Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 105 of 295
Found at i:33877828 original size:49 final size:49
Alignment explanation
Indices: 33877774--33877869 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
33877764 CAAATTTTGC
33877774 GGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAGCG
1 GGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAGCG
33877823 GGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAG
1 GGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAG
33877870 GAGAGGTTAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.27, C:0.09, G:0.30, T:0.33
Consensus pattern (49 bp):
GGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAGCG
Found at i:33881920 original size:28 final size:27
Alignment explanation
Indices: 33881853--33881922 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
33881843 AGAATATGAT
* *
33881853 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
33881880 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
33881908 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
33881923 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:33881938 original size:55 final size:53
Alignment explanation
Indices: 33881798--33881949 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
33881788 TAAATTGTAC
* *
33881798 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
33881851 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
33881906 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
33881950 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:33881954 original size:27 final size:27
Alignment explanation
Indices: 33881799--33881954 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
33881789 AAATTGTACA
* *
33881799 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
33881826 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
33881853 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
33881880 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
33881908 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
33881935 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
33881955 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:33883905 original size:5 final size:5
Alignment explanation
Indices: 33883895--33883949 Score: 60
Period size: 5 Copynumber: 11.2 Consensus size: 5
33883885 GAATAATAGT
* * *
33883895 AATAA AAT-A AATAA AAGAA AA-AG AATAA AATAA TAATAA AATAT AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA -AATAA AATAA AATAA
33883944 AATAA A
1 AATAA A
33883950 CGGGGGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
4 7 0.17
5 30 0.71
6 5 0.12
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:33883912 original size:26 final size:25
Alignment explanation
Indices: 33883868--33883949 Score: 79
Period size: 21 Copynumber: 3.5 Consensus size: 25
33883858 ACAGTAAAGA
*
33883868 TAAT-AAAGAAATAATAAGAATAATAG
1 TAATAAAATAAATAA-AAGAA-AATAG
33883894 TAATAAAATAAATAAAAGAAAA-AG
1 TAATAAAATAAATAAAAGAAAATAG
*
33883918 -AATAAAAT-AAT--AATAAAATA-
1 TAATAAAATAAATAAAAGAAAATAG
33883938 TAATAAAATAAA
1 TAATAAAATAAA
33883950 CGGGGGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
20 6 0.12
21 9 0.18
22 5 0.10
23 8 0.16
24 2 0.04
25 2 0.04
26 9 0.18
27 9 0.18
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (25 bp):
TAATAAAATAAATAAAAGAAAATAG
Found at i:33898764 original size:56 final size:56
Alignment explanation
Indices: 33898696--33898809 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 56
33898686 TGAAGAATCC
* *
33898696 TTATAATCAAGGATGGACTCAATCCTAAAGAAAGAAAGAGAGAAAATCTCAACAAA
1 TTATAATCAAGGATGGACTCAATCCTAAAGAAAGAAAGAAAGAAAACCTCAACAAA
* * ** * * *
33898752 TTATAATGAAGGATGGACTCCATTTTGAAGAAAGAAAGAAATAAAACCTCATCAAA
1 TTATAATCAAGGATGGACTCAATCCTAAAGAAAGAAAGAAAGAAAACCTCAACAAA
33898808 TT
1 TT
33898810 TGTTTCAATC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (56 bp):
TTATAATCAAGGATGGACTCAATCCTAAAGAAAGAAAGAAAGAAAACCTCAACAAA
Found at i:33906812 original size:46 final size:46
Alignment explanation
Indices: 33906757--33906847 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
33906747 TATATATACA
* ** *
33906757 CATCTCATACATATCTCACATTAGTCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
33906803 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
33906848 ATACACATCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.31, G:0.07, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:33906890 original size:22 final size:22
Alignment explanation
Indices: 33906864--33906939 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
33906854 ATCCACGTTC
33906864 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
33906886 ATCACATGTATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
33906911 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
33906933 ATCACAT
1 ATCACAT
33906940 ATATGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:33906892 original size:47 final size:47
Alignment explanation
Indices: 33906861--33907168 Score: 436
Period size: 47 Copynumber: 6.6 Consensus size: 47
33906851 CACATCCACG
* **
33906861 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* * *
33906908 TTTATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
33906955 TTCTTCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* *
33907002 TTCATCACATTGGCCATTCGGTCTTATCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
** * * * *
33907049 TTCATCACATTTTCCATTCGGTCTTAGCACACAAATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* * *
33907096 TTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
**
33907143 TTCATCACATTTTCCATTCGGCCTTA
1 TTCATCACATTGGCCATTCGGCCTTA
33907169 ACTCATGTAT
Statistics
Matches: 242, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 242 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
Found at i:33917621 original size:37 final size:37
Alignment explanation
Indices: 33917569--33917702 Score: 214
Period size: 37 Copynumber: 3.6 Consensus size: 37
33917559 GTCCCCACGA
* * *
33917569 GTAGTTATCGGGTCTTACCCGGACAAAATCTCCATAC
1 GTAGTCATCGGGTCTTACCCGGACATAATCTCCACAC
*
33917606 GTAGTCATCGAGTCTTACCCGGACATAATCTCCACAC
1 GTAGTCATCGGGTCTTACCCGGACATAATCTCCACAC
*
33917643 GTAGTCATCGGGTCTTACCCGGACATAATCTCCACAT
1 GTAGTCATCGGGTCTTACCCGGACATAATCTCCACAC
*
33917680 GTAGTCATCTGGTCTTACCCGGA
1 GTAGTCATCGGGTCTTACCCGGA
33917703 ATATATTTCC
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTAGTCATCGGGTCTTACCCGGACATAATCTCCACAC
Found at i:33917901 original size:48 final size:48
Alignment explanation
Indices: 33917843--33918180 Score: 586
Period size: 48 Copynumber: 7.0 Consensus size: 48
33917833 ATATACACAC
* *
33917843 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
33917891 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
33917939 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
33917987 ATCTCATAAATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
33918035 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACAACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
33918083 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
33918131 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
33918179 AT
1 AT
33918181 ATTTATCTTG
Statistics
Matches: 277, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 277 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:33922910 original size:23 final size:24
Alignment explanation
Indices: 33922889--33922933 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
33922879 CACTTTCAAT
* *
33922889 TCAATCATT-TTTC-CACATTCAA
1 TCAATAATTATTTCACAAATTCAA
33922911 TCAATAATTATTTCACAAATTCA
1 TCAATAATTATTTCACAAATTCA
33922934 CACATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 4 0.21
24 7 0.37
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (24 bp):
TCAATAATTATTTCACAAATTCAA
Found at i:33922927 original size:22 final size:23
Alignment explanation
Indices: 33922883--33922933 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
33922873 TTCTCACACT
*
33922883 TTCAATTCAATCATTTTTCCACA
1 TTCAATTCAATAATTTTTCCACA
*
33922906 TTCAA-TCAATAATTATTTCACAAA
1 TTCAATTCAATAATT-TTTC-CACA
33922930 TTCA
1 TTCA
33922934 CACATTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.33
23 9 0.38
24 7 0.29
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (23 bp):
TTCAATTCAATAATTTTTCCACA
Found at i:33923319 original size:11 final size:10
Alignment explanation
Indices: 33923305--33923337 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
33923295 CAATTTTTCC
33923305 TTTTTCTTTCT
1 TTTTTC-TTCT
33923316 TTTTTCTTCT
1 TTTTTCTTCT
33923326 TTTTTCTTCT
1 TTTTTCTTCT
33923336 TT
1 TT
33923338 CTCCCCTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:33923331 original size:17 final size:17
Alignment explanation
Indices: 33923298--33923339 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
33923288 AAACCTTCAA
*
33923298 TTTTTCCTTTTTCTTTC
1 TTTTTTCTTTTTCTTTC
33923315 TTTTTTCTTCTTT-TTTC
1 TTTTTTCTT-TTTCTTTC
*
33923332 TTCTTTCT
1 TTTTTTCT
33923340 CCCCTGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTCTTTTTCTTTC
Found at i:33923407 original size:17 final size:16
Alignment explanation
Indices: 33923375--33923408 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
33923365 TTGGCTATTC
*
33923375 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
33923391 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
33923408 T
1 T
33923409 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:33923456 original size:14 final size:14
Alignment explanation
Indices: 33923397--33923447 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
33923387 CTTTTGTTTC
*
33923397 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
33923410 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
33923425 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
33923439 TTTTATTTC
1 TTTTATTTC
33923448 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:33923616 original size:14 final size:17
Alignment explanation
Indices: 33923597--33923633 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
33923587 ATTTATTTCT
33923597 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
33923611 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
33923628 TAATAT
1 TAATAT
33923634 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:33929042 original size:51 final size:50
Alignment explanation
Indices: 33928966--33929065 Score: 164
Period size: 51 Copynumber: 2.0 Consensus size: 50
33928956 CCCTAGTAGC
*
33928966 CAAAGGGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCA
1 CAAAGGGGCCTTCACATAGTACCACAATTGTGTCC-AAGCTATTTTATTCA
* *
33929017 CAAAGTGGCCTTCACATAGTACCACAATTGTGTCCAAGGTATTTTATTC
1 CAAAGGGGCCTTCACATAGTACCACAATTGTGTCCAAGCTATTTTATTC
33929066 CTAAGGTTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 13 0.28
51 33 0.72
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (50 bp):
CAAAGGGGCCTTCACATAGTACCACAATTGTGTCCAAGCTATTTTATTCA
Found at i:33929126 original size:28 final size:28
Alignment explanation
Indices: 33929089--33929183 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
33929079 GAGAAATTTC
33929089 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* *
33929117 TCACTTAGCACATTGCCATTGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* *
33929145 TCACTTAG----ATGCAATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
33929169 TCACTTAGCACAATG
1 TCACTTAGCACAATG
33929184 TCATATCCTA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
24 20 0.35
28 37 0.65
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:33930843 original size:53 final size:53
Alignment explanation
Indices: 33930775--33930879 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
33930765 TTCCTTTTTA
* * * *
33930775 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
33930828 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTAT
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT
33930880 AGTAGTTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:33948366 original size:51 final size:51
Alignment explanation
Indices: 33948290--33948390 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
33948280 CCTTTGTAGC
* * *
33948290 CAAAGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCA
1 CAAAGTGGCCTTCACATAGTACCACACTCGTGTCCAAACCTATATTATTCA
33948341 CAAAGTGGCCTTCACATAGTACCACACTCGTGTCCAAACCTATATTATTC
1 CAAAGTGGCCTTCACATAGTACCACACTCGTGTCCAAACCTATATTATTC
33948391 CTAAGGTTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (51 bp):
CAAAGTGGCCTTCACATAGTACCACACTCGTGTCCAAACCTATATTATTCA
Found at i:33948471 original size:52 final size:52
Alignment explanation
Indices: 33948414--33948532 Score: 193
Period size: 52 Copynumber: 2.3 Consensus size: 52
33948404 AAAAAATTTC
* *
33948414 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATTCCATGGACTTATT
1 TCACTTAGCACAATGCCATGAACTTATTTCACTTAGATGCCATGGACTTATT
* *
33948466 TCACTTAGCACATTGCCATGAACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGAACTTATTTCACTTAGATGCCATGGACTTATT
*
33948518 TCACTTAACACAATG
1 TCACTTAGCACAATG
33948533 TCATATCCTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.36
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGAACTTATTTCACTTAGATGCCATGGACTTATT
Found at i:33948493 original size:28 final size:28
Alignment explanation
Indices: 33948414--33948529 Score: 140
Period size: 24 Copynumber: 4.4 Consensus size: 28
33948404 AAAAAATTTC
*
33948414 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCACATTGCCATGGACTTATT
33948442 TCACTTAG---ATT-CCATGGACTTATT
1 TCACTTAGCACATTGCCATGGACTTATT
*
33948466 TCACTTAGCACATTGCCATGAACTTATT
1 TCACTTAGCACATTGCCATGGACTTATT
*
33948494 TCACTTAG---A-TGCCATGGTCTTATT
1 TCACTTAGCACATTGCCATGGACTTATT
*
33948518 TCACTTAACACA
1 TCACTTAGCACA
33948530 ATGTCATATC
Statistics
Matches: 76, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
24 41 0.54
25 3 0.04
27 4 0.05
28 28 0.37
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (28 bp):
TCACTTAGCACATTGCCATGGACTTATT
Found at i:33949674 original size:17 final size:17
Alignment explanation
Indices: 33949648--33949680 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33949638 GTTTATTGAT
33949648 AAATAAAACTCTGTAAC
1 AAATAAAACTCTGTAAC
*
33949665 AAATAGAACTCTGTAA
1 AAATAAAACTCTGTAA
33949681 GCGTTGCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (17 bp):
AAATAAAACTCTGTAAC
Found at i:33951751 original size:64 final size:66
Alignment explanation
Indices: 33951671--33951826 Score: 185
Period size: 67 Copynumber: 2.4 Consensus size: 66
33951661 AGACATTATG
* * * *
33951671 ATGTAGCTAGGTCGCATGGGTGAG-ACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGGGAT
1 ATGTAGCTAGGTCGCATGGGTG-GTACCAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
*
33951733 AT
65 AA
* *
33951735 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACCA-GTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
33951800 AA
65 AA
* *
33951802 AT-TGGCTAGGTCACATGGGTGGTAC
1 ATGTAGCTAGGTCGCATGGGTGGTAC
33951827 TGAGTGTTCA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
63 1 0.01
64 23 0.30
66 21 0.27
67 32 0.42
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGGGTGGTACCAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
A
Found at i:33964189 original size:27 final size:27
Alignment explanation
Indices: 33964159--33964360 Score: 230
Period size: 27 Copynumber: 7.6 Consensus size: 27
33964149 ATATTGAGTC
* * *
33964159 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
33964186 CGCACACTTAGTGCTACGTAATC-AAT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
33964212 CGCACACTTAGTGCTACATGATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
* ** *
33964239 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
33964266 CGCACACTTAGTGC-ATCAT-TTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
33964292 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
33964319 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
33964346 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33964361 GTACAATTTA
Statistics
Matches: 155, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 46 0.30
27 109 0.70
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:33964239 original size:53 final size:52
Alignment explanation
Indices: 33964159--33964360 Score: 244
Period size: 53 Copynumber: 3.8 Consensus size: 52
33964149 ATATTGAGTC
* * * *
33964159 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAT
1 CGCACACTTAGTGCTACAT-ATCAACTCGCACACTTAGTGCTACATAGTCAAT
* *
33964212 CGCACACTTAGTGCTACATGATCAACTCGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACAT-ATCAACTCGCACACTTAGTGCTACATAGTCAA-T
* ** *
33964266 CGCACACTTAGTGC-ATCATTTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATATCAACTCGCACACTTAGTGCTACATAGTC-AAT
*
33964319 CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATA-TCAACTCGCACACTTAGTGCT
33964361 GTACAATTTA
Statistics
Matches: 128, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
53 89 0.70
54 39 0.30
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (52 bp):
CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCTACATAGTCAAT
Found at i:33964295 original size:80 final size:80
Alignment explanation
Indices: 33964159--33964359 Score: 237
Period size: 80 Copynumber: 2.5 Consensus size: 80
33964149 ATATTGAGTC
* * * * * * * *
33964159 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGC-TACGTAATCA-ATCGCACACTTA
1 CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCAT-CAT-TTCATTTCGCACACTTA
* *
33964222 GTGCTACAT-GATCAACT
64 GTGCAACATAG-TCAAAT
* *
33964239 CGCACACTTAGTGCCACATGGTCAATTCGCACACTTAGTGCATCATTTCATTTCGCACACTTAGT
1 CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCATCATTTCATTTCGCACACTTAGT
33964304 GCAACATAGTCAAAT
66 GCAACATAGTCAAAT
*
33964319 CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGC
33964360 TGTACAATTT
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.03
80 99 0.95
81 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (80 bp):
CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCATCATTTCATTTCGCACACTTAGT
GCAACATAGTCAAAT
Found at i:33972052 original size:27 final size:27
Alignment explanation
Indices: 33972017--33972084 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
33972007 TTGTACAGCA
33972017 ACTAAGTGTGCGATTTGACTATGTAGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
*
33972044 ACTAAGTGTGCGATTTGACTATGTTGC
1 ACTAAGTGTGCGATTTGACTATGTAGC
33972071 ACTAAGTGGTGCGA
1 ACTAAGT-GTGCGA
33972085 AATGAAATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 33 0.85
28 6 0.15
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (27 bp):
ACTAAGTGTGCGATTTGACTATGTAGC
Found at i:33972215 original size:28 final size:27
Alignment explanation
Indices: 33972137--33972226 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 27
33972127 TACTGAGACT
*
33972137 AGTGTGCGAGATTTGATCATGTAGCACTA
1 AGTGTGCGAG--TTGATTATGTAGCACTA
*
33972166 AGTGTGCGA--TGATTACGTAGCACTA
1 AGTGTGCGAGTTGATTATGTAGCACTA
* *
33972191 AGTTGTGCGAGTTGATTATATAGCACTG
1 AG-TGTGCGAGTTGATTATGTAGCACTA
33972219 AGTGTGCG
1 AGTGTGCG
33972227 GACTCAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
25 16 0.30
26 7 0.13
27 6 0.11
28 15 0.28
29 9 0.17
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (27 bp):
AGTGTGCGAGTTGATTATGTAGCACTA
Found at i:34055990 original size:27 final size:27
Alignment explanation
Indices: 34055960--34056160 Score: 253
Period size: 27 Copynumber: 7.5 Consensus size: 27
34055950 ATATTGAGTC
* * * *
34055960 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34055987 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
34056014 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
34056041 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34056068 CGCACACTTAGTGC-ATCAT-TTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34056094 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34056121 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34056148 CGCACACTTAGTG
1 CGCACACTTAGTG
34056161 TGTACAATTT
Statistics
Matches: 155, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
26 23 0.15
27 132 0.85
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34056124 original size:80 final size:80
Alignment explanation
Indices: 34055960--34056160 Score: 251
Period size: 80 Copynumber: 2.5 Consensus size: 80
34055950 ATATTGAGTC
* * * * * * * **
34055960 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCAT-CAT-TTCATTTCGCACACTTA
* *
34056024 GTGCTACATAGTCAACT
64 GTGCAACATAGTCAAAT
* *
34056041 CGCACACTTAGTGCCACATGGTCAATTCGCACACTTAGTGCATCATTTCATTTCGCACACTTAGT
1 CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCATCATTTCATTTCGCACACTTAGT
34056106 GCAACATAGTCAAAT
66 GCAACATAGTCAAAT
*
34056121 CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTG
1 CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTG
34056161 TGTACAATTT
Statistics
Matches: 104, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
80 66 0.63
81 37 0.36
82 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (80 bp):
CGCACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCATCATTTCATTTCGCACACTTAGT
GCAACATAGTCAAAT
Found at i:34059860 original size:28 final size:27
Alignment explanation
Indices: 34059804--34059855 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
34059794 CATTTCATTT
* *
34059804 ATTTCACATTTTAGTCCCTCATTTACAA
1 ATTTCACAATTTAGTCCAT-ATTTACAA
34059832 ATTTCACAATTTAGTCCAT-TTTAC
1 ATTTCACAATTTAGTCCATATTTAC
34059856 TCAAAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
28 17 0.77
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (27 bp):
ATTTCACAATTTAGTCCATATTTACAA
Found at i:34061057 original size:8 final size:8
Alignment explanation
Indices: 34061044--34061068 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
34061034 CTAGGGTTTG
34061044 TTTCAAGC
1 TTTCAAGC
34061052 TTTCAAGC
1 TTTCAAGC
34061060 TTTCAAGC
1 TTTCAAGC
34061068 T
1 T
34061069 CCATAGTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (8 bp):
TTTCAAGC
Found at i:34074002 original size:43 final size:43
Alignment explanation
Indices: 34073941--34074028 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
34073931 TGTAATTACG
34073941 ACAATGGTTGCTCAGAGATATATAAGGAAAGGATACAAAGCTT
1 ACAATGGTTGCTCAGAGATATATAAGGAAAGGATACAAAGCTT
34073984 ACAATGGTTGCTCAGAGATATATAAGGAAAGGATACAAAGCTT
1 ACAATGGTTGCTCAGAGATATATAAGGAAAGGATACAAAGCTT
34074027 AC
1 AC
34074029 CTTGCGTTTG
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:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (43 bp):
ACAATGGTTGCTCAGAGATATATAAGGAAAGGATACAAAGCTT
Found at i:34077120 original size:18 final size:18
Alignment explanation
Indices: 34077097--34077131 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
34077087 TGTGTTAAAT
34077097 TTTCATGAAGAAATTCTG
1 TTTCATGAAGAAATTCTG
34077115 TTTCATGAAGAAATTCT
1 TTTCATGAAGAAATTCT
34077132 AAGTATAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (18 bp):
TTTCATGAAGAAATTCTG
Found at i:34085267 original size:39 final size:39
Alignment explanation
Indices: 34085224--34085299 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
34085214 AAAGTTCGTG
*
34085224 TAACATGAATATGTATGCTAATTTTCCTAAAATGAATCA
1 TAACATGAATATGTATGCTAATATTCCTAAAATGAATCA
*
34085263 TAACATGAATATGTATGTTAATATTCCTAAAATGAAT
1 TAACATGAATATGTATGCTAATATTCCTAAAATGAAT
34085300 TATGTAACTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (39 bp):
TAACATGAATATGTATGCTAATATTCCTAAAATGAATCA
Found at i:34093041 original size:34 final size:35
Alignment explanation
Indices: 34092990--34093061 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
34092980 ATTCTGTAGT
*
34092990 TAGGGTAATACTGAAACTATAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTATAGAAGACTGAGACAG
* *
34093024 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAAAACTG-AAACTATAGAAGACTGAGACAG
34093059 TAG
1 TAG
34093062 CTAGGATACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 6 0.18
34 15 0.45
35 12 0.36
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTATAGAAGACTGAGACAG
Found at i:34095909 original size:50 final size:50
Alignment explanation
Indices: 34095834--34096093 Score: 272
Period size: 50 Copynumber: 5.2 Consensus size: 50
34095824 GCTAAATGAC
* * * * * **
34095834 CTTGAATATTCGGCCACATAGGTATGTACATATGTGTTGTTGTATTGGAT
1 CTTGAATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
* * * * *
34095884 CTTGAATATTCAGCCATGA-AGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGAATATTCGGCCAT-ATAGGTAAGCACATATGTGATATTA-AATTGGAT
* * * * *
34095935 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGAT
1 CTTGAATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
* *
34095984 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTTGAT
1 CTTGAATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
* * *
34096034 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
1 CTTGAATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
* *
34096084 TTTGTATATT
1 CTTGAATATT
34096094 TTGTCAAATG
Statistics
Matches: 179, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
49 6 0.03
50 167 0.93
51 6 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (50 bp):
CTTGAATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
Found at i:34096013 original size:100 final size:100
Alignment explanation
Indices: 34095834--34096093 Score: 326
Period size: 100 Copynumber: 2.6 Consensus size: 100
34095824 GCTAAATGAC
* * * * * *
34095834 CTTGAATATTCGGCCACATAGGTATGTACATATGTGTTGTTGTATTGGATCTTGAATATTCAGCC
1 CTTGCATATTCGGCCATATAGGTAAGTACATATGTGATGTTATATTTGATCTTGAATATTCAGCC
* *
34095899 ATGAAGGTATGCACAAATGTGATATTATATTTGAAT
66 ATGAAGGTAAGCACAAATGTGATATTAAATTTG-AT
* * * * *
34095935 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGATCTTGCATATTCGGCC
1 CTTGCATATTCGGCCATATAGGTAAGTACATATGTGATGTTATATTTGATCTTGAATATTCAGCC
*
34095999 AT-ATAGGTAAGCACATATGTGATATTAAATTTGAT
66 ATGA-AGGTAAGCACAAATGTGATATTAAATTTGAT
* * * *
34096034 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGATTTTGTATATT
1 CTTGCATATTCGGCCATATAGGTAAGTACATATGTGATGTTATATTTGATCTTGAATATT
34096094 TTGTCAAATG
Statistics
Matches: 137, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
99 3 0.02
100 134 0.98
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (100 bp):
CTTGCATATTCGGCCATATAGGTAAGTACATATGTGATGTTATATTTGATCTTGAATATTCAGCC
ATGAAGGTAAGCACAAATGTGATATTAAATTTGAT
Found at i:34113512 original size:40 final size:40
Alignment explanation
Indices: 34113455--34113684 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
34113445 ATTTGAATAC
* * * *
34113455 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TAT
34113495 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
34113535 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
34113575 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
34113615 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
34113655 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
34113685 TTGTGGTTAT
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 173 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:34122049 original size:40 final size:40
Alignment explanation
Indices: 34121992--34122221 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
34121982 ATTTGAATAC
* * * *
34121992 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TAT
34122032 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
34122072 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
34122112 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
34122152 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
34122192 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
34122222 TTGTGGTTAT
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 173 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:34123873 original size:50 final size:50
Alignment explanation
Indices: 34123708--34123967 Score: 265
Period size: 50 Copynumber: 5.2 Consensus size: 50
34123698 GCTAAATGCC
* * * * * * * *
34123708 CTTGTATATTTGGCCACATAAGTATGTACATATGTGACGTTGTATTGGAT
1 CTTGCATATTCGGCCATATAAGTAAGCACATATGTGATGTTATATTTGAT
* * * * * *
34123758 CTTGAATATTCGGCCAT-GAAGATATGCACAAATGTAATATTATATTTGAAT
1 CTTGCATATTCGGCCATATAAG-TAAGCACATATGTGATGTTATATTTG-AT
* * *
34123809 -TTGTC-TATTTGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGAT
1 CTTG-CATATTCGGCCATATAAGTAAGCACATATGTGATGTTATATTTGAT
* * *
34123858 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTTGAT
1 CTTGCATATTCGGCCATATAAGTAAGCACATATGTGATGTTATATTTGAT
* *
34123908 CTTGCATATTCGGCCATATAGGTTAGCACATATGTGATGTTATATTTGAT
1 CTTGCATATTCGGCCATATAAGTAAGCACATATGTGATGTTATATTTGAT
*
34123958 CTTGTATATT
1 CTTGCATATT
34123968 TGACCAAATG
Statistics
Matches: 176, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
49 6 0.03
50 165 0.94
51 5 0.03
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (50 bp):
CTTGCATATTCGGCCATATAAGTAAGCACATATGTGATGTTATATTTGAT
Found at i:34123887 original size:100 final size:100
Alignment explanation
Indices: 34123708--34123967 Score: 310
Period size: 100 Copynumber: 2.6 Consensus size: 100
34123698 GCTAAATGCC
* * * * * *
34123708 CTTGTATATTTGGCCACATAAGTATGTACATATGTGACGTTGTATTGGATCTTGAATATTCGGCC
1 CTTGTCTATTTGGCCATATAAGTAAGTACATATGTGATGTTATATTTGATCTTGAATATTCGGCC
* *
34123773 ATGAAGATATGCACAAATGTAATATTATATTTGAAT
66 ATGAAGATAAGCACAAATGTAATATTAAATTTG-AT
* *
34123809 -TTGTCTATTTGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGATCTTGCATATTCGGCC
1 CTTGTCTATTTGGCCATATAAGTAAGTACATATGTGATGTTATATTTGATCTTGAATATTCGGCC
* * *
34123873 AT-ATAGGTAAGCACATATGTGATATTAAATTTGAT
66 ATGA-AGATAAGCACAAATGTAATATTAAATTTGAT
* * * * *
34123908 CTTG-CATATTCGGCCATATAGGTTAGCACATATGTGATGTTATATTTGATCTTGTATATT
1 CTTGTC-TATTTGGCCATATAAGTAAGTACATATGTGATGTTATATTTGATCTTGAATATT
34123968 TGACCAAATG
Statistics
Matches: 137, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
99 4 0.03
100 133 0.97
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (100 bp):
CTTGTCTATTTGGCCATATAAGTAAGTACATATGTGATGTTATATTTGATCTTGAATATTCGGCC
ATGAAGATAAGCACAAATGTAATATTAAATTTGAT
Found at i:34132631 original size:42 final size:42
Alignment explanation
Indices: 34132583--34132747 Score: 213
Period size: 42 Copynumber: 3.9 Consensus size: 42
34132573 ATTAGGGTTA
* * *
34132583 ATGAGACTATGTGTAAGACCATATCTGAGATATGACATCAAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCAAT
*
34132625 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCAAT
** * * *
34132667 ATGAGACTTTGTGTAAGACCATAGCTGGGCTATTGGCATCTAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATA-TGGCATCAAT
* * *
34132710 ACGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCAT
34132748 TGGTACGGTA
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 72 0.68
43 34 0.32
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCAAT
Found at i:34132742 original size:85 final size:84
Alignment explanation
Indices: 34132583--34132747 Score: 240
Period size: 85 Copynumber: 2.0 Consensus size: 84
34132573 ATTAGGGTTA
* * *
34132583 ATGAGACTATGTGTAAGACCATATCTGAGATATGACATCAATATGAGACTACGTGTAAGACCATA
1 ATGAGACTATGTGTAAGACCATAGCTGAGATATGACATCAATACGAGACTACATGTAAGACCATA
34132648 TCTGGGATATGGCATCGAT
66 TCTGGGATATGGCATCGAT
* * * * * *
34132667 ATGAGACTTTGTGTAAGACCATAGCTGGGCTATTGGCATCTATACGAGATTACATGTAAGACCAT
1 ATGAGACTATGTGTAAGACCATAGCTGAGATA-TGACATCAATACGAGACTACATGTAAGACCAT
34132732 ATCTGGGATATGGCAT
65 ATCTGGGATATGGCAT
34132748 TGGTACGGTA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 28 0.39
85 43 0.61
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (84 bp):
ATGAGACTATGTGTAAGACCATAGCTGAGATATGACATCAATACGAGACTACATGTAAGACCATA
TCTGGGATATGGCATCGAT
Found at i:34132765 original size:85 final size:84
Alignment explanation
Indices: 34132592--34132766 Score: 208
Period size: 85 Copynumber: 2.1 Consensus size: 84
34132582 AATGAGACTA
* * *
34132592 TGTGTAAGACCATATCTGAGATATGACATCAATATGAGACTACGTGTAAGACCATATCTGGGATA
1 TGTGTAAGACCATAGCTGAGATATGACATCAATACGAGACTACATGTAAGACCATATCTGGGATA
* **
34132657 TGGCATCGATATGAGACTT
66 TGGCATCGATACGAGACCG
* * * * *
34132676 TGTGTAAGACCATAGCTGGGCTATTGGCATCTATACGAGATTACATGTAAGACCATATCTGGGAT
1 TGTGTAAGACCATAGCTGAGATA-TGACATCAATACGAGACTACATGTAAGACCATATCTGGGAT
* *
34132741 ATGGCATTGGTACG-GTACCG
65 ATGGCATCGATACGAG-ACCG
34132761 TGTGTA
1 TGTGTA
34132767 CGAGACTCCC
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
84 21 0.28
85 55 0.72
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (84 bp):
TGTGTAAGACCATAGCTGAGATATGACATCAATACGAGACTACATGTAAGACCATATCTGGGATA
TGGCATCGATACGAGACCG
Found at i:34137761 original size:48 final size:48
Alignment explanation
Indices: 34137709--34137927 Score: 242
Period size: 48 Copynumber: 4.6 Consensus size: 48
34137699 CATCTTCGAA
* * * *
34137709 ACATGGTGTTACAATGGCT-TACATGTCGAGGCTGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCT-CATATCGAGGCCGATGCCATGTCCCAG
* * * ** * *
34137757 ACATGGTCTTACACTAGCGCACATATAAATGCCGATGCCATGTCCTAG
1 ACATGGTCTTACACTGGCTCTCATATCGAGGCCGATGCCATGTCCCAG
* * * *
34137805 ACATGGTCTTACACTGGCTCTCATGTTGTGGCCGATGCCATGTCCCAA
1 ACATGGTCTTACACTGGCTCTCATATCGAGGCCGATGCCATGTCCCAG
* * *
34137853 ACATGGTCTTACACTGGCTCTCATATCGTGGCTGAAGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATATCGAGGCCGATGCCATGTCCCAG
* *
34137901 ACATGGTCTTACACTGGCACACATATC
1 ACATGGTCTTACACTGGCTCTCATATC
34137928 ACCCAAATGT
Statistics
Matches: 142, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
48 142 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (48 bp):
ACATGGTCTTACACTGGCTCTCATATCGAGGCCGATGCCATGTCCCAG
Found at i:34138362 original size:219 final size:219
Alignment explanation
Indices: 34137983--34138424 Score: 839
Period size: 219 Copynumber: 2.0 Consensus size: 219
34137973 TTGGGACTCT
34137983 ACTACATTAAATTTCATCATGCATTATTCATAAGCTATTTCAACCATATTACACAAAATTAATCA
1 ACTACATTAAATTTCATCATGCATTATTCATAAGCTATTTCAACCATATTACACAAAATTAATCA
34138048 TTCAACACATAATAATGATAAAGTTGCCTTACTTACGTACAACTTACCTCGGGATACAAAAAGTT
66 TTCAACACATAATAATGATAAAGTTGCCTTACTTACGTACAACTTACCTCGGGATACAAAAAGTT
**
34138113 GGCAACTAGTTGAATTTAGTCTACTTGTTTAGCCTTCCCCCGGTCTAGGCCTGGATTTTGTATTT
131 GGCAACTAGTTGAATTTAGTCTACTTGTTTAGCCTTCCCCCAATCTAGGCCTGGATTTTGTATTT
34138178 CTTGATCTAAAATGATAAAAATTC
196 CTTGATCTAAAATGATAAAAATTC
*
34138202 ACTACATTGAATTTCATCATGCATTATTCATAAGCTATTTCAACCATATTACACAAAATTAATCA
1 ACTACATTAAATTTCATCATGCATTATTCATAAGCTATTTCAACCATATTACACAAAATTAATCA
* *
34138267 TTCAATACATAATAATGATAAAGTTGCCTTACTTACGTACAACTTACCTCGGTATACAAAAAGTT
66 TTCAACACATAATAATGATAAAGTTGCCTTACTTACGTACAACTTACCTCGGGATACAAAAAGTT
34138332 GGCAACTAGTTGAATTTAGTCTACTTGTTTAGCCTTCCCCCAATCTAGGCCTGGATTTTGTATTT
131 GGCAACTAGTTGAATTTAGTCTACTTGTTTAGCCTTCCCCCAATCTAGGCCTGGATTTTGTATTT
34138397 CTTGATCTAAAATGATAAAAATTC
196 CTTGATCTAAAATGATAAAAATTC
34138421 ACTA
1 ACTA
34138425 ATTTAATCAT
Statistics
Matches: 218, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
219 218 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Consensus pattern (219 bp):
ACTACATTAAATTTCATCATGCATTATTCATAAGCTATTTCAACCATATTACACAAAATTAATCA
TTCAACACATAATAATGATAAAGTTGCCTTACTTACGTACAACTTACCTCGGGATACAAAAAGTT
GGCAACTAGTTGAATTTAGTCTACTTGTTTAGCCTTCCCCCAATCTAGGCCTGGATTTTGTATTT
CTTGATCTAAAATGATAAAAATTC
Found at i:34145728 original size:48 final size:48
Alignment explanation
Indices: 34145675--34145941 Score: 263
Period size: 48 Copynumber: 5.6 Consensus size: 48
34145665 ATGTCGAGGT
* * * * *
34145675 CGATGCCATGTACCAGCCATGGTCTTACACTAGCTCTCGTCTTAAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTT-ATGGC
* * * * *
34145723 TGATGCTATATCCCAAACATGGTCTTACACTGGCTCTCATGTTGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTTATGGC
* * * * *
34145771 CGATACCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTCATGT-TATGGC
* * * *
34145819 TGATTCCATGTCCCAGACATGGTCTTACATTGGCTCTCATGTTGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTTATGGC
* *
34145867 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCT-TGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGT-TATGGC
* *
34145915 CAATGCCATGTCCCCGACATGGTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
34145942 TACTAGCACA
Statistics
Matches: 177, Mismatches: 36, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
47 3 0.02
48 171 0.97
49 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTTATGGC
Found at i:34145803 original size:96 final size:96
Alignment explanation
Indices: 34145639--34145909 Score: 339
Period size: 96 Copynumber: 2.8 Consensus size: 96
34145629 ATGTCGTGAT
** * * * * *
34145639 CCAAACATGGTCTTATGCTGGCT-TACATGTCGAGGTCGATGCCATGTACCAGCCATGGTCTTAC
1 CCAAACATGGTCTTACACTGGCTCT-CATGTTGTGGCCGATGCCATGTCCCAGACATGGTCTTAC
* * * *
34145703 ACTAGCTCTCGTCTTAATGCTGATGCTATATC
65 ACTAGCTCTCATATCAATGCTGATGCCATATC
*
34145735 CCAAACATGGTCTTACACTGGCTCTCATGTTGTGGCCGATACCATGTCCCAGACATGGTCTTACA
1 CCAAACATGGTCTTACACTGGCTCTCATGTTGTGGCCGATGCCATGTCCCAGACATGGTCTTACA
* * *
34145800 CTAG-TGCACATATCAATGCTGATTCCATGTC
66 CTAGCT-CTCATATCAATGCTGATGCCATATC
* * *
34145831 CCAGACATGGTCTTACATTGGCTCTCATGTTGTGGCCGATGCCATGTCCCAAACATGGTCTTACA
1 CCAAACATGGTCTTACACTGGCTCTCATGTTGTGGCCGATGCCATGTCCCAGACATGGTCTTACA
*
34145896 CTGGCTCTCATATC
66 CTAGCTCTCATATC
34145910 TTGGCCAATG
Statistics
Matches: 151, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
95 1 0.01
96 148 0.98
97 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (96 bp):
CCAAACATGGTCTTACACTGGCTCTCATGTTGTGGCCGATGCCATGTCCCAGACATGGTCTTACA
CTAGCTCTCATATCAATGCTGATGCCATATC
Found at i:34145903 original size:144 final size:144
Alignment explanation
Indices: 34145680--34145958 Score: 373
Period size: 144 Copynumber: 1.9 Consensus size: 144
34145670 GAGGTCGATG
* * * *
34145680 CCATGTACCAGCCATGGTCTTACACTAGCTCTCGTCTTAATGCTGATGCTATATCCCAAACATGG
1 CCATGTACCAGACATGGTCTTACACTAGCTCTCATCTTAATGCCGATGCCATATCCCAAACATGG
* * **
34145745 TCTTACACTGGCTCTCATGT-TGTGGCCGATACCATGTCCCAGACATGGTCTTACACTAGTGCAC
66 TCTTACACTGGCTCTCATATCT-TGGCCAATACCATGTCCCAGACATGGTCTTACACTAGCACAC
34145809 ATATCAATGCTGATT
130 ATATCAATGCTGATT
* * * * * *
34145824 CCATGTCCCAGACATGGTCTTACATTGGCTCTCATGTT-GTGGCCGATGCCATGTCCCAAACATG
1 CCATGTACCAGACATGGTCTTACACTAGCTCTCATCTTAAT-GCCGATGCCATATCCCAAACATG
* * *
34145888 GTCTTACACTGGCTCTCATATCTTGGCCAATGCCATGTCCCCGACATGGTCTTATACTAGCACAC
65 GTCTTACACTGGCTCTCATATCTTGGCCAATACCATGTCCCAGACATGGTCTTACACTAGCACAC
34145953 ATATCA
130 ATATCA
34145959 CCCAACTGTC
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
143 1 0.01
144 114 0.98
145 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (144 bp):
CCATGTACCAGACATGGTCTTACACTAGCTCTCATCTTAATGCCGATGCCATATCCCAAACATGG
TCTTACACTGGCTCTCATATCTTGGCCAATACCATGTCCCAGACATGGTCTTACACTAGCACACA
TATCAATGCTGATT
Found at i:34148086 original size:35 final size:34
Alignment explanation
Indices: 34148047--34148122 Score: 111
Period size: 32 Copynumber: 2.3 Consensus size: 34
34148037 AACCTTTAAT
*
34148047 TCTCCTTCTAATTGCCATAGTTGTTCCTCACCCCC
1 TCTCCTTCT-ATTGCCATAGTCGTTCCTCACCCCC
34148082 TCTCC-T-TATTGCCATAGTCGTTCCTCACCCCC
1 TCTCCTTCTATTGCCATAGTCGTTCCTCACCCCC
*
34148114 TCTCTTTCT
1 TCTCCTTCT
34148123 CTTTGATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
32 28 0.76
33 2 0.05
34 2 0.05
35 5 0.14
ACGTcount: A:0.12, C:0.41, G:0.08, T:0.39
Consensus pattern (34 bp):
TCTCCTTCTATTGCCATAGTCGTTCCTCACCCCC
Found at i:34148095 original size:32 final size:32
Alignment explanation
Indices: 34148057--34148117 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
34148047 TCTCCTTCTA
*
34148057 ATTGCCATAGTTGTTCCTCACCCCCTCTCCTT
1 ATTGCCATAGTCGTTCCTCACCCCCTCTCCTT
34148089 ATTGCCATAGTCGTTCCTCACCCCCTCTC
1 ATTGCCATAGTCGTTCCTCACCCCCTCTC
34148118 TTTCTCTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.13, C:0.43, G:0.10, T:0.34
Consensus pattern (32 bp):
ATTGCCATAGTCGTTCCTCACCCCCTCTCCTT
Found at i:34151314 original size:15 final size:15
Alignment explanation
Indices: 34151291--34151320 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34151281 AAATGGAGGC
34151291 CTTTGTTTTTCTTTT
1 CTTTGTTTTTCTTTT
*
34151306 CTTTTTTTTTCTTTT
1 CTTTGTTTTTCTTTT
34151321 TTAGACCTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (15 bp):
CTTTGTTTTTCTTTT
Found at i:34153330 original size:14 final size:14
Alignment explanation
Indices: 34153311--34153340 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34153301 TGATGGGTTC
34153311 AACGTTATTAATTA
1 AACGTTATTAATTA
34153325 AACGTTATTAATTA
1 AACGTTATTAATTA
34153339 AA
1 AA
34153341 TCTTTTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (14 bp):
AACGTTATTAATTA
Found at i:34157158 original size:14 final size:14
Alignment explanation
Indices: 34157139--34157182 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
34157129 CATAACTTAT
34157139 ATTATATACATATA
1 ATTATATACATATA
* *
34157153 ATTATATACATTTT
1 ATTATATACATATA
34157167 ATTATTATAACATATA
1 ATTA-TAT-ACATATA
34157183 TATATTGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 16 0.67
15 3 0.12
16 5 0.21
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:34165292 original size:58 final size:57
Alignment explanation
Indices: 34165179--34165292 Score: 176
Period size: 58 Copynumber: 2.0 Consensus size: 57
34165169 TTAGAACTCA
* **
34165179 TAACACATTTAGAGAATTTTGTGTTACATTTTGACGGTTCTTTATTTTTGGGTTTTC
1 TAACACATTTAGAGAATTTTGTGTTACATTTTGAAGGTTCTTTATTTTCAGGTTTTC
34165236 TAACACATTTAGAGAATTTTGTGTTTA-AGTTTTGAAGGTTCTTTATTTTCAGGTTTT
1 TAACACATTTAGAGAATTTTGTG-TTACA-TTTTGAAGGTTCTTTATTTTCAGGTTTT
34165293 TTGAGTTTAG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
57 24 0.46
58 28 0.54
ACGTcount: A:0.23, C:0.09, G:0.18, T:0.51
Consensus pattern (57 bp):
TAACACATTTAGAGAATTTTGTGTTACATTTTGAAGGTTCTTTATTTTCAGGTTTTC
Found at i:34171780 original size:25 final size:25
Alignment explanation
Indices: 34171752--34171830 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
34171742 TAACTCTTGA
34171752 GAGCTTACTGATTCTCAGCTCGTAT
1 GAGCTTACTGATTCTCAGCTCGTAT
*
34171777 GAGCTTACTGATT-TACAGCTTGTGA-
1 GAGCTTACTGATTCT-CAGCTCGT-AT
*
34171802 GAGCATACTGATTCAT-AGCTCGTAT
1 GAGCTTACTGATTC-TCAGCTCGTAT
34171827 GAGC
1 GAGC
34171831 ATACATGTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 2 0.04
25 42 0.91
26 1 0.02
27 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (25 bp):
GAGCTTACTGATTCTCAGCTCGTAT
Found at i:34171803 original size:50 final size:49
Alignment explanation
Indices: 34171712--34171830 Score: 141
Period size: 50 Copynumber: 2.4 Consensus size: 49
34171702 AAGGTTACCA
** *
34171712 ATTCTTAGCTCGTATGAGCTTACCAATTTGTAACTCTTGAGAGCTTACTG
1 ATTC-TAGCTCGTATGAGCTTACCAATTTACAACTCTTGAGAGCATACTG
** *
34171762 ATTCTCAGCTCGTATGAGCTTACTGATTTACAGCT-TGTGAGAGCATACTG
1 ATTCT-AGCTCGTATGAGCTTACCAATTTACAACTCT-TGAGAGCATACTG
34171812 ATTCATAGCTCGTATGAGC
1 ATTC-TAGCTCGTATGAGC
34171831 ATACATGTAC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
49 2 0.03
50 57 0.95
51 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (49 bp):
ATTCTAGCTCGTATGAGCTTACCAATTTACAACTCTTGAGAGCATACTG
Found at i:34176863 original size:40 final size:40
Alignment explanation
Indices: 34176780--34176965 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
34176770 TTGAATGATG
* * * *
34176780 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
34176820 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34176860 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34176900 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
34176941 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34176966 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34176972 original size:80 final size:79
Alignment explanation
Indices: 34176833--34176998 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
34176823 GGACTAAGAT
* **
34176833 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
34176897 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
34176913 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
34176977 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
34176992 CCGAAGG
1 CCGAAGG
34176999 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:34183799 original size:30 final size:30
Alignment explanation
Indices: 34183763--34183824 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
34183753 TCAAGGCATG
34183763 TAAATGCGTTCAAGGGTACTGAAGTACATA
1 TAAATGCGTTCAAGGGTACTGAAGTACATA
*
34183793 TAAATGCGTTCAAGGGTATTGAAGTACATA
1 TAAATGCGTTCAAGGGTACTGAAGTACATA
34183823 TA
1 TA
34183825 GGGCACGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (30 bp):
TAAATGCGTTCAAGGGTACTGAAGTACATA
Found at i:34183865 original size:39 final size:40
Alignment explanation
Indices: 34183806--34183883 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 40
34183796 ATGCGTTCAA
* * *
34183806 GGGTATTGAAGTACATATAGG-GCACGTATGTGCAATCAG
1 GGGTACTGAAGTACAAATAGGAGCACGTATATGCAATCAG
*
34183845 GGGTACTGAAGTACAAATAGGAGCACGTATATGCCATCA
1 GGGTACTGAAGTACAAATAGGAGCACGTATATGCAATCA
34183884 TCTAATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 19 0.56
40 15 0.44
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.23
Consensus pattern (40 bp):
GGGTACTGAAGTACAAATAGGAGCACGTATATGCAATCAG
Found at i:34190275 original size:40 final size:40
Alignment explanation
Indices: 34190221--34190511 Score: 465
Period size: 40 Copynumber: 7.3 Consensus size: 40
34190211 ATTGAGAGTT
* *
34190221 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* * * *
34190261 TTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* * *
34190301 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
34190341 ATATGTCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
34190381 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
34190421 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
34190461 ATATAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
34190501 ATATATCCGGG
1 ATATATCCGGG
34190512 TTAAACCTCG
Statistics
Matches: 238, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 238 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
Found at i:34194581 original size:18 final size:19
Alignment explanation
Indices: 34194537--34194587 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
34194527 GTAGTAGTGG
34194537 CAGTAATCAGTGCAGTAAC
1 CAGTAATCAGTGCAGTAAC
* *
34194556 CA-TGATCAATGCAGTAA-
1 CAGTAATCAGTGCAGTAAC
34194573 CAGTAATCAGTGCAG
1 CAGTAATCAGTGCAG
34194588 AATGCAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (19 bp):
CAGTAATCAGTGCAGTAAC
Found at i:34194876 original size:23 final size:23
Alignment explanation
Indices: 34194821--34194876 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
34194811 TATCCCACCC
34194821 CATGCAATGCAACATAATATCATA
1 CATGC-ATGCAACATAATATCATA
*
34194845 CATGGATGCAACATACATAT-A-A
1 CATGCATGCAACATA-ATATCATA
34194867 CATGACATGC
1 CATG-CATGC
34194877 TTAAATATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 5 0.18
23 15 0.54
24 8 0.29
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.23
Consensus pattern (23 bp):
CATGCATGCAACATAATATCATA
Found at i:34194995 original size:27 final size:27
Alignment explanation
Indices: 34194959--34195026 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
34194949 TACAAAGGTG
* * *
34194959 TTTCTGTCATTTTACCCTATGGGGGTA
1 TTTCAGTCATTTTACCCAATGAGGGTA
34194986 TTTC-GATCATTTTACCCAATGAGGGTA
1 TTTCAG-TCATTTTACCCAATGAGGGTA
34195013 TTTCAGTCATTTTA
1 TTTCAGTCATTTTA
34195027 TCACATGAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.03
27 35 0.95
28 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (27 bp):
TTTCAGTCATTTTACCCAATGAGGGTA
Found at i:34195034 original size:27 final size:27
Alignment explanation
Indices: 34195018--34195307 Score: 357
Period size: 27 Copynumber: 10.7 Consensus size: 27
34195008 GGGTATTTCA
*
34195018 GTCATTTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATGAGGGAAAAATC
* * *
34195045 GTCATTTTATCACGTAAGGGCAAAATC
1 GTCATTTTATCACATGAGGGAAAAATC
34195072 GTCATTTTATCACATGAGGGAAAAATC
1 GTCATTTTATCACATGAGGGAAAAATC
* * * *
34195099 ATCATTTTATCACATAAAGGCAAAA-C
1 GTCATTTTATCACATGAGGGAAAAATC
34195125 TGTCATTTTATCACATGAGGGAAAAATC
1 -GTCATTTTATCACATGAGGGAAAAATC
* * *
34195153 ATCATTTTATCACATGAGGGCAAAATT
1 GTCATTTTATCACATGAGGGAAAAATC
* * *
34195180 GTCATTTTATCATATAAGGGCAAAATC
1 GTCATTTTATCACATGAGGGAAAAATC
* *
34195207 GTCATTTTATCACATGAGGGCAAAATT
1 GTCATTTTATCACATGAGGGAAAAATC
* *
34195234 GTCATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATGAGGGAAAAATC
** * *
34195261 GTCATTTTATCATGTGAGGGCAAAATT
1 GTCATTTTATCACATGAGGGAAAAATC
*
34195288 GTCATTTTATCACATAAGGG
1 GTCATTTTATCACATGAGGG
34195308 TTCAGGTACG
Statistics
Matches: 227, Mismatches: 34, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
26 1 0.00
27 225 0.99
28 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (27 bp):
GTCATTTTATCACATGAGGGAAAAATC
Found at i:34195089 original size:81 final size:81
Alignment explanation
Indices: 34195018--34195307 Score: 402
Period size: 81 Copynumber: 3.6 Consensus size: 81
34195008 GGGTATTTCA
* *
34195018 GTCATTTTATCACATGAGGGCAAAATCGTCATTTTATCACGTAAGGGCAAAATCGTCATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
34195083 ACATGAGGGAAAAATC
66 ACATGAGGGAAAAATC
* * * * *
34195099 ATCATTTTATCACATAAAGGCAAAA-CTGTCATTTTATCACATGAGGGAAAAATCATCATTTTAT
1 GTCATTTTATCACATAAGGGCAAAATC-GTCATTTTATCACATAAGGGCAAAATCGTCATTTTAT
* *
34195163 CACATGAGGGCAAAATT
65 CACATGAGGGAAAAATC
* * *
34195180 GTCATTTTATCATATAAGGGCAAAATCGTCATTTTATCACATGAGGGCAAAATTGTCATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
* *
34195245 ACATAAGGGTAAAATC
66 ACATGAGGGAAAAATC
** * *
34195261 GTCATTTTATCATGTGAGGGCAAAATTGTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGG
34195308 TTCAGGTACG
Statistics
Matches: 185, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 183 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (81 bp):
GTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
ACATGAGGGAAAAATC
Found at i:34195308 original size:54 final size:54
Alignment explanation
Indices: 34195018--34195307 Score: 427
Period size: 54 Copynumber: 5.4 Consensus size: 54
34195008 GGGTATTTCA
* * * * *
34195018 GTCATTTTATCACATGAGGGCAAAATCGTCATTTTATCACGTAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGAAAAATCGTCATTTTATCACATGAGGGCAAAATT
* * * * *
34195072 GTCATTTTATCACATGAGGGAAAAATCATCATTTTATCACATAAAGGCAAAACT
1 GTCATTTTATCACATAAGGGAAAAATCGTCATTTTATCACATGAGGGCAAAATT
* *
34195126 GTCATTTTATCACATGAGGGAAAAATCATCATTTTATCACATGAGGGCAAAATT
1 GTCATTTTATCACATAAGGGAAAAATCGTCATTTTATCACATGAGGGCAAAATT
* *
34195180 GTCATTTTATCATATAAGGGCAAAATCGTCATTTTATCACATGAGGGCAAAATT
1 GTCATTTTATCACATAAGGGAAAAATCGTCATTTTATCACATGAGGGCAAAATT
* **
34195234 GTCATTTTATCACATAAGGGTAAAATCGTCATTTTATCATGTGAGGGCAAAATT
1 GTCATTTTATCACATAAGGGAAAAATCGTCATTTTATCACATGAGGGCAAAATT
34195288 GTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGG
34195308 TTCAGGTACG
Statistics
Matches: 219, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 219 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (54 bp):
GTCATTTTATCACATAAGGGAAAAATCGTCATTTTATCACATGAGGGCAAAATT
Found at i:34196749 original size:12 final size:12
Alignment explanation
Indices: 34196734--34196785 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
34196724 CCTTGATTTT
34196734 CTCCTAAAATCC
1 CTCCTAAAATCC
* * *
34196746 CTCCTCATATCT
1 CTCCTAAAATCC
* *
34196758 CTCCTCAACTCC
1 CTCCTAAAATCC
*
34196770 CTCCTACAATCC
1 CTCCTAAAATCC
34196782 CTCC
1 CTCC
34196786 ATGACCAATT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.21, C:0.50, G:0.00, T:0.29
Consensus pattern (12 bp):
CTCCTAAAATCC
Found at i:34196785 original size:24 final size:24
Alignment explanation
Indices: 34196734--34196785 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
34196724 CCTTGATTTT
*
34196734 CTCCTAAAATCCCTCCTCATATCT
1 CTCCTAAAATCCCTCCTCATATCC
* *
34196758 CTCCTCAACTCCCTCCTACA-ATCC
1 CTCCTAAAATCCCTCCT-CATATCC
34196782 CTCC
1 CTCC
34196786 ATGACCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.21, C:0.50, G:0.00, T:0.29
Consensus pattern (24 bp):
CTCCTAAAATCCCTCCTCATATCC
Found at i:34209274 original size:46 final size:45
Alignment explanation
Indices: 34209207--34209378 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 45
34209197 AACCCGCCCC
*
34209207 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCATCCA
* * ** *
34209253 TAAGTGAACTCGGACTCAACTCAATGAGTTCGG-ATGCCTGGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCAT-TC-GCATCCA
* * *
34209299 TTTAA-CGAACTCAGACTCAACCCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCATCCA
*
34209346 AAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
34209379 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
44 2 0.02
45 5 0.05
46 59 0.58
47 29 0.29
48 4 0.04
49 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCA
Found at i:34209325 original size:93 final size:93
Alignment explanation
Indices: 34209212--34209382 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
34209202 GCCCCTAAGT
* * *
34209212 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACCCAACGAGCTC-GGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCA
*
34209276 ATGAGTTCGGATGCCTGGTTACATTTAAC
65 ACGAGTTCGGATGCCTGGTTACATTTAAC
*
34209305 GAACTCAGACTCAACCCAACGAGTTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACCCAACGAGCTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCAA
34209370 CGAGTTCGGATGC
66 CGAGTTCGGATGC
34209383 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACCCAACGAGCTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTGGTTACATTTAAC
Found at i:34212956 original size:27 final size:27
Alignment explanation
Indices: 34212915--34213122 Score: 213
Period size: 27 Copynumber: 7.7 Consensus size: 27
34212905 AACCATACAA
* *
34212915 GGGTATTACGATCATTTTACCCTAAAG
1 GGGTATTACGGTCATTTTACCCTATAG
* * * *
34212942 GGGCATTATGGTCATTTTATCTTATAG
1 GGGTATTACGGTCATTTTACCCTATAG
* * *
34212969 GGGCATTACGATCATTTTACCCTACAG
1 GGGTATTACGGTCATTTTACCCTATAG
* * *
34212996 AGGTATTACGGTCATTTAACCCTAAAG
1 GGGTATTACGGTCATTTTACCCTATAG
*
34213023 GGGTATTACGGTCATTTTACCTTATAG
1 GGGTATTACGGTCATTTTACCCTATAG
** *
34213050 GGGTATTATAGTCATTTCACCCT-TAG
1 GGGTATTACGGTCATTTTACCCTATAG
* *
34213076 GGGTTTTACAGTCATTTTACCCTACTA-
1 GGGTATTACGGTCATTTTACCCTA-TAG
* *
34213103 GGGAATTACAGTCATTTTAC
1 GGGTATTACGGTCATTTTAC
34213123 AAATCGCGGG
Statistics
Matches: 150, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 23 0.15
27 125 0.83
28 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GGGTATTACGGTCATTTTACCCTATAG
Found at i:34213051 original size:81 final size:80
Alignment explanation
Indices: 34212916--34213122 Score: 238
Period size: 81 Copynumber: 2.6 Consensus size: 80
34212906 ACCATACAAG
* * * *
34212916 GGTATTACGATCATTTTACCCTAAAGGGGCATTATGGTCATTTTATCTTATAGGGGCATTACGA-
1 GGTATTACGGTCATTTTACCCTAAAGGGGAATTACGGTCATTTTACCTTATAGGGGCATTA-GAG
*
34212980 TCATTTTACCCTACAGA
65 TCATTTCACCCT-CAGA
* * * *
34212997 GGTATTACGGTCATTTAACCCTAAAGGGGTATTACGGTCATTTTACCTTATAGGGGTATTATAGT
1 GGTATTACGGTCATTTTACCCTAAAGGGGAATTACGGTCATTTTACCTTATAGGGGCATTAGAGT
* *
34213062 CATTTCACCCTTAGG
66 CATTTCACCCTCAGA
* * * *
34213077 GGTTTTACAGTCATTTTACCCTACTA-GGGAATTACAGTCATTTTAC
1 GGTATTACGGTCATTTTACCCTA-AAGGGGAATTACGGTCATTTTAC
34213123 AAATCGCGGG
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 41 0.38
81 67 0.62
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (80 bp):
GGTATTACGGTCATTTTACCCTAAAGGGGAATTACGGTCATTTTACCTTATAGGGGCATTAGAGT
CATTTCACCCTCAGA
Found at i:34231643 original size:29 final size:29
Alignment explanation
Indices: 34231601--34231659 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
34231591 CCTTATACTT
34231601 ATATATAACTGTTCATTTACTCCTAACAG
1 ATATATAACTGTTCATTTACTCCTAACAG
34231630 ATATATAACTGTTCATTTACTCCTAACAG
1 ATATATAACTGTTCATTTACTCCTAACAG
34231659 A
1 A
34231660 CTTACTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (29 bp):
ATATATAACTGTTCATTTACTCCTAACAG
Found at i:34235505 original size:24 final size:25
Alignment explanation
Indices: 34235451--34235518 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 25
34235441 ATCCCGACCT
*
34235451 ACAGCTCGTGTGAGCATTTACATTC
1 ACAGCTCGTGTGAGCATTAACATTC
* * *
34235476 ATAGCTTGTGTGAGCA-TAATATTC
1 ACAGCTCGTGTGAGCATTAACATTC
*
34235500 ACAGCTCGTGTGAGAATTA
1 ACAGCTCGTGTGAGCATTA
34235519 TTATCCCGCG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATTAACATTC
Found at i:34238979 original size:13 final size:13
Alignment explanation
Indices: 34238960--34239171 Score: 88
Period size: 12 Copynumber: 17.2 Consensus size: 13
34238950 TGTCATACTA
34238960 AATATATAATAAT
1 AATATATAATAAT
* *
34238973 GATATATAAAAAT
1 AATATATAATAAT
*
34238986 AATATTTAATAAT
1 AATATATAATAAT
*
34238999 AAT-T-T-GT-A-
1 AATATATAATAAT
*
34239007 AAT-TTTAA-AAT
1 AATATATAATAAT
*
34239018 TATATATAATAAT
1 AATATATAATAAT
34239031 AA-ATAATAAGATAACAT
1 AATAT-AT-A-AT-A-AT
34239048 AATATATAATAA-
1 AATATATAATAAT
*
34239060 AATA-AGAAATGAAT
1 AATATA-TAAT-AAT
34239074 AATATAT-ATAAT
1 AATATATAATAAT
* *
34239086 AA-A-ATGAT-TT
1 AATATATAATAAT
34239096 AATATATAATAA-
1 AATATATAATAAT
34239108 AATATATAATAA-
1 AATATATAATAAT
34239120 AATATA-AATAAT
1 AATATATAATAAT
*
34239132 -ATA-ACAAATAAT
1 AATATA-TAATAAT
* *
34239144 ACATAAATAA-AAA
1 A-ATATATAATAAT
34239157 AATATAT-ATAAT
1 AATATATAATAAT
34239169 AAT
1 AAT
34239172 TTTTAAATGT
Statistics
Matches: 153, Mismatches: 19, Indels: 55
0.67 0.08 0.24
Matches are distributed among these distances:
8 4 0.03
9 2 0.01
10 8 0.05
11 17 0.11
12 57 0.37
13 38 0.25
14 11 0.07
15 6 0.04
16 2 0.01
17 6 0.04
18 2 0.01
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (13 bp):
AATATATAATAAT
Found at i:34239051 original size:20 final size:20
Alignment explanation
Indices: 34239026--34239077 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
34239016 ATTATATATA
*
34239026 ATAATAAATAATAAGATAAC
1 ATAATAAATAATAAAATAAC
* *
34239046 ATAATATATAATAAAATAAG
1 ATAATAAATAATAAAATAAC
*
34239066 A-AATGAATAATA
1 ATAATAAATAATA
34239078 TATATAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
ATAATAAATAATAAAATAAC
Found at i:34239062 original size:28 final size:28
Alignment explanation
Indices: 34239014--34239170 Score: 82
Period size: 28 Copynumber: 5.6 Consensus size: 28
34239004 GTAAATTTTA
* *
34239014 AAATTATATATAATAAT-AAATAATAAGAT
1 AAATAATATAT-ATAATAAAATAAGAA-AT
34239043 AACAT-A-ATATATAATAAAATAAGAAAT
1 AA-ATAATATATATAATAAAATAAGAAAT
* **
34239070 GAATAATATATATAATAAAATGATTTAATAT
1 AAATAATATATATAATAAAAT-A-AGAA-AT
* *
34239101 ATAATAAAATATATAATAAAAT-ATAAAT
1 A-AATAATATATATAATAAAATAAGAAAT
* *
34239129 AATATAACA-A-ATAAT-ACATAA-ATAA-
1 AA-ATAATATATATAATAAAATAAGA-AAT
34239154 AAA-AATATATATAATAA
1 AAATAATATATATAATAA
34239171 TTTTTAAATG
Statistics
Matches: 104, Mismatches: 10, Indels: 31
0.72 0.07 0.21
Matches are distributed among these distances:
23 3 0.03
24 2 0.02
25 11 0.11
26 11 0.11
27 11 0.11
28 34 0.33
29 7 0.07
30 4 0.04
31 2 0.02
32 19 0.18
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (28 bp):
AAATAATATATATAATAAAATAAGAAAT
Found at i:34239140 original size:18 final size:19
Alignment explanation
Indices: 34239103--34239169 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 19
34239093 TTTAATATAT
*
34239103 AATA-AAAT-ATATAATAA
1 AATATAAATAATATAAAAA
*
34239120 AATATAAATAATAT-AACA
1 AATATAAATAATATAAAAA
*
34239138 AATAATACATAA-ATAAAAA
1 AAT-ATAAATAATATAAAAA
*
34239157 AATATATATAATA
1 AATATAAATAATA
34239170 ATTTTTAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
17 4 0.10
18 18 0.45
19 18 0.45
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
AATATAAATAATATAAAAA
Found at i:34239252 original size:14 final size:14
Alignment explanation
Indices: 34239206--34239253 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
34239196 TAATAAAAAT
*
34239206 AAATGATATATAAA
1 AAATTATATATAAA
* * *
34239220 ACATTTTAAATAAA
1 AAATTATATATAAA
34239234 TAAATTATATATAAA
1 -AAATTATATATAAA
34239249 AAATT
1 AAATT
34239254 TAAAAAGGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (14 bp):
AAATTATATATAAA
Found at i:34239450 original size:30 final size:30
Alignment explanation
Indices: 34239416--34239473 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34239406 ATAATAGCCA
* *
34239416 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACCAAATTAAAACAAAAATAAAAGG
* *
34239446 TTAGGGCCAAATTAAAATAAAAATAAAA
1 TTAGGACCAAATTAAAACAAAAATAAAA
34239474 TGAAATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (30 bp):
TTAGGACCAAATTAAAACAAAAATAAAAGG
Found at i:34241658 original size:39 final size:40
Alignment explanation
Indices: 34241560--34241781 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
34241550 AATGATGTCT
* * * *
34241560 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * *
34241600 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
34241640 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
34241679 GGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
34241719 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
34241759 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
34241782 AACGATGAGC
Statistics
Matches: 160, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 116 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:34241799 original size:80 final size:78
Alignment explanation
Indices: 34241564--34241814 Score: 235
Period size: 79 Copynumber: 3.2 Consensus size: 78
34241554 ATGTCTGGGC
* * * * *
34241564 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
34241627 A-GATACTAATTCCGGGC
64 ATG--ACTAA-TCCGGGT
* * *
34241644 TAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGATGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGA
*
34241707 GTTACTAAATCCGGGT
65 -TGACT-AATCCGGGT
* **
34241723 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAT
34241788 GAGCTATATCC-GGT
66 GA-CTA-ATCCGGGT
* *
34241802 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
34241815 TACGTGATGT
Statistics
Matches: 142, Mismatches: 19, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
78 2 0.01
79 70 0.49
80 68 0.48
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAT
GACTAATCCGGGT
Found at i:34249514 original size:38 final size:39
Alignment explanation
Indices: 34249418--34249634 Score: 214
Period size: 39 Copynumber: 5.6 Consensus size: 39
34249408 TGAATGATGT
* * *
34249418 CGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-ATC
* * * *
34249457 CGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAATT
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATC
*
34249496 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATC
* * *
34249535 CGGGTTAAGTCCCGATGGCATTTGTGCGAGCTA--AATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATC
* *
34249572 CGGGTTAAGTCCCGAA-GCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATC
*
34249611 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
34249635 AACGAGGAGC
Statistics
Matches: 147, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
36 15 0.10
37 19 0.13
38 22 0.15
39 53 0.36
40 33 0.22
41 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATC
Found at i:34249604 original size:76 final size:77
Alignment explanation
Indices: 34249418--34249634 Score: 221
Period size: 76 Copynumber: 2.8 Consensus size: 77
34249408 TGAATGATGT
* * * * *
34249418 CGGGCTAAGTCCCGAAGGC-TT-GTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTT
1 CGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTT
* *
34249480 GTGTGAGATACTAATT
63 GTGCGAGATAC-AATC
* *
34249496 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGATGGCATTTGT
1 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGT
*
34249560 GCGAGCTA-AATC
65 GCGAGATACAATC
* * *
34249572 CGGGTTAAGTCCCGAA-GCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
34249635 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
76 51 0.43
77 19 0.16
78 44 0.37
79 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (77 bp):
CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGATACAATC
Found at i:34249648 original size:40 final size:40
Alignment explanation
Indices: 34249562--34249653 Score: 91
Period size: 40 Copynumber: 2.3 Consensus size: 40
34249552 GCATTTGTGC
* **
34249562 GAGCTA-AATCCGGGTTAAGTCCCGAAGCATTTGTGCGAGT
1 GAGCTATAA-CCGGGCTAAGTCCCGAAGCATTTGAACGAGT
* *
34249602 TA-CTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-
1 GAGCTATAACCGGGCTAAGTCCCGAA-GCATTTGAACGAGT
*
34249641 GAGCTATATCCGG
1 GAGCTATAACCGG
34249654 TTAAATTCCG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
39 19 0.45
40 23 0.55
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
GAGCTATAACCGGGCTAAGTCCCGAAGCATTTGAACGAGT
Found at i:34251900 original size:89 final size:89
Alignment explanation
Indices: 34251631--34252211 Score: 481
Period size: 90 Copynumber: 6.4 Consensus size: 89
34251621 TTTGAAGCTA
* * *
34251631 CTCCCACGTCAAATATAGAGACGCCAATCTG-CTATCTTTGATCTGCTTCGATGCT--A-ACAAC
1 CTCCC-CGTCTAATACAGAGACGCCAATCTGTC-ATCTTCGATCTGCTTCGATG-TAAACACAAC
*
34251692 GAATGTCAGATATCTATCTTCGATCTTG
63 GAATGTCAGATCTCTATCTTCGATC-TG
* *
34251720 CTCCCCGTTCTAATACA-ACGACGCCAATATGTCATCTATCGATCTGCTTCAATGTAAAACACAA
1 CTCCCCG-TCTAATACAGA-GACGCCAATCTGTCATCT-TCGATCTGCTTCGATGT-AAACACAA
*
34251784 CGAATGTCAGAT-TGCTATCGTTGGATCTG
62 CGAATGTCAGATCT-CTATC-TTCGATCTG
*
34251813 CT-CCCGTCTAA-ACA-AGACGCCTAATCTGTCATC-TCGATCTGCTTC-ATGTAAACACTACGA
1 CTCCCCGTCTAATACAGAGACGCC-AATCTGTCATCTTCGATCTGCTTCGATGTAAACACAACGA
*
34251873 ATGCTCAGAGTCTACTATCCTCCGATCTG
65 ATG-TCAGA-TCT-CTAT-CTTCGATCTG
* *
34251902 CTCCCCGTCTAATACAGGAGACGCCAAATCTATCCATCTTCGAT-TGTCTTC-ATATAAAACACA
1 CTCCCCGTCTAATACA-GAGACGCC-AATCTGT-CATCTTCGATCTG-CTTCGATGT-AAACACA
*
34251965 ATGAATGT-AGATCTC-ATCTTC-ATCTG
61 ACGAATGTCAGATCTCTATCTTCGATCTG
34251991 CTTCCCCGTCT-ATACAGAGACGCCAAATCTGTCATCTTCGATCTGTCTTCGATGTAAACAC--C
1 C-TCCCCGTCTAATACAGAGACGCC-AATCTGTCATCTTCGATCTG-CTTCGATGTAAACACAAC
*
34252053 GAAAGGTCAAGA-CTGCTATC-TCGATCTG
63 G-AATGTC-AGATCT-CTATCTTCGATCTG
* * * *
34252081 CTCCCCCGTCTAAATACAGAGACGCCAAAGCCTGTCCATTTTCGATTTTCTTCGATGTAAA-AC-
1 CT-CCCCGTCT-AATACAGAGACGCC-AA-TCTGT-CATCTTCGATCTGCTTCGATGTAAACACA
* *
34252144 ACG-ATGTCAAATCTTCTATCTTCAATCTG
61 ACGAATGTCAGATC-TCTATCTTCGATCTG
* * * *
34252173 GTCCCTGTCTAATAATAGAGATGCCAAATCTGTCATCTT
1 CTCCCCGTCTAAT-ACAGAGACGCC-AATCTGTCATCTT
34252212 GATTTGTTTC
Statistics
Matches: 416, Mismatches: 34, Indels: 84
0.78 0.06 0.16
Matches are distributed among these distances:
86 14 0.03
87 23 0.06
88 46 0.11
89 74 0.18
90 77 0.19
91 39 0.09
92 34 0.08
93 59 0.14
94 25 0.06
95 13 0.03
96 12 0.03
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (89 bp):
CTCCCCGTCTAATACAGAGACGCCAATCTGTCATCTTCGATCTGCTTCGATGTAAACACAACGAA
TGTCAGATCTCTATCTTCGATCTG
Found at i:34252027 original size:181 final size:179
Alignment explanation
Indices: 34251647--34252145 Score: 514
Period size: 181 Copynumber: 2.8 Consensus size: 179
34251637 CGTCAAATAT
* *
34251647 AGAGACGCCAATCTG-CTATCTTTGATCTGCTTCGATGCT-AACA-ACGAATGTCAGA-TATCTA
1 AGAGACGCCAATCTGTC-ATCTTCGATCTGCTTCGATG-TAAACACACGAATGTCAGAGTCTCTA
*
34251708 TCTTCGATCTTGCTCCCCGTTCTAATACA-ACGACGCC-AATATGT-CATCTATCGATCTG-CTT
64 TC-TCGATC-TGCTCCCCG-TCTAATACAGA-GACGCCAAATCTGTCCATCT-TCGAT-TGTCTT
*
34251769 CAATGTAAAACACAACGAATGTCAGATTGCTATCGTTGGATCTGCTCCCGTCTAAAC
123 CAATGTAAAACACAACGAATGTCAGATTGCTATCGTTGCATCTGCTCCCGTCTAAAC
34251826 A-AGACGCCTAATCTGTCATC-TCGATCTGCTTC-ATGTAAACACTACGAATGCTCAGAGTCTAC
1 AGAGACGCC-AATCTGTCATCTTCGATCTGCTTCGATGTAAACAC-ACGAATG-TCAGAGTCT-C
*
34251888 TATCCTCCGATCTGCTCCCCGTCTAATACAGGAGACGCCAAATCTATCCATCTTCGATTGTCTTC
62 TAT-CT-CGATCTGCTCCCCGTCTAATACA-GAGACGCCAAATCTGTCCATCTTCGATTGTCTTC
* * *
34251953 -ATATAAAACACAATGAATGT-AGA-T-CTCATC-TT-CATCTGCTTCCCCGTCTATAC
124 AATGTAAAACACAACGAATGTCAGATTGCT-ATCGTTGCATCTGC-T-CCCGTCTAAAC
* *
34252006 AGAGACGCCAAATCTGTCATCTTCGATCTGTCTTCGATGTAAACAC-CGAAAGGTCA-AGACTGC
1 AGAGACGCC-AATCTGTCATCTTCGATCTG-CTTCGATGTAAACACACG-AATGTCAGAGTCT-C
* * *
34252069 TATCTCGATCTGCTCCCCCGTCTAAATACAGAGACGCCAAAGCCTGTCCATTTTCGATTTTCTTC
62 TATCTCGATCTGCT-CCCCGTCT-AATACAGAGACGCCAAA-TCTGTCCATCTTCGATTGTCTTC
*
34252134 GATGTAAAACAC
124 AATGTAAAACAC
34252146 GATGTCAAAT
Statistics
Matches: 276, Mismatches: 17, Indels: 51
0.80 0.05 0.15
Matches are distributed among these distances:
176 1 0.00
177 7 0.03
178 24 0.09
179 31 0.11
180 42 0.15
181 65 0.24
182 63 0.23
183 28 0.10
184 15 0.05
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (179 bp):
AGAGACGCCAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGAGTCTCTATC
TCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCCATCTTCGATTGTCTTCAATGTAA
AACACAACGAATGTCAGATTGCTATCGTTGCATCTGCTCCCGTCTAAAC
Found at i:34252167 original size:181 final size:179
Alignment explanation
Indices: 34251808--34252211 Score: 452
Period size: 181 Copynumber: 2.2 Consensus size: 179
34251798 CTATCGTTGG
* *
34251808 ATCTGCT-CCCGTCTAAACA-AGACGCCTAATCTGTCATC-TCGATCTGCTTCATGTAAACACTA
1 ATCTGCTCCCCGTCTATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCATGTAAACAC-A
* * *
34251870 CGAATGCTCAGAGTCTACTATCCTCCGATCTGCTCCCCGTCTAATACAGGAGACGCCAAATCTAT
65 CGAAAGCTCAGAGACTACTATCCTCCGATCTGCTCCCCGTCTAATACAGGAGACGCCAAACCTAT
*
34251935 CCATCTTCGATTGTCTTCATATAAAACACAATGAATGTAGATCTCATCTTC-
130 CCATCTTCGATTGTCTTCATATAAAACAC-A-GAATGTAAATCTCATCTTCA
34251986 ATCTGCTTCCCCGTCTATACAGAGACGCCAAATCTGTCATCTTCGATCTGTCTTCGATGTAAACA
1 ATCTGC-TCCCCGTCTATACAGAGACGCCAAATCTGTCATCTTCGATCTG-CTTC-ATGTAAACA
* *
34252051 C-CGAAAGGTCA-AGACTGCTAT-CT-CGATCTGCTCCCCCGTCTAAATACA-GAGACGCCAAAG
63 CACGAAAGCTCAGAGACTACTATCCTCCGATCTGCT-CCCCGTCT-AATACAGGAGACGCCAAA-
* * * *
34252111 CCTGTCCATTTTCGATTTTCTTCGATGTAAAACAC-G-ATGTCAAATCTTCTATCTTCA
125 CCTATCCATCTTCGATTGTCTTC-ATATAAAACACAGAATGT-AAATC-TC-ATCTTCA
* * * *
34252168 ATCTGGTCCCTGTCTAATAATAGAGATGCCAAATCTGTCATCTT
1 ATCTGCTCCCCGTCT-AT-ACAGAGACGCCAAATCTGTCATCTT
34252212 GATTTGTTTC
Statistics
Matches: 194, Mismatches: 16, Indels: 27
0.82 0.07 0.11
Matches are distributed among these distances:
178 10 0.05
179 15 0.08
180 34 0.18
181 65 0.34
182 33 0.17
183 27 0.14
184 10 0.05
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (179 bp):
ATCTGCTCCCCGTCTATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCATGTAAACACAC
GAAAGCTCAGAGACTACTATCCTCCGATCTGCTCCCCGTCTAATACAGGAGACGCCAAACCTATC
CATCTTCGATTGTCTTCATATAAAACACAGAATGTAAATCTCATCTTCA
Found at i:34329461 original size:81 final size:81
Alignment explanation
Indices: 34329341--34329528 Score: 268
Period size: 81 Copynumber: 2.3 Consensus size: 81
34329331 AATGCTCTCG
* * *
34329341 ATTTGCAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTACAAAAT
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTCACCCTCGATTTACAAAAT
* *
34329406 TACTGTTTTACCGTCA
66 TACCGTTTTACCCTCA
* * * * *
34329422 ATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCCTTGATTTACAAAAT
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTCACCCTCGATTTACAAAAT
34329487 TACCGTTTTACCCTCA
66 TACCGTTTTACCCTCA
* *
34329503 GTTTACAAAATTACCATTTTACCCTC
1 ATTTACAGAATTACCATTTTACCCTC
34329529 AATTGTGAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 93 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (81 bp):
ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTCACCCTCGATTTACAAAAT
TACCGTTTTACCCTCA
Found at i:34329529 original size:27 final size:27
Alignment explanation
Indices: 34329337--34329528 Score: 242
Period size: 27 Copynumber: 7.1 Consensus size: 27
34329327 TTGAAATGCT
* * *
34329337 CTCGATTTGCAGAATTACCATTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
* * *
34329364 CTCGATTTATAGAATTACCGTTTCACC
1 CTCGATTTACAAAATTACCGTTTTACC
*
34329391 CTCGATTTACAAAATTACTGTTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
* * * *
34329418 GTCAATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
*
34329445 CTCGATTTACAAAATTATCGTTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
*
34329472 CTTGATTTACAAAATTACCGTTTTACC
1 CTCGATTTACAAAATTACCGTTTTACC
*
34329499 CTC-AGTTTACAAAATTACCATTTTACC
1 CTCGA-TTTACAAAATTACCGTTTTACC
34329526 CTC
1 CTC
34329529 AATTGTGAAA
Statistics
Matches: 142, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
CTCGATTTACAAAATTACCGTTTTACC
Found at i:34329594 original size:27 final size:27
Alignment explanation
Indices: 34329564--34329714 Score: 166
Period size: 27 Copynumber: 5.6 Consensus size: 27
34329554 TGTAGGATAG
34329564 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
34329591 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* ** * *
34329618 AATTACCGAAATACTACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
34329645 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
*
34329672 AATTACCAAAAATACCCCT-GATTAG-AA
1 AATTACC-AAAATACCCCTAG-TTTGTAA
34329699 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
34329715 TTGACTTTCT
Statistics
Matches: 106, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.01
26 11 0.10
27 82 0.77
28 8 0.08
29 4 0.04
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:34329657 original size:81 final size:81
Alignment explanation
Indices: 34329564--34329712 Score: 214
Period size: 81 Copynumber: 1.8 Consensus size: 81
34329554 TGTAGGATAG
* * *
34329564 AATTACCAAAATACCC-CTAGTTTGTAAAATTACC-AAAATACCCCT-AGTTTGTAAAATTACCG
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAAATACCCCTGA-TTAG-AAAATTACAG
34329626 AAATACTACTGGTTTGTGA
63 AAATACTACTGGTTTGTGA
*
34329645 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAAATACCCCTGATTAGAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAAATACCCCTGATTAGAAAATTACAGAAA
34329710 TAC
66 TAC
34329713 CCTTGACTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
81 45 0.74
82 15 0.25
83 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAAATACCCCTGATTAGAAAATTACAGAAA
TACTACTGGTTTGTGA
Found at i:34329765 original size:27 final size:27
Alignment explanation
Indices: 34329726--34329777 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
34329716 TGACTTTCTA
34329726 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
34329753 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
34329778 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:34330786 original size:24 final size:24
Alignment explanation
Indices: 34330704--34330786 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
34330694 AGGAAGTGCT
* *
34330704 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
34330728 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
* *
34330753 AGAAAGGGCTTTGCCCTAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATC
34330777 AAAAGAGGCT
1 AAAAG-GGCT
34330787 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:34330980 original size:42 final size:42
Alignment explanation
Indices: 34330921--34331054 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
34330911 TAGTCTCCCC
34330921 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
34330963 AAATGGGCATGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
34331005 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
34331047 AAATGGGC
1 AAATGGGC
34331055 CTAAAGGCCA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:34331113 original size:31 final size:31
Alignment explanation
Indices: 34331078--34331223 Score: 249
Period size: 31 Copynumber: 4.7 Consensus size: 31
34331068 CGTTTACAGT
*
34331078 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
34331109 AAAGGCTTTGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
34331140 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
34331171 AAAGGATTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
34331202 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
34331224 TCAAGACTAA
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.05
31 105 0.95
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:34334958 original size:23 final size:23
Alignment explanation
Indices: 34334928--34334974 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
34334918 ATACACCATT
34334928 TAGCATCAATTTGATAATGGCTA
1 TAGCATCAATTTGATAATGGCTA
34334951 TAGCATCAATTTGATAATGGCTA
1 TAGCATCAATTTGATAATGGCTA
34334974 T
1 T
34334975 GTAGCGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (23 bp):
TAGCATCAATTTGATAATGGCTA
Found at i:34340049 original size:24 final size:23
Alignment explanation
Indices: 34340006--34340050 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
34339996 CACCTCAAAC
*
34340006 ACATACAAACAATACTTAATTAA
1 ACATACAAACAATACATAATTAA
34340029 ACATATCAAA-AATACCATAATT
1 ACATA-CAAACAATA-CATAATT
34340051 CATGCATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.27
Consensus pattern (23 bp):
ACATACAAACAATACATAATTAA
Found at i:34349992 original size:43 final size:43
Alignment explanation
Indices: 34349867--34350025 Score: 200
Period size: 43 Copynumber: 3.7 Consensus size: 43
34349857 TGTGTTATCG
* *
34349867 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGTGATTTACT
1 TGTAAGACCACGTCTGGGACGTTGGCATTGATATT-TGATTT-CA
* * *
34349911 TGTAAGACCATGTCTGGGACATTGGCATT-ATATATGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTTCA
*
34349953 TGTAAGACC-CTGTCTGGGACAG-TGGCATTGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATTGATATTTGATTTCA
34349996 TGTAAGACCACGTCTGGGACGTTGGCATTG
1 TGTAAGACCACGTCTGGGACGTTGGCATTG
34350026 TACGAGCTAT
Statistics
Matches: 100, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
42 27 0.27
43 45 0.45
44 28 0.28
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTTCA
Found at i:34349992 original size:86 final size:85
Alignment explanation
Indices: 34349867--34350024 Score: 223
Period size: 85 Copynumber: 1.8 Consensus size: 85
34349857 TGTGTTATCG
* *
34349867 TGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGATTTACTTGTAAGACCATGTCTGGGACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGA-TTACATGTAAGACCACGTCTGGGACA
34349932 TTGGCATTATATATGATTTCA
65 TTGGCATTATATATGATTTCA
*
34349953 TGTAAGACC-CTGTCTGGGACAG-TGGCATTGATATT-TGATTACATGTAAGACCACGTCTGGGA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TTGTGATTACATGTAAGACCACGTCTGGGA
*
34350015 CGTTGGCATT
63 CATTGGCATT
34350025 GTACGAGCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
85 32 0.49
86 30 0.46
87 3 0.05
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (85 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGATTACATGTAAGACCACGTCTGGGACAT
TGGCATTATATATGATTTCA
Found at i:34351601 original size:55 final size:55
Alignment explanation
Indices: 34351485--34351602 Score: 134
Period size: 55 Copynumber: 2.1 Consensus size: 55
34351475 TCCTAAAATT
*
34351485 TTAAGTCAGTCTCGAACACGGCCAAGGCACACGGGCGTGTGGCTAGCCGTGTGAC
1 TTAAGTCAGTCTCGAACACGGCCAAGGCACACGGGCGTCTGGCTAGCCGTGTGAC
** * * *
34351540 CCAAGTCAGTTTCG-ACTACGGCCAAGGCACACGGGCATGTCTTG-TGGCCGTGTGA-
1 TTAAGTCAGTCTCGAAC-ACGGCCAAGGCACACGGGC--GTCTGGCTAGCCGTGTGAC
34351595 TTAAGTCA
1 TTAAGTCA
34351603 TTATGTATGC
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
54 2 0.04
55 36 0.69
56 10 0.19
57 4 0.08
ACGTcount: A:0.22, C:0.26, G:0.31, T:0.21
Consensus pattern (55 bp):
TTAAGTCAGTCTCGAACACGGCCAAGGCACACGGGCGTCTGGCTAGCCGTGTGAC
Found at i:34357145 original size:27 final size:27
Alignment explanation
Indices: 34357115--34357177 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
34357105 GACACGGCAA
* *
34357115 GCCACACGCCCATGTGTCAGACCGTGT
1 GCCACACACCCATGTGCCAGACCGTGT
34357142 GCCACACACCCATGTGCCAGACCGTGT
1 GCCACACACCCATGTGCCAGACCGTGT
34357169 GCCACACAC
1 GCCACACAC
34357178 GACCAATACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.41, G:0.22, T:0.14
Consensus pattern (27 bp):
GCCACACACCCATGTGCCAGACCGTGT
Found at i:34369020 original size:39 final size:39
Alignment explanation
Indices: 34368966--34369043 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
34368956 CAACCAGAAA
34368966 TCCTACCCACCCAGCCTCTACACACCACTCCGTCCAGTC
1 TCCTACCCACCCAGCCTCTACACACCACTCCGTCCAGTC
*
34369005 TCCTACCCACCCAGCCTCTACAGACCACTCCGTCCAGTC
1 TCCTACCCACCCAGCCTCTACACACCACTCCGTCCAGTC
34369044 CTACACACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.21, C:0.53, G:0.09, T:0.18
Consensus pattern (39 bp):
TCCTACCCACCCAGCCTCTACACACCACTCCGTCCAGTC
Found at i:34377238 original size:9 final size:9
Alignment explanation
Indices: 34377224--34377249 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
34377214 AAATGGGCCC
34377224 AAGGCCCAT
1 AAGGCCCAT
34377233 AAGGCCCAT
1 AAGGCCCAT
34377242 AAGGCCCA
1 AAGGCCCA
34377250 CGTAGGCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.23, T:0.08
Consensus pattern (9 bp):
AAGGCCCAT
Found at i:34378636 original size:12 final size:12
Alignment explanation
Indices: 34378621--34378659 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
34378611 CCTTGATCCA
34378621 CTCCTCAAATCT
1 CTCCTCAAATCT
*
34378633 CTCCCCAAATCT
1 CTCCTCAAATCT
*
34378645 CTCCTCTAATCT
1 CTCCTCAAATCT
34378657 CTC
1 CTC
34378660 TTTTAACCAA
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:0.21, C:0.46, G:0.00, T:0.33
Consensus pattern (12 bp):
CTCCTCAAATCT
Found at i:34379331 original size:47 final size:47
Alignment explanation
Indices: 34379278--34379388 Score: 141
Period size: 47 Copynumber: 2.4 Consensus size: 47
34379268 TCTCTTGATA
* * * *
34379278 AGTACCTATACCATGGCCCGTAACTAAATCAAGGTAACTTATCCTTG
1 AGTACCTATACCATGGCCCATAACCAAATAAAGGTAACTCATCCTTG
* * *
34379325 AGTACCTATACCATGGCCCATAGCCAAATAAAGGTAACTCCTCTTTG
1 AGTACCTATACCATGGCCCATAACCAAATAAAGGTAACTCATCCTTG
* *
34379372 AATTCCTATACCATGGC
1 AGTACCTATACCATGGC
34379389 ATAACAGAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCATAACCAAATAAAGGTAACTCATCCTTG
Found at i:34381342 original size:43 final size:43
Alignment explanation
Indices: 34381264--34381356 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
34381254 AGCTCGTACA
* * *
34381264 ATGCCAATATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAAACGTGGTCTTACACGAAATCAAATATCG
* *
34381307 ATGCCACTATCCCAAACAG-GGTCTTACACGAAATCATATAT-G
1 ATGCCAATATCCCAAAC-GTGGTCTTACACGAAATCAAATATCG
*
34381349 ATACCAAT
1 ATGCCAAT
34381357 GTTCCAGACA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 7 0.17
43 34 0.81
44 1 0.02
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (43 bp):
ATGCCAATATCCCAAACGTGGTCTTACACGAAATCAAATATCG
Found at i:34387057 original size:37 final size:37
Alignment explanation
Indices: 34386998--34387106 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
34386988 AGCTCAGATG
* *
34386998 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
34387035 AAATCTCTACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
34387072 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
34387107 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:34387308 original size:48 final size:48
Alignment explanation
Indices: 34387253--34387992 Score: 1050
Period size: 48 Copynumber: 15.0 Consensus size: 48
34387243 ACACATCGCC
34387253 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
34387301 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
34387351 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
34387399 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
34387447 TATATATATCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
34387495 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--------A
* * *
34387551 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
34387601 TATATATTTCGCATTAGCCATTCGTCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
34387649 TACATATTTCACATTAGCTATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
34387697 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
34387745 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
34387793 TATATATATCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
34387841 TACATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC------A
* * *
34387895 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * *
34387947 TATATATTTCGCATTAGCCATTCGGCTTCACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
34387993 TGTGACAGCC
Statistics
Matches: 633, Mismatches: 41, Indels: 32
0.90 0.06 0.05
Matches are distributed among these distances:
48 406 0.64
49 2 0.00
50 89 0.14
52 47 0.07
54 44 0.07
56 45 0.07
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:34387792 original size:298 final size:290
Alignment explanation
Indices: 34387253--34387992 Score: 1092
Period size: 298 Copynumber: 2.5 Consensus size: 290
34387243 ACACATCGCC
* *
34387253 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACACT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
34387316 AGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT-GACCATTCGGCTTT
66 AGCCATTC-GCTTTACCACATATACATATCTCA-ATATATATTTCACATTAG-CCATTCGGCTTT
*
34387380 ACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
128 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
* * *
34387445 CATATATATATCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATT
193 CATACATATATCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATCACATT
34387510 AGCCATTCGGCTTTACCACATATACATATCTCATATATATA
258 AGCCATTCGGCTTTACCACATATACATATCTC--------A
* * * *
34387551 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATTTCGCATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
* *
34387616 AGCCATTCGTCTTTACCACATATACATATCTC-ATACATATTTCACATTAGCTATTCGGCTTTAC
66 AGCCATTCG-CTTTACCACATATACATATCTCAATATATATTTCACATTAGCCATTCGGCTTTAC
*
34387680 CACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
130 CACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
34387745 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATCACATTAG
195 TACATATATCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATCACATTAG
*
34387810 CCATTCGGCTTTACCACATATGCATATCTCA
260 CCATTCGGCTTTACCACATATACATATCTCA
*
34387841 TACATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATATATATATATATTTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATATATATATTTCA
* *
34387906 CATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCGCATTAGCCATTCG
62 CATTAGCCATTC-GCTTTACCACATATACATATCTC--A-ATATATATTTCACATTAGCCATTCG
*
34387971 GCTTCACCACATATACATATCT
123 GCTTTACCACATATACATATCT
34387993 TGTGACAGCC
Statistics
Matches: 403, Mismatches: 26, Indels: 26
0.89 0.06 0.06
Matches are distributed among these distances:
290 44 0.11
294 46 0.11
295 1 0.00
298 267 0.66
299 2 0.00
300 43 0.11
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (290 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
AGCCATTCGCTTTACCACATATACATATCTCAATATATATTTCACATTAGCCATTCGGCTTTACC
ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
ACATATATCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATCACATTAGC
CATTCGGCTTTACCACATATACATATCTCA
Found at i:34389791 original size:40 final size:41
Alignment explanation
Indices: 34389593--34389777 Score: 204
Period size: 40 Copynumber: 4.6 Consensus size: 41
34389583 TTGAATGATG
* * *
34389593 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * *
34389633 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
34389673 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
34389712 TCCGGGTTAAGTCCCAAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34389753 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34389778 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:34389800 original size:79 final size:79
Alignment explanation
Indices: 34389649--34389800 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
34389639 CTAAGATCCG
* * **
34389649 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
*
34389714 CGGGTTAAGTCCCA
66 CGAGTTAAGTCCCA
* * *
34389728 AAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
34389791 ATCC-AGTTAA
63 ATCCGAGTTAA
34389801 ATTCCGAAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 35 0.56
80 25 0.40
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGAGTTAAGTCCCA
Found at i:34391252 original size:48 final size:48
Alignment explanation
Indices: 34391119--34391693 Score: 839
Period size: 48 Copynumber: 11.7 Consensus size: 48
34391109 TCCGGGGTGT
34391119 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
1 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
34391167 TACATATCTCATAC--ATTTCACATTAGCCATTCGGCTTTACCACATA
1 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
*
34391213 TGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
1 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
* *
34391261 TACATATCTCATATATATATCACATTAGCCATTCGGCTTTACCACATA
1 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
* *
34391309 TGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCATATA
1 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
* * * *
34391357 TACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCAAATA
1 TACATATCTC----ATACATATTTCACATTAGCCATTCGGCTTTACCACATA
* *
34391409 TACATATCTCATATATATATATTTCGCATTAGCCATTCGGCTTTACCACATA
1 TACATATCTC----ATACATATTTCACATTAGCCATTCGGCTTTACCACATA
*
34391461 TGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
1 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
* * *
34391509 TACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCACATA
1 TACATATCTC----ATACATATTTCACATTAGCCATTCGGCTTTACCACATA
* *
34391561 TACATATCTCATATATATATATTTCGCATTAGCCATTCGGCTTTACCACATA
1 TACATATCTC----ATACATATTTCACATTAGCCATTCGGCTTTACCACATA
34391613 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
1 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
34391661 TACATATCTCATACATATTTCACATTAGCCATT
1 TACATATCTCATACATATTTCACATTAGCCATT
34391694 TTTGTACAAA
Statistics
Matches: 488, Mismatches: 29, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
46 45 0.09
48 258 0.53
52 185 0.38
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
Done.