Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 229 of 311
Found at i:77707616 original size:96 final size:96
Alignment explanation
Indices: 77707421--77707882 Score: 611
Period size: 96 Copynumber: 4.8 Consensus size: 96
77707411 TTCAATCTTC
* * * * * * *
77707421 TCCACTGCAACTTCAGGGAGATAAGATTCATAACTCATAGCTTTAATTTGTTCCACTACAACCTC
1 TCCACTGCAACTTTAGGGAAATAAGATTC---ACT-AT--CTTCAATCTGCTCCACTGCAACTTC
**
77707486 AAAGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
60 AGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
77707523 TCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * *
77707588 ATAAGGTTTGTAACTTGTAGCTTTAATCTAT
66 ATAAGATTTATAACTTGTAGCTTTAATCTGT
* ** * * *
77707619 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCCTCAATCTGCTCTACTGCAACTTCAAGGAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
*
77707684 ATAAGATTTATAACTTGTAGCTCTAATCTGT
66 ATAAGATTTATAACTTGTAGCTTTAATCTGT
* * * * *
77707715 TCCACTGTAACTTTAGGGAAATAATATTCGCTATCTTCAATCTACTTCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
*
77707780 ATAAGATTTATAACTTGTAACTTTAATCTGT
66 ATAAGATTTATAACTTGTAGCTTTAATCTGT
* * *
77707811 TCCACTGCAACTTTAGGGAAATAAGATTTAC-AACTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
77707875 ATAAGATT
66 ATAAGATT
77707883 GGTCATGATG
Statistics
Matches: 319, Mismatches: 41, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
95 37 0.12
96 250 0.78
98 2 0.01
99 3 0.01
102 27 0.08
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (96 bp):
TCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTTATAACTTGTAGCTTTAATCTGT
Found at i:77710865 original size:13 final size:13
Alignment explanation
Indices: 77710847--77710881 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
77710837 TTGACATGTT
77710847 TGAAAATTTCGTG
1 TGAAAATTTCGTG
77710860 TGAAAATTTCGTG
1 TGAAAATTTCGTG
77710873 TGAAAATTT
1 TGAAAATTT
77710882 TATCATTCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (13 bp):
TGAAAATTTCGTG
Found at i:77712327 original size:43 final size:42
Alignment explanation
Indices: 77712215--77712332 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
77712205 TGTGTTATCG
* * * *
77712215 TGTAAGACCACGTCTGGGATGTTGGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTACA
* * *
77712257 TGTAAGACCCTGCCTGGGACAG-AGGCATCGGTATTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATC-GTATTTGATTACA
* *
77712300 TGTAAGACCATGTCTAGGACGTTGGCATTGTAT
1 TGTAAGACCATGTCTGGGACGTTGGCATCGTAT
77712333 GAACTTTCCA
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTACA
Found at i:77712529 original size:20 final size:20
Alignment explanation
Indices: 77712504--77712544 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
77712494 GATATAAGTA
77712504 TGAGAATGAGTTATTATATG
1 TGAGAATGAGTTATTATATG
77712524 TGAGAATGAGTTATTATATG
1 TGAGAATGAGTTATTATATG
77712544 T
1 T
77712545 ATATGTGAAT
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:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (20 bp):
TGAGAATGAGTTATTATATG
Found at i:77713945 original size:13 final size:14
Alignment explanation
Indices: 77713924--77713953 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
77713914 TCTATTTACT
*
77713924 AATTTTTTTTCTAG
1 AATTTTTTGTCTAG
77713938 AATTTTTTGTCTAG
1 AATTTTTTGTCTAG
77713952 AA
1 AA
77713954 AATTAGTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (14 bp):
AATTTTTTGTCTAG
Found at i:77715130 original size:93 final size:93
Alignment explanation
Indices: 77715018--77715188 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
77715008 GCCGATAAGT
* * *
77715018 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77715083 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
77715111 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
77715176 CGAGTTCGGATGC
66 CGAGCTCGGATGC
77715189 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:77715185 original size:46 final size:46
Alignment explanation
Indices: 77715012--77715185 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
77715002 TAACCCGCCG
* *
77715012 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
* * *
77715058 ATAAGTGAACTCGGACTCAACTTAACGAGCTCGG--ATGC-CTAGTTAC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--TCC
*** *
77715104 ATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
*
77715151 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
77715186 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
Found at i:77720040 original size:47 final size:46
Alignment explanation
Indices: 77719940--77720212 Score: 332
Period size: 46 Copynumber: 5.9 Consensus size: 46
77719930 CGACATGATA
* ** * * * *
77719940 CCATAGTATCTTTCAACTGTGGTTTTACTCGTTTTC-TGTCATGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACAC-ATTTCATGTCAGGTTG
* * ** ** *
77719986 TCATGGTATCTTTCAACCATAGTCTTATTCATTTTCCCGTCATGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCAGGTTG
* * *
77720033 TCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGTTA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGTTG
* *
77720079 CCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGTTG
*
77720125 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGTTG
*
77720171 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAG
77720213 ATAGCACACT
Statistics
Matches: 202, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
46 165 0.82
47 37 0.18
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGTTG
Found at i:77723916 original size:17 final size:17
Alignment explanation
Indices: 77723890--77723941 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
77723880 TTAATAACGA
*
77723890 ATGTAAATATAAATAAT
1 ATGTATATATAAATAAT
*
77723907 ATGTATATATGTAAAAAAT
1 ATGTATATA--TAAATAAT
* *
77723926 ATATATAAATAAATAA
1 ATGTATATATAAATAA
77723942 CAAGCGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 14 0.50
19 14 0.50
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
ATGTATATATAAATAAT
Found at i:77724028 original size:26 final size:28
Alignment explanation
Indices: 77723983--77724043 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 28
77723973 ATAAATTTTA
77723983 AAATAAA-AAGTAAGACAATAAT-AAAT
1 AAATAAATAAGTAAGACAATAATAAAAT
*
77724009 AAATAAATAAGTAA-ATAATAATAAAAT
1 AAATAAATAAGTAAGACAATAATAAAAT
77724036 AAA-AAATA
1 AAATAAATA
77724044 CATGAAAGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (28 bp):
AAATAAATAAGTAAGACAATAATAAAAT
Found at i:77724119 original size:52 final size:48
Alignment explanation
Indices: 77724012--77724119 Score: 112
Period size: 53 Copynumber: 2.1 Consensus size: 48
77724002 AATAAATAAA
77724012 TAAATAAGTAAATAATAATAAAATAAAAAATACATGAAAGGCTGAAAT
1 TAAATAAGTAAATAATAATAAAATAAAAAATACATGAAAGGCTGAAAT
* * *
77724060 TGCAATAA-TAAATAAATAAGTACATAATAATAAATTTCATGAAAGGCT-AGAAT
1 T-AAATAAGTAAAT-AATAA-TA-A-AATAA-AAAATACATGAAAGGCTGA-AAT
77724113 TAAATAA
1 TAAATAA
77724120 ATAAGGGACT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
48 6 0.12
49 10 0.20
50 2 0.04
51 1 0.02
52 11 0.22
53 19 0.39
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.26
Consensus pattern (48 bp):
TAAATAAGTAAATAATAATAAAATAAAAAATACATGAAAGGCTGAAAT
Found at i:77725822 original size:72 final size:72
Alignment explanation
Indices: 77725733--77725911 Score: 234
Period size: 72 Copynumber: 2.5 Consensus size: 72
77725723 GATATATATC
* * * ** *
77725733 GCGGATTCTCTAAAGCTTGTGTGAGCAGTATCGGATCATTCTTTATCGATGACTTGAGATTCGAC
1 GCGGATTCTCTGAAGCTTGTGTGAGCAGCACCAAATCATTCTTTATCGATGACTTGAGATTCGAA
*
77725798 ATATGTT
66 ACATGTT
* * * * *
77725805 GTGGATTCTTTGAAGCTTGTGTGAGCAGCACCAAATCATTTTTTATCGGTGGCTTGAGATTCGAA
1 GCGGATTCTCTGAAGCTTGTGTGAGCAGCACCAAATCATTCTTTATCGATGACTTGAGATTCGAA
77725870 ACATGTT
66 ACATGTT
*
77725877 GCGAATTCTCTGAAGCTTGTGTGAGCAGC-CCAAAT
1 GCGGATTCTCTGAAGCTTGTGTGAGCAGCACCAAAT
77725912 ATGTCAACGT
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
71 6 0.07
72 86 0.93
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (72 bp):
GCGGATTCTCTGAAGCTTGTGTGAGCAGCACCAAATCATTCTTTATCGATGACTTGAGATTCGAA
ACATGTT
Found at i:77728138 original size:12 final size:12
Alignment explanation
Indices: 77728114--77728148 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
77728104 TTGAAAATGT
77728114 ATCTGATTATGC
1 ATCTGATTATGC
77728126 ATCTGCATT-TGC
1 ATCTG-ATTATGC
77728138 ATCTGATTATG
1 ATCTGATTATG
77728149 AAAGTATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.14
12 15 0.71
13 3 0.14
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (12 bp):
ATCTGATTATGC
Found at i:77728883 original size:25 final size:26
Alignment explanation
Indices: 77728842--77728900 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
77728832 TTGTAGATAA
77728842 TATTAA-ATTAAATTTAA-AATAATCAC
1 TATTAATATTAAATTTAATAA-AAT-AC
77728868 T-TTAATATTAAA-TTAATAAAATAC
1 TATTAATATTAAATTTAATAAAATAC
77728892 TATTAATAT
1 TATTAATAT
77728901 AAGTAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 3 0.10
25 18 0.60
26 9 0.30
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (26 bp):
TATTAATATTAAATTTAATAAAATAC
Found at i:77730046 original size:52 final size:52
Alignment explanation
Indices: 77729984--77730091 Score: 207
Period size: 52 Copynumber: 2.1 Consensus size: 52
77729974 TACAATCCTT
77729984 AACAAGTGACCAAAAATGACAACATTTGGTAAACATTAAAGTGCACCAACCA
1 AACAAGTGACCAAAAATGACAACATTTGGTAAACATTAAAGTGCACCAACCA
*
77730036 AACAAGTGACCTAAAATGACAACATTTGGTAAACATTAAAGTGCACCAACCA
1 AACAAGTGACCAAAAATGACAACATTTGGTAAACATTAAAGTGCACCAACCA
77730088 AACA
1 AACA
77730092 TAATTTTTAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.48, C:0.21, G:0.13, T:0.18
Consensus pattern (52 bp):
AACAAGTGACCAAAAATGACAACATTTGGTAAACATTAAAGTGCACCAACCA
Found at i:77731120 original size:53 final size:53
Alignment explanation
Indices: 77731055--77731162 Score: 173
Period size: 53 Copynumber: 2.0 Consensus size: 53
77731045 GTTTATCTTG
* *
77731055 ATTTAAATAGATAATTTCAATCAATTAAGCACA-GTTAATATTCAATTTAATCC
1 ATTTAAAAAGATAATTTCAATCAATTAAGCA-ATCTTAATATTCAATTTAATCC
*
77731108 ATTTAAAAAGATAATTTCAATCAATTAAGTAATCTTAATATTCAATTTAATCC
1 ATTTAAAAAGATAATTTCAATCAATTAAGCAATCTTAATATTCAATTTAATCC
77731161 AT
1 AT
77731163 AGTTCACATT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 1 0.02
53 50 0.98
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (53 bp):
ATTTAAAAAGATAATTTCAATCAATTAAGCAATCTTAATATTCAATTTAATCC
Found at i:77732960 original size:13 final size:13
Alignment explanation
Indices: 77732942--77732972 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
77732932 AATGTGATAA
77732942 GAATAATTATGTT
1 GAATAATTATGTT
77732955 GAATAATTATGTT
1 GAATAATTATGTT
*
77732968 AAATA
1 GAATA
77732973 TAGAGAAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (13 bp):
GAATAATTATGTT
Found at i:77736163 original size:72 final size:72
Alignment explanation
Indices: 77735921--77736224 Score: 289
Period size: 72 Copynumber: 4.3 Consensus size: 72
77735911 CATGAGATCC
* * * * * * * * *
77735921 TTCTCTCAAGCTTGTGTGAACAGAATTGAATCATTCTTTATTGATGGCTTAAAATCAGGCAT-TG
1 TTCTCTGAAGCTTGTGTGAGCAGTATCGAATCATTCTTTATCGATGGCTTGAGATCCGACATATG
77735985 -T--GGA
66 TTGCGGA
* * * * * * *
77735989 TTCTTTAAAGCTTGTGTGAGGAGCATCGAACCATTCTTTATCGATGGTTTGAGATCTGACATATG
1 TTCTCTGAAGCTTGTGTGAGCAGTATCGAATCATTCTTTATCGATGGCTTGAGATCCGACATATG
*
77736054 ATGC--A
66 TTGCGGA
* * * *
77736059 TTCTCTGAGGTTTGTGTGAGCA-TCATAGAATCATTCTTTATCGGTGGCTTGAGATCCGACATAT
1 TTCTCTGAAGCTTGTGTGAGCAGT-ATCGAATCATTCTTTATCGATGGCTTGAGATCCGACATAT
77736123 GTTGCGGA
65 GTTGCGGA
* * * *
77736131 TTCTCTGAAGTTTGTGTGAGCAGTATCGAATCATTCTTTATCGGTGGCTTGAGATCCAACACATG
1 TTCTCTGAAGCTTGTGTGAGCAGTATCGAATCATTCTTTATCGATGGCTTGAGATCCGACATATG
**
77736196 TTATGGA
66 TTGCGGA
* *
77736203 ATCTCTGAAGCTTGTGCGAGCA
1 TTCTCTGAAGCTTGTGTGAGCA
77736225 ACACCCAATA
Statistics
Matches: 194, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
68 49 0.25
69 2 0.01
70 58 0.30
72 84 0.43
73 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (72 bp):
TTCTCTGAAGCTTGTGTGAGCAGTATCGAATCATTCTTTATCGATGGCTTGAGATCCGACATATG
TTGCGGA
Found at i:77736353 original size:3 final size:3
Alignment explanation
Indices: 77736345--77736370 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
77736335 AATTTGGATG
77736345 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
77736371 TCGTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:77737201 original size:32 final size:32
Alignment explanation
Indices: 77737153--77737217 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
77737143 TCGGTCAAGC
* *
77737153 GGTGGACTGTTGCTGATGGTGCAAGGAATTTG
1 GGTGGACTGCTACTGATGGTGCAAGGAATTTG
77737185 GGTGGACTGCTACTGATGGTGCAAGGAATTTG
1 GGTGGACTGCTACTGATGGTGCAAGGAATTTG
77737217 G
1 G
77737218 ATGGGATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.20, C:0.11, G:0.40, T:0.29
Consensus pattern (32 bp):
GGTGGACTGCTACTGATGGTGCAAGGAATTTG
Found at i:77738869 original size:20 final size:21
Alignment explanation
Indices: 77738826--77738871 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
77738816 ACTATTTTGT
77738826 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
77738846 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
77738865 TATGGGC
1 TATGGGC
77738872 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:77744882 original size:15 final size:14
Alignment explanation
Indices: 77744861--77744900 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
77744851 TTAAAATTAG
77744861 TATAATTTTTTAAT
1 TATAATTTTTTAAT
77744875 TAATAA--TTTTAAT
1 T-ATAATTTTTTAAT
77744888 TATAATTTTTTAA
1 TATAATTTTTTAA
77744901 AATGTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 4 0.17
13 8 0.35
14 7 0.30
15 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATAATTTTTTAAT
Found at i:77744892 original size:12 final size:13
Alignment explanation
Indices: 77744868--77744896 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
77744858 TAGTATAATT
77744868 TTTTAATTAATAA
1 TTTTAATTAATAA
77744881 TTTTAATT-ATAA
1 TTTTAATTAATAA
77744893 TTTT
1 TTTT
77744897 TTAAAATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAATTAATAA
Found at i:77749626 original size:229 final size:229
Alignment explanation
Indices: 77749218--77749671 Score: 872
Period size: 229 Copynumber: 2.0 Consensus size: 229
77749208 TATGAATGGT
77749218 GATTAATATTTATGTATGTTAATTGTTGAAAATAAGTAAATTATGTACAAAAGTTATGAAATCGA
1 GATTAATATTTATGTATGTTAATTGTTGAAAATAAGTAAATTATGTACAAAAGTTATGAAATCGA
77749283 ACTGAGTATTTCGGAAGAACGGAACGCAGGAAATGAGTACAATCGTTCAGTGAAAAAGATGAATT
66 ACTGAGTATTTCGGAAGAACGGAACGCAGGAAATGAGTACAATCGTTCAGTGAAAAAGATGAATT
* *
77749348 GACGGTAAATTACCCAAGTAAATCGAGATTCAGCATTTGTTGTGAATTCTCGTGTTTTCTTTTCA
131 GACGGTAAATTACCCAAGTAAATCGAGATTCAGCATTTGTTGCGAATTCTCGTGTTTGCTTTTCA
77749413 TTTAGCTCTTACGAGCTTCCGTTAACTCATCAGG
196 TTTAGCTCTTACGAGCTTCCGTTAACTCATCAGG
77749447 GATTAATATTTATGTATGTTAATTGTTGAAAATAAGTAAATTATGTACAAAAGTTATGAAATCGA
1 GATTAATATTTATGTATGTTAATTGTTGAAAATAAGTAAATTATGTACAAAAGTTATGAAATCGA
*
77749512 ACTGAGTATTTCGGAGGAACGGAACGCAGGAAATGAGTACAATCGTTCAGTGAAAAAGATGAATT
66 ACTGAGTATTTCGGAAGAACGGAACGCAGGAAATGAGTACAATCGTTCAGTGAAAAAGATGAATT
*
77749577 GACGGTAAATTACCCAAGTAAATCGAGATTCAGCATTTGTTGCGAATTCTCGTGTTTGCTTTTCG
131 GACGGTAAATTACCCAAGTAAATCGAGATTCAGCATTTGTTGCGAATTCTCGTGTTTGCTTTTCA
77749642 TTTAGCTCTTACGAGCTTCCGTTAACTCAT
196 TTTAGCTCTTACGAGCTTCCGTTAACTCAT
77749672 ATGAGTTTCA
Statistics
Matches: 221, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
229 221 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (229 bp):
GATTAATATTTATGTATGTTAATTGTTGAAAATAAGTAAATTATGTACAAAAGTTATGAAATCGA
ACTGAGTATTTCGGAAGAACGGAACGCAGGAAATGAGTACAATCGTTCAGTGAAAAAGATGAATT
GACGGTAAATTACCCAAGTAAATCGAGATTCAGCATTTGTTGCGAATTCTCGTGTTTGCTTTTCA
TTTAGCTCTTACGAGCTTCCGTTAACTCATCAGG
Found at i:77750598 original size:46 final size:46
Alignment explanation
Indices: 77750463--77750598 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
77750453 TTTGACATGA
* * * * * *
77750463 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*
77750509 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
77750555 TGCCATTGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
77750599 AAAGCACACT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 4 0.05
46 77 0.95
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:77753069 original size:29 final size:30
Alignment explanation
Indices: 77753019--77753086 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
77753009 CACCCTTAAA
* * *
77753019 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
77753049 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
77753078 AGTATTTAC
1 A-TATTTAC
77753087 TCTTAGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:77755845 original size:46 final size:46
Alignment explanation
Indices: 77755785--77756012 Score: 377
Period size: 46 Copynumber: 5.0 Consensus size: 46
77755775 TTTGACATGA
* * * * * *
77755785 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
77755831 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
77755877 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
77755923 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
77755969 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
77756013 AGAGCACACT
Statistics
Matches: 174, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 4 0.02
46 170 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:77758448 original size:30 final size:30
Alignment explanation
Indices: 77758381--77758448 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
77758371 CACCCTTAAA
* * * *
77758381 ATATTTGCACTATTAGTCCTTCAACTTTTT
1 ATATTTACACTATTAATCCTTCAAATTTTG
77758411 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTG
77758440 AGTATTTAC
1 A-TATTTAC
77758449 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTG
Found at i:77758687 original size:39 final size:39
Alignment explanation
Indices: 77758633--77758772 Score: 226
Period size: 39 Copynumber: 3.6 Consensus size: 39
77758623 GCTCTGATAA
*
77758633 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
*
77758672 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
77758711 GCTTTAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
77758750 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
77758773 AAATCACGAT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.13, C:0.26, G:0.24, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:77761250 original size:21 final size:21
Alignment explanation
Indices: 77761226--77761269 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
77761216 TAAAAATGTT
77761226 AAAAAAATATTAATA-TATATG
1 AAAAAAATA-TAATATTATATG
**
77761247 AAAATTATATAATATTATATG
1 AAAAAAATATAATATTATATG
77761268 AA
1 AA
77761270 TACTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAAAAATATAATATTATATG
Found at i:77761276 original size:21 final size:20
Alignment explanation
Indices: 77761236--77761276 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
77761226 AAAAAAATAT
*
77761236 TAATATATATGAAAATTATA
1 TAATATATATGAAAACTATA
*
77761256 TAATATTATATGAATACTATA
1 TAATA-TATATGAAAACTATA
77761277 AAAATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATATATATGAAAACTATA
Found at i:77762123 original size:6 final size:6
Alignment explanation
Indices: 77762112--77762146 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
77762102 AAGAACCTTA
* *
77762112 AACTCG AACTCG AACTCG AACTCA AACTCA AACTC
1 AACTCG AACTCG AACTCG AACTCG AACTCG AACTC
77762147 AAATTCTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.40, C:0.34, G:0.09, T:0.17
Consensus pattern (6 bp):
AACTCG
Found at i:77762129 original size:12 final size:12
Alignment explanation
Indices: 77762111--77762149 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
77762101 AAAGAACCTT
77762111 AAACTCGAACTC
1 AAACTCGAACTC
*
77762123 GAACTCGAACTC
1 AAACTCGAACTC
*
77762135 AAACTCAAACTC
1 AAACTCGAACTC
77762147 AAA
1 AAA
77762150 TTCTAAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.46, C:0.31, G:0.08, T:0.15
Consensus pattern (12 bp):
AAACTCGAACTC
Found at i:77762147 original size:6 final size:6
Alignment explanation
Indices: 77762111--77762149 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
77762101 AAAGAACCTT
* * *
77762111 AAACTC GAACTC GAACTC GAACTC AAACTC AAACTC AAA
1 AAACTC AAACTC AAACTC AAACTC AAACTC AAACTC AAA
77762150 TTCTAAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.46, C:0.31, G:0.08, T:0.15
Consensus pattern (6 bp):
AAACTC
Found at i:77770784 original size:89 final size:88
Alignment explanation
Indices: 77770678--77771267 Score: 329
Period size: 89 Copynumber: 6.6 Consensus size: 88
77770668 CCTCAATGAG
* ** *
77770678 ATAAGATTAGTAGCTTCAATCTATTCCACTACAACTTCGGGGAGATAAGATTCACTATCTTTAAT
1 ATAAGATT-GTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACTATCTTTAAT
*
77770743 CTGCTCCACTGCAAATTT-AGGGAA
65 CTGCTCCACTGC-AATTTCAGAGAA
* * * * * *
77770767 ATAAGACTTGTAACTTCAATCTGCTCCATTATAGCTTTAGGGAGATAA-AGTTTA-TAGCTTTAA
1 ATAAGA-TTGTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA-TTCACTATCTTTAA
* *
77770830 TCTGCTCTACTGCAATTTCAGAGAG
64 TCTGCTCCACTGCAATTTCAGAGAA
* * * * * *
77770855 ATGAGATTTGCTATCTTTAATCTGCTCCACTGCTACTTCAGGGAGATCAGATTCACTATGATAGC
1 ATAAGA-TTG-TAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCAC--T-AT--C
* * * *
77770920 TTCAACCTG-TCCCACTGCAACTTCAGGGAA
59 TTTAATCTGCT-CCACTGCAATTTCAGAGAA
* * * * * * * * *
77770950 ATGAGACTTGTTATCTTCAATTTGCTCCACTGCAACTTCAGAGATATGAGACTT--GTGGT-TTT
1 ATAAGA-TTG-TAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA-TTCACT-ATCTTT
* * *
77771012 AATCTGCTTCACTGTAACTTCAG-GAA
62 AATCTGCTCCACTGCAATTTCAGAGAA
* * * * * * * *
77771038 GATAAGATTAGTGACTTCAACCTGCTCCACTGCAACTCCATGGAGATAAGGTTTA-TAGCTTTAA
1 -ATAAGATT-GTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACTATCTTTAA
* * * * *
77771102 CCTGCTCTACTGCAACTTCAAAGAG
64 TCTGCTCCACTGCAATTTCAGAGAA
* * * * * * * **
77771127 ACAAGATT-TACTATTTCCAATTTGCTCCACTGCAACTTTAGGGAAATAAGATT-AGTGGCTTTA
1 ATAAGATTGTA--ACTT-CAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACTATCTTTA
* * * *
77771190 ATTTGCTCCACTGCAACTTCAGGGAG
63 ATCTGCTCCACTGCAATTTCAGAGAA
* **
77771216 ATCAGATTTGTGGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
1 ATAAGA-TTGTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
77771268 TGCCATAATG
Statistics
Matches: 385, Mismatches: 90, Indels: 53
0.73 0.17 0.10
Matches are distributed among these distances:
86 1 0.00
87 7 0.02
88 133 0.35
89 163 0.42
90 6 0.02
91 1 0.00
92 4 0.01
93 1 0.00
94 1 0.00
95 66 0.17
96 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (88 bp):
ATAAGATTGTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACTATCTTTAATC
TGCTCCACTGCAATTTCAGAGAA
Found at i:77771178 original size:133 final size:131
Alignment explanation
Indices: 77770675--77771270 Score: 466
Period size: 133 Copynumber: 4.4 Consensus size: 131
77770665 CATCCTCAAT
* ** * * * **
77770675 GAGATAA-GATTAGTAGCTTCAATCTATTCCACTACAACTTCGGGGAGATAAGATTCACTATCTT
1 GAGATAAGGTTTA-TAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTA--TT
* * * * * ** *
77770739 TAATCTGCTCCACTGCAAATTTAGGGAAATAAGACTT-GTAACTTCAATCTGCTCCATTATAGCT
63 TAATCTGCTCCACTGCAACTTCAGGGAAATAAGA-TTAGTGACTTCAACCTGCTCCACTGCAACT
*
77770803 TTAGG
127 TCAGG
* * * * *
77770808 GAGATAAAGTTTATAGCTTTAATCTGCTCTACTGCAATTTCAGAGAGATGAGATTTGCTATCTTT
1 GAGATAAGGTTTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTA--TTT
* * * *
77770873 AATCTGCTCCACTGCTACTTCAGGGAGATCAGATTCACTATGATAGCTTCAACCTG-TCCCACTG
64 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATT-A--GTG--A-CTTCAACCTGCT-CCACTG
77770937 CAACTTCAGG
122 CAACTTCAGG
* * * * * * * *
77770947 GAAATGAGACTTGT-TATCTTCAATTTGCTCCACTGCAACTTCAGAGATATGAGACTTGTGGT-T
1 GAGATAAG-GTT-TATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-TGCTAT
* *
77771010 TTAATCTGCTTCACTGTAACTTCA-GGAAGATAAGATTAGTGACTTCAACCTGCTCCACTGCAAC
62 TTAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTAGTGACTTCAACCTGCTCCACTGCAAC
* *
77771074 TCCATG
126 TTCAGG
* * * * * *
77771080 GAGATAAGGTTTATAGCTTTAACCTGCTCTACTGCAACTTCAAAGAGACAAGATTTACTATTTCC
1 GAGATAAGGTTTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATTT--
* * * * **
77771145 AATTTGCTCCACTGCAACTTTAGGGAAATAAGATTAGTGGCTTTAATTTGCTCCACTGCAACTTC
64 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTAGTGACTTCAACCTGCTCCACTGCAACTTC
77771210 AGG
129 AGG
* * * * * *
77771213 GAGATCAGATTTGTGGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGC
1 GAGATAAGGTTTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGC
77771271 CATAATGATC
Statistics
Matches: 363, Mismatches: 80, Indels: 40
0.75 0.17 0.08
Matches are distributed among these distances:
130 2 0.01
131 6 0.02
132 35 0.10
133 205 0.56
134 10 0.03
136 3 0.01
138 6 0.02
139 54 0.15
140 36 0.10
141 3 0.01
142 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (131 bp):
GAGATAAGGTTTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATTTAA
TCTGCTCCACTGCAACTTCAGGGAAATAAGATTAGTGACTTCAACCTGCTCCACTGCAACTTCAG
G
Found at i:77771268 original size:44 final size:44
Alignment explanation
Indices: 77770639--77771269 Score: 415
Period size: 44 Copynumber: 14.1 Consensus size: 44
77770629 GAGGTGTAGA
* * * * * * **
77770639 ATTTGTCGCTTCAATCTACTCCATTACATCCTCAATGAGATAAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* ** * *
77770683 ATTAGTAGCTTCAATCTATTCCACTACAACTTCGGGGAGATAAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
** * * * * *
77770727 ATTCACTATCTTTAATCTGCTCCACTGCAAATTTAGGGAAATAAG
1 ATT-TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * ** * *
77770772 ACTTGTAACTTCAATCTGCTCCATTATAGCTTTAGGGAGATAA-
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
77770815 AGTTTATAGCTTTAATCTGCTCTACTGCAATTTCAGAGAGATGAG
1 A-TTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
77770860 ATTTGCTATCTTTAATCTGCTCCACTGCTACTTCAGGGAGATCAG
1 ATTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * *
77770905 ATTCACTATGATAGCTTCAACCTG-TCCCACTGCAACTTCAGGGAAATGAG
1 A-T---T-TG-TAGCTTCAATCTGCT-CCACTGCAACTTCAGGGAGATAAG
* * * * * *
77770955 ACTTGTTATCTTCAATTTGCTCCACTGCAACTTCAGAGATATGAG
1 ATTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * * *
77771000 ACTTGTGGTTTTAATCTGCTTCACTGTAACTTCAGGAAGATAAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
77771044 ATTAGT-GACTTCAACCTGCTCCACTGCAACTCCATGGAGATAAG
1 ATTTGTAG-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * ** *
77771088 GTTTATAGCTTTAACCTGCTCTACTGCAACTTCAAAGAGACAAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
77771132 ATTTACTA-TTTCCAATTTGCTCCACTGCAACTTTAGGGAAATAAG
1 ATTT-GTAGCTT-CAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
77771177 ATTAGTGGCTTTAATTTGCTCCACTGCAACTTCAGGGAGATCAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
77771221 ATTTGTGGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
77771265 ATTTG
1 ATTTG
77771270 CCATAATGAT
Statistics
Matches: 452, Mismatches: 119, Indels: 32
0.75 0.20 0.05
Matches are distributed among these distances:
43 2 0.00
44 272 0.60
45 139 0.31
46 3 0.01
49 2 0.00
50 34 0.08
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
Found at i:77772197 original size:11 final size:11
Alignment explanation
Indices: 77772183--77772227 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
77772173 AGATAAATAT
77772183 TATTTTATTAA
1 TATTTTATTAA
*
77772194 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
77772207 TATTTTATTAT
1 TATTTTATTAA
77772218 TATTTTATTA
1 TATTTTATTA
77772228 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:77772793 original size:15 final size:15
Alignment explanation
Indices: 77772773--77772802 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
77772763 CAAATTATAG
77772773 GATGAATAAAATATT
1 GATGAATAAAATATT
77772788 GATGAATAAAATATT
1 GATGAATAAAATATT
77772803 AAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (15 bp):
GATGAATAAAATATT
Found at i:77774394 original size:46 final size:46
Alignment explanation
Indices: 77774080--77774384 Score: 439
Period size: 46 Copynumber: 6.6 Consensus size: 46
77774070 GTTTTCTGAA
** * *
77774080 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** * *
77774126 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGAAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* * *
77774172 ATGAAAAGGATAAGACAATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* ** *
77774218 ATGAAAAGAATAAGACCATTATTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
77774264 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
77774310 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAATGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
77774356 ATGAAATGAACAAGACCATGGTTGAAAGA
1 ATGAAATGAATAAGACCATGGTTGAAAGA
77774385 CATTATGGCA
Statistics
Matches: 238, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 238 1.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:77775693 original size:25 final size:25
Alignment explanation
Indices: 77775665--77775712 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
77775655 GACCTCAGCA
77775665 TGCTCTCTGATTACTAGCACATTAG
1 TGCTCTCTGATTACTAGCACATTAG
* *
77775690 TGCTCTCTGATTATTAGTACATT
1 TGCTCTCTGATTACTAGCACATT
77775713 TAGCATATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.42
Consensus pattern (25 bp):
TGCTCTCTGATTACTAGCACATTAG
Found at i:77777359 original size:31 final size:30
Alignment explanation
Indices: 77777305--77777368 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
77777295 GATATTTTAA
*
77777305 ATTTTATAATTATTTAATTAGATAAATATT
1 ATTTTATAATTATTTAATAAGATAAATATT
**
77777335 ATTTTATTAA-TATTTTAATAAGATATTTATT
1 ATTTTA-TAATTA-TTTAATAAGATAAATATT
77777366 ATT
1 ATT
77777369 ATTTCATTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (30 bp):
ATTTTATAATTATTTAATAAGATAAATATT
Found at i:77779273 original size:46 final size:46
Alignment explanation
Indices: 77779220--77779569 Score: 450
Period size: 46 Copynumber: 7.6 Consensus size: 46
77779210 ACTTTCTGAA
** * * *
77779220 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** * *
77779266 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGAAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* * * *
77779312 ATGAAAAGGATAAGACAATGGTTGAAAGATACCATGGAAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* * *
77779358 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** *
77779404 GGGAAATGAATAAGACCATAGTTGAAAGATACCATGG-AAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CGTGAC
*
77779450 ATGAAATGAATAGGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
77779496 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** * *
77779542 AAAAAATGAGTAAGACCATAGTTGAAAG
1 ATGAAATGAATAAGACCATGGTTGAAAG
77779570 GCACTATGGC
Statistics
Matches: 270, Mismatches: 32, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
45 2 0.01
46 266 0.99
47 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:77779471 original size:138 final size:138
Alignment explanation
Indices: 77779230--77779569 Score: 518
Period size: 138 Copynumber: 2.5 Consensus size: 138
77779220 ATGAAATGTG
* * * * *
77779230 TAAGACCATGGTTGAAAGATACCATGGTAACATGATATGAAATGTGTAAGACCATGGTTGAAAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAAGAAATGAGTAAGACCATAGTTGAAAGA
*
77779295 TACCATGGAAACGTGACATGAAAAGGATAAGACAATGGTTGAAAGATACCATGGAAACGTGACAT
66 TACCATGGAAACGTGACATGAAAAGAATAAGACAATGGTTGAAAGATACCATGGAAACGTGACAT
77779360 GAAAAGAA
131 GAAAAGAA
** *
77779368 TAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGAAATGAATAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAAGAAATGAGTAAGACCATAGTTGAAAGA
* * * * *
77779433 TACCATGGAAGCGTGACATGAAATGAATAGGACCATGGTTGAAAGATACCATGGCAACGTGACAT
66 TACCATGGAAACGTGACATGAAAAGAATAAGACAATGGTTGAAAGATACCATGGAAACGTGACAT
*
77779498 GAAATGAA
131 GAAAAGAA
* * *
77779506 CAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAAATGAGTAAGACCATAGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAAGAAATGAGTAAGACCATAGTTGAAAG
77779570 GCACTATGGC
Statistics
Matches: 182, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
138 182 1.00
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.19
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATAAGAAATGAGTAAGACCATAGTTGAAAGA
TACCATGGAAACGTGACATGAAAAGAATAAGACAATGGTTGAAAGATACCATGGAAACGTGACAT
GAAAAGAA
Found at i:77782066 original size:22 final size:22
Alignment explanation
Indices: 77782038--77782081 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
77782028 TCTCAAAAAT
77782038 ACTCATCTAAATAGGTTTTACA
1 ACTCATCTAAATAGGTTTTACA
*
77782060 ACTCATCTAGATAGGTTTTACA
1 ACTCATCTAAATAGGTTTTACA
77782082 TTCTCTTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (22 bp):
ACTCATCTAAATAGGTTTTACA
Found at i:77791611 original size:13 final size:13
Alignment explanation
Indices: 77791593--77791617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77791583 ATAAAGTGAT
77791593 AAAAATAAAAATA
1 AAAAATAAAAATA
77791606 AAAAATAAAAAT
1 AAAAATAAAAAT
77791618 GCTAGATGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:77791931 original size:4 final size:4
Alignment explanation
Indices: 77791922--77792031 Score: 71
Period size: 4 Copynumber: 27.5 Consensus size: 4
77791912 ATTGAAACAA
* * * * * *
77791922 AAAT AAAT AAAT GAAT GAAT -AAT ATAT AAAT AAAT GAGT AAAT AAAC
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * * *
77791969 AAAT AAAT GAAT GAAAT AAAT GAAAT -AAG GAAT AAAT AAAC AAGT AGAT
1 AAAT AAAT AAAT -AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
77792018 GAAT AAAT AAAT AA
1 AAAT AAAT AAAT AA
77792032 CAGAATTAAA
Statistics
Matches: 80, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
3 5 0.06
4 68 0.85
5 7 0.09
ACGTcount: A:0.65, C:0.02, G:0.11, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:77791972 original size:20 final size:20
Alignment explanation
Indices: 77791922--77792028 Score: 101
Period size: 20 Copynumber: 5.3 Consensus size: 20
77791912 ATTGAAACAA
* *
77791922 AAATAAATAAATGAATGAAT
1 AAATAAACAAATAAATGAAT
* * *
77791942 -AATATATAAATAAATGAGT
1 AAATAAACAAATAAATGAAT
77791961 AAATAAACAAATAAATGAAT
1 AAATAAACAAATAAATGAAT
* *
77791981 GAAATAAATGAAAT-AAGGAAT
1 -AAATAAA-CAAATAAATGAAT
* *
77792002 AAATAAACAAGTAGATGAAT
1 AAATAAACAAATAAATGAAT
77792022 AAATAAA
1 AAATAAA
77792029 TAACAGAATT
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
19 19 0.27
20 35 0.49
21 13 0.18
22 4 0.06
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.22
Consensus pattern (20 bp):
AAATAAACAAATAAATGAAT
Found at i:77798030 original size:43 final size:43
Alignment explanation
Indices: 77797969--77798056 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
77797959 TCCCAGACAA
77797969 GTACGTGTTCAGTAGGTTAATCACGGACACCCAAAGTGACTCG
1 GTACGTGTTCAGTAGGTTAATCACGGACACCCAAAGTGACTCG
77798012 GTACGTGTTCAGTAGGTTAATCACGGACACCCAAAGTGACTCG
1 GTACGTGTTCAGTAGGTTAATCACGGACACCCAAAGTGACTCG
77798055 GT
1 GT
77798057 CTTAAGGTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (43 bp):
GTACGTGTTCAGTAGGTTAATCACGGACACCCAAAGTGACTCG
Found at i:77799971 original size:19 final size:18
Alignment explanation
Indices: 77799942--77799991 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
77799932 ACATAAATAG
77799942 GAAAGGGTTTACAAGAAGAT
1 GAAA-GGTTTA-AAGAAGAT
* *
77799962 GAACGGTTTAAGGAAGAT
1 GAAAGGTTTAAAGAAGAT
77799980 GAAAGG-TTAAAG
1 GAAAGGTTTAAAG
77799992 GTTAAAGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 5 0.19
18 12 0.46
19 6 0.23
20 3 0.12
ACGTcount: A:0.44, C:0.04, G:0.32, T:0.20
Consensus pattern (18 bp):
GAAAGGTTTAAAGAAGAT
Found at i:77799996 original size:24 final size:24
Alignment explanation
Indices: 77799969--77800041 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
77799959 GATGAACGGT
*
77799969 TTAAGGAAGATGAAAGGTTAAAGG
1 TTAAGGAAGATGAAAGGTGAAAGG
* * * **
77799993 TTAAAGAAGATGAAATGTGGAATA
1 TTAAGGAAGATGAAAGGTGAAAGG
*
77800017 TTAAGGGAGATGAAAGGTGAAAGG
1 TTAAGGAAGATGAAAGGTGAAAGG
77800041 T
1 T
77800042 GAAAGGTTGA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.22
Consensus pattern (24 bp):
TTAAGGAAGATGAAAGGTGAAAGG
Found at i:77806205 original size:19 final size:20
Alignment explanation
Indices: 77806181--77806219 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
77806171 AATAATTTTT
77806181 AAATTT-AATGAAATAATAA
1 AAATTTGAATGAAATAATAA
* *
77806200 AAATTTGAATTAAATTATAA
1 AAATTTGAATGAAATAATAA
77806220 TGATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
AAATTTGAATGAAATAATAA
Found at i:77819573 original size:25 final size:25
Alignment explanation
Indices: 77819536--77819583 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
77819526 ACCGGGTATT
* *
77819536 TATAATATATATTTTTATATAAATA
1 TATAATATATATTTGTAAATAAATA
* *
77819561 TATAATTTTTATTTGTAAATAAA
1 TATAATATATATTTGTAAATAAA
77819584 ATTTAAGAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TATAATATATATTTGTAAATAAATA
Found at i:77820836 original size:15 final size:15
Alignment explanation
Indices: 77820790--77820836 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
77820780 TTTTTCTGAT
*
77820790 TATTAATTTTATATA
1 TATTAATTTTATAAA
*
77820805 -ATTATATTATATAAAA
1 TATTA-ATTTTAT-AAA
77820821 TATTAATTTTATAAA
1 TATTAATTTTATAAA
77820836 T
1 T
77820837 TCCATCCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 8 0.31
17 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTAATTTTATAAA
Found at i:77825061 original size:23 final size:23
Alignment explanation
Indices: 77825035--77825079 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
77825025 TTATTAATAT
77825035 ATTTGAGTCAATTTT-ATTTTTAA
1 ATTTG-GTCAATTTTAATTTTTAA
*
77825058 ATTTGGTTAATTTTAATTTTTA
1 ATTTGGTCAATTTTAATTTTTA
77825080 TGTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (23 bp):
ATTTGGTCAATTTTAATTTTTAA
Found at i:77825922 original size:5 final size:5
Alignment explanation
Indices: 77825912--77825943 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
77825902 TTGTGTGTTC
77825912 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
77825944 TCACAGTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:77825926 original size:9 final size:9
Alignment explanation
Indices: 77825912--77825942 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
77825902 TTGTGTGTTC
77825912 TTTATTTTA
1 TTTATTTTA
77825921 TTTATTTTA
1 TTTATTTTA
77825930 TTTTATTTTA
1 -TTTATTTTA
77825940 TTT
1 TTT
77825943 TTCACAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:77826483 original size:13 final size:12
Alignment explanation
Indices: 77826462--77826494 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
77826452 TCATGGTCTC
77826462 TTTTTTTTTTCT
1 TTTTTTTTTTCT
77826474 TTTTTCTTTTTCT
1 TTTTT-TTTTTCT
77826487 TTTTTTTT
1 TTTTTTTT
77826495 GTTTTTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTCT
Found at i:77826492 original size:22 final size:22
Alignment explanation
Indices: 77826463--77826506 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
77826453 CATGGTCTCT
*
77826463 TTTTTTTTTCTTTTTTCTTTTTC
1 TTTTTTTTT-GTTTTTCTTTTTC
*
77826486 TTTTTTTTTGTTTTTGTTTTT
1 TTTTTTTTTGTTTTTCTTTTT
77826507 GTTAAAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.89
Consensus pattern (22 bp):
TTTTTTTTTGTTTTTCTTTTTC
Found at i:77826505 original size:12 final size:11
Alignment explanation
Indices: 77826462--77826509 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
77826452 TCATGGTCTC
*
77826462 TTTTTTTTTTC
1 TTTTTTTTTTG
77826473 TTTTTTCTTTT-
1 TTTTTT-TTTTG
77826484 TCTTTTTTTTTG
1 T-TTTTTTTTTG
77826496 TTTTTGTTTTTG
1 TTTTT-TTTTTG
77826508 TT
1 TT
77826510 AAAACATTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
11 15 0.45
12 18 0.55
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:77827502 original size:30 final size:30
Alignment explanation
Indices: 77827468--77827530 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
77827458 ACTTACTTTA
*
77827468 TTGTTAATTTTGTTTTTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
77827498 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
77827528 TTG
1 TTG
77827531 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:77827939 original size:19 final size:19
Alignment explanation
Indices: 77827917--77827955 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
77827907 TTATAATATT
*
77827917 TAATCTTTCAAAAGAATTA
1 TAATATTTCAAAAGAATTA
* *
77827936 TAATATTTTAAAATAATTA
1 TAATATTTCAAAAGAATTA
77827955 T
1 T
77827956 GACAAATAAA
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:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (19 bp):
TAATATTTCAAAAGAATTA
Found at i:77840070 original size:22 final size:23
Alignment explanation
Indices: 77840045--77840090 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
77840035 CAACCAAATC
77840045 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
77840067 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
77840090 A
1 A
77840091 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:77840096 original size:23 final size:23
Alignment explanation
Indices: 77840052--77840096 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
77840042 ATCAATTCAA
*
77840052 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
77840075 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
77840097 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:77846799 original size:22 final size:23
Alignment explanation
Indices: 77846774--77846819 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
77846764 CAACCAAATC
77846774 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
77846796 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
77846819 A
1 A
77846820 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:77846825 original size:23 final size:23
Alignment explanation
Indices: 77846781--77846825 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
77846771 ATCAATTCAA
*
77846781 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
77846804 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
77846826 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:77848371 original size:12 final size:12
Alignment explanation
Indices: 77848354--77848385 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
77848344 TTTTTTACCC
77848354 AATTTCTTCAAT
1 AATTTCTTCAAT
77848366 AATTTCTTCAAT
1 AATTTCTTCAAT
77848378 AATTTCTT
1 AATTTCTT
77848386 TTTCTATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTCTTCAAT
Found at i:77849955 original size:36 final size:35
Alignment explanation
Indices: 77849865--77850015 Score: 178
Period size: 36 Copynumber: 4.2 Consensus size: 35
77849855 CTCTGTTTTG
* *
77849865 GTGTGTTTC-GATTGGACTAGCTCTTATGAACATTA
1 GTGTGTTTCGGA-TGGATTAGCTCTTATGAGCATTA
*
77849900 GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTG
1 GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTA
* * *
77849935 GTGTATTTTCGGATGAATTAGCTCTTATAAGCATCTA
1 GTGT-GTTTCGGATGGATTAGCTCTTATGAGCAT-TA
* * *
77849972 GTGTGTTTCAGATGGACTAGCTCTTATGAGCATCTT
1 GTGTGTTTCGGATGGATTAGCTCTTATGAGCAT-TA
77850008 GTGTGTTT
1 GTGTGTTT
77850016 GATAGGATTG
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
35 33 0.33
36 62 0.62
37 5 0.05
ACGTcount: A:0.21, C:0.13, G:0.25, T:0.41
Consensus pattern (35 bp):
GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTA
Found at i:77850997 original size:42 final size:42
Alignment explanation
Indices: 77850897--77850976 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
77850887 CATGTGATTG
**
77850897 TACTTAGAGAGTTACACGGGTGAGGACACGACCGTGTGATCA
1 TACTTAGAGAGTTACACAAGTGAGGACACGACCGTGTGATCA
77850939 TACTTAGAGAGTTACACAAGTGAGGACACGACCGTGTG
1 TACTTAGAGAGTTACACAAGTGAGGACACGACCGTGTG
77850977 TCCATAGTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (42 bp):
TACTTAGAGAGTTACACAAGTGAGGACACGACCGTGTGATCA
Found at i:77851799 original size:28 final size:28
Alignment explanation
Indices: 77851767--77851827 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
77851757 ACTATAATAC
77851767 TCAGGTGGCAG-GACC-AACCATATATCAT
1 TCAGGTGGCAGAG-CCGAA-CATATATCAT
*
77851795 TCAGGTGGTAGAGCCGAACATATATCAT
1 TCAGGTGGCAGAGCCGAACATATATCAT
77851823 TCAGG
1 TCAGG
77851828 CTGTAAAGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 27 0.90
29 3 0.10
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (28 bp):
TCAGGTGGCAGAGCCGAACATATATCAT
Found at i:77851844 original size:28 final size:28
Alignment explanation
Indices: 77851783--77851847 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
77851773 GGCAGGACCA
* *
77851783 ACCATATATCATTCAGGTGGTAGAGCCG
1 ACCATATATCATTCAGGTGGTAAAGACG
*
77851811 AACATATATCATTCAGGCT-GTAAAGACG
1 ACCATATATCATTCAGG-TGGTAAAGACG
77851839 ACCATATAT
1 ACCATATAT
77851848 AAAAGCTAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (28 bp):
ACCATATATCATTCAGGTGGTAAAGACG
Found at i:77852263 original size:24 final size:24
Alignment explanation
Indices: 77852229--77852280 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
77852219 CAATATATTA
*
77852229 TAATTGGCTTGATGGATTGGAGCT
1 TAATTGACTTGATGGATTGGAGCT
77852253 TAATTGACTTGATGGATTGGAGCT
1 TAATTGACTTGATGGATTGGAGCT
77852277 TAAT
1 TAAT
77852281 GATATTCCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.29, T:0.38
Consensus pattern (24 bp):
TAATTGACTTGATGGATTGGAGCT
Found at i:77853826 original size:17 final size:17
Alignment explanation
Indices: 77853804--77853842 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
77853794 CCTAAAGGTG
*
77853804 ATTTTA-TCTTCTTTATT
1 ATTTTACTCTTATTT-TT
77853821 ATTTTACTCTTATTTTT
1 ATTTTACTCTTATTTTT
77853838 ATTTT
1 ATTTT
77853843 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTACTCTTATTTTT
Found at i:77853911 original size:13 final size:13
Alignment explanation
Indices: 77853893--77853943 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
77853883 TATATACATC
77853893 ATAATAAAAAAAT
1 ATAATAAAAAAAT
* *
77853906 ATAATAAATATAT
1 ATAATAAAAAAAT
*
77853919 ATATACAAAACAAAT
1 ATA-ATAAAA-AAAT
77853934 ATAA-AAAAAA
1 ATAATAAAAAA
77853944 TTTACCTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 2 0.06
13 18 0.58
14 5 0.16
15 6 0.19
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAATAAAAAAAT
Found at i:77854070 original size:22 final size:24
Alignment explanation
Indices: 77854044--77854089 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
77854034 CCCTTTCCCC
*
77854044 CTCCCTTTTCTC-TCCCT-TCTTT
1 CTCCCTTCTCTCTTCCCTCTCTTT
77854066 CTCCCTTCTCTCTTCCCTCTCTTT
1 CTCCCTTCTCTCTTCCCTCTCTTT
77854090 TCTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
23 5 0.24
24 5 0.24
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (24 bp):
CTCCCTTCTCTCTTCCCTCTCTTT
Found at i:77858991 original size:3 final size:3
Alignment explanation
Indices: 77858983--77859008 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
77858973 TGGATGTTGA
77858983 TGC TGC TGC TGC TGC TGC TGC TGC TG
1 TGC TGC TGC TGC TGC TGC TGC TGC TG
77859009 GTAGTAGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.35, T:0.35
Consensus pattern (3 bp):
TGC
Found at i:77863960 original size:33 final size:33
Alignment explanation
Indices: 77863923--77863991 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
77863913 CTAAGTGGAC
77863923 CACTTAGGCAAATCAACATCTCTCTATACAACA
1 CACTTAGGCAAATCAACATCTCTCTATACAACA
77863956 CACTTAGGCAAATCAACATCTCTCTATACAACA
1 CACTTAGGCAAATCAACATCTCTCTATACAACA
77863989 CAC
1 CAC
77863992 ATCGTATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.39, C:0.32, G:0.06, T:0.23
Consensus pattern (33 bp):
CACTTAGGCAAATCAACATCTCTCTATACAACA
Found at i:77864019 original size:55 final size:55
Alignment explanation
Indices: 77863951--77864062 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
77863941 TCTCTCTATA
77863951 CAACACACTTAGGCAAATCAACATCTCTCTATACAACACACATCGTATTAAGAAG
1 CAACACACTTAGGCAAATCAACATCTCTCTATACAACACACATCGTATTAAGAAG
*
77864006 CAACACACTTAGGCAAATCAACATCTCTCTATACAACACACATCGTATTAATAAG
1 CAACACACTTAGGCAAATCAACATCTCTCTATACAACACACATCGTATTAAGAAG
77864061 CA
1 CA
77864063 TAATTAGATT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.42, C:0.28, G:0.08, T:0.22
Consensus pattern (55 bp):
CAACACACTTAGGCAAATCAACATCTCTCTATACAACACACATCGTATTAAGAAG
Found at i:77864357 original size:10 final size:10
Alignment explanation
Indices: 77864344--77864369 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
77864334 TATAATTTTT
77864344 AAAAATTATA
1 AAAAATTATA
77864354 AAAAATTATA
1 AAAAATTATA
77864364 AAAAAT
1 AAAAAT
77864370 CTAACATTGA
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:77864366 original size:8 final size:9
Alignment explanation
Indices: 77864301--77864367 Score: 50
Period size: 9 Copynumber: 7.6 Consensus size: 9
77864291 CTCTCTCAAC
77864301 AAAAATT-T
1 AAAAATTAT
77864309 AAAAAATTAT
1 -AAAAATTAT
*
77864319 AAAAATT-C
1 AAAAATTAT
*
77864327 CAAAATT-T
1 AAAAATTAT
* * *
77864335 ATAATTTTT
1 AAAAATTAT
77864344 AAAAATTAT
1 AAAAATTAT
77864353 AAAAAATTAT
1 -AAAAATTAT
77864363 AAAAA
1 AAAAA
77864368 ATCTAACATT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
8 10 0.22
9 26 0.57
10 10 0.22
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:77870288 original size:13 final size:13
Alignment explanation
Indices: 77870270--77870296 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77870260 AAATAATAAA
77870270 TATTCATTGTAAG
1 TATTCATTGTAAG
77870283 TATTCATTGTAAG
1 TATTCATTGTAAG
77870296 T
1 T
77870297 GGTGAAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TATTCATTGTAAG
Found at i:77881262 original size:7 final size:8
Alignment explanation
Indices: 77881232--77881259 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
77881222 ATATTTCATT
77881232 ATTTTAAA
1 ATTTTAAA
77881240 ATTTTAAA
1 ATTTTAAA
77881248 ATTTTAAA
1 ATTTTAAA
77881256 ATTT
1 ATTT
77881260 AAATCTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
ATTTTAAA
Found at i:77882065 original size:21 final size:20
Alignment explanation
Indices: 77882028--77882067 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
77882018 GTTATCTTCA
*
77882028 TTATTTTGAATATAAATTAC
1 TTATTTTGAATAAAAATTAC
*
77882048 TTATTTTTACATAAAAATTA
1 TTATTTTGA-ATAAAAATTA
77882068 AAATAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
TTATTTTGAATAAAAATTAC
Found at i:77883500 original size:21 final size:20
Alignment explanation
Indices: 77883454--77883492 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
77883444 AATTGTGAGT
77883454 TGAATTAATTTTTAATTAGG
1 TGAATTAATTTTTAATTAGG
*
77883474 TGAATTTATTTTTAATTAG
1 TGAATTAATTTTTAATTAG
77883493 AAGTAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (20 bp):
TGAATTAATTTTTAATTAGG
Found at i:77883692 original size:3 final size:3
Alignment explanation
Indices: 77883684--77883717 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
77883674 AGATATTTAC
77883684 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
77883718 CAATTAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:77883914 original size:16 final size:15
Alignment explanation
Indices: 77883893--77883951 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 15
77883883 AAAGAAAAAC
77883893 AAGAAAAAAAATAGA
1 AAGAAAAAAAATAGA
**
77883908 GAAGAAACGAAATAGA
1 -AAGAAAAAAAATAGA
77883924 AAGAAAGAAAGAATA-A
1 AAGAAA-AAA-AATAGA
77883940 AAGAAAATAAAA
1 AAGAAAA-AAAA
77883952 AAGAGAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
15 9 0.25
16 23 0.64
17 4 0.11
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.07
Consensus pattern (15 bp):
AAGAAAAAAAATAGA
Found at i:77884903 original size:37 final size:37
Alignment explanation
Indices: 77884861--77884958 Score: 101
Period size: 40 Copynumber: 2.6 Consensus size: 37
77884851 GGATAGATTT
*
77884861 GATGAGGCGTTGGTCGCCACTTTGCTTCG-GCTTAGCC
1 GATGAGGCGTTGGTCGCCACTTTGCTTCGAAC-TAGCC
* * *
77884898 GATGAGACGTTGGTCGTCACTTATTTGCTTCGAACTATCC
1 GATGAGGCGTTGGTCGCCAC---TTTGCTTCGAACTAGCC
77884938 GATGAGGCGTTGG-CTGCCACT
1 GATGAGGCGTTGGTC-GCCACT
77884959 CTGGTGTGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
37 19 0.38
39 1 0.02
40 29 0.58
41 1 0.02
ACGTcount: A:0.15, C:0.24, G:0.30, T:0.31
Consensus pattern (37 bp):
GATGAGGCGTTGGTCGCCACTTTGCTTCGAACTAGCC
Found at i:77887093 original size:12 final size:12
Alignment explanation
Indices: 77887077--77887106 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
77887067 TTTTATTAGA
77887077 ATTAAAATTATT
1 ATTAAAATTATT
*
77887089 TTTAAAATTATT
1 ATTAAAATTATT
77887101 ATTAAA
1 ATTAAA
77887107 TAACTAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTAAAATTATT
Found at i:77887821 original size:33 final size:33
Alignment explanation
Indices: 77887784--77887880 Score: 111
Period size: 33 Copynumber: 3.1 Consensus size: 33
77887774 GTTTTTTATA
77887784 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
1 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
*
77887817 ATTATGTTAAAATT--TTT-TGT-GT--TTGTA--
1 ATTATTTTAAAATTAATTTAT-TAGTAATT-TAGG
77887844 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
1 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
77887877 ATTA
1 ATTA
77887881 AGTTATAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
27 13 0.25
28 2 0.04
29 6 0.12
30 6 0.12
31 6 0.12
32 2 0.04
33 17 0.33
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (33 bp):
ATTATTTTAAAATTAATTTATTAGTAATTTAGG
Found at i:77887899 original size:60 final size:60
Alignment explanation
Indices: 77887782--77887900 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
77887772 TTGTTTTTTA
* *
77887782 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTAAAATTTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTAAAATTTGTTGTGTTTG
77887842 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA-TTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTA-AAATTTGTTGTGTTT
77887901 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
60 53 0.95
61 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTAAAATTTGTTGTGTTTG
Found at i:77888251 original size:27 final size:27
Alignment explanation
Indices: 77888179--77888251 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
77888169 GCTCCACCAT
* *
77888179 TTGCGCCTCTGAGATAGGCATGATTAG
1 TTGCGCCTCTGAGATAGGCATAACTAG
* * *
77888206 TCGCGCCTCTGAAAAAGGC-TCAACTAG
1 TTGCGCCTCTGAGATAGGCAT-AACTAG
*
77888233 TTGCGCCTCAGAGATAGGC
1 TTGCGCCTCTGAGATAGGC
77888252 GCAATCTGTA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (27 bp):
TTGCGCCTCTGAGATAGGCATAACTAG
Found at i:77888328 original size:27 final size:27
Alignment explanation
Indices: 77888293--77888350 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
77888283 TACTGATCCG
* *
77888293 AAAATAAAAAATAATATCTT-ATTTAAA
1 AAAACAAAAAA-AATATCTTAATATAAA
*
77888320 AAAACAAAAAAAATATTTTAATATAAA
1 AAAACAAAAAAAATATCTTAATATAAA
77888347 AAAA
1 AAAA
77888351 AGAGTCGCGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (27 bp):
AAAACAAAAAAAATATCTTAATATAAA
Found at i:77890642 original size:187 final size:186
Alignment explanation
Indices: 77890288--77890660 Score: 552
Period size: 187 Copynumber: 2.0 Consensus size: 186
77890278 GGTTTGAGGA
* *
77890288 TTGGCGCACGCAAAGGCTTGTTTTTATTTTAGAAGTCAGGTCGCACTAAAGTAAGGTTTAAGAAT
1 TTGGCGCACGCAAAGGCTTGTTTTTATTTTAGAAGCCAGGTCGCACTAAAGTAAGGTTTAAGAAC
* **
77890353 AGTTGCGACCAAGTTATGCCACAAGGAGTGCCTGTAGCGCAGTGGCAGCAGCGTGTTGGGCATGC
66 AGTTGCGACCAAGTTATGCCACAAGAAGCACCTGTAGCGCAGTGGCAGCAGCGTGTTGGGCATGC
* *
77890418 GAAGAGGGCACAGGTTCGAGTCCTTGCACGGGCGAATTCTGTTTTATTTTTAAAGC
131 GAAGAGGGCACAGGTTCGAGTCCTTGCACGAGCGAATTCCGTTTTATTTTTAAAGC
*
77890474 TTGGCGCATGCAAAGGCTTGTTTTTATTTTAGAAGCCAGGTCGCACTAACA-TAAGGTTTAAGAA
1 TTGGCGCACGCAAAGGCTTGTTTTTATTTTAGAAGCCAGGTCGCACTAA-AGTAAGGTTTAAGAA
* ** * * *
77890538 CAGTTGTGACTTGAGTTATGCCAGAAGAAGCACTTGTGGCGCAGTGGCAGCAGCGTGTTGGGCAT
65 CAGTTGCGAC-CAAGTTATGCCACAAGAAGCACCTGTAGCGCAGTGGCAGCAGCGTGTTGGGCAT
* **
77890603 GC-AGGGAGGGCGTAGGTTCGAGTCCTTGCACGAGCGAATTCCGTTTTATTTTTAAAGC
129 GCGA-AGAGGGCACAGGTTCGAGTCCTTGCACGAGCGAATTCCGTTTTATTTTTAAAGC
77890661 GGGCCAGAAC
Statistics
Matches: 167, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
186 69 0.41
187 98 0.59
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (186 bp):
TTGGCGCACGCAAAGGCTTGTTTTTATTTTAGAAGCCAGGTCGCACTAAAGTAAGGTTTAAGAAC
AGTTGCGACCAAGTTATGCCACAAGAAGCACCTGTAGCGCAGTGGCAGCAGCGTGTTGGGCATGC
GAAGAGGGCACAGGTTCGAGTCCTTGCACGAGCGAATTCCGTTTTATTTTTAAAGC
Found at i:77892670 original size:28 final size:27
Alignment explanation
Indices: 77892630--77892682 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
77892620 ATACTGTAAG
* *
77892630 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTAAGGCCCAG-TTAACATTGATAT
77892658 GGGCTAAGGCCCAGTTAACATTGAT
1 GGGCTAAGGCCCAGTTAACATTGAT
77892683 TTCTGAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (27 bp):
GGGCTAAGGCCCAGTTAACATTGATAT
Found at i:77894644 original size:14 final size:15
Alignment explanation
Indices: 77894625--77894654 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
77894615 ATTTATTATA
77894625 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
77894639 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
77894654 T
1 T
77894655 CTTAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:77896565 original size:41 final size:40
Alignment explanation
Indices: 77896502--77896735 Score: 130
Period size: 41 Copynumber: 5.6 Consensus size: 40
77896492 GGGTTTCAAA
* ** *
77896502 CCTAGCAGGCCTTGTGCCGGTGATAAATTTCGGGCTTTGAG
1 CCTAGCAGGCGTAATGCCGGTGA-AAATTTCGGGCTTAGAG
* * * * *
77896543 CCTAGCAGGCGTAATGCTGGTGAAATGATATCAGACTTAAAGG
1 CCTAGCAGGCGTAATGCCGGTGAAA--ATTTCGGGCTTAGA-G
* * * * * *
77896586 TCTAGCAAGCTTTAA-GCTGGTGAATATTATCGGGCTTCGAG
1 CCTAGCAGGC-GTAATGCCGGTGAAAATT-TCGGGCTTAGAG
* *
77896627 CCTAGCAGGCGTAATGCCGGTGAAATGATATCGGGCTTAAAGG
1 CCTAGCAGGCGTAATGCCGGTGAAA--ATTTCGGGCTTAGA-G
* * * * * ** *
77896670 TCTAGCAAGCTTTAA-GCTGGTGAATATTATCGGGCTCCGAA
1 CCTAGCAGGC-GTAATGCCGGTGAAAATT-TCGGGCTTAGAG
77896711 CCTAGCAGGCGTAATGCCGGTGAAA
1 CCTAGCAGGCGTAATGCCGGTGAAA
77896736 TGATATCGGA
Statistics
Matches: 140, Mismatches: 41, Indels: 24
0.68 0.20 0.12
Matches are distributed among these distances:
40 8 0.06
41 56 0.40
42 33 0.24
43 37 0.26
44 6 0.04
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (40 bp):
CCTAGCAGGCGTAATGCCGGTGAAAATTTCGGGCTTAGAG
Found at i:77896605 original size:43 final size:43
Alignment explanation
Indices: 77896558--77896760 Score: 163
Period size: 42 Copynumber: 4.8 Consensus size: 43
77896548 CAGGCGTAAT
* *
77896558 GCTGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGCTTTAA
1 GCTGGTGAAATGATATCGGGCTTAAAGGTCTAGCAAGCTTTAA
** * * *
77896601 GCTGGTG-AAT-ATTATCGGGCTTCGA-GCCTAGCAGGC-GTAA
1 GCTGGTGAAATGA-TATCGGGCTTAAAGGTCTAGCAAGCTTTAA
*
77896641 TGCCGGTGAAATGATATCGGGCTTAAAGGTCTAGCAAGCTTTAA
1 -GCTGGTGAAATGATATCGGGCTTAAAGGTCTAGCAAGCTTTAA
** * * *
77896685 GCTGGTG-AAT-ATTATCGGGCTCCGAA--CCTAGCAGGC-GTAA
1 GCTGGTGAAATGA-TATCGGGCT-TAAAGGTCTAGCAAGCTTTAA
* *
77896725 TGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCA
1 -GCTGGTGAAATGATATCGGGCTTAAAGGTCTAGCA
77896761 GGCTGATTGC
Statistics
Matches: 123, Mismatches: 24, Indels: 26
0.71 0.14 0.15
Matches are distributed among these distances:
40 6 0.05
41 33 0.27
42 49 0.40
43 32 0.26
44 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (43 bp):
GCTGGTGAAATGATATCGGGCTTAAAGGTCTAGCAAGCTTTAA
Found at i:77896649 original size:84 final size:84
Alignment explanation
Indices: 77896531--77896760 Score: 406
Period size: 84 Copynumber: 2.7 Consensus size: 84
77896521 GTGATAAATT
* * *
77896531 TCGGGCTTTGAGCCTAGCAGGCGTAATGCTGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
1 TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGC
77896596 TTTAAGCTGGTGAATATTA
66 TTTAAGCTGGTGAATATTA
*
77896615 TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGGCTTAAAGGTCTAGCAAGC
1 TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGC
77896680 TTTAAGCTGGTGAATATTA
66 TTTAAGCTGGTGAATATTA
* *
77896699 TCGGGCTCCGAACCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCA
1 TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCA
77896761 GGCTGATTGC
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 139 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (84 bp):
TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGC
TTTAAGCTGGTGAATATTA
Found at i:77896761 original size:43 final size:43
Alignment explanation
Indices: 77896544--77896776 Score: 189
Period size: 43 Copynumber: 5.5 Consensus size: 43
77896534 GGCTTTGAGC
* * *
77896544 CTAGCAGGCGTAATGCTGGTGAAATGATATCAGACTTAAAGGT
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGGCTTAAAGGT
* * * ** *
77896587 CTAGCAAGCTTTAA-GCTGGTG-AAT-ATTATCGGGCTTCGA-GC
1 CTAGCAGGC-GTAATGCCGGTGAAATGA-TATCGGGCTTAAAGGT
77896628 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGGCTTAAAGGT
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGGCTTAAAGGT
* * * ** *
77896671 CTAGCAAGCTTTAA-GCTGGTG-AAT-ATTATCGGGCTCCGAA--C
1 CTAGCAGGC-GTAATGCCGGTGAAATGA-TATCGGGCT-TAAAGGT
*
77896712 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGGCTTAAAGGT
*
77896755 CTAGCAGGC-TGATTGCCGGTGA
1 CTAGCAGGCGT-AATGCCGGTGA
77896777 TGAAATCAGG
Statistics
Matches: 148, Mismatches: 27, Indels: 30
0.72 0.13 0.15
Matches are distributed among these distances:
40 6 0.04
41 33 0.22
42 50 0.34
43 53 0.36
44 6 0.04
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (43 bp):
CTAGCAGGCGTAATGCCGGTGAAATGATATCGGGCTTAAAGGT
Found at i:77901934 original size:25 final size:25
Alignment explanation
Indices: 77901900--77901955 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
77901890 TAAATTTTGT
*
77901900 ATAAGTGAACCTTGAAGCAGAAATC
1 ATAATTGAACCTTGAAGCAGAAATC
77901925 ATAATTGAACCTTGAAGCAGAAATC
1 ATAATTGAACCTTGAAGCAGAAATC
77901950 ATAATT
1 ATAATT
77901956 TTCTTCTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (25 bp):
ATAATTGAACCTTGAAGCAGAAATC
Found at i:77903855 original size:57 final size:56
Alignment explanation
Indices: 77903769--77903879 Score: 177
Period size: 57 Copynumber: 2.0 Consensus size: 56
77903759 GTATAAATTA
* * * *
77903769 AAAATTGGTCCTCCAAAATCTATATGTCGGTGGATTAATTGCTGAATTTTGCCTCT
1 AAAATTGGTCCTCCAAAATCAATACGTCGGTGGATTAATTGCTCAACTTTGCCTCT
77903825 AAAATTGGTCCTCCGAAAATCAATACGTCGGTGGATTAATTGCTCAACTTTGCCT
1 AAAATTGGTCCTCC-AAAATCAATACGTCGGTGGATTAATTGCTCAACTTTGCCT
77903880 TTGGATAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
56 14 0.28
57 36 0.72
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (56 bp):
AAAATTGGTCCTCCAAAATCAATACGTCGGTGGATTAATTGCTCAACTTTGCCTCT
Found at i:77905350 original size:16 final size:16
Alignment explanation
Indices: 77905329--77905363 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
77905319 CATCAACATT
77905329 AAAAAATAAAGAAA-TA
1 AAAAAATAAA-AAACTA
77905345 AAAAAATAAAAAACTA
1 AAAAAATAAAAAACTA
77905361 AAA
1 AAA
77905364 TGAACCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.83, C:0.03, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAAATAAAAAACTA
Found at i:77906775 original size:46 final size:46
Alignment explanation
Indices: 77906723--77906898 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
77906713 TGGTTGAGCA
77906723 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
77906769 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
77906814 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
77906862 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
77906899 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:77906879 original size:93 final size:93
Alignment explanation
Indices: 77906720--77906890 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
77906710 GGATGGTTGA
* ** *
77906720 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
77906785 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
77906813 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
77906878 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
77906891 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:77908879 original size:13 final size:14
Alignment explanation
Indices: 77908863--77908891 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
77908853 TACAAAATGG
77908863 AAAGATTAAAT-AA
1 AAAGATTAAATCAA
77908876 AAAGATTAAATCAA
1 AAAGATTAAATCAA
77908890 AA
1 AA
77908892 CCATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAGATTAAATCAA
Found at i:77909470 original size:32 final size:30
Alignment explanation
Indices: 77909429--77909487 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
77909419 TGAAAAAAAT
77909429 AAAAAAAAACATTCCTCTTCTTTGTTTTTTTA
1 AAAAAAAAACATTCCTCTT-TTT-TTTTTTTA
* *
77909461 AAAAAAAAACCTTCTTCTTTTTTTTTT
1 AAAAAAAAACATTCCTCTTTTTTTTTT
77909488 CTCTCAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.20
31 3 0.12
32 17 0.68
ACGTcount: A:0.34, C:0.15, G:0.02, T:0.49
Consensus pattern (30 bp):
AAAAAAAAACATTCCTCTTTTTTTTTTTTA
Found at i:77919217 original size:30 final size:30
Alignment explanation
Indices: 77919132--77919220 Score: 133
Period size: 30 Copynumber: 3.0 Consensus size: 30
77919122 AACTATCAGA
* * *
77919132 TTTAGTGGGAGTTAGCAGGAATATGAGTGG
1 TTTAGTGGGAGTTAGTAGGGATATGGGTGG
*
77919162 TTTAGTGGGAGTTAGTGGGGATATGGGTGG
1 TTTAGTGGGAGTTAGTAGGGATATGGGTGG
*
77919192 TTTAATGGGAGTTAGTAGGGATATGGGTG
1 TTTAGTGGGAGTTAGTAGGGATATGGGTG
77919221 ACTTTAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.22, C:0.01, G:0.44, T:0.33
Consensus pattern (30 bp):
TTTAGTGGGAGTTAGTAGGGATATGGGTGG
Found at i:77921070 original size:35 final size:35
Alignment explanation
Indices: 77921005--77921128 Score: 144
Period size: 35 Copynumber: 3.5 Consensus size: 35
77920995 CTCTGTTTTG
*
77921005 GTGTGTTTCGGATGGA-TAACTCTTATGAGCATTA
1 GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTA
* *
77921039 GTGTGTTTCAGATGGATTAGCTCTTATGAGCATTG
1 GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTA
* * *
77921074 GTGTG-TTCTGGATGGATTAGCTTTTATGAGAATTT
1 GTGTGTTTC-GGATGGATTAGCTCTTATGAGCATTA
* *
77921109 GCTGTGTTTTGGTTGGATTA
1 G-TGTGTTTCGGATGGATTA
77921129 TTGATGTACT
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
34 18 0.23
35 44 0.57
36 13 0.17
37 2 0.03
ACGTcount: A:0.19, C:0.09, G:0.29, T:0.43
Consensus pattern (35 bp):
GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTA
Found at i:77921931 original size:63 final size:63
Alignment explanation
Indices: 77921863--77921988 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
77921853 AAATTTAATT
*
77921863 ATTCTAAAGGTGGATTTACCTATGTCATGAATAATCACTCTAATTCGTGAAATGATAATGTAA
1 ATTCTAAAGGTGAATTTACCTATGTCATGAATAATCACTCTAATTCGTGAAATGATAATGTAA
*
77921926 ATTCTAAAGGTGAATTTACCTATGTCATGAATAATCACTCTAATTCGTGAATTGATAATGTAA
1 ATTCTAAAGGTGAATTTACCTATGTCATGAATAATCACTCTAATTCGTGAAATGATAATGTAA
77921989 TTAAGCTTAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (63 bp):
ATTCTAAAGGTGAATTTACCTATGTCATGAATAATCACTCTAATTCGTGAAATGATAATGTAA
Found at i:77924680 original size:12 final size:12
Alignment explanation
Indices: 77924663--77924689 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
77924653 ATTCCGAAGT
77924663 ATATATATATAC
1 ATATATATATAC
77924675 ATATATATATAC
1 ATATATATATAC
77924687 ATA
1 ATA
77924690 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:77925220 original size:27 final size:28
Alignment explanation
Indices: 77925136--77925233 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
77925126 CATGAGATTG
* * * *
77925136 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
77925165 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
77925193 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
77925220 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
77925234 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:77925244 original size:27 final size:27
Alignment explanation
Indices: 77925164--77925246 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
77925154 TAAATTGTAC
* *
77925164 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
77925192 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
77925219 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
77925246 A
1 A
77925247 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:77929470 original size:27 final size:28
Alignment explanation
Indices: 77929386--77929483 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
77929376 CATGAGATTG
* * * *
77929386 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
77929415 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
77929443 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
77929470 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
77929484 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:77929494 original size:27 final size:27
Alignment explanation
Indices: 77929414--77929496 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
77929404 TAAATTGTAC
* *
77929414 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
77929442 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
77929469 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
77929496 A
1 A
77929497 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:77931057 original size:21 final size:21
Alignment explanation
Indices: 77931031--77931083 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
77931021 CAGCACATAA
*
77931031 GTGCCTGAAATGAAACACGAG
1 GTGCCTGAAATGAAACACGAC
* * *
77931052 GTGCCTGATACGACACACGAC
1 GTGCCTGAAATGAAACACGAC
*
77931073 GTGCTTGAAAT
1 GTGCCTGAAAT
77931084 ACGACACATA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (21 bp):
GTGCCTGAAATGAAACACGAC
Found at i:77932478 original size:6 final size:6
Alignment explanation
Indices: 77932467--77932495 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
77932457 ATAAATTAAT
77932467 AATAAG AATAAG AATAAG AATAAG AATAA
1 AATAAG AATAAG AATAAG AATAAG AATAA
77932496 TACACTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (6 bp):
AATAAG
Found at i:77935977 original size:13 final size:13
Alignment explanation
Indices: 77935959--77936001 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
77935949 TTTAAAATTT
77935959 AAAAAATTTATAA
1 AAAAAATTTATAA
*
77935972 AAAAAAATTATAA
1 AAAAAATTTATAA
*
77935985 GAAAAATTTATAA
1 AAAAAATTTATAA
77935998 AAAA
1 AAAA
77936002 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
AAAAAATTTATAA
Found at i:77936017 original size:14 final size:15
Alignment explanation
Indices: 77935998--77936030 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
77935988 AAATTTATAA
77935998 AAAATTAA-TTTTTT
1 AAAATTAATTTTTTT
77936012 AAAATTAATTTTTTT
1 AAAATTAATTTTTTT
77936027 AAAA
1 AAAA
77936031 ATAACAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AAAATTAATTTTTTT
Found at i:77936181 original size:20 final size:19
Alignment explanation
Indices: 77936140--77936181 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
77936130 AATTATAATT
**
77936140 TTTTATATAAATTTTATGA
1 TTTTATATAAATTTTAAAA
77936159 TTTTATAATAAATTTTAAAA
1 TTTTAT-ATAAATTTTAAAA
77936179 TTT
1 TTT
77936182 AAAAGGGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTATATAAATTTTAAAA
Found at i:77936182 original size:19 final size:19
Alignment explanation
Indices: 77936141--77936182 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
77936131 ATTATAATTT
* *
77936141 TTTATATAAATTTTATGAT
1 TTTATATAAATTTTATAAA
77936160 TTTATAATAAATTTTA-AAA
1 TTTAT-ATAAATTTTATAAA
77936179 TTTA
1 TTTA
77936183 AAAGGGCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTATATAAATTTTATAAA
Done.