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 36 of 295
Found at i:10038746 original size:18 final size:17
Alignment explanation
Indices: 10038701--10038738 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
10038691 TGTCAAAGGG
10038701 AAACAAATGAATCTTAA
1 AAACAAATGAATCTTAA
10038718 AAACAAATGAATCTTAA
1 AAACAAATGAATCTTAA
10038735 AAAC
1 AAAC
10038739 TTAATGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.61, C:0.13, G:0.05, T:0.21
Consensus pattern (17 bp):
AAACAAATGAATCTTAA
Found at i:10048394 original size:25 final size:25
Alignment explanation
Indices: 10048366--10048417 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
10048356 TGCCTTATAA
10048366 AATGTTTAAATAGCTAGGTCTTGAG
1 AATGTTTAAATAGCTAGGTCTTGAG
10048391 AATGTTTAAATAGCTAGGTCTTGAG
1 AATGTTTAAATAGCTAGGTCTTGAG
10048416 AA
1 AA
10048418 ACCCAAGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (25 bp):
AATGTTTAAATAGCTAGGTCTTGAG
Found at i:10054899 original size:55 final size:55
Alignment explanation
Indices: 10054815--10054932 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 55
10054805 AAGTCTCACA
* * * *
10054815 CCCGTGTTAATCTAATAGGTTCAGCCACGGTTGC-TTGGCACAGACGTGTCGCATG
1 CCCGTGTTAATCTAACAGGTTCAGCCACGGTTACAAT-GCACAGACGTGTCACATG
* * ** * *
10054870 CCCGTGTTAATTTGACAGGTTTGGCCACGGTTACAATGCACGGGCGTGTCACATG
1 CCCGTGTTAATCTAACAGGTTCAGCCACGGTTACAATGCACAGACGTGTCACATG
10054925 CCCGTGTT
1 CCCGTGTT
10054933 GTTTTGGCAG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 51 0.98
56 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.28, T:0.28
Consensus pattern (55 bp):
CCCGTGTTAATCTAACAGGTTCAGCCACGGTTACAATGCACAGACGTGTCACATG
Found at i:10062438 original size:13 final size:13
Alignment explanation
Indices: 10062422--10062453 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
10062412 CTCACACGGG
10062422 CGTGTCACATGGC
1 CGTGTCACATGGC
10062435 CGTGTCACATGGC
1 CGTGTCACATGGC
10062448 CGTGTC
1 CGTGTC
10062454 CCTGTGGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.31, G:0.31, T:0.25
Consensus pattern (13 bp):
CGTGTCACATGGC
Found at i:10071103 original size:30 final size:30
Alignment explanation
Indices: 10071068--10071125 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
10071058 CACGACCATG
10071068 ACACACGGGCGTGTGG-TCTACCCGTGTGTC
1 ACACACGGGCGTGTGGATC-ACCCGTGTGTC
10071098 ACACACGGGCGTGTGGATCACCCGTGTG
1 ACACACGGGCGTGTGGATCACCCGTGTG
10071126 GAAGTGCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.16, C:0.29, G:0.34, T:0.21
Consensus pattern (30 bp):
ACACACGGGCGTGTGGATCACCCGTGTGTC
Found at i:10072997 original size:5 final size:6
Alignment explanation
Indices: 10072978--10073007 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10072968 AAATAAAGGG
10072978 AAATAA AAATAA AAATAA AAAT-A AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA A
10073008 CAGACTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:10083305 original size:14 final size:14
Alignment explanation
Indices: 10083263--10083317 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
10083253 AATCAAAATT
10083263 TATAATGATATA-AA
1 TATAAT-ATATATAA
*
10083277 TTATGAAAATATATAA
1 -TAT-AATATATATAA
*
10083293 TATAATGTATATAA
1 TATAATATATATAA
10083307 TATAATATATA
1 TATAATATATA
10083318 AAAAATATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
14 19 0.56
15 11 0.32
16 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (14 bp):
TATAATATATATAA
Found at i:10090633 original size:15 final size:15
Alignment explanation
Indices: 10090613--10090650 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
10090603 TAAGCTCGTC
10090613 TTTCGAAAATTTCTA
1 TTTCGAAAATTTCTA
10090628 TTTCGAAAATTTCTA
1 TTTCGAAAATTTCTA
*
10090643 TCTCGAAA
1 TTTCGAAA
10090651 CAACAAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (15 bp):
TTTCGAAAATTTCTA
Found at i:10091696 original size:19 final size:19
Alignment explanation
Indices: 10091672--10091739 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
10091662 CCATATCTTC
10091672 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
10091691 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
10091710 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCT
10091727 AAGATTGCATATC
1 AAGATTGCATATC
10091740 CTTAAAGATT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.36
19 30 0.64
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:10091703 original size:14 final size:15
Alignment explanation
Indices: 10091683--10091739 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
10091673 AGATTGCATA
10091683 TCATATCTAAGATTG
1 TCATATCTAAGATTG
10091698 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
10091717 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
10091734 -CATATC
1 TCATATC
10091740 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:10091723 original size:36 final size:39
Alignment explanation
Indices: 10091663--10091739 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 39
10091653 ATTACAAGAC
10091663 CATATCTTCAAGATTGCATATCATATCTAAGATTGCATAT
1 CATATCTTCAAGATTG-ATATCATATCTAAGATTGCATAT
10091703 CATATC-T-AAGATTG-TATCATATCTAAGATTGCATAT
1 CATATCTTCAAGATTGATATCATATCTAAGATTGCATAT
10091739 C
1 C
10091740 CTTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
36 23 0.62
38 7 0.19
39 1 0.03
40 6 0.16
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (39 bp):
CATATCTTCAAGATTGATATCATATCTAAGATTGCATAT
Found at i:10092713 original size:47 final size:47
Alignment explanation
Indices: 10092656--10092785 Score: 188
Period size: 47 Copynumber: 2.8 Consensus size: 47
10092646 ATGTGAATAA
*
10092656 TACCTTGATTTGGCTATAGGCCATGGTATAGGTATTCAGAGAGAAGT
1 TACCTTGATTTGGCTATAGGCCATGGTATAGGTACTCAGAGAGAAGT
* * * * *
10092703 TACCTTGATTTGGCTACAAGCCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTATAGGCCATGGTATAGGTACTCAGAGAGAAGT
* *
10092750 TACCTTGATTTGGCTATGGGTCATGGTATAGGTACT
1 TACCTTGATTTGGCTATAGGCCATGGTATAGGTACT
10092786 TATTGATTAA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTATAGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:10092887 original size:20 final size:20
Alignment explanation
Indices: 10092862--10092906 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
10092852 TTTGAGAAAG
*
10092862 AGGTACGTACGAGACGGTAC
1 AGGTACGTACGAGACGATAC
10092882 AGGTACGTACGAGACGATAC
1 AGGTACGTACGAGACGATAC
10092902 AGGTA
1 AGGTA
10092907 TGTATGGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.33, T:0.16
Consensus pattern (20 bp):
AGGTACGTACGAGACGATAC
Found at i:10094217 original size:30 final size:30
Alignment explanation
Indices: 10094183--10094242 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
10094173 TGTGAAATGT
10094183 TAGTTAACTATTGTGTTTGGTCGGTAATAC
1 TAGTTAACTATTGTGTTTGGTCGGTAATAC
*
10094213 TAGTTAACTGTTGTGTTTGGTCGGTAATAC
1 TAGTTAACTATTGTGTTTGGTCGGTAATAC
10094243 CTCTCAACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (30 bp):
TAGTTAACTATTGTGTTTGGTCGGTAATAC
Found at i:10099180 original size:31 final size:31
Alignment explanation
Indices: 10099145--10099227 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
10099135 CTTCCTGCAT
* *
10099145 TAAAATCCAACCAAATACAATAAATATAATA
1 TAAAATCCAACCAAAAACAATAAATATAACA
* * * *
10099176 TAAAATGCAGCCAAAAACAGTAAATTTAACA
1 TAAAATCCAACCAAAAACAATAAATATAACA
*
10099207 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
10099228 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.61, C:0.17, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAATAAATATAACA
Found at i:10102668 original size:11 final size:11
Alignment explanation
Indices: 10102654--10102703 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
10102644 AATATTTTAA
10102654 AAATTCTTGAC
1 AAATTCTTGAC
* *
10102665 AAATTATTTTGTC
1 AAA-T-TCTTGAC
10102678 AAATTCTTGAC
1 AAATTCTTGAC
10102689 AAATTCTTGAC
1 AAATTCTTGAC
10102700 AAAT
1 AAAT
10102704 ATACAAGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 23 0.70
12 2 0.06
13 8 0.24
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATTCTTGAC
Found at i:10103103 original size:18 final size:19
Alignment explanation
Indices: 10103082--10103117 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10103072 TTTGAAATTC
10103082 TTCATCTCT-CAATTCTAT
1 TTCATCTCTGCAATTCTAT
*
10103100 TTCATCTTTGCAATTCTA
1 TTCATCTCTGCAATTCTA
10103118 CAAAAAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.25, G:0.03, T:0.50
Consensus pattern (19 bp):
TTCATCTCTGCAATTCTAT
Found at i:10103753 original size:40 final size:41
Alignment explanation
Indices: 10103692--10103785 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 41
10103682 CAATTAAACA
* *
10103692 TTTAGTGGCG--TTTTACAAAAGCGTCGCTAATTCTC-AGTT
1 TTTAGTGGCGTTTTTTACAAAAGCGCCACTAATTCTCTA-TT
*
10103731 TTT-GTGGCGTTTTTTACGAAAGCGCCACTAATTCTCTATT
1 TTTAGTGGCGTTTTTTACAAAAGCGCCACTAATTCTCTATT
10103771 TTTAGTGGCGTTTTT
1 TTTAGTGGCGTTTTT
10103786 GTGAAAACGC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
38 6 0.12
39 3 0.06
40 27 0.56
41 12 0.25
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTTACAAAAGCGCCACTAATTCTCTATT
Found at i:10103802 original size:40 final size:39
Alignment explanation
Indices: 10103702--10103802 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 39
10103692 TTTAGTGGCG
* *
10103702 TTTTACAAAAGCGTCGCTAATTCTCAGTTTTTGTGGCGTT
1 TTTTAGAAAA-CGCCGCTAATTCTCAGTTTTTGTGGCGTT
* *
10103742 TTTTACGAAAGCGCCACTAATTCTCTA-TTTTTAGTGGCGTT
1 TTTTA-GAAAACGCCGCTAATTCTC-AGTTTTT-GTGGCGTT
10103783 TTTGT-GAAAACGCCGCTAAT
1 TTT-TAGAAAACGCCGCTAAT
10103803 GCCTCTGCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
40 35 0.69
41 15 0.29
42 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (39 bp):
TTTTAGAAAACGCCGCTAATTCTCAGTTTTTGTGGCGTT
Found at i:10105144 original size:28 final size:28
Alignment explanation
Indices: 10105113--10105180 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
10105103 AGTTTATGGA
*
10105113 TTAGTGTTTATGGTTT-ATGTTTTAAAAT
1 TTAGGGTTTATGGTTTAATG-TTTAAAAT
* *
10105141 TTAGGGTTTAGGGTTTAATGTTTAAGAT
1 TTAGGGTTTATGGTTTAATGTTTAAAAT
10105169 TTAAGGGTTTAT
1 TT-AGGGTTTAT
10105181 AGAAAGCCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (28 bp):
TTAGGGTTTATGGTTTAATGTTTAAAAT
Found at i:10105164 original size:21 final size:21
Alignment explanation
Indices: 10105117--10105179 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
10105107 TATGGATTAG
* * *
10105117 TGTTTATGGTTTATGTTTTAA
1 TGTTTAAGGTTTAGGGTTTAA
** *
10105138 AATTTAGGGTTTAGGGTTTAA
1 TGTTTAAGGTTTAGGGTTTAA
*
10105159 TGTTTAAGATTTAAGGGTTTA
1 TGTTTAAGGTTT-AGGGTTTA
10105180 TAGAAAGCCA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
21 24 0.75
22 8 0.25
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (21 bp):
TGTTTAAGGTTTAGGGTTTAA
Found at i:10105513 original size:41 final size:41
Alignment explanation
Indices: 10105468--10105776 Score: 289
Period size: 41 Copynumber: 7.6 Consensus size: 41
10105458 AACTTTTTGC
* * *
10105468 GGCGTTTGGACAAAAAACGCTGCTATTAATCAGTTTTTAGT
1 GGCGTTTGGACTAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * *
10105509 GGCGTTTTGGA-TAAAAACGCCACAACTGATCAGTTTTTTGT
1 GGCG-TTTGGACTAAAAACGCCGCTATTGATCAGTTTTTAGT
** * * *
10105550 GGCGTTTTTA-TCCAAAACGCCACAATTGATCAGTTTTTAGT
1 GGCGTTTGGACT-AAAAACGCCGCTATTGATCAGTTTTTAGT
*
10105591 GGCGTTTGGGA-TAAAAACGCCGCAATTGATCAGTTTTTAGT
1 GGCGTTT-GGACTAAAAACGCCGCTATTGATCAGTTTTTAGT
* * *
10105632 GGCGTTTGGGA-TTAAAATGCCGCTATTGATCAGGTTTTAGT
1 GGCGTTT-GGACTAAAAACGCCGCTATTGATCAGTTTTTAGT
10105673 GGCGTTTGG--TGAAAAACGCCGCTATTGA-CTAGTTTTTAGT
1 GGCGTTTGGACT-AAAAACGCCGCTATTGATC-AGTTTTTAGT
* * * *
10105713 GGCGTTTTGG-CCAAAAATGCCGCTATTGACCAATTTTTAGT
1 GGCG-TTTGGACTAAAAACGCCGCTATTGATCAGTTTTTAGT
10105754 GGCGTTTCGGAC---AAACGCCGCTA
1 GGCGTTT-GGACTAAAAACGCCGCTA
10105777 ATGTTTATTA
Statistics
Matches: 231, Mismatches: 27, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
39 12 0.05
40 38 0.16
41 171 0.74
42 10 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (41 bp):
GGCGTTTGGACTAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:10105554 original size:82 final size:81
Alignment explanation
Indices: 10105468--10105760 Score: 331
Period size: 82 Copynumber: 3.6 Consensus size: 81
10105458 AACTTTTTGC
* * *
10105468 GGCGTTTGGACAAAAAACGCTGCTATTAATCAGTTTTTAGTGGCGTTTTGGATAAAAACGCCACA
1 GGCGTTTGGAC-AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGCCGCA
* *
10105533 ACTGATCAGTTTTTTGT
65 ATTGATCAGTTTTTAGT
** * * * *
10105550 GGCGTTTTTATCCAAAACGCCACAATTGATCAGTTTTTAGTGGCGTTTGGGATAAAAACGCCGCA
1 GGCGTTTGGA-CAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGCCGCA
10105615 ATTGATCAGTTTTTAGT
65 ATTGATCAGTTTTTAGT
** * *
10105632 GGCGTTTGGGATTAAAATGCCGCTATTGATCAGGTTTTAGTGGCG-TTTGG-TGAAAAACGCCGC
1 GGCGTTT-GGACAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT-AAAAACGCCGC
*
10105695 TATTGA-CTAGTTTTTAGT
64 AATTGATC-AGTTTTTAGT
* * * *
10105713 GGCGTTTTGGCCAAAAATGCCGCTATTGACCAATTTTTAGTGGCGTTT
1 GGCG-TTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTT
10105761 CGGACAAACG
Statistics
Matches: 178, Mismatches: 27, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
80 2 0.01
81 65 0.37
82 109 0.61
83 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (81 bp):
GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGCCGCAA
TTGATCAGTTTTTAGT
Found at i:10105802 original size:81 final size:81
Alignment explanation
Indices: 10105584--10105779 Score: 193
Period size: 81 Copynumber: 2.4 Consensus size: 81
10105574 ATTGATCAGT
* ** * ***
10105584 TTTTAGTGGCGTTT-GGGATAAAAACGCCGC-AATTGA-TCAGTTTTTAGTGGCGTTTGGGATTA
1 TTTTAGTGGCGTTTCGTG--AAAAACGCCGCTAA-TGACT-AGTTTTTAGCAGCGTTTTGGCCAA
* *
10105646 AAATGCCGCTATTGATCAGG
62 AAATGCCGCTATTGACCAAG
* * **
10105666 TTTTAGTGGCGTTTGGTGAAAAACGCCGCTATTGACTAGTTTTTAGTGGCGTTTTGGCCAAAAAT
1 TTTTAGTGGCGTTTCGTGAAAAACGCCGCTAATGACTAGTTTTTAGCAGCGTTTTGGCCAAAAAT
*
10105731 GCCGCTATTGACCAAT
66 GCCGCTATTGACCAAG
*
10105747 TTTTAGTGGCGTTTCG-GACAAACGCCGCTAATG
1 TTTTAGTGGCGTTTCGTGAAAAACGCCGCTAATG
10105780 TTTATTATTT
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
80 15 0.15
81 66 0.67
82 16 0.16
83 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (81 bp):
TTTTAGTGGCGTTTCGTGAAAAACGCCGCTAATGACTAGTTTTTAGCAGCGTTTTGGCCAAAAAT
GCCGCTATTGACCAAG
Found at i:10107103 original size:13 final size:13
Alignment explanation
Indices: 10107087--10107120 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
10107077 AATAAAATAA
10107087 TAAAATATCTTAT
1 TAAAATATCTTAT
10107100 TAAAATATCTTAT
1 TAAAATATCTTAT
10107113 TAAAATAT
1 TAAAATAT
10107121 TAAATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATATCTTAT
Found at i:10109577 original size:18 final size:18
Alignment explanation
Indices: 10109554--10109589 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10109544 AATTTTTAAT
*
10109554 TTTAATTTGATAAAATTA
1 TTTAATTTGAAAAAATTA
*
10109572 TTTAATTTTAAAAAATTA
1 TTTAATTTGAAAAAATTA
10109590 AAATACAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTAATTTGAAAAAATTA
Found at i:10110666 original size:14 final size:14
Alignment explanation
Indices: 10110622--10110670 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
10110612 TTATAAAAGT
*
10110622 TTAATTTTTAA-AA
1 TTAATTTTTAACTA
10110635 TT-ATTTTTAATTCTA
1 TTAATTTTTAA--CTA
10110650 TTAATTTTTAACTA
1 TTAATTTTTAACTA
10110664 TTAATTT
1 TTAATTT
10110671 AATTATTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 8 0.26
13 2 0.06
14 10 0.32
15 3 0.10
16 8 0.26
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (14 bp):
TTAATTTTTAACTA
Found at i:10116271 original size:2 final size:2
Alignment explanation
Indices: 10116260--10116288 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10116250 AGTTTGGGAT
10116260 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10116289 GTTTAGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10117082 original size:18 final size:17
Alignment explanation
Indices: 10117036--10117085 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
10117026 ACATGTAGCA
*
10117036 AAAAAATTATAAAA-AT
1 AAAAAATTATAAAATTT
*
10117052 -AAAAATCAATAAAATTT
1 AAAAAAT-TATAAAATTT
*
10117069 AAAAAATTATTAAATTT
1 AAAAAATTATAAAATTT
10117086 TAATGAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
15 6 0.22
16 6 0.22
17 9 0.33
18 6 0.22
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAAATTATAAAATTT
Found at i:10117369 original size:21 final size:21
Alignment explanation
Indices: 10117308--10117372 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
10117298 TTCTTATGAC
*
10117308 TTTATA-AAATTT-TATA-AT
1 TTTATATATATTTCTATATAT
*
10117326 TTT-TCTATATTTCTATATAT
1 TTTATATATATTTCTATATAT
*
10117346 TTTATATATATTTTTATGAT-T
1 TTTATATATATTTCTAT-ATAT
10117367 TTTATA
1 TTTATA
10117373 AAATTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.03
18 8 0.21
19 4 0.11
20 5 0.13
21 18 0.47
22 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTATATATATTTCTATATAT
Found at i:10117379 original size:19 final size:18
Alignment explanation
Indices: 10117308--10117380 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 18
10117298 TTCTTATGAC
10117308 TTTATAAAATTTTATAATT
1 TTTATAAAATTTTAT-ATT
* *
10117327 TTTCT-ATATTTCTATATAT
1 TTTATAAAATTT-TATAT-T
*
10117346 TTTATATATATTTTTATGATT
1 TTTATA-A-AATTTTAT-ATT
10117367 TTTATAAAATTTTA
1 TTTATAAAATTTTA
10117381 AAACCTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
18 7 0.17
19 18 0.43
20 1 0.02
21 11 0.26
22 5 0.12
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (18 bp):
TTTATAAAATTTTATATT
Found at i:10117416 original size:19 final size:20
Alignment explanation
Indices: 10117386--10117460 Score: 77
Period size: 19 Copynumber: 3.9 Consensus size: 20
10117376 TTTTAAAACC
10117386 TTTTTTATAATTTTTTACAA
1 TTTTTTATAATTTTTTACAA
*
10117406 TTTTTTA-AATTCTTT-CTAA
1 TTTTTTATAATTTTTTAC-AA
*
10117425 TTTTTAATAATTTTTATA-AA
1 TTTTTTATAATTTTT-TACAA
*
10117445 -TTTTAATAATTTTTTA
1 TTTTTTATAATTTTTTA
10117461 TTTTTATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
18 3 0.06
19 29 0.60
20 15 0.31
21 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTTATAATTTTTTACAA
Found at i:10117443 original size:9 final size:9
Alignment explanation
Indices: 10117317--10117473 Score: 97
Period size: 10 Copynumber: 16.4 Consensus size: 9
10117307 CTTTATAAAA
10117317 TTTTATAAT
1 TTTTATAAT
*
10117326 TTTTCTATAT
1 TTTTATA-AT
*
10117336 TTCTATATAT
1 TTTTATA-AT
10117346 TTTATATATAT
1 TTT-TATA-AT
*
10117357 TTTTATGAT
1 TTTTATAAT
*
10117366 TTTTATAAAA
1 TTTTAT-AAT
*
10117376 TTTTAAAACCTT
1 TTTTATAA---T
10117388 TTTTATAATT
1 TTTTATAA-T
*
10117398 TTTTACAAT
1 TTTTATAAT
10117407 TTTT-TAAAT
1 TTTTAT-AAT
*
10117416 TCTTTCTAAT
1 T-TTTATAAT
10117426 TTTTAATAAT
1 TTTT-ATAAT
10117436 TTTTATAAAT
1 TTTTAT-AAT
*
10117446 TTTAATAAT
1 TTTTATAAT
10117455 TTTT-T-AT
1 TTTTATAAT
10117462 TTTTAT-AT
1 TTTTATAAT
10117470 TTTT
1 TTTT
10117474 TTACCACATG
Statistics
Matches: 121, Mismatches: 15, Indels: 25
0.75 0.09 0.16
Matches are distributed among these distances:
7 6 0.05
8 8 0.07
9 36 0.30
10 53 0.44
11 11 0.09
12 7 0.06
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:10117733 original size:86 final size:86
Alignment explanation
Indices: 10117579--10117831 Score: 218
Period size: 86 Copynumber: 2.9 Consensus size: 86
10117569 TAAATGGTCT
* *
10117579 TTTTTGATGCATTTTGACAA-TTTAAGTACCCG-ATT-AAGTAAAAAAAAGTACGAGATTAATTG
1 TTTTTGATGCATTTTGA-AAGTTTAAGTA-CCGAATTGATGTAAAAAAAA--A-GAGCTTAATTG
*
10117641 -TATTTTTTGAAAAAGTTTGA-AAGCC
61 CTTTTTTTTGAAAAAGTTT-ACAAGCC
*
10117666 TTTTT-ATGCATTTTGAAAGTTTAAGTACCGAATTGAGTGTAAAAAAAAAGGGCTTAATTGCTTT
1 TTTTTGATGCATTTTGAAAGTTTAAGTACCGAATTGA-TGTAAAAAAAAAGAGCTTAATTGCTTT
* **
10117730 TTTTTTAAAAA-TTTACGGGCC
65 TTTTTGAAAAAGTTTACAAGCC
* * * * *
10117751 TTTTTGAT-CTATTTTAAAAGTTTAAGTATCAAATTGAATGAAAAAGAAAACAATAGCTTAATTG
1 TTTTTGATGC-ATTTTGAAAGTTTAAGTACCGAATTG-ATG-TAAA-AAAA-AAGAGCTTAATTG
*
10117815 C-TTCTTTTGAAAAAGTT
61 CTTTTTTTTGAAAAAGTT
10117832 CGAGGACTTT
Statistics
Matches: 138, Mismatches: 15, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
84 1 0.01
85 26 0.19
86 62 0.45
87 10 0.07
88 25 0.18
89 14 0.10
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (86 bp):
TTTTTGATGCATTTTGAAAGTTTAAGTACCGAATTGATGTAAAAAAAAAGAGCTTAATTGCTTTT
TTTTGAAAAAGTTTACAAGCC
Found at i:10119589 original size:48 final size:48
Alignment explanation
Indices: 10119508--10119616 Score: 200
Period size: 48 Copynumber: 2.2 Consensus size: 48
10119498 TTCTTTCATC
10119508 TTTTCTATTGTAACACTGTTCATTACGATAACACCTTTAAATCCAATGAA
1 TTTT-TATT-TAACACTGTTCATTACGATAACACCTTTAAATCCAATGAA
10119558 TTTTTATTTAACACTGTTCATTACGATAACACCTTTAAATCCAATGAA
1 TTTTTATTTAACACTGTTCATTACGATAACACCTTTAAATCCAATGAA
10119606 TTTTTATTTAA
1 TTTTTATTTAA
10119617 GTTATAACTG
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
48 51 0.86
49 4 0.07
50 4 0.07
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.42
Consensus pattern (48 bp):
TTTTTATTTAACACTGTTCATTACGATAACACCTTTAAATCCAATGAA
Found at i:10120476 original size:18 final size:17
Alignment explanation
Indices: 10120453--10120487 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10120443 TTGCCGGTAG
10120453 ATACATGCATATGGATGC
1 ATACATGCATA-GGATGC
*
10120471 ATACATGCTTAGGATGC
1 ATACATGCATAGGATGC
10120488 CATTTCCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (17 bp):
ATACATGCATAGGATGC
Found at i:10126278 original size:29 final size:30
Alignment explanation
Indices: 10126244--10126300 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
10126234 ATATAATAAC
10126244 TCTTAATGTTT-A-ACATTCTATTAATTTTA
1 TCTTAAT-TTTGACACATTCTATTAATTTTA
10126273 TCTTAATTTTGACACATTCTATTAATTT
1 TCTTAATTTTGACACATTCTATTAATTT
10126301 GGTCTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 3 0.12
29 8 0.31
30 15 0.58
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.54
Consensus pattern (30 bp):
TCTTAATTTTGACACATTCTATTAATTTTA
Found at i:10139318 original size:44 final size:44
Alignment explanation
Indices: 10139255--10139351 Score: 176
Period size: 44 Copynumber: 2.2 Consensus size: 44
10139245 CTGATCACAT
*
10139255 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
1 TTATCACTTATCACTGATCAGATAAGTGTAGCTAAAACTACCAC
*
10139299 TTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTATCACTGATCAGATAAGTGTAGCTAAAACTACCAC
10139343 TTATCACTT
1 TTATCACTT
10139352 GTCGCTTGTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (44 bp):
TTATCACTTATCACTGATCAGATAAGTGTAGCTAAAACTACCAC
Found at i:10146570 original size:51 final size:50
Alignment explanation
Indices: 10146485--10146610 Score: 191
Period size: 51 Copynumber: 2.5 Consensus size: 50
10146475 GCCATGGTCT
*
10146485 TACACTGATCACATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAAC
1 TACACTTATCAC--TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAAC
*
10146537 TACCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC
1 TA-CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAAC
*
10146588 TACACTTATCACTTGTC-CTTGTC
1 TACACTTATCACTTATCACTTGTC
10146611 GCTTGTCACT
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
49 6 0.09
50 14 0.20
51 39 0.56
52 2 0.03
53 9 0.13
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (50 bp):
TACACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAAC
Found at i:10157007 original size:27 final size:26
Alignment explanation
Indices: 10156959--10157037 Score: 95
Period size: 27 Copynumber: 3.0 Consensus size: 26
10156949 GTGAGGCTGC
* *
10156959 CAGATATTGTGACAAAGTCACCAGAT
1 CAGATATTGTGGCAAAGCCACCAGAT
*
10156985 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAAAGCCACCAGAT
* *
10157012 CAGATAATCGTGGCATAGCCACCAGA
1 CAGAT-ATTGTGGCAAAGCCACCAGA
10157038 AAAGATCAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 5 0.11
27 41 0.89
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAT
Found at i:10157057 original size:37 final size:37
Alignment explanation
Indices: 10157007--10157080 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
10156997 GCAGAGCCAC
10157007 CAGATCAGATAATCGTGGCATAGCCACCAGAAAAGAT
1 CAGATCAGATAATCGTGGCATAGCCACCAGAAAAGAT
*
10157044 CAGATCAGATAATCGTGGCATAGCCACCAGAACAGAT
1 CAGATCAGATAATCGTGGCATAGCCACCAGAAAAGAT
10157081 ATATGTGGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (37 bp):
CAGATCAGATAATCGTGGCATAGCCACCAGAAAAGAT
Found at i:10157081 original size:64 final size:64
Alignment explanation
Indices: 10156980--10157101 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
10156970 ACAAAGTCAC
* * *
10156980 CAGATACAGATATTGTGGCAGAGCCACCAGATCAGATA-ATCGTGGCATAGCCACCAGAAAAGAT
1 CAGATACAGATATCGTGGCAGAGCCACCAGAACAGATATAT-GTGGCAGAGCCACCAGAAAAGAT
*
10157044 CAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGA
1 CAGATACAGAT-ATCGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGA
10157102 TCAGATAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
63 5 0.10
64 45 0.87
65 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (64 bp):
CAGATACAGATATCGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAAAAGAT
Found at i:10157088 original size:27 final size:26
Alignment explanation
Indices: 10157044--10157127 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 26
10157034 CAGAAAAGAT
10157044 CAGATCAGATAATCGTGGCATAGCCAC
1 CAGATCAGATAAT-GTGGCATAGCCAC
* *
10157071 CAGAACAGATATATGTGGCAGAGCCAC
1 CAGATCAGATA-ATGTGGCATAGCCAC
10157098 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGATCAGATAA-TGTGGCATAGCCAC
10157125 CAG
1 CAG
10157128 GACGTTTCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 48 0.94
28 2 0.04
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (26 bp):
CAGATCAGATAATGTGGCATAGCCAC
Found at i:10157269 original size:26 final size:27
Alignment explanation
Indices: 10157233--10157306 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 27
10157223 AAAGTAACCC
* * *
10157233 TAGGGGTATAATGGTAATTTTGC-ACT
1 TAGGGGTATAATAGTAATTTTCCAACA
*
10157259 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCCA-ACA
*
10157287 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
10157307 AGTTACTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 20 0.50
28 20 0.50
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (27 bp):
TAGGGGTATAATAGTAATTTTCCAACA
Found at i:10158779 original size:26 final size:26
Alignment explanation
Indices: 10158748--10158855 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
10158738 TGAAATGCCC
*
10158748 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
10158774 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
10158800 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
10158826 ATCATGGAACATTTACCCAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
10158852 ATCA
1 ATCA
10158856 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:10178805 original size:26 final size:26
Alignment explanation
Indices: 10178748--10178805 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
10178738 TTAAAATGAC
* *
10178748 TTCCAAAACAATGCCTATTCCTTAGG
1 TTCCAAAACAATGCCCATTCCTTAGA
* * *
10178774 TGCCAAAATAATGCCCATTCTTTAGA
1 TTCCAAAACAATGCCCATTCCTTAGA
10178800 TTCCAA
1 TTCCAA
10178806 GCCAAACCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (26 bp):
TTCCAAAACAATGCCCATTCCTTAGA
Found at i:10179764 original size:45 final size:45
Alignment explanation
Indices: 10179715--10179817 Score: 170
Period size: 45 Copynumber: 2.3 Consensus size: 45
10179705 TTCAACCATA
* *
10179715 GTCTTACACATTTGAATCGTGATGCCATAGCTTCTTTCAGCTATG
1 GTCTTACTCATTTGAATCGTGATGCCATAGCATCTTTCAGCTATG
* *
10179760 GTCTTACTCGTTTGTATCGTGATGCCATAGCATCTTTCAGCTATG
1 GTCTTACTCATTTGAATCGTGATGCCATAGCATCTTTCAGCTATG
10179805 GTCTTACTCATTT
1 GTCTTACTCATTT
10179818 TTCAACCAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (45 bp):
GTCTTACTCATTTGAATCGTGATGCCATAGCATCTTTCAGCTATG
Found at i:10184783 original size:47 final size:47
Alignment explanation
Indices: 10184666--10184931 Score: 233
Period size: 47 Copynumber: 5.7 Consensus size: 47
10184656 GATTTGTGCA
* **
10184666 CCAGTGTAAGACATGTCTGGGACATGCTTCGGCTACATTG-TGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGATGAGAG
** * *
10184712 CCAGTGTAAGACCATACCTAGGACATGGCATCGGC-ACAGAGATGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAGAGATGAGAG
* *
10184760 CTAGAGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGAT---AG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGG-CT--ACAGAGATGAGAG
* * * * *
10184807 CCAGTGTAAGACGTGTCTGGGAAACGCATCGGCTA-AGAG-T-TGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGATGAGAG
* * * * *
10184851 CAAGTGTAAGACATGTCTGGGACATGCATCAGCATGCATATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGC-TACAGAGATGAGAG
10184899 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
10184932 ACAATTTATC
Statistics
Matches: 174, Mismatches: 31, Indels: 26
0.75 0.13 0.11
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 30 0.17
45 1 0.01
46 22 0.13
47 56 0.32
48 33 0.19
49 14 0.08
50 13 0.07
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.21
Consensus pattern (47 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGATGAGAG
Found at i:10192283 original size:47 final size:47
Alignment explanation
Indices: 10192166--10192431 Score: 147
Period size: 47 Copynumber: 5.7 Consensus size: 47
10192156 GATTTGTGCA
* * *
10192166 CCAGTGTAAGACATGTCTGGGACAT-GCTTCGGCTACATTATGAGAG
1 CCAGAGTAAGACATGTCTGGGACATGGCATCGGCTACATGATGAGAG
* ** * *
10192212 CCAGTGTAAGACCATACCTGGGACATGGCATCGGCATAGA-GATGAGTG
1 CCAGAGTAAGA-CATGTCTGGGACATGGCATCGGC-TACATGATGAGAG
* * *
10192260 CTAGAGTAAGACATGTCTAGGACA-GGCATCGGCCTCGACA-GA-GATAG
1 CCAGAGTAAGACATGTCTGGGACATGGCATCGG-CT--ACATGATGAGAG
* * * * *
10192307 CCAGTGTAAGACGTGTCTGGGACA-CGCATCGGCTA-A-GA-GTTGTG
1 CCAGAGTAAGACATGTCTGGGACATGGCATCGGCTACATGATG-AGAG
* * * * * * *
10192351 CAAGTGTAAGACATGTCTGGGACAT-GAATCAGCATGCATATATAAGAG
1 CCAGAGTAAGACATGTCTGGGACATGGCATCGGC-TACAT-GATGAGAG
* * *
10192399 CTAGTGTAAGGCCATGTCTGGGACATGGCATCG
1 CCAGAGTAA-GACATGTCTGGGACATGGCATCG
10192432 ACAATTTATC
Statistics
Matches: 170, Mismatches: 35, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
43 4 0.02
44 30 0.18
45 1 0.01
46 23 0.14
47 53 0.31
48 37 0.22
49 18 0.11
50 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
CCAGAGTAAGACATGTCTGGGACATGGCATCGGCTACATGATGAGAG
Found at i:10199266 original size:17 final size:17
Alignment explanation
Indices: 10199243--10199276 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10199233 CTTTTAGAAC
*
10199243 AAAAAAAGAGAAGAAAAG
1 AAAAAAA-AGAACAAAAG
10199261 AAAAAAAAGAACAAAA
1 AAAAAAAAGAACAAAA
10199277 ACTGCTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAACAAAAG
Found at i:10204135 original size:18 final size:19
Alignment explanation
Indices: 10204112--10204153 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
10204102 TGTAGAAGAA
*
10204112 TGAAATT-AAGATCAATTT
1 TGAAATTGAAGATCAAATT
*
10204130 TGAAATTGAAGCTCAAATT
1 TGAAATTGAAGATCAAATT
10204149 TGAAA
1 TGAAA
10204154 GTTATGGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.33
Consensus pattern (19 bp):
TGAAATTGAAGATCAAATT
Found at i:10206087 original size:3 final size:3
Alignment explanation
Indices: 10206079--10206116 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10206069 TTCAAATCAC
10206079 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10206117 AATTCCTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10206865 original size:33 final size:33
Alignment explanation
Indices: 10206823--10206907 Score: 143
Period size: 33 Copynumber: 2.6 Consensus size: 33
10206813 TAGAAAAACT
*
10206823 AATATTTTCTGGTGTTTGGATGAATCTTTGTAA
1 AATATTTTCTGGTGTTTGGATAAATCTTTGTAA
10206856 AATATTTTCTGGTGTTTGGATAAATCTTTGTAA
1 AATATTTTCTGGTGTTTGGATAAATCTTTGTAA
**
10206889 AATATTTTCTATTGTTTGG
1 AATATTTTCTGGTGTTTGG
10206908 CAGATTTTCT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.51
Consensus pattern (33 bp):
AATATTTTCTGGTGTTTGGATAAATCTTTGTAA
Found at i:10210106 original size:6 final size:6
Alignment explanation
Indices: 10210092--10210129 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
10210082 AAGACGCAAT
*
10210092 GAAGG- GAAGGG GAAGGA GAAGGA GAAGGA GAAGGA GAA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAA
10210130 AGCGTTTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:10212350 original size:79 final size:78
Alignment explanation
Indices: 10212216--10212449 Score: 326
Period size: 79 Copynumber: 3.0 Consensus size: 78
10212206 CTCGAGTCAC
* * * *
10212216 ATATCATGTAACTGTAGTGAATCAGGATGACCTTTTCAGGTCAAATCCTACCCACCTTAAGTTAT
1 ATATCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTAC
10212281 CATAAGGAATCAT
66 CATAAGGAATCAT
* * * * *
10212294 ATATCGTGTAACCGTAGCGAATTAGGATTACCCTTTTTAGGTCAAATCCTATCCACCTTAGGTTA
1 ATATCATGTAACTGTAGCGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAGTTA
*
10212359 CCATAATGAATCAT
65 CCATAAGGAATCAT
* * *
10212373 ATATCATGTAACTGTAGCGAATCAGGATTACCTTTTCAAGTCAAATCCTATCCTCCTTTAGTTAC
1 ATATCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTAC
10212438 CAT-AGTGAATCA
66 CATAAG-GAATCA
10212450 GGAATAAATC
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
77 1 0.01
78 64 0.47
79 70 0.52
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (78 bp):
ATATCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTAC
CATAAGGAATCAT
Found at i:10212478 original size:40 final size:40
Alignment explanation
Indices: 10212414--10212551 Score: 170
Period size: 40 Copynumber: 3.5 Consensus size: 40
10212404 CTTTTCAAGT
* *
10212414 CAAATCCTATCCTCCTTT-AGTTACCATAGTGAATCAGGAA
1 CAAATCCTATCC-ACTTTAAATTACCATAGTGAATCAGGAA
* * *
10212454 TAAATCCTATTCACTTTAAATTACCATAGTGAATTAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* ** **
10212494 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
10212534 CAAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
10212552 TATTCTCGAG
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 4 0.05
40 79 0.95
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.32
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:10218021 original size:79 final size:78
Alignment explanation
Indices: 10217887--10218120 Score: 344
Period size: 79 Copynumber: 3.0 Consensus size: 78
10217877 CTCGAGTCAC
* * * *
10217887 ATATCATGTAACTGTAGTGAATCAAGATTACCTTTTCAGGTCAAATCCTACCCACCTTAAGTTAT
1 ATATCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTAC
10217952 CATAAGGAATCAT
66 CATAAGGAATCAT
* * *
10217965 ATATCGTGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAGGTTA
1 ATATCATGTAACTGTAGCGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAGTTA
*
10218030 CCATAATGAATCAT
65 CCATAAGGAATCAT
* * *
10218044 ATATCATGTAACTGTAGCGAATTAGGATTACCTTTTCAGGTCAAATCCTATCCTCCTTTAGTTAC
1 ATATCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTAC
10218109 CAT-AGTGAATCA
66 CATAAG-GAATCA
10218121 GGAATAAATC
Statistics
Matches: 139, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
77 1 0.01
78 67 0.48
79 71 0.51
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (78 bp):
ATATCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTAC
CATAAGGAATCAT
Found at i:10218118 original size:78 final size:78
Alignment explanation
Indices: 10217887--10218120 Score: 337
Period size: 78 Copynumber: 3.0 Consensus size: 78
10217877 CTCGAGTCAC
* * * * *
10217887 ATATCATGTAACTGTAGTGAATCAAGATTACCTTTTCAGGTCAAATCCTACCCACCTTAAGTTAT
1 ATATCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTTAGTTAC
10217952 CATAAG-GAATCAT
66 CAT-AGTGAATCAT
* *
10217965 ATATCGTGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACC-TTAGGTT
1 ATATCATGTAACTGTAGCGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTTA-GTT
*
10218029 ACCATAATGAATCAT
64 ACCATAGTGAATCAT
* *
10218044 ATATCATGTAACTGTAGCGAATTAGGATTACCTTTTCAGGTCAAATCCTATCCTCCTTTAGTTAC
1 ATATCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTTAGTTAC
10218109 CATAGTGAATCA
66 CATAGTGAATCA
10218121 GGAATAAATC
Statistics
Matches: 139, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
78 70 0.50
79 69 0.50
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (78 bp):
ATATCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTTAGTTAC
CATAGTGAATCAT
Found at i:10218217 original size:40 final size:40
Alignment explanation
Indices: 10218085--10218222 Score: 163
Period size: 40 Copynumber: 3.5 Consensus size: 40
10218075 CTTTTCAGGT
*
10218085 CAAATCCTATCCTCCTTT--AGTTACCATAGTGAATCAGGAA
1 CAAATCCTATCC-ACTTTAAAG-TACCATAGTGAATCAGGAA
* * *
10218125 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAAGTACCATAGTGAATCAGGAA
* * **
10218165 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAAGTACCATAGTGAATCAGGAA
*
10218205 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
10218223 TATTCTCGAG
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 78 0.94
41 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAAGTACCATAGTGAATCAGGAA
Found at i:10223650 original size:104 final size:105
Alignment explanation
Indices: 10223470--10223737 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
10223460 TAACCGTTAT
* **
10223470 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
10223535 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
10223574 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
10223639 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
10223679 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
10223738 TTATATACAA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 82 0.53
105 71 0.46
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:10225532 original size:26 final size:24
Alignment explanation
Indices: 10225487--10225534 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
10225477 GTATCATTTT
*
10225487 TATTTGTTTTTATGTTTTTAAATA
1 TATTTGTTTTTATATTTTTAAATA
10225511 TATTTGATTTATTATATTTTTAAA
1 TATTTG-TTT-TTATATTTTTAAA
10225535 ATTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TATTTGTTTTTATATTTTTAAATA
Found at i:10234961 original size:15 final size:16
Alignment explanation
Indices: 10234943--10235008 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 16
10234933 ATTTTAATTT
10234943 TTTTGGAAA-TTAAAA
1 TTTTGGAAATTTAAAA
*
10234958 TTTT-GAAATTTAAGA
1 TTTTGGAAATTTAAAA
10234973 TTTT-G-AA-TT--AA
1 TTTTGGAAATTTAAAA
10234984 TCTTTGGATAATTTAAAA
1 T-TTTGGA-AATTTAAAA
10235002 TTTTGGA
1 TTTTGGA
10235009 TTTGAATATC
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
11 2 0.05
12 3 0.07
13 3 0.07
14 6 0.15
15 16 0.39
16 2 0.05
17 6 0.15
18 3 0.07
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.47
Consensus pattern (16 bp):
TTTTGGAAATTTAAAA
Found at i:10240973 original size:32 final size:33
Alignment explanation
Indices: 10240909--10240974 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
10240899 GTGCATGACT
* *
10240909 ACTAGATCCATCTACTCTAAATACATTCATTAA
1 ACTAGATACATCAACTCTAAATACATTCATTAA
*
10240942 ACTAGATACATCAACTCT-AATTCATTCATTAA
1 ACTAGATACATCAACTCTAAATACATTCATTAA
10240974 A
1 A
10240975 TATAAGTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.33
Consensus pattern (33 bp):
ACTAGATACATCAACTCTAAATACATTCATTAA
Found at i:10240985 original size:33 final size:33
Alignment explanation
Indices: 10240911--10240974 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
10240901 GCATGACTAC
* * *
10240911 TAGATCCATCTACTCTAAATACATTCATTAAAC
1 TAGATACATCAACTCTAAATACATTCATTAAAA
*
10240944 TAGATACATCAACTCT-AATTCATTCATTAAA
1 TAGATACATCAACTCTAAATACATTCATTAAA
10240975 TATAAGTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.34
Consensus pattern (33 bp):
TAGATACATCAACTCTAAATACATTCATTAAAA
Found at i:10245345 original size:32 final size:33
Alignment explanation
Indices: 10245285--10245350 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
10245275 ATGCATGAGT
10245285 ACTAGATACATCTACTCTAAATACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
10245318 ACTAGATACATCTACTCT-AATACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
10245350 A
1 A
10245351 TATAAGTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 15 0.45
33 18 0.55
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.33
Consensus pattern (33 bp):
ACTAGATACATCTACTCTAAATACATTCATTAA
Found at i:10245916 original size:81 final size:81
Alignment explanation
Indices: 10245829--10245991 Score: 299
Period size: 81 Copynumber: 2.0 Consensus size: 81
10245819 TAACAATAGC
* * *
10245829 ATCCAATTCATCAAATTAATTAACAATATTCATAAATAGTTCAAAATGAAGCAATACATACATTC
1 ATCCAATTCATCAAATTAATTAACAATATTCATAAATAATTCAAAATGAAACAAGACATACATTC
10245894 ACGGGTCTTAAATCAA
66 ACGGGTCTTAAATCAA
10245910 ATCCAATTCATCAAATTAATTAACAATATTCATAAATAATTCAAAATGAAACAAGACATACATTC
1 ATCCAATTCATCAAATTAATTAACAATATTCATAAATAATTCAAAATGAAACAAGACATACATTC
10245975 ACGGGTCTTAAATCAA
66 ACGGGTCTTAAATCAA
10245991 A
1 A
10245992 CTTACGAGAC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (81 bp):
ATCCAATTCATCAAATTAATTAACAATATTCATAAATAATTCAAAATGAAACAAGACATACATTC
ACGGGTCTTAAATCAA
Found at i:10249630 original size:27 final size:27
Alignment explanation
Indices: 10249596--10249657 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
10249586 AAATTTCTTT
10249596 AGAAATTTTCTGAAATAATTTCTTCAG
1 AGAAATTTTCTGAAATAATTTCTTCAG
10249623 AGAAATTTTCTGAAATAATTTCTTCAG
1 AGAAATTTTCTGAAATAATTTCTTCAG
10249650 AGAAATTT
1 AGAAATTT
10249658 CTCTTTACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (27 bp):
AGAAATTTTCTGAAATAATTTCTTCAG
Found at i:10249658 original size:14 final size:14
Alignment explanation
Indices: 10249612--10249659 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
10249602 TTTCTGAAAT
10249612 AATTTCTTCAGAGA
1 AATTTCTTCAGAGA
* *
10249626 AA-TT-TTCTGAAA
1 AATTTCTTCAGAGA
10249638 TAATTTCTTCAGAGA
1 -AATTTCTTCAGAGA
10249653 AATTTCT
1 AATTTCT
10249660 CTTTACAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
12 6 0.22
13 4 0.15
14 11 0.41
15 6 0.22
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (14 bp):
AATTTCTTCAGAGA
Found at i:10249834 original size:58 final size:59
Alignment explanation
Indices: 10249772--10249884 Score: 156
Period size: 61 Copynumber: 1.9 Consensus size: 59
10249762 ATTTTAATAT
* * *
10249772 TAAATTAATATAATACTTATC-AAGATAAATATTAGATTTAATTTAATATTAAATCTAA
1 TAAATTAATAGAATAATTATCTAAGATAAATATTAAATTTAATTTAATATTAAATCTAA
* *
10249830 TAAATTAATAGAATAATTATCTGTAAGATAATTATTAAATTTAATTTAATTTTAA
1 TAAATTAATAGAATAATTATC--TAAGATAAATATTAAATTTAATTTAATATTAA
10249885 GATAGTTACT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
58 19 0.40
61 28 0.60
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (59 bp):
TAAATTAATAGAATAATTATCTAAGATAAATATTAAATTTAATTTAATATTAAATCTAA
Found at i:10249965 original size:17 final size:17
Alignment explanation
Indices: 10249930--10249962 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10249920 TTAAGATATG
*
10249930 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
10249947 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
10249963 ATAATATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:10252008 original size:16 final size:17
Alignment explanation
Indices: 10251975--10252008 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10251965 TCGGGCTATA
*
10251975 ACCATGCATTTCCAAAC
1 ACCATGCATATCCAAAC
10251992 ACCATGCATAT-CAAAC
1 ACCATGCATATCCAAAC
10252008 A
1 A
10252009 TAGTATATAA
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:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (17 bp):
ACCATGCATATCCAAAC
Found at i:10252620 original size:77 final size:74
Alignment explanation
Indices: 10252468--10252611 Score: 182
Period size: 77 Copynumber: 1.9 Consensus size: 74
10252458 TTCTCTTATC
* *
10252468 AATAGAGAACGCAAATGGATAGTTAGAAAAAGGAATTATATTCTTTCCAAAAAAATATAGGATTT
1 AATAGAGAACGCAAATGAAAAGTTAGAAAAAGGAATTATATTCTTTCCAAAAAAATATA-GATTT
*
10252533 TCCCCTTTTT
65 TCACCTTTTT
* * * *
10252543 AATAGATAATGCAAATGAAAAGTTAGAAAAAAAGGAATTATATTCTTTTCAAAAGAATATTA-AT
1 AATAGAGAACGCAAATGAAAAGTTAG--AAAAAGGAATTATATTCTTTCCAAAAAAATA-TAGAT
10252607 TTTCA
63 TTTCA
10252612 TGTCTTTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
75 22 0.37
76 6 0.10
77 29 0.49
78 2 0.03
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (74 bp):
AATAGAGAACGCAAATGAAAAGTTAGAAAAAGGAATTATATTCTTTCCAAAAAAATATAGATTTT
CACCTTTTT
Found at i:10252758 original size:112 final size:112
Alignment explanation
Indices: 10252599--10252832 Score: 351
Period size: 112 Copynumber: 2.1 Consensus size: 112
10252589 TTTCAAAAGA
* * ** * * * *
10252599 ATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATGAATATAATTGTTTATATTAATAT
1 ATATTAATTTCCATATCTTTTATATTTTGACCAAAACTAATGAATATAACTATTTATATTAATAA
* * *
10252664 ATTCGGTAAAATATATACAATTAATATTTTGTATGAGTCTAATTCAT
66 ATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
* *
10252711 ATATTAATTTCCATATCTTTTATATTTTGACCAAAACTAATTAATATAACTATTTCTATTAATAA
1 ATATTAATTTCCATATCTTTTATATTTTGACCAAAACTAATGAATATAACTATTTATATTAATAA
10252776 ATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
66 ATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
10252823 ATATTAATTT
1 ATATTAATTT
10252833 TTTATATGTT
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 109 1.00
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (112 bp):
ATATTAATTTCCATATCTTTTATATTTTGACCAAAACTAATGAATATAACTATTTATATTAATAA
ATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
Found at i:10254016 original size:3 final size:3
Alignment explanation
Indices: 10254008--10254054 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
10253998 TGTTAATACC
* *
10254008 ATT ATT ATT AATT ATT ATT ATT ATT ATT ATT ATT TTT AAT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10254054 A
1 A
10254055 GCTAATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:10254729 original size:31 final size:31
Alignment explanation
Indices: 10254691--10254749 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
10254681 GATGACATAA
*
10254691 AATCTTTCTATGTATTTGAATTAAATGTAAT
1 AATCTTTCTACGTATTTGAATTAAATGTAAT
10254722 AATCTTTCTACGTATTTGAATTAAATGT
1 AATCTTTCTACGTATTTGAATTAAATGT
10254750 TCACTTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.47
Consensus pattern (31 bp):
AATCTTTCTACGTATTTGAATTAAATGTAAT
Found at i:10270937 original size:55 final size:55
Alignment explanation
Indices: 10270849--10270979 Score: 156
Period size: 55 Copynumber: 2.4 Consensus size: 55
10270839 GTGCGATATG
* * ** * *
10270849 ACCGTAGTCGAGCCTGCCAAAACAACACAGGCGTGCGACACGCCCGTGTGGAAGA
1 ACCGTGGTCGAACCTGTTAAAACAACACAGGCGTGCGACACGCCCGTGTAGAACA
* * *
10270904 ACCGTGGGT-GAACCTGTTAAAACAACACGGGCGTTCGACACGCTCGTGTAGAACA
1 ACCGT-GGTCGAACCTGTTAAAACAACACAGGCGTGCGACACGCCCGTGTAGAACA
*
10270959 CCCGTGGTCGAACCTGTTAAA
1 ACCGTGGTCGAACCTGTTAAA
10270980 TTAACATGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 3 0.05
55 59 0.92
56 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.16
Consensus pattern (55 bp):
ACCGTGGTCGAACCTGTTAAAACAACACAGGCGTGCGACACGCCCGTGTAGAACA
Found at i:10274041 original size:22 final size:22
Alignment explanation
Indices: 10273966--10274041 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
10273956 ACATGCATAT
*
10273966 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
10273988 ATGTGATAAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
10274012 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
10274035 ATGTGAT
1 ATGTGAT
10274042 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:10274078 original size:47 final size:47
Alignment explanation
Indices: 10273706--10274044 Score: 491
Period size: 47 Copynumber: 7.2 Consensus size: 47
10273696 TTAGGATTTT
* ** * * * *
10273706 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGG-TA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
10273752 GATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCA
1 -ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
10273800 ATGTGATGAATGTGAACATGTACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
10273847 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
10273894 ATGTGATGAATATGAACATGCACATATGTGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
10273941 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
10273988 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10274035 ATGTGATGAA
1 ATGTGATGAA
10274045 CGTGGAAGTG
Statistics
Matches: 263, Mismatches: 28, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
47 262 1.00
48 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:10274111 original size:46 final size:46
Alignment explanation
Indices: 10274058--10274148 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
10274048 GGAAGTGTAT
* * *
10274058 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
10274104 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
10274149 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:10280116 original size:16 final size:16
Alignment explanation
Indices: 10280095--10280128 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
10280085 AAAATGACTC
10280095 TAACCACAA-TCAAACA
1 TAACCA-AATTCAAACA
10280111 TAACCAAATTCAAACA
1 TAACCAAATTCAAACA
10280127 TA
1 TA
10280129 GAAATTAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (16 bp):
TAACCAAATTCAAACA
Found at i:10286173 original size:19 final size:20
Alignment explanation
Indices: 10286141--10286185 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
10286131 TGATTCAACG
10286141 GACA-GAAAACTCTTGACAT
1 GACATGAAAACTCTTGACAT
*
10286160 GACATGAAAA-TCTTGAGAT
1 GACATGAAAACTCTTGACAT
*
10286179 GAAATGA
1 GACATGA
10286186 TAATAACTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.22
Consensus pattern (20 bp):
GACATGAAAACTCTTGACAT
Found at i:10290490 original size:39 final size:39
Alignment explanation
Indices: 10290397--10290548 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
10290387 AGTGTTACAA
* *
10290397 GGTATGGCTCGATTGAGCATACTTTCAATAGAATCCA-TAG
1 GGTATGGCTCAATTGAGCATACTTTCAGTAGAAT-CAGT-G
* *
10290437 GGTATGACTCAATTGAGCATACTTTCAGTCGAATCAGTG
1 GGTATGGCTCAATTGAGCATACTTTCAGTAGAATCAGTG
*
10290476 GGTATGGCTCAATTGAGCATACTTTCAGTAGAATTAGTG
1 GGTATGGCTCAATTGAGCATACTTTCAGTAGAATCAGTG
* *
10290515 GGTATGGCTCGATTGAGCATACTTTTAGTAGAAT
1 GGTATGGCTCAATTGAGCATACTTTCAGTAGAAT
10290549 AATATCCCAT
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 71 0.70
40 31 0.30
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (39 bp):
GGTATGGCTCAATTGAGCATACTTTCAGTAGAATCAGTG
Found at i:10292146 original size:24 final size:22
Alignment explanation
Indices: 10292104--10292154 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 22
10292094 AAAAACGGGC
*
10292104 TATTATAATAAATATATATCAAA
1 TATTATAATAAACATATAT-AAA
10292127 -ATTATAATATAACATAATATAAA
1 TATTATAATA-AACAT-ATATAAA
10292150 TATTA
1 TATTA
10292155 CACAGTTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 9 0.38
23 7 0.29
24 8 0.33
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TATTATAATAAACATATATAAA
Found at i:10309339 original size:20 final size:22
Alignment explanation
Indices: 10309294--10309349 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
10309284 GCAAACTCTT
*
10309294 GATTTCCAAAAGAAAAAAAAAG
1 GATTTTCAAAAGAAAAAAAAAG
*
10309316 GATTTTCAAAAG-ACAAAAAA-
1 GATTTTCAAAAGAAAAAAAAAG
*
10309336 GATTTTCAACAGAA
1 GATTTTCAAAAGAA
10309350 CACTGAGGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.37
21 8 0.27
22 11 0.37
ACGTcount: A:0.57, C:0.11, G:0.12, T:0.20
Consensus pattern (22 bp):
GATTTTCAAAAGAAAAAAAAAG
Found at i:10310936 original size:26 final size:26
Alignment explanation
Indices: 10310907--10311014 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
10310897 TGGTACAAAT
10310907 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
10310933 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10310959 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
10310985 TTATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10311011 TGAT
1 TGAT
10311015 GGGCATTTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10312724 original size:27 final size:27
Alignment explanation
Indices: 10312627--10312731 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
10312617 AGGAAGCGTC
* *
10312627 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
10312654 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
10312681 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
10312708 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
10312732 GCAGCCTCGC
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 10 0.14
27 60 0.86
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:10313726 original size:17 final size:16
Alignment explanation
Indices: 10313695--10313725 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10313685 TGGGTTTACA
10313695 AAAAACAAAGATTTTC
1 AAAAACAAAGATTTTC
*
10313711 AAAAACAAATATTTT
1 AAAAACAAAGATTTT
10313726 TTTTGCGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAAACAAAGATTTTC
Found at i:10320601 original size:27 final size:26
Alignment explanation
Indices: 10320561--10320647 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 26
10320551 AGGAAGCGTC
*
10320561 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
10320588 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
10320615 CTGGTGGCTCTGCCACAATACCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
10320642 CTGGTG
1 CTGGTG
10320648 ACTTCGTCAC
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
26 7 0.13
27 46 0.87
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.33
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:10321734 original size:13 final size:13
Alignment explanation
Indices: 10321711--10321775 Score: 76
Period size: 13 Copynumber: 4.6 Consensus size: 13
10321701 GGCAACCCAA
10321711 TTTTTATTTTTATT
1 TTTTTA-TTTTATT
10321725 TTTTTATTTTATT
1 TTTTTATTTTATT
10321738 TTTTTATTTTATT
1 TTTTTATTTTATT
*
10321751 CTTTATTACTTTAATT
1 -TTT-TTA-TTTTATT
10321767 TATTTTATT
1 T-TTTTATT
10321776 ATTTATTACT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
13 20 0.43
14 11 0.24
15 7 0.15
16 8 0.17
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:10321755 original size:25 final size:26
Alignment explanation
Indices: 10321711--10321782 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 26
10321701 GGCAACCCAA
*
10321711 TTTTTATTTTTATTTTTTTATTTTA-TT
1 TTTTTA-TTTTA-TTATTTATTTTACTT
*
10321738 TTTTTATTTTATTCTTTA--TTACTT
1 TTTTTATTTTATTATTTATTTTACTT
*
10321762 TAATTTATTTTATTATTTATT
1 T-TTTTATTTTATTATTTATT
10321783 ACTTTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 3 0.08
24 3 0.08
25 21 0.55
26 5 0.13
27 6 0.16
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (26 bp):
TTTTTATTTTATTATTTATTTTACTT
Found at i:10321756 original size:33 final size:33
Alignment explanation
Indices: 10321712--10321792 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 33
10321702 GCAACCCAAT
* *
10321712 TTTTATT-TTTATTTTTTTATTTTATTTTTTTA
1 TTTTATTCTTTATTTTTTTAATTTATTTTATTA
**
10321744 TTTTATTCTTTATTACTTTAATTTATTTTATTA
1 TTTTATTCTTTATTTTTTTAATTTATTTTATTA
10321777 -TTTATTACTTTATTTT
1 TTTTATT-CTTTATTTT
10321793 GTTTGGATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 13 0.32
33 28 0.68
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (33 bp):
TTTTATTCTTTATTTTTTTAATTTATTTTATTA
Found at i:10321783 original size:25 final size:25
Alignment explanation
Indices: 10321740--10321788 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
10321730 ATTTTATTTT
*
10321740 TTTATTTTATTCTTTATTACTTTAA
1 TTTATTTTATTATTTATTACTTTAA
10321765 TTTATTTTATTATTTATTACTTTA
1 TTTATTTTATTATTTATTACTTTA
10321789 TTTTGTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTATTTTATTATTTATTACTTTAA
Found at i:10321788 original size:8 final size:8
Alignment explanation
Indices: 10321745--10321790 Score: 51
Period size: 7 Copynumber: 5.8 Consensus size: 8
10321735 ATTTTTTTAT
10321745 TTTATT-C
1 TTTATTAC
10321752 TTTATTAC
1 TTTATTAC
*
10321760 TTTAATTTAT
1 TTT-A-TTAC
10321770 TTTATTA-
1 TTTATTAC
10321777 TTTATTAC
1 TTTATTAC
10321785 TTTATT
1 TTTATT
10321791 TTGTTTGGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
7 13 0.38
8 13 0.38
9 2 0.06
10 6 0.18
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTATTAC
Found at i:10321803 original size:25 final size:25
Alignment explanation
Indices: 10321740--10321806 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
10321730 ATTTTATTTT
* *
10321740 TTTATTTTATTCTTTATTACTTTAA
1 TTTATTTGATTATTTATTACTTTAA
* *
10321765 TTTATTTTATTATTTATTACTTTAT
1 TTTATTTGATTATTTATTACTTTAA
*
10321790 TTTGTTTGGA-TATTTAT
1 TTTATTT-GATTATTTAT
10321807 AAATTTATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTATTTGATTATTTATTACTTTAA
Found at i:10336357 original size:20 final size:20
Alignment explanation
Indices: 10336309--10336357 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
10336299 CGTGGGGCAC
*
10336309 GCCCGTGTACCCTAATTTTA
1 GCCCGTGTGCCCTAATTTTA
*
10336329 GCCCGTGTGCCCTAATTTTG
1 GCCCGTGTGCCCTAATTTTA
10336349 GCCCGTGTG
1 GCCCGTGTG
10336358 TATCGTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.31, G:0.24, T:0.33
Consensus pattern (20 bp):
GCCCGTGTGCCCTAATTTTA
Found at i:10346522 original size:46 final size:46
Alignment explanation
Indices: 10346454--10346545 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
10346444 ACATATTTAC
10346454 CTATTGAAGTTTCATTACTACTTCAATCGATATACTACTATAGAGG
1 CTATTGAAGTTTCATTACTACTTCAATCGATATACTACTATAGAGG
* *
10346500 CTATTGAAGTTTCATTATTACTTCAATCGATATGCTACTATAGAGG
1 CTATTGAAGTTTCATTACTACTTCAATCGATATACTACTATAGAGG
10346546 TTATCAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (46 bp):
CTATTGAAGTTTCATTACTACTTCAATCGATATACTACTATAGAGG
Found at i:10351483 original size:38 final size:38
Alignment explanation
Indices: 10351441--10351529 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 38
10351431 CTCCGTTCAC
* * *
10351441 CCCTACACACCACG-TGAGGATAATATCAACCCACCTAG
1 CCCTACACACCAAGATGAGGATAA-ATCAACCCACCCAA
*
10351479 CCCTACACACCAAGTATGGGGATAAATCAACCCACCCAA
1 CCCTACACACCAAG-ATGAGGATAAATCAACCCACCCAA
*
10351518 CCATACACACCA
1 CCCTACACACCA
10351530 TAAGGTACCG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
38 13 0.30
39 23 0.52
40 8 0.18
ACGTcount: A:0.37, C:0.38, G:0.11, T:0.13
Consensus pattern (38 bp):
CCCTACACACCAAGATGAGGATAAATCAACCCACCCAA
Found at i:10363612 original size:30 final size:30
Alignment explanation
Indices: 10363548--10363634 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 30
10363538 TTTATAAATG
** **
10363548 TATATAATTGAATCAAAATCATAGTTTTTTTA
1 TATATAATTGAA-CAAAATCA-AAATTTGATA
*
10363580 TATATATTTGAAGCAAAAT-AAAATTTGATA
1 TATATAATTGAA-CAAAATCAAAATTTGATA
*
10363610 TATATAATTGCACAAAATCAAAATT
1 TATATAATTGAACAAAATCAAAATT
10363635 CAACATAACA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 6 0.13
30 22 0.48
31 1 0.02
32 17 0.37
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (30 bp):
TATATAATTGAACAAAATCAAAATTTGATA
Found at i:10383989 original size:3 final size:3
Alignment explanation
Indices: 10383961--10384020 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
10383951 CCTTGTCATT
* * * *
10383961 TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA TGTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
10384007 TATA TTT TTA TTA T
1 T-TA TTA TTA TTA T
10384021 GTATGCGTAT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:10384017 original size:23 final size:22
Alignment explanation
Indices: 10383962--10384024 Score: 83
Period size: 23 Copynumber: 2.9 Consensus size: 22
10383952 CTTGTCATTT
*
10383962 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
10383983 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
10384005 TATATATTTTTATTATGTAT
1 TAT-TATTATTATTATGTAT
10384025 GCGTATACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.35
22 9 0.24
23 15 0.41
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.59
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:10384030 original size:23 final size:23
Alignment explanation
Indices: 10383968--10384031 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
10383958 ATTTTATTAG
* *
10383968 TATTATTA-GTATTACTAT-TAT
1 TATTATTATGTATGAGTATATAT
*
10383989 TATTATTATGTATTAGTATATAT
1 TATTATTATGTATGAGTATATAT
* *
10384012 TTTTATTATGTATGCGTATA
1 TATTATTATGTATGAGTATA
10384032 CATATATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.22
22 9 0.24
23 20 0.54
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATTATTATGTATGAGTATATAT
Found at i:10384133 original size:3 final size:3
Alignment explanation
Indices: 10384120--10384158 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
10384110 TATTCCAATG
*
10384120 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10384159 GTTTATGCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:10384498 original size:28 final size:29
Alignment explanation
Indices: 10384450--10384506 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
10384440 TTTACACTAT
* *
10384450 TATATACATTTTTTCTAATAT-TATATTG
1 TATATACATTGTTTATAATATATATATTG
10384478 TATATACTATTGTTTATATATATATATAT
1 TATATAC-ATTGTTTATA-ATATATATAT
10384507 ATATATGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.29
29 8 0.33
30 4 0.17
31 5 0.21
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (29 bp):
TATATACATTGTTTATAATATATATATTG
Found at i:10384927 original size:38 final size:37
Alignment explanation
Indices: 10384843--10384937 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
10384833 TATACGTACT
*
10384843 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
10384881 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
10384917 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
10384938 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:10393343 original size:27 final size:28
Alignment explanation
Indices: 10393313--10393422 Score: 76
Period size: 27 Copynumber: 4.0 Consensus size: 28
10393303 TATTGAATTA
10393313 AATATTAATTTATATTA-TAAATTAAAT
1 AATATTAATTTATATTATTAAATTAAAT
* **
10393340 AATATTAA-ATA-ATTA--AAATTTTAT
1 AATATTAATTTATATTATTAAATTAAAT
10393364 AATA-TAATTATATATTAATTTTGAAA-TAAAT
1 AATATTAATT-TATATT-A--TT-AAATTAAAT
10393395 -ATATTAATTTAT-TTATTAAATATAAAT
1 AATATTAATTTATATTATTAAAT-TAAAT
10393422 A
1 A
10393423 CATTAGCATT
Statistics
Matches: 64, Mismatches: 6, Indels: 25
0.67 0.06 0.26
Matches are distributed among these distances:
23 3 0.05
24 11 0.17
25 9 0.14
26 7 0.11
27 14 0.22
28 1 0.02
29 2 0.03
30 6 0.09
31 8 0.12
32 3 0.05
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (28 bp):
AATATTAATTTATATTATTAAATTAAAT
Found at i:10393472 original size:21 final size:21
Alignment explanation
Indices: 10393443--10393491 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10393433 AATAAAAATA
*
10393443 AATAGATTAAATGTTGTTAAT
1 AATAAATTAAATGTTGTTAAT
* **
10393464 AATAAATTAACTGTTGTTGTT
1 AATAAATTAAATGTTGTTAAT
10393485 AATAAAT
1 AATAAAT
10393492 ATAATTTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (21 bp):
AATAAATTAAATGTTGTTAAT
Found at i:10396026 original size:31 final size:31
Alignment explanation
Indices: 10395988--10396049 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
10395978 GAAACGGTGT
10395988 AAGTAATAGATTTTTAAATCATGAAATATAA
1 AAGTAATAGATTTTTAAATCATGAAATATAA
10396019 AAGTAATAGATTTTTAAATCATGAAATATAA
1 AAGTAATAGATTTTTAAATCATGAAATATAA
10396050 TGAATTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (31 bp):
AAGTAATAGATTTTTAAATCATGAAATATAA
Found at i:10397591 original size:46 final size:46
Alignment explanation
Indices: 10397534--10397715 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
10397524 AGTGTGCTCT
* * *
10397534 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
10397580 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
* *
10397626 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
* * * * *
10397672 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGACACCATGGCA
10397716 TCATGTCAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 122 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
Found at i:10400053 original size:18 final size:19
Alignment explanation
Indices: 10400026--10400090 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
10400016 AAAAATATAT
10400026 TTTTTAAATATTTTATTAA
1 TTTTTAAATATTTTATTAA
* ** *
10400045 TTTTT-AATAATAAAATAGA
1 TTTTTAAATATTTTATTA-A
*
10400064 TTTTTAAAATATTTTATCAA
1 TTTTT-AAATATTTTATTAA
10400084 TTTTTAA
1 TTTTTAA
10400091 TAATAAAATA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
18 8 0.24
19 13 0.38
20 6 0.18
21 7 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTTAAATATTTTATTAA
Found at i:10400067 original size:39 final size:39
Alignment explanation
Indices: 10400017--10400108 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
10400007 ATATCAATTA
* *
10400017 AAAATATATTTTTTAAATATTTTATTAATTTTTAATAAT
1 AAAATAGATTTTTTAAATATTTTATCAATTTTTAATAAT
*
10400056 AAAATAGATTTTTAAAATATTTTATCAATTTTTAATAAT
1 AAAATAGATTTTTTAAATATTTTATCAATTTTTAATAAT
10400095 AAAATAGATTTTTT
1 AAAATAGATTTTTT
10400109 GATTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (39 bp):
AAAATAGATTTTTTAAATATTTTATCAATTTTTAATAAT
Found at i:10400108 original size:20 final size:19
Alignment explanation
Indices: 10400044--10400107 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
10400034 TATTTTATTA
10400044 ATTTTTAATAATAAAATAG
1 ATTTTTAATAATAAAATAG
**
10400063 ATTTTTAA-AATATTTTATCA-
1 ATTTTTAATAATA--AAAT-AG
10400083 ATTTTTAATAATAAAATAG
1 ATTTTTAATAATAAAATAG
10400102 ATTTTT
1 ATTTTT
10400108 TGATTGGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 5 0.14
19 16 0.44
20 10 0.28
21 5 0.14
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (19 bp):
ATTTTTAATAATAAAATAG
Found at i:10402420 original size:17 final size:18
Alignment explanation
Indices: 10402387--10402428 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
10402377 TATTTAATAA
*
10402387 TTATAAAAAATTCAGAG-
1 TTATAAAAAATTAAGAGT
10402404 TTATAAAATAA-TAAGAGT
1 TTATAAAA-AATTAAGAGT
10402422 TTATAAA
1 TTATAAA
10402429 TACAATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (18 bp):
TTATAAAAAATTAAGAGT
Found at i:10403172 original size:14 final size:14
Alignment explanation
Indices: 10403135--10403175 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
10403125 TTTTAAATTG
10403135 AAAA-AAAAAAG-T
1 AAAATAAAAAAGTT
*
10403147 AAAATATGAAAAGTT
1 AAAATA-AAAAAGTT
10403162 AAAATAAAAAAGTT
1 AAAATAAAAAAGTT
10403176 GACCGACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 4 0.17
13 1 0.04
14 12 0.50
15 7 0.29
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.20
Consensus pattern (14 bp):
AAAATAAAAAAGTT
Found at i:10412307 original size:18 final size:18
Alignment explanation
Indices: 10412284--10412319 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10412274 AGAAAATCTT
10412284 TTTACAATATGGTGTTTA
1 TTTACAATATGGTGTTTA
*
10412302 TTTACAGTATGGTGTTTA
1 TTTACAATATGGTGTTTA
10412320 CAAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (18 bp):
TTTACAATATGGTGTTTA
Found at i:10416300 original size:21 final size:22
Alignment explanation
Indices: 10416274--10416315 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10416264 CTCTTATCAC
*
10416274 AGGGGC-ACACGCCCGTGTGAG
1 AGGGGCAACACGACCGTGTGAG
10416295 AGGGGCAACACGACCGTGTGA
1 AGGGGCAACACGACCGTGTGA
10416316 CAATTCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.24, C:0.26, G:0.40, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGACCGTGTGAG
Found at i:10422087 original size:18 final size:17
Alignment explanation
Indices: 10422054--10422092 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
10422044 TTGTATAAAT
10422054 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
10422072 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
10422089 TGTG
1 TGTG
10422093 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:10422224 original size:8 final size:8
Alignment explanation
Indices: 10422211--10422239 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
10422201 CATTAGAGAC
10422211 CAGTGTTA
1 CAGTGTTA
10422219 CAGTGTTA
1 CAGTGTTA
10422227 CAGTGTTA
1 CAGTGTTA
10422235 CAGTG
1 CAGTG
10422240 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:10422353 original size:23 final size:23
Alignment explanation
Indices: 10422326--10422398 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
10422316 AGTGTTATTG
10422326 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
10422349 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
10422372 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
10422395 ATCA
1 ATCA
10422399 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:10425022 original size:21 final size:21
Alignment explanation
Indices: 10424976--10425015 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10424966 TATAGGCAAC
*
10424976 CAAAACATGCCAATTCATATA
1 CAAATCATGCCAATTCATATA
*
10424997 CAAATCATGCCATTTCATA
1 CAAATCATGCCAATTCATA
10425016 AGTAAATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (21 bp):
CAAATCATGCCAATTCATATA
Found at i:10426133 original size:43 final size:43
Alignment explanation
Indices: 10426048--10426163 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
10426038 TCTATGCCAC
* * * *
10426048 TGTCCCAGACAGGGTCTTACACG-AATCATAATACGATACCAA
1 TGTCTCAGACATGGTCTTACACGTAATCACAATACAATACCAA
*
10426090 TGTCTCAGACATGGTCTTACACGTAATCACAATACAATTCCAA
1 TGTCTCAGACATGGTCTTACACGTAATCACAATACAATACCAA
*
10426133 TGTCTCAGACATGGTCTTACATGTAATCACA
1 TGTCTCAGACATGGTCTTACACGTAATCACA
10426164 TCTCAATAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 21 0.31
43 46 0.69
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
TGTCTCAGACATGGTCTTACACGTAATCACAATACAATACCAA
Done.