAG-TCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
92322581 AAACGCCGCTAAATGTCATGAACTTTAGTGGCGCTTTTCACAC
1 AAACGCCGCTAAA-GTCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
92322624 AAACGCTGTTAAATGTCATGACCTTTAGCGGCGCTTTACCCAA
1 AAACGCCGCTAAA-GTCATGACCTTTAGCGGCGCTTTTCCCAC
92322667 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
92322681 GTAATGAAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 124 0.98
44 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGTCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:92322881 original size:19 final size:21
Alignment explanation
Indices: 92322840--92322887 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
92322830 TTAAAATTTT
92322840 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
92322861 AA-TAAAAAT-TTAGAATTAA
1 AACTAAAAATATTAAAATAAA
92322880 AACTAAAA
1 AACTAAAA
92322888 TAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:92322910 original size:31 final size:31
Alignment explanation
Indices: 92322852--92322911 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
92322842 CTAAAAATAT
**
92322852 TAAAATAAAAATAAAAATTTAGAATTAAAAC
1 TAAAATAAAAATAAAAAAATAGAATTAAAAC
92322883 TAAAATAAATAATAAAAAAATAG-ATTAAA
1 TAAAATAAA-AATAAAAAAATAGAATTAAA
92322912 TATAAAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (31 bp):
TAAAATAAAAATAAAAAAATAGAATTAAAAC
Found at i:92325375 original size:40 final size:40
Alignment explanation
Indices: 92325238--92325423 Score: 182
Period size: 40 Copynumber: 4.7 Consensus size: 40
92325228 TCGAATGATG
* * * *
92325238 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACGATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
92325278 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
92325318 TTCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
92325358 TCCGGGTTAAGTCCCGAAGACATCTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
92325399 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
92325424 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 112 0.92
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:92333499 original size:40 final size:40
Alignment explanation
Indices: 92333362--92333547 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
92333352 TCGAATGATG
* * * *
92333362 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACGATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
92333402 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
92333442 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
92333482 TCCGGGTTAAGTCCCGAAGACATCTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
92333523 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
92333548 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 114 0.91
41 10 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:92336264 original size:44 final size:44
Alignment explanation
Indices: 92336196--92336284 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
92336186 ATATAGCATC
*
92336196 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
1 ATATAAGGCATAACATCTGCTAAAATAAAGTTGACACCTAAATG
92336240 ATATAAGGCATAACATCTGCTAAAATAAAGTTGACACCTAAATG
1 ATATAAGGCATAACATCTGCTAAAATAAAGTTGACACCTAAATG
92336284 A
1 A
92336285 AAGCGATAGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (44 bp):
ATATAAGGCATAACATCTGCTAAAATAAAGTTGACACCTAAATG
Found at i:92339068 original size:7 final size:6
Alignment explanation
Indices: 92339039--92339072 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
92339029 CAAAACCAAT
92339039 GGGAAA GGGAAA GGGAAA GGGAAGA GGG-AA GGGA
1 GGGAAA GGGAAA GGGAAA GGGAA-A GGGAAA GGGA
92339073 TCATATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 4 0.15
6 18 0.69
7 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (6 bp):
GGGAAA
Found at i:92339334 original size:19 final size:20
Alignment explanation
Indices: 92339312--92339359 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
92339302 TTATATTTCA
*
92339312 TTTTTATTTA-TTATCGATG
1 TTTTTATTTATTTATCAATG
*
92339331 TTTTTATTCATTTATCAATG
1 TTTTTATTTATTTATCAATG
92339351 TTTTT-TTTA
1 TTTTTATTTA
92339360 AATCTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.67
Consensus pattern (20 bp):
TTTTTATTTATTTATCAATG
Found at i:92339966 original size:16 final size:15
Alignment explanation
Indices: 92339943--92340022 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 15
92339933 ATATGATGTT
*
92339943 TTTTGGGGTTTAGGG
1 TTTTAGGGTTTAGGG
* **
92339958 TTTTAGGGGTTATAG
1 TTTTAGGGTTTAGGG
* *
92339973 ATTT-GTGTTTAGGG
1 TTTTAGGGTTTAGGG
*
92339987 TTTTTAGGGTTTAAAGG
1 -TTTTAGGGTTT-AGGG
*
92340004 TTTTAAGGTTTAGGG
1 TTTTAGGGTTTAGGG
92340019 TTTT
1 TTTT
92340023 GAGGTTATAT
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
14 6 0.12
15 24 0.50
16 15 0.31
17 3 0.06
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (15 bp):
TTTTAGGGTTTAGGG
Found at i:92340181 original size:41 final size:41
Alignment explanation
Indices: 92340085--92340227 Score: 195
Period size: 40 Copynumber: 3.6 Consensus size: 41
92340075 GTTATATGAC
* *
92340085 TTTTAGCGGCGTTTTGCCAAAAATGCCA-CTATTGCTCTG-T
1 TTTTAGTGGCGCTTTGCCAAAAATG-CAGCTATTGCTCTGTT
*
92340125 TTTTAGTGGCGCTTTGCCAAAAATGCTGCTATTGCTCTGTT
1 TTTTAGTGGCGCTTTGCCAAAAATGCAGCTATTGCTCTGTT
*
92340166 TTTTAGTTGCGCTTTGCCAAAAATGCAGCTATTGCTCTG-T
1 TTTTAGTGGCGCTTTGCCAAAAATGCAGCTATTGCTCTGTT
* *
92340206 TTTT-GGGGCGCTTTACCAAAAA
1 TTTTAGTGGCGCTTTGCCAAAAA
92340228 CGCCGCTAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
39 16 0.17
40 39 0.42
41 38 0.41
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (41 bp):
TTTTAGTGGCGCTTTGCCAAAAATGCAGCTATTGCTCTGTT
Found at i:92340695 original size:16 final size:16
Alignment explanation
Indices: 92340657--92340706 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
92340647 TCTATAATTC
*
92340657 ATATTATAATTTAAATA
1 ATATAATAA-TTAAATA
* *
92340674 AAATAATAATTATATA
1 ATATAATAATTAAATA
*
92340690 ATATAATAATTTAATA
1 ATATAATAATTAAATA
92340706 A
1 A
92340707 AGTAAGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAATAATTAAATA
Found at i:92345266 original size:19 final size:19
Alignment explanation
Indices: 92345229--92345267 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
92345219 CCTATCATGT
* *
92345229 TTCTTTTCTTTTTCCTTTC
1 TTCTTTCCTTTTTCATTTC
*
92345248 TTCTTTCCTTTTTTATTTC
1 TTCTTTCCTTTTTCATTTC
92345267 T
1 T
92345268 CTATTGCCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTTTCCTTTTTCATTTC
Found at i:92354083 original size:24 final size:25
Alignment explanation
Indices: 92354046--92354092 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
92354036 ATTTTTCAGT
*
92354046 TTTTAAAGAGTAAATTTTTTTTAAC
1 TTTTAAAGAGTAAATTATTTTTAAC
*
92354071 TTTTAAA-ATTAAATTATTTTTA
1 TTTTAAAGAGTAAATTATTTTTA
92354093 TCAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTTAAAGAGTAAATTATTTTTAAC
Found at i:92354101 original size:27 final size:27
Alignment explanation
Indices: 92354033--92354103 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 27
92354023 GATTCAAAAT
*
92354033 ATTA-TTTTTCAGTTTTTAAAGAGTAA
1 ATTATTTTTTCAATTTTTAAAGAGTAA
* *
92354059 ATT-TTTTTT-AACTTTTAAA-ATTAA
1 ATTATTTTTTCAATTTTTAAAGAGTAA
92354083 ATTATTTTTATCAATTTTTAA
1 ATTATTTTT-TCAATTTTTAA
92354104 GAGCTAACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
24 7 0.19
25 13 0.35
26 9 0.24
27 8 0.22
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.56
Consensus pattern (27 bp):
ATTATTTTTTCAATTTTTAAAGAGTAA
Found at i:92358326 original size:9 final size:9
Alignment explanation
Indices: 92358312--92358341 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
92358302 AAATTGAGAC
92358312 TAAAAAAAT
1 TAAAAAAAT
92358321 TAAAAAAAAT
1 T-AAAAAAAT
92358331 TAAAAAAAT
1 TAAAAAAAT
92358340 TA
1 TA
92358342 CAATAAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:92358328 original size:10 final size:10
Alignment explanation
Indices: 92358313--92358338 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
92358303 AATTGAGACT
92358313 AAAAAAATTA
1 AAAAAAATTA
92358323 AAAAAAATTA
1 AAAAAAATTA
92358333 AAAAAA
1 AAAAAA
92358339 TTACAATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:92359070 original size:29 final size:29
Alignment explanation
Indices: 92359028--92359087 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
92359018 ATTGGCTGGT
92359028 GGGTTGGATTCCAAAGATAGAAAAATAAA
1 GGGTTGGATTCCAAAGATAGAAAAATAAA
* *
92359057 GGGTTGGATTCCAATGATGGAAAAATAAA
1 GGGTTGGATTCCAAAGATAGAAAAATAAA
92359086 GG
1 GG
92359088 ATCATTGGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.43, C:0.07, G:0.28, T:0.22
Consensus pattern (29 bp):
GGGTTGGATTCCAAAGATAGAAAAATAAA
Found at i:92366527 original size:28 final size:31
Alignment explanation
Indices: 92366473--92366536 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 31
92366463 CAAAAATTAG
* * *
92366473 TTTATTATTAATAAAGACGTAAGTTAATTTA
1 TTTATTATTAATAAAGACATAAATTAATATA
92366504 TTTATT-TTAATAAA-A-ATAAATTAATATA
1 TTTATTATTAATAAAGACATAAATTAATATA
92366532 TTTAT
1 TTTAT
92366537 ATCAAAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 15 0.50
29 1 0.03
30 8 0.27
31 6 0.20
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (31 bp):
TTTATTATTAATAAAGACATAAATTAATATA
Found at i:92375663 original size:19 final size:21
Alignment explanation
Indices: 92375639--92375678 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
92375629 CATGGTAGAG
92375639 AAAAAGTAAC-TTC-TAAAAA
1 AAAAAGTAACATTCTTAAAAA
*
92375658 AAAAAGTTACATTCTTAAAAA
1 AAAAAGTAACATTCTTAAAAA
92375679 TTTTCCGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.25
Consensus pattern (21 bp):
AAAAAGTAACATTCTTAAAAA
Found at i:92383968 original size:30 final size:30
Alignment explanation
Indices: 92383932--92384141 Score: 201
Period size: 30 Copynumber: 6.8 Consensus size: 30
92383922 ACTTTTCTCA
92383932 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
* *** * *
92383962 ACTAGCCACACCAACTCCACTAGCCACTCTTTTCC
1 ACTAGCCACTCCTTTTCCACCA-CCA-AC---TCC
* * **
92383997 ACCA-CCAACTCCACTAGCCA-CACCAACTCC
1 ACTAGCC-ACTCC-TTTTCCACCACCAACTCC
*
92384027 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
92384057 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
92384087 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
92384117 ACTAGCCACAT-CTTCTCCACCACCA
1 ACTAGCCAC-TCCTTTTCCACCACCA
92384142 CTTGTACCTA
Statistics
Matches: 145, Mismatches: 25, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
29 4 0.03
30 114 0.79
31 6 0.04
32 1 0.01
33 1 0.01
34 5 0.03
35 11 0.08
36 3 0.02
ACGTcount: A:0.26, C:0.49, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCC
Found at i:92383973 original size:18 final size:18
Alignment explanation
Indices: 92383952--92384035 Score: 83
Period size: 18 Copynumber: 5.1 Consensus size: 18
92383942 CCTTTTCCAC
92383952 CACCAACTCCACTAGCCA
1 CACCAACTCCACTAGCCA
92383970 CACCAACTCCACTAGCCA
1 CACCAACTCCACTAGCCA
* ** *
92383988 C-TC-TTTTC-C-A--C-
1 CACCAACTCCACTAGCCA
92383999 CACCAACTCCACTAGCCA
1 CACCAACTCCACTAGCCA
92384017 CACCAACTCCACTAGCCA
1 CACCAACTCCACTAGCCA
92384035 C
1 C
92384036 TCTTTTTCCA
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
11 1 0.02
12 2 0.04
13 2 0.04
14 2 0.04
15 2 0.04
16 2 0.04
17 2 0.04
18 38 0.75
ACGTcount: A:0.30, C:0.50, G:0.05, T:0.15
Consensus pattern (18 bp):
CACCAACTCCACTAGCCA
Found at i:92384000 original size:47 final size:47
Alignment explanation
Indices: 92383932--92384068 Score: 256
Period size: 47 Copynumber: 2.9 Consensus size: 47
92383922 ACTTTTCTCA
92383932 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCAACTCC
1 ACTAGCCACT-CTTTTCCACCACCAACTCCACTAGCCACACCAACTCC
92383980 ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCAACTCC
1 ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCAACTCC
92384027 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACC
1 ACTAGCCACTC-TTTTCCACCACCAACTCCACTAGCCACACC
92384069 TTTTCCACCA
Statistics
Matches: 88, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
47 48 0.55
48 40 0.45
ACGTcount: A:0.27, C:0.49, G:0.04, T:0.20
Consensus pattern (47 bp):
ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCAACTCC
Found at i:92384090 original size:60 final size:60
Alignment explanation
Indices: 92384017--92384141 Score: 232
Period size: 60 Copynumber: 2.1 Consensus size: 60
92384007 CCACTAGCCA
*
92384017 CACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCAC
1 CACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCAC
*
92384077 CACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACATCTTCTCCAC
1 CACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCAC
92384137 CACCA
1 CACCA
92384142 CTTGTACCTA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.22
Consensus pattern (60 bp):
CACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCAC
Found at i:92384743 original size:25 final size:25
Alignment explanation
Indices: 92384707--92384773 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
92384697 CTATATTACG
* *
92384707 TATA-TATATATATATATTTTATAC
1 TATATTATGTATATATATTTAATAC
* * *
92384731 TATTTTATGTATATATCTTTAATAT
1 TATATTATGTATATATATTTAATAC
*
92384756 TATATTATTTATATATAT
1 TATATTATGTATATATAT
92384774 ATATATTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 3 0.09
25 31 0.91
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (25 bp):
TATATTATGTATATATATTTAATAC
Found at i:92384744 original size:56 final size:58
Alignment explanation
Indices: 92384653--92384784 Score: 148
Period size: 58 Copynumber: 2.3 Consensus size: 58
92384643 TTCTTAATAT
*
92384653 TATAT-TATATATATTCTTTTAATATATTAGGTATAT-T-TTAAAT-TCTATATTACGTA
1 TATATATATATATATT-TTATAATATATTAGGTATATATCTTAAATAT-TATATTACGTA
* * * * **
92384709 TATATATATATATATTTTATACTATTTTATGTATATATCTTTAATATTATATTATTTA
1 TATATATATATATATTTTATAATATATTAGGTATATATCTTAAATATTATATTACGTA
92384767 TATATATATATAT-TTTTA
1 TATATATATATATATTTTA
92384785 CATGTTATCT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
56 21 0.32
57 16 0.25
58 27 0.42
59 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (58 bp):
TATATATATATATATTTTATAATATATTAGGTATATATCTTAAATATTATATTACGTA
Found at i:92384759 original size:16 final size:18
Alignment explanation
Indices: 92384707--92384784 Score: 54
Period size: 23 Copynumber: 4.1 Consensus size: 18
92384697 CTATATTACG
92384707 TATATATATATATATATTT
1 TATATATATATATATA-TT
*
92384726 TATACTATTTTATGTATATATCT
1 TATA-TA---TATATATATAT-T
92384749 T-TA-ATAT-TATATTATT
1 TATATATATATATA-TATT
*
92384765 TATATATATATATATTTT
1 TATATATATATATATATT
92384783 TA
1 TA
92384785 CATGTTATCT
Statistics
Matches: 48, Mismatches: 2, Indels: 19
0.70 0.03 0.28
Matches are distributed among these distances:
16 6 0.12
17 8 0.17
18 9 0.19
19 8 0.17
20 3 0.06
22 3 0.06
23 11 0.23
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (18 bp):
TATATATATATATATATT
Found at i:92384760 original size:58 final size:58
Alignment explanation
Indices: 92384698--92384808 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
92384688 TTTTAAATTC
*
92384698 TATATTACGTATATATATATATATATTTT-ATACTATTTTATGTATATATCTTTAATAT
1 TATATTACGTATATATATATATAT-TTTTAATACTATCTTATGTATATATCTTTAATAT
** **
92384756 TATATTATTTATATATATATATATTTTTACATGTTATCTTATGTATATATCTT
1 TATATTACGTATATATATATATATTTTTA-ATACTATCTTATGTATATATCTT
92384809 AACTATATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
57 4 0.09
58 22 0.48
59 20 0.43
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (58 bp):
TATATTACGTATATATATATATATTTTTAATACTATCTTATGTATATATCTTTAATAT
Found at i:92384765 original size:30 final size:29
Alignment explanation
Indices: 92384711--92384808 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
92384701 ATTACGTATA
* * * *
92384711 TATATATATATATTTTATACTATTTTATG
1 TATATATCTTTATATTATATTATTTTATG
*
92384740 TATATATCTTTAATATTATATTATTTATATA
1 TATATATCTTT-ATATTATATTATTT-TATG
* * * * *
92384771 TATATATATTTTTA-CATGTTATCTTATG
1 TATATATCTTTATATTATATTATTTTATG
92384799 TATATATCTT
1 TATATATCTT
92384809 AACTATATTA
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
28 12 0.22
29 16 0.29
30 14 0.25
31 13 0.24
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (29 bp):
TATATATCTTTATATTATATTATTTTATG
Found at i:92384805 original size:34 final size:33
Alignment explanation
Indices: 92384740--92384805 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 33
92384730 CTATTTTATG
*
92384740 TATATATCTTTAATATTATATTATTTATATATA
1 TATATATCTTTAATATTATATTATGTATATATA
* * *
92384773 TATATATTTTTACATGTTATCTTATGTATATAT
1 TATATATCTTTA-ATATTATATTATGTATATAT
92384806 CTTAACTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (33 bp):
TATATATCTTTAATATTATATTATGTATATATA
Found at i:92384816 original size:56 final size:58
Alignment explanation
Indices: 92384653--92384823 Score: 158
Period size: 56 Copynumber: 3.0 Consensus size: 58
92384643 TTCTTAATAT
* * * * * * *
92384653 TATAT-TATATATATTCTTTTAATATATTAGGTATAT-T-TTAAATTCTATATTACGTA
1 TATATATATATATATT-TTATACTATCTTATGTATATATCTTTAATACTATATTATGTA
* * *
92384709 TATATATATATATATTTTATACTATTTTATGTATATATCTTTAATATTATATTATTTA
1 TATATATATATATATTTTATACTATCTTATGTATATATCTTTAATACTATATTATGTA
**
92384767 TATATATATATAT-TTTTACATGTTATCTTATGTATATATC-TT-A-ACTATATTATGTA
1 TATATATATATATATTTT--ATACTATCTTATGTATATATCTTTAATACTATATTATGTA
92384823 T
1 T
92384824 GTATTTTTAA
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
56 33 0.34
57 16 0.17
58 29 0.30
59 18 0.19
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (58 bp):
TATATATATATATATTTTATACTATCTTATGTATATATCTTTAATACTATATTATGTA
Found at i:92384820 original size:22 final size:25
Alignment explanation
Indices: 92384794--92384847 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
92384784 ACATGTTATC
92384794 TTATGTATATA-TCTT-A-ACTATA
1 TTATGTATATATTCTTAACACTATA
* *
92384816 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTCTTAACACTATA
92384841 TTATGTA
1 TTATGTA
92384848 CATTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 10 0.37
23 3 0.11
24 1 0.04
25 13 0.48
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (25 bp):
TTATGTATATATTCTTAACACTATA
Found at i:92385034 original size:16 final size:15
Alignment explanation
Indices: 92385010--92385057 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
92385000 TAATTATTAT
*
92385010 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
92385026 TATTTTAATATTTTA
1 TATTTTAATATTTTA
92385041 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
92385057 T
1 T
92385058 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:92385045 original size:7 final size:8
Alignment explanation
Indices: 92385010--92385061 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
92385000 TAATTATTAT
*
92385010 TATTCTAA
1 TATTTTAA
*
92385018 TATTTTGA
1 TATTTTAA
92385026 TATTTTAA
1 TATTTTAA
92385034 TATTTT-A
1 TATTTTAA
92385041 TATTTTATA
1 TATTTTA-A
*
92385050 TATTTTAT
1 TATTTTAA
92385058 TATT
1 TATT
92385062 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:92391825 original size:75 final size:76
Alignment explanation
Indices: 92391633--92391851 Score: 275
Period size: 77 Copynumber: 2.9 Consensus size: 76
92391623 GTTTTATTTC
* * * * *
92391633 AAAATTCAACTTATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTC
92391698 TGTTGTAAAAAA
66 TGTTGT-AAAAA
* * *
92391710 AAAAATCAACTCGTATTGCGAGCGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTC
**
92391775 TGTCT-T-TCAA
66 TGT-TGTAAAAA
* * *
92391785 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGTTGAGGTGTTTTCCATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTC
92391848 TGTT
66 TGTT
92391852 CTTCAATTTC
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
72 1 0.01
73 23 0.18
75 39 0.31
77 61 0.49
78 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (76 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTTGTAAAAA
Found at i:92391959 original size:13 final size:14
Alignment explanation
Indices: 92391929--92391961 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
92391919 CGTTGAGGTA
92391929 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
92391943 TTTTCAAATAT-TGT
1 TTTTCAAAT-TCTGT
92391957 TTTTC
1 TTTTC
92391962 CAAAAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.94
15 1 0.06
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.61
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:92391969 original size:92 final size:90
Alignment explanation
Indices: 92391830--92392305 Score: 396
Period size: 92 Copynumber: 5.3 Consensus size: 90
92391820 CTCAAGACGT
* * * * * *
92391830 TGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAGAAAAATCAGCTCATATTGCGAG
1 TGAGGTATTTTCAAATTCTGTTTTTCAATTT-TGTTTTTCAA-AAAAATCAACTCATATTGCGAG
* *
92391895 TGGTGAGTTGAGCCTTGACTCACACGT
64 AGGTGAGTTGAGCCTTGACTCACACGC
*
92391922 TGAGGTATTTTCAAATTCTGTTTTTCAAATATTGTTTTTCCAAAAAAATCAACTCATATTGCGAG
1 TGAGGTATTTTCAAATTCTGTTTTTC-AATTTTGTTTTT-CAAAAAAATCAACTCATATTGCGAG
* * **
92391987 AGGTGAGTTTAGCC-TCA-GGACACGC
64 AGGTGAGTTGAGCCTTGACTCACACGC
* * * * *
92392012 TGAGATATTTTCAATTTCTTTTTTTTTCAATTTATGTTTGTCAAAAAAATTAACTCATATTGCGA
1 TGAGGTATTTTCAAATTC--TGTTTTTCAATTT-TGTTTTTCAAAAAAATCAACTCATATTGCGA
* *
92392077 GAGGTGAGTTGAGCC-TCAGGTCACACGC
63 GAGGTGAGTTGAGCCTTGA-CTCACACGC
* * * * * * *
92392105 CGAGGTATTTTC-AATTGATTTTTTTTAATTTATGCTTTGC--AAAAATCAACTCATATTACGAG
1 TGAGGTATTTTCAAATT-CTGTTTTTCAATTT-TGTTTTTCAAAAAAATCAACTCATATTGCGAG
* * ** **
92392167 AAGTGAGTTGAGCCTCGGGTCACATAC
64 AGGTGAGTTGAGCCTTGACTCACACGC
* * * *
92392194 CGAGATATTTTCAAAATCTGTTTTACAAATTTTG-TTTT---AAAAATCAACTCATATTGCGAGA
1 TGAGGTATTTTCAAATTCTGTTTTTC-AATTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGA
* * **
92392255 AGTGAGTTGAGCCTTGGCTCACGTGC
65 GGTGAGTTGAGCCTTGACTCACACGC
* *
92392281 TGAGCTATTTTCAATTTCTGTTTTT
1 TGAGGTATTTTCAAATTCTGTTTTT
92392306 AATGTCTAGT
Statistics
Matches: 318, Mismatches: 55, Indels: 27
0.80 0.14 0.07
Matches are distributed among these distances:
87 64 0.20
88 3 0.01
89 58 0.18
90 29 0.09
91 64 0.20
92 77 0.24
93 23 0.07
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (90 bp):
TGAGGTATTTTCAAATTCTGTTTTTCAATTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTTGACTCACACGC
Found at i:92392262 original size:87 final size:87
Alignment explanation
Indices: 92391873--92392372 Score: 377
Period size: 87 Copynumber: 5.6 Consensus size: 87
92391863 GTGTTTCAAG
* ** * ** ** *
92391873 AAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACACGTTGAGGTATTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCCGAGATATTTTCAAAT
*
92391938 TCTGTTTTTCAAATATTGTTTTT
66 TCTGTTTTTCAAATTTTG-TTTT
* * * *
92391961 CCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTCAGG--ACACGCTGAGATATTTTC
1 ----AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCCGAGATATTTTC
* *
92392024 AATTTCTTTTTTTTTC-AATTTATGTTTGT
62 AAATTC--TGTTTTTCAAATTT-TGTTT-T
* * * *
92392053 CAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC-
1 ---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCCGAGATATTTTCA
* ** *
92392117 AATTGAT-TTTTTTTAATTTATGCTTTGC
63 AATT-CTGTTTTTCAAATTT-TG-TTT-T
* ** *
92392145 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGTCACATACCGAGATATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCCGAGATATTTTCAAAT
*
92392210 TCTGTTTTACAAATTTTGTTTT
66 TCTGTTTTTCAAATTTTGTTTT
* * ** * * *
92392232 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCCGAGATATTTTCAAAT
*
92392297 TCTGTTTTT--AATGTCTAGTTTT
66 TCTGTTTTTCAAAT-T-TTGTTTT
* * * * * *
92392319 ACAGAGTCAATTCATATTGCGAGAAATGAGTTGAG-CTCAGGATCACATGCCGAG
1 A-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGTCACACGCCGAG
92392373 TAAAGAATCA
Statistics
Matches: 341, Mismatches: 52, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
85 3 0.01
86 1 0.00
87 73 0.21
88 44 0.13
89 57 0.17
90 38 0.11
91 58 0.17
92 51 0.15
93 16 0.05
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCCGAGATATTTTCAAAT
TCTGTTTTTCAAATTTTGTTTT
Found at i:92392958 original size:30 final size:30
Alignment explanation
Indices: 92392922--92393044 Score: 219
Period size: 30 Copynumber: 4.1 Consensus size: 30
92392912 ACTTTTCTCA
*
92392922 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCC
* *
92392952 ACTAGCCACACTTTTTCCACCACCAACTTC
1 ACTAGCCACTCTTTTTCCACCACCAACTCC
92392982 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCC
92393012 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCC
92393042 ACT
1 ACT
92393045 TTTCCACCAC
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 88 1.00
ACGTcount: A:0.24, C:0.46, G:0.03, T:0.26
Consensus pattern (30 bp):
ACTAGCCACTCTTTTTCCACCACCAACTCC
Found at i:92392987 original size:60 final size:56
Alignment explanation
Indices: 92392921--92393086 Score: 218
Period size: 60 Copynumber: 3.0 Consensus size: 56
92392911 AACTTTTCTC
92392921 AACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACTTTTTCCACCACCA
1 AACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACTTTTTCCACCACCA
* *
92392977 ACTTCACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACTCTTTTTCCACCACC-
1 A----ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACTTTTTCCACCACCA
* *
92393036 AACT--CCA---CTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
1 AACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACTTTTTCCACCACCA
92393087 CTTGTACCTA
Statistics
Matches: 99, Mismatches: 6, Indels: 15
0.82 0.05 0.12
Matches are distributed among these distances:
50 39 0.39
53 3 0.03
55 3 0.03
56 1 0.01
59 1 0.01
60 52 0.53
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.24
Consensus pattern (56 bp):
AACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACTTTTTCCACCACCA
Found at i:92393043 original size:23 final size:22
Alignment explanation
Indices: 92393017--92393064 Score: 73
Period size: 20 Copynumber: 2.2 Consensus size: 22
92393007 ACTCCACTAG
92393017 CCACTCTTTTTCCACCACCAACT
1 CCACTC-TTTTCCACCACCAACT
92393040 CCA--CTTTTCCACCACCAACT
1 CCACTCTTTTCCACCACCAACT
92393060 CCACT
1 CCACT
92393065 AGCCACACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 19 0.83
21 1 0.04
23 3 0.13
ACGTcount: A:0.23, C:0.50, G:0.00, T:0.27
Consensus pattern (22 bp):
CCACTCTTTTCCACCACCAACT
Found at i:92393049 original size:20 final size:20
Alignment explanation
Indices: 92393024--92393064 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
92393014 TAGCCACTCT
92393024 TTTTCCACCACCAACTCCAC
1 TTTTCCACCACCAACTCCAC
92393044 TTTTCCACCACCAACTCCAC
1 TTTTCCACCACCAACTCCAC
92393064 T
1 T
92393065 AGCCACACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.49, G:0.00, T:0.27
Consensus pattern (20 bp):
TTTTCCACCACCAACTCCAC
Found at i:92393612 original size:23 final size:21
Alignment explanation
Indices: 92393575--92393722 Score: 77
Period size: 23 Copynumber: 6.6 Consensus size: 21
92393565 CCTTTTTTGT
92393575 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TT-TT-ATATTA
* *
92393598 TATTATATATATTCTTTTAATA
1 TATTATATATATT-TTATATTA
** *
92393620 TATTAGGTATATTTTAAATTCTA
1 TATTATATATATTTTATA-T-TA
*
92393643 TATTACGTATATA-TATATA-TA
1 TATTA--TATATATTTTATATTA
*
92393664 TATATATATATATTTTATACTA
1 TAT-TATATATATTTTATATTA
*
92393686 TTTTATGTATATATCTTTAATATTA
1 TATTA--TATATAT-TTT-ATATTA
*
92393711 TATTATTTATAT
1 TATTATATATAT
92393723 ATATATTTTT
Statistics
Matches: 97, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
20 6 0.06
21 15 0.15
22 21 0.22
23 31 0.32
24 11 0.11
25 13 0.13
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (21 bp):
TATTATATATATTTTATATTA
Found at i:92393657 original size:2 final size:2
Alignment explanation
Indices: 92393650--92393728 Score: 60
Period size: 2 Copynumber: 41.5 Consensus size: 2
92393640 CTATATTACG
* *
92393650 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TT TA TA CTA T- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * *
92393691 TG TA TA TA TC TT TA -A TA T- TA TA T- TA TT TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92393729 TTTTACATGT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
1 5 0.08
2 55 0.89
3 2 0.03
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (2 bp):
TA
Found at i:92393682 original size:25 final size:26
Alignment explanation
Indices: 92393654--92393731 Score: 79
Period size: 25 Copynumber: 3.0 Consensus size: 26
92393644 ATTACGTATA
92393654 TATA-TATATATATATATATATATTT
1 TATACTATATATATATATATATATTT
* * *
92393679 TATACTAT-TTTATGTATATATCTTT
1 TATACTATATATATATATATATATTT
* * *
92393704 AATATTATATTATTTATATATATATTT
1 TATACTATA-TATATATATATATATTT
92393731 T
1 T
92393732 TACATGTTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
25 24 0.60
26 3 0.08
27 13 0.32
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (26 bp):
TATACTATATATATATATATATATTT
Found at i:92393718 original size:30 final size:28
Alignment explanation
Indices: 92393678--92393757 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 28
92393668 TATATATATT
*
92393678 TTATACTATTTTATGTATATATCTTTAATA
1 TTATATTATTTTATGTATATATCTTT--TA
*
92393708 TTATATTA-TTTATATATATAT-TTTTA
1 TTATATTATTTTATGTATATATCTTTTA
* * *
92393734 -CATGTTATCTTATGTATATATCTT
1 TTATATTATTTTATGTATATATCTT
92393758 AACTATATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
25 5 0.12
26 13 0.31
27 2 0.05
28 3 0.07
29 12 0.29
30 7 0.17
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (28 bp):
TTATATTATTTTATGTATATATCTTTTA
Found at i:92393733 original size:14 final size:14
Alignment explanation
Indices: 92393650--92393733 Score: 68
Period size: 14 Copynumber: 6.1 Consensus size: 14
92393640 CTATATTACG
* *
92393650 TATATATATATATA
1 TATATATATATTTT
*
92393664 TATATATATATATT
1 TATATATATATTTT
*
92393678 T-TATA-CTA-TTT
1 TATATATATATTTT
* *
92393689 TATGTATATATCTT
1 TATATATATATTTT
92393703 TA-ATATTATATTATT
1 TATATA-TATATT-TT
92393718 TATATATATATTTT
1 TATATATATATTTT
92393732 TA
1 TA
92393734 CATGTTATCT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
11 3 0.05
12 5 0.09
13 8 0.14
14 27 0.48
15 10 0.18
16 3 0.05
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (14 bp):
TATATATATATTTT
Found at i:92393769 original size:22 final size:25
Alignment explanation
Indices: 92393743--92393796 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
92393733 ACATGTTATC
92393743 TTATGTATATA-TCTT-A-ACTATA
1 TTATGTATATATTCTTAACACTATA
* *
92393765 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTCTTAACACTATA
92393790 TTATGTA
1 TTATGTA
92393797 CATTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 10 0.37
23 3 0.11
24 1 0.04
25 13 0.48
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (25 bp):
TTATGTATATATTCTTAACACTATA
Found at i:92393985 original size:16 final size:15
Alignment explanation
Indices: 92393961--92394008 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
92393951 TAATTATTAT
*
92393961 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
92393977 TATTTTAATATTTTA
1 TATTTTAATATTTTA
92393992 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
92394008 T
1 T
92394009 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:92393996 original size:7 final size:8
Alignment explanation
Indices: 92393961--92394012 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
92393951 TAATTATTAT
*
92393961 TATTCTAA
1 TATTTTAA
*
92393969 TATTTTGA
1 TATTTTAA
92393977 TATTTTAA
1 TATTTTAA
92393985 TATTTT-A
1 TATTTTAA
92393992 TATTTTATA
1 TATTTTA-A
*
92394001 TATTTTAT
1 TATTTTAA
92394009 TATT
1 TATT
92394013 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:92394955 original size:21 final size:22
Alignment explanation
Indices: 92394923--92394981 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 22
92394913 AATATACATA
*
92394923 ATATAC-ATATATATATAAA-T
1 ATATACGAGATATATATAAAGT
*
92394943 ATATATGAGATAT-TA-AAATGT
1 ATATACGAGATATATATAAA-GT
*
92394964 ATATACGTGATATATATA
1 ATATACGAGATATATATA
92394982 TGAAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
19 3 0.10
20 7 0.23
21 17 0.57
22 2 0.07
23 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.39
Consensus pattern (22 bp):
ATATACGAGATATATATAAAGT
Found at i:92395208 original size:2 final size:2
Alignment explanation
Indices: 92395186--92395276 Score: 64
Period size: 2 Copynumber: 46.5 Consensus size: 2
92395176 AAAAAAGAAA
* * * *
92395186 AT AT AC AT A- AT AT AC AT AT AT AT AT AT A- AA AT AT AT AT GAG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * * *
92395227 AT AT -T A- AA AT GT AT AT AC GT GAT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
92395268 AT AT AT AT A
1 AT AT AT AT A
92395277 GTATTAAGAC
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
1 4 0.06
2 63 0.91
3 2 0.03
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (2 bp):
AT
Found at i:92395210 original size:272 final size:276
Alignment explanation
Indices: 92394708--92395257 Score: 1027
Period size: 275 Copynumber: 2.0 Consensus size: 276
92394698 AATGCATGAG
*
92394708 GAAAATAAAGTGATCGAATACATGAGTAAATAAATAAAAATAAATAAAACATGGCAAAATAAAAA
1 GAAAATAAAGCGATCGAATACATGAGTAAATAAATAAAAATAAATAAAACATGGCAAAATAAAAA
92394773 TGGCGATGATAATGTAGACGATAATAATAGCGATAACATAAATAATAATAATATAAAACGATGCG
66 TGGCGATGATAATGTAGACGATAATAATAGCGATAACAT-AATAATAATAATATAAAACGATGCG
92394838 TAGATATATACATAGATGCATTGAGATATATACGTAATAATAGAAATAAAATATATATGTAGTAT
130 TAGATATATACATAGATGCATTGAGATATATACGTAATAATAGAAATAAAATATATATGTAGTAT
92394903 TAAAAAAGAAAATATACATAATATAC-ATATATATAT-AAATATATATGAGATATTAAAATGTAT
195 TAAAAAAGAAAATATACATAATATACAATATATATATAAAATATATATGAGATATTAAAATGTAT
92394966 ATACGTGATATATATAT
260 ATACGTGATATATATAT
92394983 GAAAATAAAGCGATCGAATACATGAGTAAATAAATAAAAATAAATAAAACATGGCAAAATAAAAA
1 GAAAATAAAGCGATCGAATACATGAGTAAATAAATAAAAATAAATAAAACATGGCAAAATAAAAA
*
92395048 TGGCGATGATAATGTAGACGATAATAATAGCGATAACAT-AT-ATAATAATATAAAACGATGTGT
66 TGGCGATGATAATGTAGACGATAATAATAGCGATAACATAATAATAATAATATAAAACGATGCGT
*
92395111 AGATATATACATAGATGCATTGAGATATATACGTAATAATAGAAATAAAATATATATGTGGTATT
131 AGATATATACATAGATGCATTGAGATATATACGTAATAATAGAAATAAAATATATATGTAGTATT
92395176 AAAAAAGAAAATATACATAATATACATATATATATATAAAATATATATGAGATATTAAAATGTAT
196 AAAAAAGAAAATATACATAATATACA-ATATATATATAAAATATATATGAGATATTAAAATGTAT
92395241 ATACGTGATATATATAT
260 ATACGTGATATATATAT
92395258 ATATATATAT
Statistics
Matches: 269, Mismatches: 3, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
272 110 0.41
273 2 0.01
274 10 0.04
275 147 0.55
ACGTcount: A:0.53, C:0.06, G:0.13, T:0.29
Consensus pattern (276 bp):
GAAAATAAAGCGATCGAATACATGAGTAAATAAATAAAAATAAATAAAACATGGCAAAATAAAAA
TGGCGATGATAATGTAGACGATAATAATAGCGATAACATAATAATAATAATATAAAACGATGCGT
AGATATATACATAGATGCATTGAGATATATACGTAATAATAGAAATAAAATATATATGTAGTATT
AAAAAAGAAAATATACATAATATACAATATATATATAAAATATATATGAGATATTAAAATGTATA
TACGTGATATATATAT
Found at i:92397163 original size:44 final size:44
Alignment explanation
Indices: 92397100--92397209 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
92397090 CAGCCTGTGA
* * *
92397100 CCCTATTGCTTAGAGGTTTAAGGCCCATCA-CTTCTGCTATGTTT
1 CCCTACTGCTTAGGGGTTTAAGGCCCATCACCTT-TGATATGTTT
* *** *
92397144 CCCTACTGCTTAGGGGTTTAAAGCTTGTCACCTTTGATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTTGATATGTTT
*
92397188 CCCTACTGCTTAGGGGGTTAAG
1 CCCTACTGCTTAGGGGTTTAAG
92397210 ATCTACGAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 52 0.95
45 3 0.05
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (44 bp):
CCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTTGATATGTTT
Found at i:92397339 original size:87 final size:87
Alignment explanation
Indices: 92397139--92397507 Score: 235
Period size: 87 Copynumber: 4.3 Consensus size: 87
92397129 ACTTCTGCTA
* * * ** *
92397139 TGTTTCCCTACTGCTTAGGGGTTTAAAGCTTGTCACCTTTGATCTGTTTCCCTACTGCTTAGGGG
1 TGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGACTCCCTACTGCTTAGGGA
*
92397204 GTTAAGATCTACGAATTTAACT
66 GATAAGATCTACGAATTTAACT
* * * * *
92397226 TGTTACCCTATTGTTTAGGGGGTTAAGGTTTGTCAATCTTCGATCT-ACTCCACTACTGCTTAGG
1 TGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTC-ACCTTCGATCTGACTCC-CTACTGCTTAGG
* **
92397290 GAGATAAGATCTGC-AATTT-GGT
64 GAGATAAGATCTACGAATTTAACT
* * * ** ** *
92397312 CTGTTACCTTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGTTTCCTTACTGCTTAGG
1 -TGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTCACCTTCGATCTGACTCCCTACTGCTTAGG
* * *** * * *
92397376 GTGATGAGATCTGTAAATTCAGCC
64 GAGATAAGATCTACGAATTTAACT
* * *** * * * **
92397400 TATTAACCTACTGCTTAGGGGTTTAAGGCCCATCGCATTTGATCTGTTTCCCTACTGCTTAGGG-
1 TGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGACTCCCTACTGCTTAGGGA
* * *** * *
92397464 GTTTAGATCTGTAAATTCAACC
66 GATAAGATCTACGAATTTAACT
92397486 TGTTACCCTACTGCTTAGGGGT
1 TGTTACCCTACTGCTTAGGGGT
92397508 AAGATTTGTG
Statistics
Matches: 228, Mismatches: 46, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
86 74 0.32
87 120 0.53
88 34 0.15
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (87 bp):
TGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGACTCCCTACTGCTTAGGGA
GATAAGATCTACGAATTTAACT
Found at i:92397372 original size:86 final size:85
Alignment explanation
Indices: 92397278--92397507 Score: 275
Period size: 86 Copynumber: 2.7 Consensus size: 85
92397268 ATCTACTCCA
* ** *
92397278 CTACTGCTTAGGGAGATAAGATCTG-CAATTTGGTCTGTTACCTTACTGCTTAGGGGTTTAAGAC
1 CTACTGCTTAGGG-GATAAGATCTGTAAATTCAGCCTGTTACC-TACTGCTTAGGGGTTTAAGAC
*
92397342 CCTTCGTC-TTCGATCTGTTTCC
64 CCATCG-CATTCGATCTGTTTCC
* * * *
92397364 TTACTGCTTAGGGTGATGAGATCTGTAAATTCAGCCTATTAACCTACTGCTTAGGGGTTTAAGGC
1 CTACTGCTTAGGG-GATAAGATCTGTAAATTCAGCCTGTT-ACCTACTGCTTAGGGGTTTAAGAC
*
92397429 CCATCGCATTTGATCTGTTTCC
64 CCATCGCATTCGATCTGTTTCC
* * *
92397451 CTACTGCTTAGGGGTTTAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGT
1 CTACTGCTTAGGGGATAAGATCTGTAAATTCAGCCTGTTA-CCTACTGCTTAGGGGT
92397508 AAGATTTGTG
Statistics
Matches: 124, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
85 1 0.01
86 61 0.49
87 59 0.48
88 3 0.02
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (85 bp):
CTACTGCTTAGGGGATAAGATCTGTAAATTCAGCCTGTTACCTACTGCTTAGGGGTTTAAGACCC
ATCGCATTCGATCTGTTTCC
Found at i:92412570 original size:19 final size:20
Alignment explanation
Indices: 92412548--92412595 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
92412538 ATTAATATTT
92412548 TAAAATTTTTTTA-ACTTTA
1 TAAAATTTTTTTAGACTTTA
* *
92412567 T-AAATTTCTTTAGACTTTT
1 TAAAATTTTTTTAGACTTTA
92412586 TAAAATTTTT
1 TAAAATTTTT
92412596 ATAAATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 10 0.42
19 7 0.29
20 7 0.29
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (20 bp):
TAAAATTTTTTTAGACTTTA
Found at i:92412613 original size:28 final size:31
Alignment explanation
Indices: 92412563--92412625 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 31
92412553 TTTTTTTAAC
* * *
92412563 TTTATAAATTTCTTTAGACTTTTTAAAATT-
1 TTTATAAATATCTTTAGAATTTTAAAAATTA
92412593 TTTATAAATAT-TTT-GAATTTTAAAAATTA
1 TTTATAAATATCTTTAGAATTTTAAAAATTA
92412622 TTTA
1 TTTA
92412626 ATTTTTTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 12 0.41
29 7 0.24
30 10 0.34
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (31 bp):
TTTATAAATATCTTTAGAATTTTAAAAATTA
Found at i:92413950 original size:24 final size:24
Alignment explanation
Indices: 92413923--92413974 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
92413913 AGTCAATGTC
* *
92413923 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
92413947 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
92413971 AAAT
1 AAAT
92413975 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:92430010 original size:3 final size:3
Alignment explanation
Indices: 92430002--92430040 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
92429992 ATATATGCAT
92430002 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
92430041 TCTACAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:92430715 original size:12 final size:12
Alignment explanation
Indices: 92430698--92430730 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
92430688 TAGAAAGAAG
92430698 AAGAAAAAAACA
1 AAGAAAAAAACA
*
92430710 AAGAAAAAAAGA
1 AAGAAAAAAACA
92430722 AA-AAAAAAA
1 AAGAAAAAAA
92430731 TTCGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAACA
Found at i:92431928 original size:110 final size:107
Alignment explanation
Indices: 92431738--92431936 Score: 353
Period size: 110 Copynumber: 1.8 Consensus size: 107
92431728 TGTGAGCCGA
* *
92431738 GGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGAAAACAGAAATTAAAAGGTTCAACTCAC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAAGGCTCAACTCAC
92431803 CTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAG
66 CTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAG
92431845 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAACAGAAATTAAAAGGCTCAACT
92431910 CACCTCTCGCAATATGAGTTGATTTTT
63 CACCTCTCGCAATATGAGTTGATTTTT
92431937 TTTTTTGAAG
Statistics
Matches: 87, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
107 30 0.34
109 6 0.07
110 51 0.59
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (107 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAG
Found at i:92431938 original size:56 final size:54
Alignment explanation
Indices: 92431737--92431936 Score: 348
Period size: 56 Copynumber: 3.7 Consensus size: 54
92431727 ATGTGAGCCG
*
92431737 AGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTG-AAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
92431790 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
92431844 GGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAA
92431900 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
92431937 TTTTTTGAAG
Statistics
Matches: 139, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
53 36 0.26
54 50 0.36
56 53 0.38
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:92432092 original size:75 final size:76
Alignment explanation
Indices: 92431965--92432288 Score: 241
Period size: 75 Copynumber: 4.1 Consensus size: 76
92431955 TGAAAAATGA
* * * *
92431965 AAATTGAAAATACCTCGGCGTGTGACCTGAGACTCAACTCACTTCTCGCAATATGAGTTAATTTT
1 AAATTGAAATTACCTCAGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
92432030 TTTGATGAACAG
65 TTTGATGAACAG
* * *
92432042 AAATTGAAATTATCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCTCAATATGAGTTGA---TT
1 AAATTGAAATTACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
*
92432103 TTGACGAACAG
66 TTGATGAACAG
* ** *** * *
92432114 AAATTGAAA--AACAGAAATTGAAAATACCTCAGCACGTGAGCTGAAACTCAACTCACCTCTCAC
1 AAATTGAAATTACCTCAGCGTG----TACCT--G-A---G-GCT-CAA--C---TCACCTCTCGC
*
92432177 AATATGAGTTGATTTTTTTGATGAACAG
49 AATATGAGTTAATTTTTTTGATGAACAG
*
92432205 AAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGCTAATTTTT
1 AAATTGAAATTACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA-TTTT
*
92432269 TTTGA-AACACAG
65 TTTGATGA-ACAG
92432281 AAATTGAA
1 AAATTGAA
92432289 GAACAGAAAT
Statistics
Matches: 194, Mismatches: 28, Indels: 51
0.71 0.10 0.19
Matches are distributed among these distances:
70 5 0.03
72 21 0.11
74 1 0.01
75 56 0.29
76 21 0.11
77 21 0.11
78 2 0.01
80 2 0.01
81 4 0.02
82 4 0.02
83 2 0.01
85 2 0.01
86 1 0.01
88 25 0.13
89 1 0.01
91 21 0.11
93 5 0.03
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (76 bp):
AAATTGAAATTACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
TTGATGAACAG
Found at i:92432126 original size:14 final size:14
Alignment explanation
Indices: 92432109--92432137 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
92432099 GATTTTGACG
92432109 AACAGAAATTGAAA
1 AACAGAAATTGAAA
92432123 AACAGAAATTGAAA
1 AACAGAAATTGAAA
92432137 A
1 A
92432138 TACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:92432165 original size:163 final size:162
Alignment explanation
Indices: 92431900--92432950 Score: 754
Period size: 163 Copynumber: 6.3 Consensus size: 162
92431890 AGAAATTAAA
** *
92431900 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAGGCAGAAATTGAAAAA-TG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-------TTTTGAAAACAGAAATTGAAAAACAG
* * * *
92431964 AAAATTGAAAATACCTCGGCGTGTGACCTGAGACTCAACTCACTTCTCGCAATATGAGTTAATTT
59 -AAATTGAAAATACCTCAGCATGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTT
*
92432029 TTTTGATGAACAGAAATTGAAATTATCTCAGCGTGTCCTG
123 TTTTGATGAACAGAAATTGAAATTACCTCAGCGTGTCCTG
* *
92432069 AGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA-AAACAGAAATTGAAAAACAGAAATTG
* * * *
92432134 AAAATACCTCAGCACGTGAGCTGAAACTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAT
65 AAAATACCTCAGCATGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAT
92432199 GAACAGAAATTGAAATTACCTCAGCGTGTCCTG
130 GAACAGAAATTGAAATTACCTCAGCGTGTCCTG
** *
92432232 AGGCTCAACTCACCTCTCGCAATATGAGCTAATTTTTTTTGAAACACAGAAATTGAAGAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAG----TTGATTTTGAAA-ACAGAAATTGAAAAACAGAA
* * * * * *
92432297 ATGGAAAACACCTCAGAATATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
61 ATTGAAAATACCTCAGCATGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * ** *
92432362 T-A-AACACAAAAATTGAAAAACACCTCAGCGTGTGACCCG
126 TGATGA-ACAGAAATTG-AAATTACCTCAGCGTGT--CCTG
* * **
92432401 AGGCTCAACTCACCTTTCGCAATATGAGTTGAATTTTGAAAAACAGAAATT-AAAAGGCTCAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTG-AAAACAGAAATTGAAAA-ACAGAA--
* ** * ** * * * * * *
92432465 CACCTCTCGCAATATGAGTTGA-TTTTTGGAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGC
61 -A--T-T-G-AAAAT-ACCTCAGCATGT-G--ACCTGAGACT-CAA-------CTCACCTCTCGC
** * * **
92432529 AATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAA--AGGCTCAAC-TCACCT-
108 AATATGAGTTGATTTTTTTGATGAACAGAAATTGAAATTA-CCTCAGCGTGTCCTG
* * * * * *
92432578 ---CTC-A--CA-ATAT-G-AGT-TGA-TT-TTTTTGAAAAACAGAAATTGAAAAATAAAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAGAAATTGAAAAACAGAAATTG
* * * *
92432631 AAAATACCTCAGCACGTGAGCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTTGAT
65 AAAATACCTCAGCATGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAT
92432695 GAACAGAAATTGAAATTACCTCAGCGTGTCCTG
130 GAACAGAAATTGAAATTACCTCAGCGTGTCCTG
* * *
92432728 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACGGAAATTGAAGAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTGAAA-ACAGAAATTGAAAAACAGAAA
* * * * * *
92432793 TGGAAAACACCTCAGAATATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
62 TTGAAAATACCTCAGCATGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * ** *
92432858 -A-AACACAAAAATTGAAAAACACCTCAGCGTGTGACCCG
127 GATGA-ACAGAAATTG-AAATTACCTCAGCGTGT--CCTG
*
92432896 AGGCTCAACTCACCTTTCGCAATATGAGTTGAATTTTGAAAAACAGAAATT-AAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTG-AAAACAGAAATTGAAAA
92432951 GGCTCAACTC
Statistics
Matches: 697, Mismatches: 117, Indels: 140
0.73 0.12 0.15
Matches are distributed among these distances:
145 23 0.03
146 17 0.02
147 3 0.00
148 5 0.01
149 5 0.01
152 2 0.00
153 8 0.01
154 1 0.00
155 4 0.01
156 7 0.01
157 3 0.00
158 2 0.00
159 3 0.00
160 3 0.00
161 2 0.00
162 6 0.01
163 136 0.20
164 25 0.04
165 95 0.14
166 64 0.09
167 107 0.15
168 34 0.05
169 64 0.09
170 2 0.00
171 3 0.00
173 2 0.00
174 8 0.01
175 4 0.01
177 5 0.01
178 4 0.01
180 2 0.00
181 5 0.01
182 3 0.00
183 5 0.01
184 9 0.01
185 26 0.04
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (162 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAAACAGAAATTGA
AAATACCTCAGCATGTGACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATG
AACAGAAATTGAAATTACCTCAGCGTGTCCTG
Found at i:92432186 original size:88 final size:87
Alignment explanation
Indices: 92432037--92432213 Score: 239
Period size: 88 Copynumber: 2.0 Consensus size: 87
92432027 TTTTTTGATG
* * * ** *
92432037 AACAGAAATTGAAATTATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCTCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAGCGTGACCTGAAACTCAACTCACCTCTCACAATATGAGTTGAT
92432101 TTTTGACGAACAGAAATTGAAA
66 TTTTGACGAACAGAAATTGAAA
*
92432123 AACAGAAATTGAAAATACCTCAGCACGTGAGCTGAAACTCAACTCACCTCTCACAATATGAGTTG
1 AACAGAAATTGAAAATACCTCAG--CGTGACCTGAAACTCAACTCACCTCTCACAATATGAGTTG
*
92432188 ATTTTTTTGATGAACAGAAATTGAAA
64 A--TTTTTGACGAACAGAAATTGAAA
92432214 TTACCTCAGC
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
86 21 0.27
88 36 0.46
91 21 0.27
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (87 bp):
AACAGAAATTGAAAATACCTCAGCGTGACCTGAAACTCAACTCACCTCTCACAATATGAGTTGAT
TTTTGACGAACAGAAATTGAAA
Found at i:92432465 original size:54 final size:54
Alignment explanation
Indices: 92432401--92432620 Score: 377
Period size: 54 Copynumber: 4.0 Consensus size: 54
92432391 GTGTGACCCG
* *
92432401 AGGCTCAACTCACCTTTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
92432455 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
92432509 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
92432563 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAA
92432620 A
1 A
92432621 ATAAAAATTG
Statistics
Matches: 158, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
54 135 0.85
56 19 0.12
57 4 0.03
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:92432601 original size:330 final size:327
Alignment explanation
Indices: 92431676--92432764 Score: 1068
Period size: 330 Copynumber: 3.3 Consensus size: 327
92431666 GGTGTGTGAT
* * * * **
92431676 CCTCTTGCAATATGAGTTGA---TTTGACGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGA
1 CCTCTCGCAATATGAGTTGATTTTTTTATGAACAGAAATTGAAAATACCTCAGC--GTGTCCCGA
* * *
92431738 GGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTG-AAAACAGAAATTAAAAGGTTCAACTCA
64 GGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTAAAAGGCTCAACTCA
*
92431802 CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGGGCTCAACTCACCTCTCGCAAT
129 CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAAT
92431867 ATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
194 ATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
** * *
92431932 TTTTTTTTTTTG-AAGGCAGAAATTGAAAAATGAAAATTGAAAATACCTCGGCGTGTGACCTGAG
258 ---TTTTTTTTGAAAAACAGAAATTGAAAAA-G-AAATTGAAAATACCTCAGCATGTGACCTGAG
*
92431996 ACTCAACTCA
318 GCTCAACTCA
* * * * *
92432006 CTTCTCGCAATATGAGTTAATTTTTTTGATGAACAGAAATTGAAATTATCTCAGCGTGTCCTGAG
1 CCTCTCGCAATATGAGTTGATTTTTTT-ATGAACAGAAATTGAAAATACCTCAGCGTGTCCCGAG
* ** * **
92432071 GCTCAACTCACCTCTCTCAATATGAGTTG-ATTTTGACGAACAGAAATTGAAAA-ACAGAA---A
65 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATT-AAAAGGCTCAACTCA
** * ** * ** * *
92432131 --T-T-G-AA-A--A--T-A--CCT-CAGCAC-GTGAGCTGAAA--CTCAACTCACCTCTCACAA
129 CCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-AAATTAAAAGGCTCAACTCACCTCTCGCAA
* *
92432179 TATGAGTTGATTTTTTTGATGAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA
193 TATGAGTTGA-TTTTTTGA--AA-A-ACA--GAAATTA----A---------AAGGCTCAACTCA
* * * * *
92432244 CCTCTCGCAATATGAGCTAATTTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACC
238 CCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTGAA-AA-AGAAATTGAAAATACC
* * *
92432309 TCAGAATATGACCCGAGGCTCAACTCA
301 TCAGCATGTGACCTGAGGCTCAACTCA
* * *
92432336 CCTCTCGCAATATGAGTTGATTTTTTTA-AACACAAAAATTGAAAAACACCTCAGCGTGTGACCC
1 CCTCTCGCAATATGAGTTGATTTTTTTATGA-ACAGAAATTG-AAAATACCTCAGCGTGT--CCC
*
92432400 GAGGCTCAACTCACCTTTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTAAAAGGCTCAACT
62 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
92432465 CACCTCTCGCAATATGAGTTGATTTTTGGAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCA
127 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCA
*
92432530 ATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCACAATATGAGTTG
192 ATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
92432594 A-TTTTTTTGAAAAACAGAAATTGAAAAATAAAAATTGAAAATACCTCAGCACGTGAGCTGAGGC
257 ATTTTTTTTGAAAAACAGAAATTG-AAAA-AGAAATTGAAAATACCTCAGCATGTGACCTGAGGC
92432658 TCAACTCA
320 TCAACTCA
* * * *
92432666 CCTCTCACAATATGAGTTGATTTTTTGATGAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
1 CCTCTCGCAATATGAGTTGATTTTTTTATGAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGG
* *
92432731 CTCAACTCACCTCTCGCAATATGAGCTGATTTTT
66 CTCAACTCACCTCTCGCAATATGAGTTGAATTTT
92432765 TTGAAACACG
Statistics
Matches: 607, Mismatches: 95, Indels: 117
0.74 0.12 0.14
Matches are distributed among these distances:
313 37 0.06
314 1 0.00
315 9 0.01
316 2 0.00
317 2 0.00
318 1 0.00
319 8 0.01
321 1 0.00
323 2 0.00
324 2 0.00
325 1 0.00
326 1 0.00
327 38 0.06
328 1 0.00
329 35 0.06
330 195 0.32
331 40 0.07
332 113 0.19
333 27 0.04
334 23 0.04
336 1 0.00
338 1 0.00
339 1 0.00
340 2 0.00
341 2 0.00
342 1 0.00
344 8 0.01
346 3 0.00
347 2 0.00
348 2 0.00
349 1 0.00
350 15 0.02
351 1 0.00
352 28 0.05
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (327 bp):
CCTCTCGCAATATGAGTTGATTTTTTTATGAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGG
CTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTTGAAAAACAGAAATTGAAAAAGAAATTGAAAATACCTCAGCATGTGACCTGAGGCTCAACT
CA
Found at i:92432619 original size:14 final size:14
Alignment explanation
Indices: 92432600--92432634 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
92432590 GTTGATTTTT
*
92432600 TTGAAAAACAGAAA
1 TTGAAAAACAAAAA
*
92432614 TTGAAAAATAAAAA
1 TTGAAAAACAAAAA
92432628 TTGAAAA
1 TTGAAAA
92432635 TACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAAAAA
Found at i:92432751 original size:74 final size:75
Alignment explanation
Indices: 92432625--92432765 Score: 221
Period size: 74 Copynumber: 1.9 Consensus size: 75
92432615 TGAAAAATAA
* *
92432625 AAATTGAAAATACCTCAGCACGTGAGCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAG-ACGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGCTGATTTT
92432690 TTGATGAACAG
65 TTGATGAACAG
* * *
92432701 AAATTGAAATTACCTCAG-CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AAATTGAAAATACCTCAGACGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTT
92432765 T
66 T
92432766 TGAAACACGG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 43 0.72
76 17 0.28
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (75 bp):
AAATTGAAAATACCTCAGACGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTT
TGATGAACAG
Found at i:92432841 original size:495 final size:495
Alignment explanation
Indices: 92432069--92433112 Score: 1925
Period size: 495 Copynumber: 2.1 Consensus size: 495
92432059 GCGTGTCCTG
* ** *
92432069 AGGCTCAACTCACCTCTCTCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAACAGAAATT
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAACAAAAATT
92432133 GAAAATACCTCAGCACGTGAGCTGAAACTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGA
66 GAAAATACCTCAGCACGTGAGCTGAAACTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGA
92432198 TGAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTA
131 TGAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTA
92432263 ATTTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGAATATGACCCGAGGC
196 ATTTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGAATATGACCCGAGGC
92432328 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAACACAAAAATTGAAAAACACCTCAGCGT
261 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAACACAAAAATTGAAAAACACCTCAGCGT
92432393 GTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTAAAAGG
326 GTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTAAAAGG
92432458 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAACAGAAATTAAAAGGCTCAACTCACC
391 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAACAGAAATTAAAAGGCTCAACTCACC
92432523 TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
456 TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
92432563 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATAAAAA
1 AGGCTCAACTCACCTCTCACAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAAACAAAAA
**
92432628 TTGAAAATACCTCAGCACGTGAGCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTT
64 TTGAAAATACCTCAGCACGTGAGCTGAAACTCAACTCACCTCTCACAATATGAGTTGATTTTTTT
92432692 GATGAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGC
129 GATGAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGC
* *
92432757 TGA-TTTTTTTGAAACACGGAAATTGAAGAACAGAAATGGAAAACACCTCAGAATATGACCCGAG
194 TAATTTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGAATATGACCCGAG
92432821 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAACACAAAAATTGAAAAACACCTCAGC
259 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAACACAAAAATTGAAAAACACCTCAGC
92432886 GTGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTAAAA
324 GTGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTAAAA
*
92432951 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAACATAAATTAAAAGGCTCAACTCA
389 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAACAGAAATTAAAAGGCTCAACTCA
92433016 CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
454 CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* * *
92433058 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATT-AAAA
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
92433113 GGCTCAACTC
Statistics
Matches: 534, Mismatches: 13, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
492 4 0.01
493 18 0.03
494 31 0.06
495 326 0.61
496 73 0.14
497 82 0.15
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (495 bp):
AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAACAAAAATT
GAAAATACCTCAGCACGTGAGCTGAAACTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGA
TGAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTA
ATTTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGAATATGACCCGAGGC
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAACACAAAAATTGAAAAACACCTCAGCGT
GTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTAAAAGG
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAACAGAAATTAAAAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:92433375 original size:56 final size:54
Alignment explanation
Indices: 92432896--92433369 Score: 795
Period size: 54 Copynumber: 8.7 Consensus size: 54
92432886 GTGTGACCCG
* *
92432896 AGGCTCAACTCACCTTTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
92432950 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAACATAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
92433004 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
92433058 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
92433112 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACATAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAA
*
92433167 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAA
* *
92433223 AGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
92433277 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAA
*
92433333 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
92433370 TTGAAACTTA
Statistics
Matches: 397, Mismatches: 19, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
54 242 0.61
55 50 0.13
56 105 0.26
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:92433496 original size:72 final size:73
Alignment explanation
Indices: 92433381--92433540 Score: 261
Period size: 72 Copynumber: 2.2 Consensus size: 73
92433371 TGAAACTTAA
** *
92433381 TTTGAAAAGCAGATTTTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
92433446 AGTTGAA-T
65 AGTTGAATT
*
92433454 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
92433519 GTTGAATT
66 GTTGAATT
92433527 TTTG-AAACAGAAAT
1 TTTGAAAACAGAAAT
92433541 AAAAGCATCA
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
72 69 0.84
73 13 0.16
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (73 bp):
TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGAATT
Found at i:92440891 original size:3 final size:3
Alignment explanation
Indices: 92440883--92440912 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
92440873 ATATATGCAT
92440883 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
92440913 TCTACAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:92441028 original size:37 final size:37
Alignment explanation
Indices: 92440957--92441028 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
92440947 AAATATATAT
* *
92440957 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
92440994 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
92441029 TAAAAAAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:92442489 original size:18 final size:20
Alignment explanation
Indices: 92442451--92442490 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
92442441 TTATTTTCTT
*
92442451 TATAAATTTTATATATTAAA
1 TATAAAATTTATATATTAAA
92442471 TATAAAATTTAT-T-TTAAA
1 TATAAAATTTATATATTAAA
92442489 TA
1 TA
92442491 AATTATCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 11 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATAAAATTTATATATTAAA
Found at i:92445488 original size:17 final size:17
Alignment explanation
Indices: 92445442--92445488 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
92445432 TTAAAAAATG
92445442 TTATATATTTATTTCAAA
1 TTAT-TATTTATTTCAAA
*
92445460 TTATT-TTATATTTTAAA
1 TTATTATT-TATTTCAAA
92445477 TTATTATTTATT
1 TTATTATTTATT
92445489 ATGTATTTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 18 0.69
18 6 0.23
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTATTTATTTCAAA
Found at i:92449781 original size:19 final size:19
Alignment explanation
Indices: 92449761--92449802 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
92449751 TTGTTTTGCA
*
92449761 TTCATTCATTTGCATTACAT
1 TTCA-TCATGTGCATTACAT
*
92449781 TTCATCATGTGCATTAAAT
1 TTCATCATGTGCATTACAT
92449800 TTC
1 TTC
92449803 GTGAAAAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (19 bp):
TTCATCATGTGCATTACAT
Found at i:92457845 original size:66 final size:66
Alignment explanation
Indices: 92457739--92457904 Score: 203
Period size: 66 Copynumber: 2.5 Consensus size: 66
92457729 CATTCATACA
* * *
92457739 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAGTTATTTGA
1 TCATTCATAACACATCTAATTAAGAGCATTTGATTCATTTCAATCATACCATCCTAATTATTTGA
92457804 T
66 T
* * *
92457805 TCATTCATAACA-AGTTTAATTAAGAGCATTTGATTCATTTCGATCATACCATCCTAATTATTTA
1 TCATTCATAACACA-TCTAATTAAGAGCATTTGATTCATTTCAATCATACCATCCTAATTATTTG
*
92457869 AC
65 AT
* * * *
92457871 ACATTCAT--CACATCTAGTTAGGAGTATTTGATTC
1 TCATTCATAACACATCTAATTAAGAGCATTTGATTC
92457905 GACCATAGCA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
64 20 0.23
65 2 0.02
66 64 0.74
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (66 bp):
TCATTCATAACACATCTAATTAAGAGCATTTGATTCATTTCAATCATACCATCCTAATTATTTGA
T
Found at i:92458311 original size:43 final size:42
Alignment explanation
Indices: 92458259--92458502 Score: 179
Period size: 43 Copynumber: 5.7 Consensus size: 42
92458249 TGATGGGCTT
*
92458259 TAACCCCCTAAGCAGTAGGGTAACAAGCCGCATTTATAGATCC
1 TAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTA-AGATCC
* * * * **
92458302 TAACCCCCTAAGCAGTAGGGAAAC-AGATCGAAGGTGAAGGGCC
1 TAACCCCCTAAGCAGTAGGGTAACAAG-CCGAA-TTTAAGATCC
* ** **
92458345 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATAT
1 -TAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTA-AGATCC
* * *** **
92458389 TAA-CCCCTAAGCAGTAGGGAAAC-AGATCGAAGGCGAAGGGCC
1 TAACCCCCTAAGCAGTAGGGTAACAAG-CCGAA-TTTAAGATCC
* * *
92458431 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCT
1 -TAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTA-AGATCC
*
92458475 TAACCCCCTAAGTAGTAGGGTAACAAGC
1 TAACCCCCTAAGCAGTAGGGTAACAAGC
92458503 TGGAAATCAA
Statistics
Matches: 148, Mismatches: 42, Indels: 22
0.70 0.20 0.10
Matches are distributed among these distances:
41 1 0.01
42 25 0.17
43 66 0.45
44 54 0.36
45 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.18
Consensus pattern (42 bp):
TAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTAAGATCC
Found at i:92458365 original size:44 final size:44
Alignment explanation
Indices: 92458302--92458457 Score: 183
Period size: 44 Copynumber: 3.6 Consensus size: 44
92458292 TTATAGATCC
92458302 TAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGAAGGGCCT
1 TAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGAAGGGCCT
* * * ** * ***
92458346 TAACCCCCTAAGCAGTAGGGTAACAG-GCTAAATTTACA-GATAT
1 TAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGA-AGGGCCT
*
92458389 TAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGGCGAAGGGCCT
1 TAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGAAGGGCCT
*
92458432 TAACCCCCTAAGCAGTAGGGTAACAG
1 TAACCCCCTAAGCAGTAGGGAAACAG
92458458 GCTGAATTTA
Statistics
Matches: 88, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
42 22 0.25
43 19 0.22
44 47 0.53
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (44 bp):
TAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGAAGGGCCT
Found at i:92458430 original size:86 final size:87
Alignment explanation
Indices: 92458253--92458499 Score: 388
Period size: 86 Copynumber: 2.9 Consensus size: 87
92458243 CAAAGATGAT
* * * * * *
92458253 GGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGCATTTATAGATCCTAACCCCCTAAGCAGT
1 GGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGT
*
92458318 AGGGAAACAGATCGAAGGTGAA
66 AGGGAAACAGATCGAAGGCGAA
* *
92458340 GGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATATTAA-CCCCTAAGCAGT
1 GGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGT
92458404 AGGGAAACAGATCGAAGGCGAA
66 AGGGAAACAGATCGAAGGCGAA
*
92458426 GGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGTAGT
1 GGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGT
*
92458491 AGGGTAACA
66 AGGGAAACA
92458500 AGCTGGAAAT
Statistics
Matches: 146, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
86 83 0.57
87 63 0.43
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (87 bp):
GGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGT
AGGGAAACAGATCGAAGGCGAA
Found at i:92460228 original size:17 final size:17
Alignment explanation
Indices: 92460182--92460228 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
92460172 TTAAAAAATG
92460182 TTATATATTTATTTCAAA
1 TTAT-TATTTATTTCAAA
*
92460200 TTATT-TTATATTTTAAA
1 TTATTATT-TATTTCAAA
92460217 TTATTATTTATT
1 TTATTATTTATT
92460229 ATGTATTTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 18 0.69
18 6 0.23
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTATTTATTTCAAA
Found at i:92462287 original size:20 final size:19
Alignment explanation
Indices: 92462262--92462302 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
92462252 GAAAAGCTTG
92462262 CATATTATATATATCTTTCT
1 CATATTATATATAT-TTTCT
* *
92462282 CATATTTTTTATATTTTCT
1 CATATTATATATATTTTCT
92462301 CA
1 CA
92462303 ATGCTCCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.59
Consensus pattern (19 bp):
CATATTATATATATTTTCT
Found at i:92464133 original size:21 final size:22
Alignment explanation
Indices: 92464107--92464148 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
92464097 GTGTATTTTG
92464107 ATGTTTAATGG-TAGA-AAATGC
1 ATGTTT-ATGGTTAGAGAAATGC
92464128 ATGTTTATGGTTAGAGAAATG
1 ATGTTTATGGTTAGAGAAATG
92464149 ACTTTTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (22 bp):
ATGTTTATGGTTAGAGAAATGC
Found at i:92464357 original size:30 final size:31
Alignment explanation
Indices: 92464321--92464378 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
92464311 TTTACGAGCC
*
92464321 TAGGGGCAAAAGTGTAAA-TATGATAAAGTT
1 TAGGGGCAAAAATGTAAATTATGATAAAGTT
*
92464351 TAGGGGCAAAAATGTAAATTTTGATAAA
1 TAGGGGCAAAAATGTAAATTATGATAAA
92464379 ATGTGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.45, C:0.03, G:0.24, T:0.28
Consensus pattern (31 bp):
TAGGGGCAAAAATGTAAATTATGATAAAGTT
Done.