Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 64 of 195
Found at i:12708789 original size:16 final size:16
Alignment explanation
Indices: 12708761--12708792 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12708751 ACCATAAACC
12708761 TTCAAAACCCTAAAAT
1 TTCAAAACCCTAAAAT
*
12708777 TTCAAAACTCTAAAAT
1 TTCAAAACCCTAAAAT
12708793 CTAAAACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (16 bp):
TTCAAAACCCTAAAAT
Found at i:12708807 original size:22 final size:22
Alignment explanation
Indices: 12708780--12708836 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
12708770 CTAAAATTTC
12708780 AAAACTCTAAAATCTAAAACAT
1 AAAACTCTAAAATCTAAAACAT
* * **
12708802 AAAACTCTAAATTTTAAAATTT
1 AAAACTCTAAAATCTAAAACAT
12708824 AAAAC-CTAAAATC
1 AAAACTCTAAAATC
12708837 CCAAATTTGG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 6 0.21
22 23 0.79
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAACTCTAAAATCTAAAACAT
Found at i:12708842 original size:29 final size:29
Alignment explanation
Indices: 12708787--12708844 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
12708777 TTCAAAACTC
*
12708787 TAAAATCTAAAACATAAAACTCTAAATTT
1 TAAAATCTAAAACATAAAACTCCAAATTT
* *
12708816 TAAAATTTAAAACCTAAAA-TCCCAAATTT
1 TAAAATCTAAAACATAAAACT-CCAAATTT
12708845 GGTATGCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (29 bp):
TAAAATCTAAAACATAAAACTCCAAATTT
Found at i:12711059 original size:3 final size:3
Alignment explanation
Indices: 12711051--12711075 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
12711041 TTTTTTCTTA
12711051 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
12711076 TCTTGTGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12711960 original size:145 final size:144
Alignment explanation
Indices: 12711633--12712330 Score: 523
Period size: 144 Copynumber: 4.8 Consensus size: 144
12711623 AGGAAGGGCA
** * * * * ** *
12711633 AAATTACCAAAATACCCTTATAAGGGTATTTTCATAAATTGACCTTCCCAAGCTTGGATTTTCAT
1 AAATTACCAAAATACCCTTATAAGGGTATTTTTGTAATTTGGCTTTTCCAAGCTCAGAATTTCAT
* ** * * * * * * *
12711698 GAAACATTCCAAATCTT-AATTTTATAAGATTTCATGATTTTCATTGTA-TTTAAAATCATAGTA
66 GAAACTTTTTAAAT-TTCAATTTCATAATATTTCATGATTTT--TGGAAGTTTGAAACCATAGCA
* * * * *
12711761 GTA-CCTAGAAAGGGTA
128 ATACCCCAAAAAGTGTG
* * * * * * **
12711777 AAATTACCAAAATACCCTTATAACGGTATTTTTTTAATTTGGCTTTTTCGATCTCAGATTTTGGT
1 AAATTACCAAAATACCCTTATAAGGGTATTTTTGTAATTTGGCTTTTCCAAGCTCAGAATTTCAT
* * *
12711842 GAAACTTTTTAGATTTCAATTTCATAATATTTCATGATTTTTTGAGAGTTTGAAACCACAGCAAT
66 GAAACTTTTTAAATTTCAATTTCATAATATTTCATGATTTTTGGA-AGTTTGAAACCATAGCAAT
*
12711907 ACCCCAATAAGTGTG
130 ACCCCAAAAAGTGTG
* * *
12711922 AAATTACGAAAATACCCTT-TAAAGGGTATTTTCGTAATTTGGC-TTTCCTAAGCTTAGAATTTC
1 AAATTACCAAAATACCCTTAT-AAGGGTATTTTTGTAATTTGGCTTTTCC-AAGCTCAGAATTTC
* *
12711985 ATGAAACTTTTCATATCTTAATTTCATAATATTTTATAACATTTCATGATTTTTGGAAAGTTTGA
64 ATGAAACTTTT--TA----AATTTC---A-ATTTCATAATATTTCATGATTTTTGG-AAGTTTGA
* * * *
12712050 AACCATAGCAGTACCTCGAGAAGTGTG
118 AACCATAGCAATACCCCAAAAAGTGTG
* * * *
12712077 AAATTACCAAAATACCCTT-TAAGGGGTATTTTTGTGATTTGGCCTTCCCAAGCTCAAAATTTCA
1 AAATTACCAAAATACCCTTATAA-GGGTATTTTTGTAATTTGGCTTTTCCAAGCTCAGAATTTCA
** * * * * *
12712141 TGAAACTTTCCAAATATT-AATTTCGTAATATTTCATGGTTTTTGGCAAATCTGAAATCATAGCA
65 TGAAACTTTTTAAAT-TTCAATTTCATAATATTTCATGATTTTTGG-AAGTTTGAAACCATAGCA
*
12712205 ATACTCCAAAAAGTGTG
128 ATACCCCAAAAAGTGTG
* * * * * *
12712222 -AATTACCAAATTACCCTTATATGGGTATTTTTGTAATTTAGCTTTCCCGAGCTCAGAATTTTAT
1 AAATTACCAAAATACCCTTATAAGGGTATTTTTGTAATTTGGCTTTTCCAAGCTCAGAATTTCAT
* ** * *
12712286 GAAACCTTGCAAATCTCAA-TACTATAATATTTTCATGATTTTTGG
66 GAAACTTTTTAAATTTCAATTTC-ATAATA-TTTCATGATTTTTGG
12712331 TGCTTTAAAT
Statistics
Matches: 444, Mismatches: 86, Indels: 47
0.77 0.15 0.08
Matches are distributed among these distances:
142 3 0.01
143 6 0.01
144 173 0.39
145 129 0.29
146 1 0.00
147 2 0.00
149 3 0.01
150 2 0.00
151 5 0.01
153 1 0.00
154 3 0.01
155 111 0.25
156 5 0.01
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (144 bp):
AAATTACCAAAATACCCTTATAAGGGTATTTTTGTAATTTGGCTTTTCCAAGCTCAGAATTTCAT
GAAACTTTTTAAATTTCAATTTCATAATATTTCATGATTTTTGGAAGTTTGAAACCATAGCAATA
CCCCAAAAAGTGTG
Found at i:12712161 original size:155 final size:155
Alignment explanation
Indices: 12711860--12712176 Score: 445
Period size: 155 Copynumber: 2.0 Consensus size: 155
12711850 TTAGATTTCA
* * * *
12711860 ATTTCATAATATTTCATGATTTTTTGAGAGTTTGAAACCACAGCAATACCCCAATAAGTGTGAAA
1 ATTTCATAACATTTCATGATTTTTGGAAAGTTTGAAACCACAGCAATACCCCAAGAAGTGTGAAA
* * * * *
12711925 TTACGAAAATACCCTTTAAAGGGTATTTTCGTAATTTGGCTTTCCTAAGCTTAGAATTTCATGAA
66 TTACCAAAATACCCTTTAAAGGGTATTTTCGTAATTTGGCCTTCCCAAGCTCAAAATTTCATGAA
* * *
12711990 ACTTTTCATATCTTAATTTCATAAT
131 ACTTTCCAAATATTAATTTCATAAT
* * * * *
12712015 ATTTTATAACATTTCATGATTTTTGGAAAGTTTGAAACCATAGCAGTACCTCGAGAAGTGTGAAA
1 ATTTCATAACATTTCATGATTTTTGGAAAGTTTGAAACCACAGCAATACCCCAAGAAGTGTGAAA
* * *
12712080 TTACCAAAATACCCTTTAAGGGGTATTTTTGTGATTTGGCCTTCCCAAGCTCAAAATTTCATGAA
66 TTACCAAAATACCCTTTAAAGGGTATTTTCGTAATTTGGCCTTCCCAAGCTCAAAATTTCATGAA
*
12712145 ACTTTCCAAATATTAATTTCGTAAT
131 ACTTTCCAAATATTAATTTCATAAT
12712170 ATTTCAT
1 ATTTCAT
12712177 GGTTTTTGGC
Statistics
Matches: 140, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
155 140 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (155 bp):
ATTTCATAACATTTCATGATTTTTGGAAAGTTTGAAACCACAGCAATACCCCAAGAAGTGTGAAA
TTACCAAAATACCCTTTAAAGGGTATTTTCGTAATTTGGCCTTCCCAAGCTCAAAATTTCATGAA
ACTTTCCAAATATTAATTTCATAAT
Found at i:12716057 original size:17 final size:17
Alignment explanation
Indices: 12716031--12716108 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 17
12716021 CGTGTTGTAA
* *
12716031 AAAAAAAAAAAGAAAGG
1 AAAAAGAAAAAGAAAAG
* * *
12716048 AAAAAGAAAAGGCAAAT
1 AAAAAGAAAAAGAAAAG
** *
12716065 AAAGGGAGAAAGAAAAG
1 AAAAAGAAAAAGAAAAG
12716082 AAAAAGAAAAAGAAAAG
1 AAAAAGAAAAAGAAAAG
12716099 AAAGAAGAAA
1 AAA-AAGAAA
12716109 GGTATAAGGA
Statistics
Matches: 46, Mismatches: 14, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
17 40 0.87
18 6 0.13
ACGTcount: A:0.76, C:0.01, G:0.22, T:0.01
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAAG
Found at i:12716108 original size:12 final size:11
Alignment explanation
Indices: 12716029--12716101 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
12716019 AACGTGTTGT
12716029 AAAA-AAAA-A
1 AAAAGAAAAGA
*
12716038 AAAAGAAAGGA
1 AAAAGAAAAGA
*
12716049 AAAAGAAAAGG
1 AAAAGAAAAGA
* * *
12716060 CAAATAAAGGGA
1 AAAAGAAA-AGA
*
12716072 GAAAGAAAAGA
1 AAAAGAAAAGA
12716083 AAAAGAAAA-A
1 AAAAGAAAAGA
12716093 GAAAAGAAA
1 -AAAAGAAA
12716102 GAAGAAAGGT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
9 4 0.08
10 4 0.08
11 34 0.69
12 7 0.14
ACGTcount: A:0.77, C:0.01, G:0.21, T:0.01
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:12719819 original size:221 final size:222
Alignment explanation
Indices: 12719418--12719861 Score: 872
Period size: 221 Copynumber: 2.0 Consensus size: 222
12719408 AGCCGGTATT
12719418 GTCGACTTTTGAGATCACCCAACGAGAGTTTGAGGTTGAAAGGAAAAAGTTAGAGAAAGAGAAAA
1 GTCGACTTTTGAGATCACCCAACGAGAGTTTGAGGTTGAAAGGAAAAAGTTAGAGAAAGAGAAAA
12719483 TGGCAATGATAGATCAAGTAAATCAATTGAGATATGATTTGATGATAAATGAGGATGCAATATAA
66 TGGCAATGATAGATCAAGTAAATCAATTGAGATATGATTTGATGATAAATGAGGATGCAATATAA
*
12719548 AAGTTGACCAAGGAACGAAAGGTATTAAAAAAAGATTTGCAAGACCTTCATCAAGAAAATAAGAG
131 AAGTTGACCAAAGAACGAAAGGTATTAAAAAAAGATTTGCAAGACCTTCATCAAGAAAATAAGAG
12719613 ATTGAGATTGGACATCAAACCTTTAAG
196 ATTGAGATTGGACATCAAACCTTTAAG
12719640 GTCGACTTTTGAGATCA-CCAACGAGAGTTTGAGGTTGAAAGGAAAAAGTTAGAGAAAGAGAAAA
1 GTCGACTTTTGAGATCACCCAACGAGAGTTTGAGGTTGAAAGGAAAAAGTTAGAGAAAGAGAAAA
12719704 TGGCAATGATAGATCAAGTAAATCAATTGAGATATGATTTGATGATAAATGAGGATGCAATATAA
66 TGGCAATGATAGATCAAGTAAATCAATTGAGATATGATTTGATGATAAATGAGGATGCAATATAA
12719769 AAGTTGACCAAAGAACGAAAGGTATTAAAAAAAGATTTGCAAGACCTTCATCAAGAAAATAAGAG
131 AAGTTGACCAAAGAACGAAAGGTATTAAAAAAAGATTTGCAAGACCTTCATCAAGAAAATAAGAG
12719834 ATTGAGATTGGACATCAAACCTTTAAG
196 ATTGAGATTGGACATCAAACCTTTAAG
12719861 G
1 G
12719862 AGTTCCAAGA
Statistics
Matches: 221, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
221 204 0.92
222 17 0.08
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (222 bp):
GTCGACTTTTGAGATCACCCAACGAGAGTTTGAGGTTGAAAGGAAAAAGTTAGAGAAAGAGAAAA
TGGCAATGATAGATCAAGTAAATCAATTGAGATATGATTTGATGATAAATGAGGATGCAATATAA
AAGTTGACCAAAGAACGAAAGGTATTAAAAAAAGATTTGCAAGACCTTCATCAAGAAAATAAGAG
ATTGAGATTGGACATCAAACCTTTAAG
Found at i:12728504 original size:11 final size:11
Alignment explanation
Indices: 12728485--12728534 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
12728475 AACGTGTTGT
*
12728485 AAAAAAAAAAA
1 AAAAAAAAAAG
12728496 AAAACAAAAAAG
1 AAAA-AAAAAAG
12728508 CAAAAAAAAAAG
1 -AAAAAAAAAAG
*
12728520 AAAAGAAAAAG
1 AAAAAAAAAAG
12728531 AAAA
1 AAAA
12728535 GGAAGAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 18 0.51
12 13 0.37
13 4 0.11
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:12728512 original size:17 final size:16
Alignment explanation
Indices: 12728486--12728535 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
12728476 ACGTGTTGTA
* *
12728486 AAAAAAAAAAAAAACAA
1 AAAAGAAAAAAAAA-AG
12728503 AAAAGCAAAAAAAAAAG
1 AAAAG-AAAAAAAAAAG
*
12728520 AAAAGAAAAAGAAAAG
1 AAAAGAAAAAAAAAAG
12728536 GAAGAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 10 0.34
17 10 0.34
18 9 0.31
ACGTcount: A:0.86, C:0.04, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAG
Found at i:12731390 original size:13 final size:12
Alignment explanation
Indices: 12731372--12731413 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
12731362 AACTTCGACA
12731372 TTTTTTCTTTTGT
1 TTTTTTCTTTT-T
12731385 TTTTTTCTTTTT
1 TTTTTTCTTTTT
*
12731397 TTTTTTGTTTTT
1 TTTTTTCTTTTT
12731409 TTTTT
1 TTTTT
12731414 GTTTGTTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 17 0.61
13 11 0.39
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.90
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:12731397 original size:20 final size:20
Alignment explanation
Indices: 12731372--12731410 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
12731362 AACTTCGACA
12731372 TTTTTTCTTTTGTTTTTTTC
1 TTTTTTCTTTTGTTTTTTTC
*
12731392 TTTTTTTTTTTGTTTTTTT
1 TTTTTTCTTTTGTTTTTTT
12731411 TTTGTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.90
Consensus pattern (20 bp):
TTTTTTCTTTTGTTTTTTTC
Found at i:12731413 original size:11 final size:11
Alignment explanation
Indices: 12731372--12731417 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
12731362 AACTTCGACA
12731372 TTTTTTCTTTTG
1 TTTTTT-TTTTG
*
12731384 -TTTTTTTCT-
1 TTTTTTTTTTG
12731393 TTTTTTTTTTG
1 TTTTTTTTTTG
12731404 TTTTTTTTTTG
1 TTTTTTTTTTG
12731415 TTT
1 TTT
12731418 GTTAGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 11 0.37
11 19 0.63
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:12731534 original size:43 final size:41
Alignment explanation
Indices: 12731436--12731652 Score: 236
Period size: 41 Copynumber: 5.1 Consensus size: 41
12731426 TTTGATCAAA
* * * * **
12731436 GCTCCTCTAAGCAAAGGCTTAACGACTTTAAGAAACATAAACAAA
1 GCTCCTCTAATCAAAGGCTCAACAACTTT--GAAAAAT-AA-ATT
* * *
12731481 GCTCATCTAATCAAAGGATCAACAACTTTGAAAAATAAATAAG
1 GCTCCTCTAATCAAAGGCTCAACAACTTTGAAAAATAAAT--T
* *
12731524 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATT
1 GCTCCTCTAATCAAAGGCTCAACAACTTTGAAAAATAAATT
* * * *
12731565 GCTCATCTAATCAGAGGCTCAATAACTTTGGAAAATAAATT
1 GCTCCTCTAATCAAAGGCTCAACAACTTTGAAAAATAAATT
12731606 GCTCCTCTAATCAAAGGCTCAACAACTTTGAAAAATAAATT
1 GCTCCTCTAATCAAAGGCTCAACAACTTTGAAAAATAAATT
*
12731647 GTTCCT
1 GCTCCT
12731653 TGACCATTAT
Statistics
Matches: 148, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
41 80 0.54
42 2 0.01
43 42 0.28
45 24 0.16
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (41 bp):
GCTCCTCTAATCAAAGGCTCAACAACTTTGAAAAATAAATT
Found at i:12731636 original size:82 final size:83
Alignment explanation
Indices: 12731436--12731647 Score: 264
Period size: 82 Copynumber: 2.5 Consensus size: 83
12731426 TTTGATCAAA
* * * **
12731436 GCTCCTCTAAGCAAAGGCTTAACGACTTTAAGAAACATAAACAAAGCTCATCTAATCAAAGGATC
1 GCTCCTCTAATCAAAGGCTCAACGACTTT--GAAAAAT-AA-ATTGCTCATCTAATCAAAGGATC
12731501 AACAACTTTGAAAAATAAATAAG
62 AACAACTTTGAAAAATAAAT-AG
* * * *
12731524 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATTGCTCATCTAATCAGAGGCTCAATA
1 GCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAATAAATTGCTCATCTAATCAAAGGATCAACA
* *
12731589 ACTTTGGAAAATAAAT-T
66 ACTTTGAAAAATAAATAG
*
12731606 GCTCCTCTAATCAAAGGCTCAACAACTTTGAAAAATAAATTG
1 GCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAATAAATTG
12731648 TTCCTTGACC
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
82 40 0.36
84 37 0.33
85 2 0.02
86 6 0.05
88 26 0.23
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (83 bp):
GCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAATAAATTGCTCATCTAATCAAAGGATCAACA
ACTTTGAAAAATAAATAG
Found at i:12731980 original size:44 final size:44
Alignment explanation
Indices: 12731923--12732023 Score: 111
Period size: 43 Copynumber: 2.3 Consensus size: 44
12731913 AGGCTTTTCA
*
12731923 AAAG-TTCTCATTTGGCAAACTTGGA-ATTCATATCCAAAAA-TC
1 AAAGCTTCTCATTTGG-AAACTTGGAGATTCACATCCAAAAATTC
* ***
12731965 TAAAGCTTTTCATTT-GAGTTTTGGAGATTCACATCCAAAAATTC
1 -AAAGCTTCTCATTTGGAAACTTGGAGATTCACATCCAAAAATTC
12732009 AAAGCTTCTCATTTG
1 AAAGCTTCTCATTTG
12732024 AGTTCAAAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
42 6 0.12
43 32 0.67
44 10 0.21
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (44 bp):
AAAGCTTCTCATTTGGAAACTTGGAGATTCACATCCAAAAATTC
Found at i:12732001 original size:43 final size:42
Alignment explanation
Indices: 12731943--12732027 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 42
12731933 TTTGGCAAAC
* *
12731943 TTGGAATTCATATCCAAAAA-TCTAAAGCTTTTCATTTGAGTT
1 TTGGAATTCACATCCAAAAATTC-AAAGCTTCTCATTTGAGTT
12731985 TTGGAGATTCACATCCAAAAATTCAAAGCTTCTCATTTGAGTT
1 TTGGA-ATTCACATCCAAAAATTCAAAGCTTCTCATTTGAGTT
12732028 CAAAGGCTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
42 5 0.13
43 32 0.82
44 2 0.05
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (42 bp):
TTGGAATTCACATCCAAAAATTCAAAGCTTCTCATTTGAGTT
Found at i:12732256 original size:22 final size:21
Alignment explanation
Indices: 12732209--12732267 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
12732199 GGTTTCACTC
12732209 CTCAAAGATTCTCATTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
**
12732231 CTCAAAGATTCTCATTTGAGTT
1 CTCAAAGATTCTCATTTGA-AA
*
12732253 CTCAAAAATTCTCAT
1 CTCAAAGATTCTCAT
12732268 CAAAATATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 5 0.15
22 28 0.85
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.37
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:12733395 original size:19 final size:19
Alignment explanation
Indices: 12733373--12733438 Score: 89
Period size: 21 Copynumber: 3.4 Consensus size: 19
12733363 TCAATTTGAA
* *
12733373 TTTTTTTTTTCATTTTCTC
1 TTTTTTTTCTCATTTTTTC
12733392 TTTTTTTTCTC-TTTTTTC
1 TTTTTTTTCTCATTTTTTC
12733410 TTTTTTTTCCTCTATTTTTTC
1 TTTTTTTT-CTC-ATTTTTTC
12733431 TTTTTTTT
1 TTTTTTTT
12733439 ATTATTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.33
19 13 0.31
21 15 0.36
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTTTCTCATTTTTTC
Found at i:12733437 original size:9 final size:9
Alignment explanation
Indices: 12733375--12733438 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
12733365 AATTTGAATT
12733375 TTTTTTTTC
1 TTTTTTTTC
* *
12733384 -ATTTTCTC
1 TTTTTTTTC
12733392 TTTTTTTTC
1 TTTTTTTTC
*
12733401 TCTTTTTTC
1 TTTTTTTTC
12733410 TTTTTTTTCC
1 TTTTTTTT-C
12733420 TCTATTTTTTC
1 T-T-TTTTTTC
12733431 TTTTTTTT
1 TTTTTTTT
12733439 ATTATTATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 6 0.13
9 27 0.60
10 3 0.07
11 3 0.07
12 6 0.13
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:12733444 original size:19 final size:18
Alignment explanation
Indices: 12733373--12733449 Score: 73
Period size: 21 Copynumber: 3.9 Consensus size: 18
12733363 TCAATTTGAA
*
12733373 TTTTTTTTTTCATTTTCTC
1 TTTTTTTTTT-ATTTTTTC
* *
12733392 TTTTTTTTCTCTTTTTTC
1 TTTTTTTTTTATTTTTTC
12733410 TTTTTTTTCCTCTATTTTTTC
1 TTTTTTTT--T-TATTTTTTC
12733431 TTTTTTTTATTATTATTTT
1 TTTTTTTT-TTATT-TTTT
12733450 TCATCATCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
18 14 0.29
19 13 0.27
20 5 0.10
21 16 0.33
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTTTTTATTTTTTC
Found at i:12738520 original size:337 final size:337
Alignment explanation
Indices: 12737905--12738580 Score: 1307
Period size: 337 Copynumber: 2.0 Consensus size: 337
12737895 AAATAGGGTG
12737905 TCTACACAATTGCTTCTTGGTCTCTATGCTATTCCACGTTTAGCTTCAAAAGTAGAAGTAAAGTT
1 TCTACACAATTGCTTCTTGGTCTCTATGCTATTCCACGTTTAGCTTCAAAAGTAGAAGTAAAGTT
*
12737970 ACCTAACCATGCACGTAACCTCTTTTGAGGTTGCGCATTAGTATTAATTATCACAATGATGAGTG
66 ACCTAACCATGCACGTAACCTCTTTTGAGGTTGCGCATCAGTATTAATTATCACAATGATGAGTG
12738035 CTTGTTTAATATCTGAATAAAAAATTACTATTATTTTTATGAAAAGAAACTTTTTAAAAATCAAT
131 CTTGTTTAATATCTGAATAAAAAATTACTATTATTTTTATGAAAAGAAACTTTTTAAAAATCAAT
12738100 AATCATCAAGGTTCTTAAACTCGACTGTGATCAACCTCACACTTAACCTTGGTTAACTCATGTGC
196 AATCATCAAGGTTCTTAAACTCGACTGTGATCAACCTCACACTTAACCTTGGTTAACTCATGTGC
*
12738165 TAATATATTGGCTTTTCTCCTTGCAAAAGCGAAATGTAATCTGCTACAAGAAGAAGGAAGATTCA
261 TAATATATTGGCTTTTCTCCTTGCAAAAGCAAAATGTAATCTGCTACAAGAAGAAGGAAGATTCA
12738230 AAATATCAATGA
326 AAATATCAATGA
* *
12738242 TCTACACAATTGCTTCTTGGTCTCTGTGCTATTCCACGTTTGGCTTCAAAAGTAGAAGTAAAGTT
1 TCTACACAATTGCTTCTTGGTCTCTATGCTATTCCACGTTTAGCTTCAAAAGTAGAAGTAAAGTT
*
12738307 ACCTAACCATGCACGTAACCTCTTTTGAGGTTGCGCATCAGTATTAATTATCACAGTGATGAGTG
66 ACCTAACCATGCACGTAACCTCTTTTGAGGTTGCGCATCAGTATTAATTATCACAATGATGAGTG
12738372 CTTGTTTAATATCTGAATAAAAAATTACTATTATTTTTATGAAAAGAAACTTTTTAAAAATCAAT
131 CTTGTTTAATATCTGAATAAAAAATTACTATTATTTTTATGAAAAGAAACTTTTTAAAAATCAAT
12738437 AATCATCAAGGTTCTTAAACTCGACTGTGATCAACCTCACACTTAACCTTGGTTAACTCATGTGC
196 AATCATCAAGGTTCTTAAACTCGACTGTGATCAACCTCACACTTAACCTTGGTTAACTCATGTGC
12738502 TAATATATTGGCTTTTCTCCTTGCAAAAGCAAAATGTAATCTGCTACAAGAAGAAGGAAGATTCA
261 TAATATATTGGCTTTTCTCCTTGCAAAAGCAAAATGTAATCTGCTACAAGAAGAAGGAAGATTCA
12738567 AAATATCAATGA
326 AAATATCAATGA
12738579 TC
1 TC
12738581 ATACCTCCCT
Statistics
Matches: 334, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
337 334 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (337 bp):
TCTACACAATTGCTTCTTGGTCTCTATGCTATTCCACGTTTAGCTTCAAAAGTAGAAGTAAAGTT
ACCTAACCATGCACGTAACCTCTTTTGAGGTTGCGCATCAGTATTAATTATCACAATGATGAGTG
CTTGTTTAATATCTGAATAAAAAATTACTATTATTTTTATGAAAAGAAACTTTTTAAAAATCAAT
AATCATCAAGGTTCTTAAACTCGACTGTGATCAACCTCACACTTAACCTTGGTTAACTCATGTGC
TAATATATTGGCTTTTCTCCTTGCAAAAGCAAAATGTAATCTGCTACAAGAAGAAGGAAGATTCA
AAATATCAATGA
Found at i:12739895 original size:13 final size:14
Alignment explanation
Indices: 12739871--12739899 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
12739861 AAAAATAAAA
12739871 AATTTATAAAATAT
1 AATTTATAAAATAT
12739885 AATTT-TAAAATAT
1 AATTTATAAAATAT
12739898 AA
1 AA
12739900 AAAAGTAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTATAAAATAT
Found at i:12740030 original size:2 final size:2
Alignment explanation
Indices: 12740023--12740065 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
12740013 TTCTATAACC
* *
12740023 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA GA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12740065 T
1 T
12740066 CCATATCCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:12741395 original size:211 final size:211
Alignment explanation
Indices: 12740869--12741412 Score: 930
Period size: 212 Copynumber: 2.6 Consensus size: 211
12740859 GGTTTAATTT
12740869 AAACGAACAAGTTAAATGTGTAATTAGGTGAAACGATAAAGCTTGATTTTTATGTTGGTTTAATT
1 AAACGAACAAGTTAAATGTGTAATTAGGTGAAACGATAAAGCTTGATTTTTATGTTGGTTTAATT
*
12740934 TGTTAGAATTATACTTGGGTTTCTTTCTTTGCAGGTTCCTCTAATTTTCAATGTATATTCACGTG
66 TGTTAGAATTATACTTGGGTTTCTTTCTTTGCAGGTT-CTGTAATTTTCAATGTATATTCACGTG
* * * **
12740999 AACAAGGTGGACAAAACAATGAAAAAAATTCTTTATTTACTAAATGTTAACTCATTTCATGAATT
130 AACAAGGTGGACAAAACAACGAAAAAAAATCTTTATTTACTAAATGATAACTCAGCTCATGAATT
12741064 AAAGAAAAAAAACAAAG
195 AAAGAAAAAAAACAAAG
*
12741081 AAACGAACAAGTTAAATGTGTAACTAGGTGAAACGATAAAGCTTGATTTTTATGTTGGTTTAATT
1 AAACGAACAAGTTAAATGTGTAATTAGGTGAAACGATAAAGCTTGATTTTTATGTTGGTTTAATT
*
12741146 TGTTAGAATTATACTTGGGTTTCTTTCTTTGCAGGTTCTTGTAATTTTCAATTTATATTCACGTG
66 TGTTAGAATTATACTTGGGTTTCTTTCTTTGCAGGTTC-TGTAATTTTCAATGTATATTCACGTG
* *
12741211 AACAAGGTGGACAAAACAACGAAAAAAAATCTTTGTTTACTAAATGATAACTTAGCTCATGAATT
130 AACAAGGTGGACAAAACAACGAAAAAAAATCTTTATTTACTAAATGATAACTCAGCTCATGAATT
*
12741276 AAAGAAAGAAAA-AAAG
195 AAAGAAAAAAAACAAAG
* *
12741292 AAACGAACAAGTTGAATGTGTGATTAGGTGAAACGATAAAGCTTGATTTTTATGTTGGTTTAATT
1 AAACGAACAAGTTAAATGTGTAATTAGGTGAAACGATAAAGCTTGATTTTTATGTTGGTTTAATT
12741357 CT-TTAGAATTATACTTGGGTTTCTTTCTTTGCAGGTTCTGTAATTTTCAATGTATA
66 -TGTTAGAATTATACTTGGGTTTCTTTCTTTGCAGGTTCTGTAATTTTCAATGTATA
12741413 AGCTAAGCAG
Statistics
Matches: 315, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
210 17 0.05
211 103 0.33
212 195 0.62
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (211 bp):
AAACGAACAAGTTAAATGTGTAATTAGGTGAAACGATAAAGCTTGATTTTTATGTTGGTTTAATT
TGTTAGAATTATACTTGGGTTTCTTTCTTTGCAGGTTCTGTAATTTTCAATGTATATTCACGTGA
ACAAGGTGGACAAAACAACGAAAAAAAATCTTTATTTACTAAATGATAACTCAGCTCATGAATTA
AAGAAAAAAAACAAAG
Found at i:12741590 original size:2 final size:2
Alignment explanation
Indices: 12741583--12741614 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12741573 AATTCTTAGA
12741583 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12741615 GTTTATATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12741672 original size:14 final size:13
Alignment explanation
Indices: 12741653--12741691 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
12741643 TAATTAATTT
12741653 TATTTTATATTTTA
1 TATTTTA-ATTTTA
12741667 TATTTTAATTTTA
1 TATTTTAATTTTA
*
12741680 GCATTTTAATTT
1 -TATTTTAATTT
12741692 AAGAGAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (13 bp):
TATTTTAATTTTA
Found at i:12749112 original size:63 final size:63
Alignment explanation
Indices: 12749045--12749308 Score: 165
Period size: 62 Copynumber: 4.2 Consensus size: 63
12749035 TTTCAAGTGC
12749045 AAAATGCCTTCAATATTCCATTATTCAAATTTTTAGACAGTTAGTGAAGGCATTTATTCTAGA
1 AAAATGCCTTCAATATTCCATTATTCAAATTTTTAGACAGTTAGTGAAGGCATTTATTCTAGA
* * * * * *
12749108 AAAATGCCTTCATTGATTCCA-T-TT--AATTTATGTACATAATTATTGAAGGCATTTTTTC-AG
1 AAAATGCCTTCAAT-ATTCCATTATTCAAATTT-T-TAGACAGTTAGTGAAGGCATTTATTCTAG
12749168 A
63 A
** * * * * * * *
12749169 ACAAACACCTTCAATAATTTCATTA--AAAATATTTTA-AGA-TTATTAAAGG--TGTCTTCTAG
1 A-AAATGCCTTCAAT-ATTCCATTATTCAAAT-TTTTAGACAGTTAGTGAAGGCATTTATTCT--
12749228 AGA
61 AGA
* * ** * * *
12749231 AAAATACCTTAAATATAT-CAGCACTCAAATTTTAAGACAGTTAGTGAAGGCTTTTATTCTAGA
1 AAAATGCCTTCAATAT-TCCATTATTCAAATTTTTAGACAGTTAGTGAAGGCATTTATTCTAGA
12749294 AAAATGCCTTCAATA
1 AAAATGCCTTCAATA
12749309 ATTTTTTTTT
Statistics
Matches: 154, Mismatches: 28, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
59 5 0.03
60 10 0.06
61 30 0.19
62 50 0.32
63 41 0.27
64 10 0.06
65 8 0.05
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (63 bp):
AAAATGCCTTCAATATTCCATTATTCAAATTTTTAGACAGTTAGTGAAGGCATTTATTCTAGA
Found at i:12749180 original size:125 final size:125
Alignment explanation
Indices: 12748959--12749193 Score: 275
Period size: 125 Copynumber: 1.9 Consensus size: 125
12748949 ATTTTAAAGG
* * * *
12748959 GTTATTGAAGGCATTTATTCAAGAAAAATGCCTTTAGTAATTCATTTTATTTTTTGAATGAATTT
1 GTTAGTGAAGGCATTTATTCAAGAAAAATGCCTTCAGTAATTCATTTAATTTTGTGAATGAATTT
**
12749024 ATTGAAGGCATTTTCAAGTGCAAAATGCCTTCAAT-ATTCCATTATTCAAATTTTTAGACA
66 ATTGAAGGCATTTTCAAGAACAAAA-GCCTTCAATAATTCCATTATTCAAATTTTTAGACA
* * *
12749084 GTTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCATTGATTCCATTTAATTTATGT-ACAT-AA
1 GTTAGTGAAGGCATTTATTCAAGAAAAATGCCTTCAGTAATT-CATTTAATTT-TGTGA-ATGAA
*
12749147 -TTATTGAAGGCATTTTTTC-AGAACAAACA-CCTTCAATAATTTCATTA
63 TTTATTGAAGGCA--TTTTCAAGAACAAA-AGCCTTCAATAATTCCATTA
12749194 AAAATATTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
125 57 0.61
126 26 0.28
127 10 0.11
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.40
Consensus pattern (125 bp):
GTTAGTGAAGGCATTTATTCAAGAAAAATGCCTTCAGTAATTCATTTAATTTTGTGAATGAATTT
ATTGAAGGCATTTTCAAGAACAAAAGCCTTCAATAATTCCATTATTCAAATTTTTAGACA
Found at i:12749805 original size:375 final size:373
Alignment explanation
Indices: 12749022--12749828 Score: 1068
Period size: 375 Copynumber: 2.2 Consensus size: 373
12749012 TTGAATGAAT
* * * * * *
12749022 TTATTGAAGGCATTTTCAAGTGCAAAATGCCTTCAATATTCCATTA-TTCAAATTTTTAGACAGT
1 TTATTAAAAGCATCTTCTAGTG-AAAATGCCTTCAATATTCCATTACTT-AAATTTTAAAACAGT
* * * *
12749086 TAGTGAAGGCATTTATTCTAGAAAAATGCCTTCATTGATTCCATTTAATTTATGTACATAATTAT
64 AAATGAAGGCATTTATTCTAGAAAAATGCCTTCATTGATTCAATTTAATTTATATACATAATTAT
12749151 TGAAGGCATTTTTTCAGAACAAACACCTTCAATAATTTCATTAAAAATATTTTAAGATTATTAAA
129 TGAAGGCATTTTTTCAGAACAAACACCTTCAATAATTTCATTAAAAATATTTTAAGATTATTAAA
** * * *
12749216 GGTGTCTTCTAGAGAAAAATACCTTAAATATATCAGCACTCAAATTTTAAGACAGTTAGTGAAGG
194 GGCATATTCTAGAGAAAAACACCTTAAATATACCAGCACTCAAATTTTAAGACAGTTAGTGAAGG
* * *
12749281 CTTTTATTCTAGAAAAATGCCTTCAATAATTTTTTTTTAAATTTTGTACATAATTATTGAAGGTG
259 CTTTTATTCTAGAAAAATGCCTTCAATAATTTTCTTTTAAATTTTGTACATAATTATTAAAGGTA
** *
12749346 TTTTTTGAGAACAAACGCCTTCAATAATTTTTTTTTAAAAATATTTGGGA
324 TTTTTTGAGAACAAACGCCTTCAATAATTTCCTTTTAAAAATATTTAGGA
* * * * * * *
12749396 TTATTAAAGGCATTTTTTAGTAAAAAATGCCTTCAATATTTCACTACTTAAATTTTAAAATAGTA
1 TTATTAAAAGCATCTTCTAGT-GAAAATGCCTTCAATATTCCATTACTTAAATTTTAAAACAGTA
*
12749461 AATGAAGGCGTTTATTCTAGAAAAATGCCTTCATTGATTCAATTTAATTTATATACATAATTATT
65 AATGAAGGCATTTATTCTAGAAAAATGCCTTCATTGATTCAATTTAATTTATATACATAATTATT
* * * **
12749526 GAA-G-ATGTTTTATGAGAACAAACGCCTTCAATAATTTTCTTTTAAAAAT-TTTTGGGATTATT
130 GAAGGCAT-TTTT-TCAGAACAAACACCTTCAATAA-TTTC-ATTAAAAATATTTTAAGATTATT
* * * **
12749588 AAAGGCATATTCTAGTGAAAAACACCTTCAATATACCAGCACTTAAATTTTAAGATGGTTAGTGA
191 AAAGGCATATTCTAGAGAAAAACACCTTAAATATACCAGCACTCAAATTTTAAGACAGTTAGTGA
* * * *
12749653 AGGTGTTTTATT-TCAGAGAAATGCTTTTAATAA-TTTCTTTTAAATTTTGTACATAATTATTAA
256 AGG-CTTTTATTCT-AGAAAAATGCCTTCAATAATTTTCTTTTAAATTTTGTACATAATTATTAA
*
12749716 AGGTATTTTTTGAGAACAAACGCTTTCAATAATTTCCTTTTAAAAATATTTAGGA
319 AGGTATTTTTTGAGAACAAACGCCTTCAATAATTTCCTTTTAAAAATATTTAGGA
* *
12749771 TTATTAAAAGTATCTTCTAGTGAAAATCGCCTTCAATATTCCATTACTCAAATTTTAA
1 TTATTAAAAGCATCTTCTAGTGAAAAT-GCCTTCAATATTCCATTACTTAAATTTTAA
12749829 GACGGTTAGT
Statistics
Matches: 376, Mismatches: 48, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
372 2 0.01
373 5 0.01
374 140 0.37
375 198 0.53
376 31 0.08
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (373 bp):
TTATTAAAAGCATCTTCTAGTGAAAATGCCTTCAATATTCCATTACTTAAATTTTAAAACAGTAA
ATGAAGGCATTTATTCTAGAAAAATGCCTTCATTGATTCAATTTAATTTATATACATAATTATTG
AAGGCATTTTTTCAGAACAAACACCTTCAATAATTTCATTAAAAATATTTTAAGATTATTAAAGG
CATATTCTAGAGAAAAACACCTTAAATATACCAGCACTCAAATTTTAAGACAGTTAGTGAAGGCT
TTTATTCTAGAAAAATGCCTTCAATAATTTTCTTTTAAATTTTGTACATAATTATTAAAGGTATT
TTTTGAGAACAAACGCCTTCAATAATTTCCTTTTAAAAATATTTAGGA
Found at i:12749849 original size:188 final size:186
Alignment explanation
Indices: 12749022--12749849 Score: 880
Period size: 188 Copynumber: 4.4 Consensus size: 186
12749012 TTGAATGAAT
* * * * * *
12749022 TTATTGAAGGCATTTTCAAGTGCAAAATGCCTTCAATATTCCATTATTCAAATTTTTAGACAGTT
1 TTATTAAAGGCATCTTCTAGTG-AAAATGCCTTCAATATTCCAGTACTCAAATTTTAAGACAGTT
** * * *
12749087 AGTGAAGGCATTTATTCTAGAAAAATGCCTTCATTGATTCCATTTAATTTATGTACATAATTATT
65 AGTGAAGGGTTTTATTCTAGAAAAATGCCTTCAATAATTTCATTTAATTTATGTACATAATTATT
* * * * *
12749152 GAAGGCATTTTTTCAGAACAAACACCTTCAATAA-TTTC-ATTAAAAATATTTTAAGA
130 GAAGGTATTTTTTGAGAACAAACGCCTTCAATAATTTTCTTTTAAAAATA-TTTAGGA
** * * * *
12749208 TTATTAAAGGTGTCTTCTAGAGAAAAATACCTTAAATATAT-CAGCACTCAAATTTTAAGACAGT
1 TTATTAAAGGCATCTTCTAGTG-AAAATGCCTTCAATAT-TCCAGTACTCAAATTTTAAGACAGT
* **
12749272 TAGTGAAGGCTTTTATTCTAGAAAAATGCCTTCAATAATTTTTTTTTAAATTT-TGTACATAATT
64 TAGTGAAGGGTTTTATTCTAGAAAAATGCCTTCAATAA-TTTCATTT-AATTTATGTACATAATT
* * *
12749336 ATTGAAGGTGTTTTTTGAGAACAAACGCCTTCAATAATTTTTTTTTAAAAATATTTGGGA
127 ATTGAAGGTATTTTTTGAGAACAAACGCCTTCAATAATTTTCTTTTAAAAATATTTAGGA
* * * * * * * * *
12749396 TTATTAAAGGCATTTTTTAGTAAAAAATGCCTTCAATATTTCACTACTTAAATTTTAAAATAGTA
1 TTATTAAAGGCATCTTCTAGT-GAAAATGCCTTCAATATTCCAGTACTCAAATTTTAAGACAGTT
* * * *
12749461 AATGAAGGCG-TTTATTCTAGAAAAATGCCTTCATTGA-TTCAATTTAATTTATATACATAATTA
65 AGTGAAGG-GTTTTATTCTAGAAAAATGCCTTCAATAATTTC-ATTTAATTTATGTACATAATTA
* * * * *
12749524 TTGAAGATGTTTTATGAGAACAAACGCCTTCAATAATTTTCTTTTAAAAATTTTTGGGA
128 TTGAAGGTATTTTTTGAGAACAAACGCCTTCAATAATTTTCTTTTAAAAATATTTAGGA
* ** * * * **
12749583 TTATTAAAGGCATATTCTAGTGAAAAACACCTTCAATATACCAGCACTTAAATTTTAAGATGGTT
1 TTATTAAAGGCATCTTCTAGTG-AAAATGCCTTCAATATTCCAGTACTCAAATTTTAAGACAGTT
* * * *
12749648 AGTGAAGGTGTTTTATT-TCAGAGAAATGCTTTTAATAATTTCTTTTAAATTT-TGTACATAATT
65 AGTGAAGG-GTTTTATTCT-AGAAAAATGCCTTCAATAATTTCATTT-AATTTATGTACATAATT
* * *
12749711 ATTAAAGGTATTTTTTGAGAACAAACGCTTTCAATAATTTCCTTTTAAAAATATTTAGGA
127 ATTGAAGGTATTTTTTGAGAACAAACGCCTTCAATAATTTTCTTTTAAAAATATTTAGGA
* * * *
12749771 TTATTAAAAGTATCTTCTAGTGAAAATCGCCTTCAATATTCCATTACTCAAATTTTAAGACGGTT
1 TTATTAAAGGCATCTTCTAGTGAAAAT-GCCTTCAATATTCCAGTACTCAAATTTTAAGACAGTT
12749836 AGTGAAGGTGTTTT
65 AGTGAAGG-GTTTT
12749850 GAGGTACTTT
Statistics
Matches: 535, Mismatches: 91, Indels: 30
0.82 0.14 0.05
Matches are distributed among these distances:
186 91 0.17
187 185 0.35
188 242 0.45
189 17 0.03
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (186 bp):
TTATTAAAGGCATCTTCTAGTGAAAATGCCTTCAATATTCCAGTACTCAAATTTTAAGACAGTTA
GTGAAGGGTTTTATTCTAGAAAAATGCCTTCAATAATTTCATTTAATTTATGTACATAATTATTG
AAGGTATTTTTTGAGAACAAACGCCTTCAATAATTTTCTTTTAAAAATATTTAGGA
Found at i:12750757 original size:12 final size:12
Alignment explanation
Indices: 12750740--12750773 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12750730 ATAATATTGG
12750740 TATGCTGAATCA
1 TATGCTGAATCA
*
12750752 TATGCTGAATCG
1 TATGCTGAATCA
*
12750764 TATGATGAAT
1 TATGCTGAAT
12750774 GGTTTGCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (12 bp):
TATGCTGAATCA
Found at i:12750797 original size:36 final size:37
Alignment explanation
Indices: 12750737--12750821 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 37
12750727 TGTATAATAT
*
12750737 TGGTATGCTGAATCATATGCTGAATCGT-ATGATGAA
1 TGGTTTGCTGAATCATATGCTGAATCGTGATGATGAA
* * * * * **
12750773 TGGTTTGCTGAATGATTTGTTGAATGGTGTTTCTGAA
1 TGGTTTGCTGAATCATATGCTGAATCGTGATGATGAA
12750810 TGGTTTGCTGAA
1 TGGTTTGCTGAA
12750822 GGGTGTGTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 23 0.57
37 17 0.43
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (37 bp):
TGGTTTGCTGAATCATATGCTGAATCGTGATGATGAA
Found at i:12750811 original size:13 final size:13
Alignment explanation
Indices: 12750793--12750835 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
12750783 AATGATTTGT
12750793 TGAATGGTGTTTC
1 TGAATGGTGTTTC
*
12750806 TGAATGGT-TTGC
1 TGAATGGTGTTTC
* *
12750818 TGAAGGGTGTGTC
1 TGAATGGTGTTTC
12750831 TGAAT
1 TGAAT
12750836 ACATTGTTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.19, C:0.07, G:0.35, T:0.40
Consensus pattern (13 bp):
TGAATGGTGTTTC
Found at i:12750816 original size:25 final size:25
Alignment explanation
Indices: 12750769--12750835 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
12750759 AATCGTATGA
* *
12750769 TGAATGGT-TTGCTGAATGATTTGT
1 TGAATGGTGTTTCTGAATGATTTGC
*
12750793 TGAATGGTGTTTCTGAATGGTTTGC
1 TGAATGGTGTTTCTGAATGATTTGC
* *
12750818 TGAAGGGTGTGTCTGAAT
1 TGAATGGTGTTTCTGAAT
12750836 ACATTGTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 8 0.22
25 29 0.78
ACGTcount: A:0.19, C:0.06, G:0.33, T:0.42
Consensus pattern (25 bp):
TGAATGGTGTTTCTGAATGATTTGC
Found at i:12750924 original size:126 final size:126
Alignment explanation
Indices: 12750752--12750988 Score: 332
Period size: 126 Copynumber: 1.9 Consensus size: 126
12750742 TGCTGAATCA
* * * * *
12750752 TATGCTGAATCGTATGATGAATGGTTTGCTGAATGATTTGTTGAATGGTGTTTCTGAATGGTTTG
1 TATGCTGAATCATATGATGAATCGTATGATGAATGATTTGCTGAATGGTGTTTCTGAATGGTTTG
* * * * *
12750817 CTGAAGGGTGTGTCTGAA-TACATTGTTGATTAGTTTGCTGAATGGTATTGTATGATATTAG
66 CTAAAGGGTGTGCCT-AAGCACATTGCTGATTAGTTTACTGAATGGTATTGTATGATATTAG
* * *
12750878 TATGTTGAATCATATGCTGAATCGTATGATGAATGGTTTGCTGAATGGTGTTTCTGAATGGTTTG
1 TATGCTGAATCATATGATGAATCGTATGATGAATGATTTGCTGAATGGTGTTTCTGAATGGTTTG
*
12750943 CTAAAGGGTGTGCCTAAGCACATTGCTGATTGGTTTACTGAATGGT
66 CTAAAGGGTGTGCCTAAGCACATTGCTGATTAGTTTACTGAATGGT
12750989 GTTTCTGTAC
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
125 2 0.02
126 94 0.98
ACGTcount: A:0.23, C:0.08, G:0.28, T:0.40
Consensus pattern (126 bp):
TATGCTGAATCATATGATGAATCGTATGATGAATGATTTGCTGAATGGTGTTTCTGAATGGTTTG
CTAAAGGGTGTGCCTAAGCACATTGCTGATTAGTTTACTGAATGGTATTGTATGATATTAG
Found at i:12750936 original size:13 final size:12
Alignment explanation
Indices: 12750754--12750944 Score: 94
Period size: 12 Copynumber: 15.3 Consensus size: 12
12750744 CTGAATCATA
* *
12750754 TGCTGAATCGTA
1 TGCTGAATGGTT
*
12750766 TGATGAATGGTT
1 TGCTGAATGGTT
*
12750778 TGCTGAATGATT
1 TGCTGAATGGTT
*
12750790 TGTTGAATGGTGT
1 TGCTGAATGGT-T
*
12750803 TTCTGAATGGTT
1 TGCTGAATGGTT
* *
12750815 TGCTGAAGGGTG
1 TGCTGAATGGTT
***
12750827 TGTCTGAATACAT
1 TG-CTGAATGGTT
* * *
12750840 TGTTGATTAGTT
1 TGCTGAATGGTT
12750852 TGCTGAATGGTAT
1 TGCTGAATGGT-T
* * *
12750865 TGTATGATATTAGTA
1 TG-CTGA-A-TGGTT
* ** *
12750880 TGTTGAATCATA
1 TGCTGAATGGTT
* *
12750892 TGCTGAATCGTA
1 TGCTGAATGGTT
*
12750904 TGATGAATGGTT
1 TGCTGAATGGTT
12750916 TGCTGAATGGTGT
1 TGCTGAATGGT-T
*
12750929 TTCTGAATGGTT
1 TGCTGAATGGTT
12750941 TGCT
1 TGCT
12750945 AAAGGGTGTG
Statistics
Matches: 134, Mismatches: 38, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
12 90 0.67
13 32 0.24
14 6 0.04
15 3 0.02
16 3 0.02
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (12 bp):
TGCTGAATGGTT
Found at i:12755432 original size:20 final size:18
Alignment explanation
Indices: 12755385--12755433 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
12755375 ATTAAAATAA
*
12755385 TTAATTTTATTTTATGTT
1 TTAATTTAATTTTATGTT
12755403 TTATATTTTAATTTTATGCATT
1 TTA-A-TTTAATTTTATG--TT
12755425 TTAATTTAA
1 TTAATTTAA
12755434 GAGAGATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.12
19 1 0.04
20 16 0.62
21 1 0.04
22 5 0.19
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (18 bp):
TTAATTTAATTTTATGTT
Found at i:12757723 original size:9 final size:9
Alignment explanation
Indices: 12757711--12757832 Score: 55
Period size: 9 Copynumber: 12.8 Consensus size: 9
12757701 TTCTTATGTC
12757711 AATTTTTAA
1 AATTTTTAA
12757720 AATTTTTAA
1 AATTTTTAA
* *
12757729 ATTTTTTAG
1 AATTTTTAA
**
12757738 AATTTTTTG
1 AATTTTTAA
***
12757747 AATTAAAAA
1 AATTTTTAA
12757756 AATTGTTTTGAA
1 AA-T-TTTT-AA
** **
12757768 TTTTTTTTG
1 AATTTTTAA
* *
12757777 AATATTTAG
1 AATTTTTAA
12757786 AATTTTTAA
1 AATTTTTAA
12757795 AATTTTTTTAGAA
1 AA--TTTTT--AA
12757808 AATTTTTAA
1 AATTTTTAA
*
12757817 AATTTTTAG
1 AATTTTTAA
12757826 AATTTTT
1 AATTTTT
12757833 TTTATTTTTC
Statistics
Matches: 83, Mismatches: 23, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
9 60 0.72
10 5 0.06
11 12 0.14
12 2 0.02
13 4 0.05
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (9 bp):
AATTTTTAA
Found at i:12757803 original size:31 final size:31
Alignment explanation
Indices: 12757766--12757835 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
12757756 AATTGTTTTG
*
12757766 AATTTTTTTTG--AATATTTAGAATTTTTAA
1 AATTTTTTTTGAAAATATTTAAAATTTTTAA
* * *
12757795 AATTTTTTTAGAAAATTTTTAAAATTTTTAG
1 AATTTTTTTTGAAAATATTTAAAATTTTTAA
12757826 AATTTTTTTT
1 AATTTTTTTT
12757836 ATTTTTCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 10 0.29
31 24 0.71
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (31 bp):
AATTTTTTTTGAAAATATTTAAAATTTTTAA
Found at i:12757804 original size:20 final size:18
Alignment explanation
Indices: 12757711--12757832 Score: 84
Period size: 18 Copynumber: 6.4 Consensus size: 18
12757701 TTCTTATGTC
12757711 AATTTTTAAAATTTTTA-
1 AATTTTTAAAATTTTTAG
* *
12757728 AATTTTTTAGAATTTTTTG
1 AA-TTTTTAAAATTTTTAG
*** *
12757747 AATTAAAAAAATTGTTTTG
1 AATTTTTAAAATT-TTTAG
** *
12757766 AATTTTTTTTGAATATTTAG
1 AA--TTTTTAAAATTTTTAG
12757786 AATTTTTAAAATTTTTTTAG
1 AATTTTTAAAA--TTTTTAG
12757806 AAAATTTTTAAAATTTTTAG
1 --AATTTTTAAAATTTTTAG
12757826 AATTTTT
1 AATTTTT
12757833 TTTATTTTTC
Statistics
Matches: 80, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
17 2 0.03
18 34 0.43
19 9 0.11
20 19 0.24
21 5 0.06
22 11 0.14
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
AATTTTTAAAATTTTTAG
Found at i:12758473 original size:21 final size:22
Alignment explanation
Indices: 12758432--12758475 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
12758422 ATTATGTGTG
*
12758432 AATTTAGTTCAATTTTATATTA
1 AATTTAGTTCAATTATATATTA
*
12758454 AATTTA-TTCCATTATATATTA
1 AATTTAGTTCAATTATATATTA
12758475 A
1 A
12758476 TCTATTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
AATTTAGTTCAATTATATATTA
Found at i:12761612 original size:14 final size:14
Alignment explanation
Indices: 12761577--12761618 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
12761567 ATACATTTTT
12761577 AGAAGAATTCATGA
1 AGAAGAATTCATGA
12761591 AG-AGAATTCATGA
1 AGAAGAATTCATGA
12761604 AGAAGAATTCATGA
1 AGAAGAATTCATGA
12761618 A
1 A
12761619 AGCTCTAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.48
14 14 0.52
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
AGAAGAATTCATGA
Found at i:12763716 original size:16 final size:16
Alignment explanation
Indices: 12763697--12763731 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
12763687 TATCATAACA
*
12763697 TATCTTTAACAATTGG
1 TATCTATAACAATTGG
12763713 TATCTATAACAATTGG
1 TATCTATAACAATTGG
12763729 TAT
1 TAT
12763732 GAGCTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (16 bp):
TATCTATAACAATTGG
Found at i:12765862 original size:17 final size:17
Alignment explanation
Indices: 12765837--12765869 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12765827 ATCTCTTTAT
12765837 TTTGATTATAGTTCATA
1 TTTGATTATAGTTCATA
*
12765854 TTTGCTTATAGTTCAT
1 TTTGATTATAGTTCAT
12765870 CAATTCATTA
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:0.24, C:0.09, G:0.12, T:0.55
Consensus pattern (17 bp):
TTTGATTATAGTTCATA
Found at i:12774066 original size:12 final size:12
Alignment explanation
Indices: 12774031--12774071 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
12774021 TAATCATGTA
12774031 AAAATACT-AA-
1 AAAATACTAAAT
*
12774041 AAAACACATAAAT
1 AAAATAC-TAAAT
12774054 AAAATACTAAAT
1 AAAATACTAAAT
12774066 AAAATA
1 AAAATA
12774072 AATATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 6 0.23
11 1 0.04
12 13 0.50
13 6 0.23
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAATACTAAAT
Found at i:12774078 original size:23 final size:21
Alignment explanation
Indices: 12774031--12774100 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 21
12774021 TAATCATGTA
12774031 AAAATACTAAAAAACACATAA-AT
1 AAAATACTAAAAAA-A-A-AATAT
12774054 AAAATACTAAATAAAATAAATAT
1 AAAATACTAAA-AAAA-AAATAT
12774077 AAAAATAC-AAAAAAAAAATA-
1 -AAAATACTAAAAAAAAAATAT
12774097 AAAA
1 AAAA
12774101 CAGTTCAATC
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
19 4 0.09
21 5 0.12
22 6 0.14
23 18 0.42
24 10 0.23
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAATACTAAAAAAAAAATAT
Found at i:12775284 original size:40 final size:40
Alignment explanation
Indices: 12775205--12775503 Score: 192
Period size: 40 Copynumber: 7.3 Consensus size: 40
12775195 CTCCATGACT
* * ** *
12775205 TTTGGAAAATAAAGGCTCCGCTAAGCAAAGGCTCAACAAC
1 TTTGAAAAATAAAGACTCCTTTAAACAAAGGCTCAACAAC
* * * *
12775245 TTTAAAAAATAAAGACTCTTTTAAACAAAAGCTCGACAAC
1 TTTGAAAAATAAAGACTCCTTTAAACAAAGGCTCAACAAC
* ** *
12775285 TTTGAAGAATAAAGGTTCCTTTAAATAAAGGCTCAACAAC
1 TTTGAAAAATAAAGACTCCTTTAAACAAAGGCTCAACAAC
* * * *
12775325 TTTTGAAAAATAAA-AGCTCCTCTAAGCAGAGGCTTAACAAC
1 -TTTGAAAAATAAAGA-CTCCTTTAAACAAAGGCTCAACAAC
* * * * * *
12775366 CTT-AAAAATAAAGGCTTCTATAAATAGAGGCTCAACAAC
1 TTTGAAAAATAAAGACTCCTTTAAACAAAGGCTCAACAAC
* * * * *
12775405 TTTTCAAAAATAAA-AGTTCCTTTAAGCAGATGCTCAACAAC
1 -TTTGAAAAATAAAGA-CTCCTTTAAACAAAGGCTCAACAAC
* * * *
12775446 TTTAAAAAATAAATAAAGCT-CTTCTAAACAGAGGCTCAATAAC
1 TTTGAAAAAT-AA-AGA-CTCCTT-TAAACAAAGGCTCAACAAC
*
12775489 TTTTGAAAAACAAAG
1 -TTTGAAAAATAAAG
12775504 GCTCTTCAAC
Statistics
Matches: 200, Mismatches: 48, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
39 29 0.14
40 76 0.38
41 61 0.31
42 5 0.03
43 21 0.10
44 8 0.04
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.25
Consensus pattern (40 bp):
TTTGAAAAATAAAGACTCCTTTAAACAAAGGCTCAACAAC
Found at i:12775315 original size:80 final size:80
Alignment explanation
Indices: 12775231--12775458 Score: 228
Period size: 80 Copynumber: 2.8 Consensus size: 80
12775221 TCCGCTAAGC
* * * * *
12775231 AAAGGCTCAACAAC-TTTAAAAAAT-AAAGACTCTTTTAAACAAAAGCTCGACAACTTTGAAGAA
1 AAAGGCTCAACAACTTTTAAAAAATAAAAG-CTCCTCTAAACAAAAGCTCAACAACCTT-AAAAA
*
12775294 TAAAGG-TTCCTTTAAAT
64 TAAAGGCTT-CTATAAAT
* * * * *
12775311 AAAGGCTCAACAACTTTTGAAAAATAAAAGCTCCTCTAAGCAGAGGCTTAACAACCTTAAAAATA
1 AAAGGCTCAACAACTTTTAAAAAATAAAAGCTCCTCTAAACAAAAGCTCAACAACCTTAAAAATA
12775376 AAGGCTTCTATAAAT
66 AAGGCTTCTATAAAT
* * * * * * * *
12775391 AGAGGCTCAACAACTTTTCAAAAATAAAAGTTCCTTTAAGCAGATGCTCAACAACTTTAAAAAAT
1 AAAGGCTCAACAACTTTTAAAAAATAAAAGCTCCTCTAAACAAAAGCTCAACAACCTT-AAAAAT
12775456 AAA
65 AAA
12775459 TAAAGCTCTT
Statistics
Matches: 126, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
80 82 0.65
81 40 0.32
82 4 0.03
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (80 bp):
AAAGGCTCAACAACTTTTAAAAAATAAAAGCTCCTCTAAACAAAAGCTCAACAACCTTAAAAATA
AAGGCTTCTATAAAT
Found at i:12775344 original size:121 final size:121
Alignment explanation
Indices: 12775202--12775458 Score: 295
Period size: 121 Copynumber: 2.1 Consensus size: 121
12775192 AGGCTCCATG
* * * *
12775202 ACTTTTGGAAAATAAAGGCTCCGCTAAGCAAAGGCTCAACAACTTTAAAAAATAAAGAC-TCTTT
1 ACTTTTGAAAAATAAAAGCTCCGCTAAGCAAAGGCTCAACAACCTT-AAAAATAAAGACTTC-TA
* * * * *
12775266 TAAACAAAAGCTCGACAAC-TTTGAAGAATAAAGGTTCCTTTAAATAAAGGCTCAACA
64 TAAACAAAAGCTCAACAACTTTTCAAAAATAAAAGTTCCTTTAAACAAAGGCTCAACA
* * * *
12775323 ACTTTTGAAAAATAAAAGCTCCTCTAAGCAGAGGCTTAACAACCTTAAAAATAAAGGCTTCTATA
1 ACTTTTGAAAAATAAAAGCTCCGCTAAGCAAAGGCTCAACAACCTTAAAAATAAAGACTTCTATA
* * * * * *
12775388 AATAGAGGCTCAACAACTTTTCAAAAATAAAAGTTCCTTTAAGCAGATGCTCAACA
66 AACAAAAGCTCAACAACTTTTCAAAAATAAAAGTTCCTTTAAACAAAGGCTCAACA
*
12775444 AC-TTTAAAAAATAAA
1 ACTTTTGAAAAATAAA
12775459 TAAAGCTCTT
Statistics
Matches: 114, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
120 39 0.34
121 75 0.66
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (121 bp):
ACTTTTGAAAAATAAAAGCTCCGCTAAGCAAAGGCTCAACAACCTTAAAAATAAAGACTTCTATA
AACAAAAGCTCAACAACTTTTCAAAAATAAAAGTTCCTTTAAACAAAGGCTCAACA
Found at i:12775364 original size:41 final size:41
Alignment explanation
Indices: 12775119--12775507 Score: 302
Period size: 41 Copynumber: 9.5 Consensus size: 41
12775109 AGAGACTCAT
* * * *
12775119 AACTTTTGGAAAATAAAGGCACCTCTAAACAGAGGCTTAGC
1 AACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGGCTCAAC
* * * ** * *
12775160 GATTTTTGAAAAATATAGGCTCCTCTAAGTAGAGGCTCCAT
1 AACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGGCTCAAC
* * * * *
12775201 GACTTTTGGAAAATAAAGGCTCCGCTAAGCAAAGGCTCAAC
1 AACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGGCTCAAC
* * * * * * *
12775242 AAC-TTTAAAAAATAAAGACTCTTTTAAACAAAAGCTCGAC
1 AACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGGCTCAAC
* * * * *
12775282 AAC-TTTGAAGAATAAAGGTTCCTTTAAATAAAGGCTCAAC
1 AACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGGCTCAAC
* * *
12775322 AACTTTTGAAAAATAAAAGCTCCTCTAAGCAGAGGCTTAAC
1 AACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGGCTCAAC
* * * *
12775363 AAC-CTT-AAAAATAAAGGCTTCTATAAATAGAGGCTCAAC
1 AACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGGCTCAAC
* * * * * *
12775402 AACTTTTCAAAAATAAAAGTTCCTTTAAGCAGATGCTCAAC
1 AACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGGCTCAAC
* * * *
12775443 AAC-TTTAAAAAATAAATAAAGCTCTTCTAAACAGAGGCTCAAT
1 AACTTTTGAAAAAT--A-AAGGCTCCTCTAAACAGAGGCTCAAC
*
12775486 AACTTTTGAAAAACAAAGGCTC
1 AACTTTTGAAAAATAAAGGCTC
12775508 TTCAACAATC
Statistics
Matches: 271, Mismatches: 70, Indels: 14
0.76 0.20 0.04
Matches are distributed among these distances:
39 30 0.11
40 76 0.28
41 132 0.49
42 2 0.01
43 23 0.08
44 8 0.03
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (41 bp):
AACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGGCTCAAC
Found at i:12775722 original size:16 final size:17
Alignment explanation
Indices: 12775701--12775737 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
12775691 ATTTTAAATG
12775701 TGCAAGAATTC-AGATT
1 TGCAAGAATTCAAGATT
*
12775717 TGCAAGATTTCAAGATT
1 TGCAAGAATTCAAGATT
12775734 TGCA
1 TGCA
12775738 TTTGTGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (17 bp):
TGCAAGAATTCAAGATT
Found at i:12775873 original size:20 final size:20
Alignment explanation
Indices: 12775848--12775885 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12775838 TCATCCAAAT
*
12775848 GTTCAAAGCTTCTCATTCGA
1 GTTCAAAGCTTCACATTCGA
*
12775868 GTTCAAAGGTTCACATTC
1 GTTCAAAGCTTCACATTC
12775886 AATAAATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (20 bp):
GTTCAAAGCTTCACATTCGA
Found at i:12776030 original size:21 final size:21
Alignment explanation
Indices: 12776006--12776097 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
12775996 CATCTTAATA
*
12776006 ATTCTCGTTTGAAACTCAAAG
1 ATTCTCATTTGAAACTCAAAG
12776027 ATTCTCATTTGAAACTCAAAG
1 ATTCTCATTTGAAACTCAAAG
* ** * *
12776048 ATTTTTGTTTGAAATTCAAAT
1 ATTCTCATTTGAAACTCAAAG
12776069 ATTCTCATTTGAAA-TGCAAAG
1 ATTCTCATTTGAAACT-CAAAG
*
12776090 ATTTTCAT
1 ATTCTCAT
12776098 CAAAAGATTC
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 1 0.02
21 58 0.98
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (21 bp):
ATTCTCATTTGAAACTCAAAG
Found at i:12776073 original size:42 final size:42
Alignment explanation
Indices: 12776012--12776094 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
12776002 AATAATTCTC
12776012 GTTTGAAACTCAAAGATTCTCATTTGAAACT-CAAAGATTTTT
1 GTTTGAAACTCAAAGATTCTCATTTGAAA-TGCAAAGATTTTT
* *
12776054 GTTTGAAATTCAAATATTCTCATTTGAAATGCAAAGATTTT
1 GTTTGAAACTCAAAGATTCTCATTTGAAATGCAAAGATTTT
12776095 CATCAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 1 0.03
42 37 0.97
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (42 bp):
GTTTGAAACTCAAAGATTCTCATTTGAAATGCAAAGATTTTT
Found at i:12776689 original size:79 final size:79
Alignment explanation
Indices: 12776536--12776681 Score: 172
Period size: 79 Copynumber: 1.8 Consensus size: 79
12776526 ATTACCCCAT
* *
12776536 ATCACTTAATCACAACTTATAGGCTTCTAAGCACTAGCAATTTCAAAATAAATTCTGCCAATTGA
1 ATCACTTAATCACAACTTATAGGCTTCTAAGCACTAGCAATTCCAAAATAAATTCTGCCAACTGA
12776601 TCCACATTATGTTC
66 TCCACATTATGTTC
* * * * * *
12776615 ATCACTTGATCACCA-TTCATAGGCTTCCT-AGCACTAGCCATTCCAGAATGAATTTTGTCC-AC
1 ATCACTTAATCACAACTT-ATAGGCTT-CTAAGCACTAGCAATTCCAAAATAAATTCTG-CCAAC
12776677 TGATC
63 TGATC
12776682 TATATTATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
78 2 0.04
79 50 0.89
80 4 0.07
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (79 bp):
ATCACTTAATCACAACTTATAGGCTTCTAAGCACTAGCAATTCCAAAATAAATTCTGCCAACTGA
TCCACATTATGTTC
Found at i:12777351 original size:9 final size:9
Alignment explanation
Indices: 12777274--12777353 Score: 58
Period size: 9 Copynumber: 8.7 Consensus size: 9
12777264 TGAGTCTTCC
12777274 TTTTCTCTT
1 TTTTCTCTT
12777283 CTTTTCATCTT
1 -TTTTC-TCTT
*
12777294 TTTTAT-TT
1 TTTTCTCTT
*
12777302 TTTTAT-TT
1 TTTTCTCTT
12777310 TTTTC-CATT
1 TTTTCTC-TT
12777319 TTTTCTCTTTT
1 TTTTCTC--TT
12777330 TTTTCTCTT
1 TTTTCTCTT
* *
12777339 TTTTTTCTC
1 TTTTCTCTT
12777348 TTTTCT
1 TTTTCT
12777354 TAATCCATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
8 14 0.24
9 22 0.37
10 10 0.17
11 13 0.22
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:12777736 original size:19 final size:19
Alignment explanation
Indices: 12777712--12777764 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
12777702 ATTTGTGGCA
*
12777712 TTCATTTTTTTTCTCTTT-T
1 TTCATTTTTTTGCT-TTTCT
12777731 TTCATTTGTTTTGCTTTTCT
1 TTCATTT-TTTTGCTTTTCT
12777751 TTC--TTTTTTGCTTT
1 TTCATTTTTTTGCTTT
12777765 CTATCTTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 9 0.29
18 2 0.06
19 10 0.32
20 10 0.32
ACGTcount: A:0.04, C:0.15, G:0.06, T:0.75
Consensus pattern (19 bp):
TTCATTTTTTTGCTTTTCT
Found at i:12777765 original size:16 final size:17
Alignment explanation
Indices: 12777739--12777772 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
12777729 TTTTCATTTG
*
12777739 TTTTGCTTTTCTTTCTT
1 TTTTGCTTTTCTATCTT
12777756 TTTTGC-TTTCTATCTT
1 TTTTGCTTTTCTATCTT
12777772 T
1 T
12777773 GAGACTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.03, C:0.18, G:0.06, T:0.74
Consensus pattern (17 bp):
TTTTGCTTTTCTATCTT
Found at i:12782050 original size:12 final size:12
Alignment explanation
Indices: 12782013--12782054 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
12782003 TAATCATGCA
*
12782013 AAAATACTAAAA
1 AAAATACTAAAT
12782025 AAACATA-TAAAT
1 AAA-ATACTAAAT
*
12782037 AAAATACTACAT
1 AAAATACTAAAT
12782049 AAAATA
1 AAAATA
12782055 AAAAAATACC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 3 0.12
12 20 0.77
13 3 0.12
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATACTAAAT
Found at i:12786962 original size:14 final size:13
Alignment explanation
Indices: 12786943--12786979 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
12786933 ATCAAAATTT
12786943 TTAAATAATATAAA
1 TTAAATAATA-AAA
12786957 TTAAATAATAAAA
1 TTAAATAATAAAA
12786970 TTAACATAAT
1 TTAA-ATAAT
12786980 TAATGGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (13 bp):
TTAAATAATAAAA
Found at i:12787598 original size:2 final size:2
Alignment explanation
Indices: 12787593--12787619 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12787583 ATAACCTTCA
12787593 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
12787620 ACTGAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12789532 original size:25 final size:25
Alignment explanation
Indices: 12789478--12789532 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
12789468 ATTGAATCCT
** *
12789478 TAAAAAAAATTTAAAGAGAAAAGGA
1 TAAAAAAAATAGAAAGAGAAAAAGA
*
12789503 CAAAAAAAATAGAGAAGA-AAAAAGA
1 TAAAAAAAATAGA-AAGAGAAAAAGA
12789528 TAAAA
1 TAAAA
12789533 TAATTTTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.73, C:0.02, G:0.15, T:0.11
Consensus pattern (25 bp):
TAAAAAAAATAGAAAGAGAAAAAGA
Found at i:12793213 original size:3 final size:3
Alignment explanation
Indices: 12793205--12793237 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
12793195 TTTTTTAAGA
12793205 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12793238 TATAAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12794002 original size:48 final size:46
Alignment explanation
Indices: 12793913--12794004 Score: 121
Period size: 48 Copynumber: 2.0 Consensus size: 46
12793903 GAAAATTAAT
* **
12793913 TTATTTTTTAATTATTAGTTTTATTAAATTTTATTCGAAGAAATTG
1 TTATTTTTTAATTATTAGTTTTATTAAAATTTATTAAAAGAAATTG
* *
12793959 TTATATTTTTAATTATTATTTTTTATTAAAATTTGTTAAAAGAAAT
1 TTAT-TTTTTAATTATTA-GTTTTATTAAAATTTATTAAAAGAAAT
12794005 GAATTGTTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 4 0.10
47 13 0.33
48 22 0.56
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.57
Consensus pattern (46 bp):
TTATTTTTTAATTATTAGTTTTATTAAAATTTATTAAAAGAAATTG
Found at i:12797952 original size:16 final size:18
Alignment explanation
Indices: 12797925--12797957 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12797915 AGTGATTTTG
12797925 GATTTGTTATTT-AGTTT
1 GATTTGTTATTTCAGTTT
12797942 GATTT-TTATTTCAGTT
1 GATTTGTTATTTCAGTT
12797958 CAAGCTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.18, C:0.03, G:0.15, T:0.64
Consensus pattern (18 bp):
GATTTGTTATTTCAGTTT
Found at i:12804469 original size:15 final size:18
Alignment explanation
Indices: 12804444--12804479 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
12804434 TATTTGATGA
12804444 TTTCTAGCATA-CTTA-T
1 TTTCTAGCATAGCTTAGT
12804460 TTTCTA-CATAGCTTAGT
1 TTTCTAGCATAGCTTAGT
12804477 TTT
1 TTT
12804480 ATCTTGCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.22
16 10 0.56
17 4 0.22
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.53
Consensus pattern (18 bp):
TTTCTAGCATAGCTTAGT
Found at i:12811023 original size:90 final size:89
Alignment explanation
Indices: 12810903--12811078 Score: 271
Period size: 90 Copynumber: 2.0 Consensus size: 89
12810893 TGAAAGAGAG
* * * *
12810903 AAAAAGTAAATATATGGAAAAAGACTAAGGAGTTGGGAAAGAGAGCAAGATTGGAACGTGAAGTG
1 AAAAAGTAAAGATATGGAAAAAGACTAAGGAGCTGGGAAAGAGAGCAAGATTAGAAAGTGAAGTG
12810968 AAAAAATAGATCATTTAGATGGGA
66 AAAAAATAGATCATTTAGATGGGA
* * *
12810992 AAAAGAGTAAAGATGTGGAAAAAGAGTAAGGAGCTGGGAAAGAGAGCACGATTAGAAAGTGAAGT
1 AAAA-AGTAAAGATATGGAAAAAGACTAAGGAGCTGGGAAAGAGAGCAAGATTAGAAAGTGAAGT
*
12811057 GAAAAAATAGATCCTTTAGATG
65 GAAAAAATAGATCATTTAGATG
12811079 CATGATGACA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 4 0.05
90 74 0.95
ACGTcount: A:0.48, C:0.05, G:0.29, T:0.18
Consensus pattern (89 bp):
AAAAAGTAAAGATATGGAAAAAGACTAAGGAGCTGGGAAAGAGAGCAAGATTAGAAAGTGAAGTG
AAAAAATAGATCATTTAGATGGGA
Found at i:12811037 original size:20 final size:18
Alignment explanation
Indices: 12810984--12811020 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
12810974 TAGATCATTT
12810984 AGATGGGAAAAAGAGTAA
1 AGATGGGAAAAAGAGTAA
12811002 AGATGTGGAAAAAGAGTAA
1 AGATG-GGAAAAAGAGTAA
12811021 GGAGCTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.54, C:0.00, G:0.32, T:0.14
Consensus pattern (18 bp):
AGATGGGAAAAAGAGTAA
Found at i:12813733 original size:14 final size:15
Alignment explanation
Indices: 12813701--12813746 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 15
12813691 ATTATATACT
12813701 AATAAAAAAATTAAA
1 AATAAAAAAATTAAA
*
12813716 AATAACAAAATT-AA
1 AATAAAAAAATTAAA
*
12813730 AATAAAAGAA-TAAA
1 AATAAAAAAATTAAA
12813744 AAT
1 AAT
12813747 GTAATTACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 1 0.04
14 15 0.56
15 11 0.41
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (15 bp):
AATAAAAAAATTAAA
Found at i:12814727 original size:43 final size:43
Alignment explanation
Indices: 12814679--12814811 Score: 130
Period size: 43 Copynumber: 3.1 Consensus size: 43
12814669 AAATCAGAAG
*
12814679 CAAAAAGCTCCTCCTCAATAAAAG-TGTTGAAACTTTAAAAATT
1 CAAAAAGCTCCTCATCAATAAAAGCT-TTGAAACTTTAAAAATT
* * * *
12814722 CAAAAAGTTCTTCATCAATAAAGGCTTTGAAACTTTAAAATTT
1 CAAAAAGCTCCTCATCAATAAAAGCTTTGAAACTTTAAAAATT
* * * *
12814765 TAAAAAGCTCCTC-T-AACTAGAGGCATTGAAA-TGTTAAAAATT
1 CAAAAAGCTCCTCATCAA-TAAAAGCTTTGAAACT-TTAAAAATT
12814807 CAAAA
1 CAAAA
12814812 TCGAAAAGCT
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
41 3 0.04
42 25 0.33
43 46 0.61
44 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (43 bp):
CAAAAAGCTCCTCATCAATAAAAGCTTTGAAACTTTAAAAATT
Found at i:12814794 original size:42 final size:42
Alignment explanation
Indices: 12814705--12814982 Score: 129
Period size: 42 Copynumber: 6.4 Consensus size: 42
12814695 AATAAAAGTG
* * * * * *
12814705 TTGAAACTTTAAAAATTCAAAAAGTTCTTCATCAA-TAAAGGCT
1 TTGAAACTTTAAAATTTTAAAAAGCTCCTC-T-AACTAGAGGCA
12814748 TTGAAACTTTAAAATTTTAAAAAGCTCCTCTAACTAGAGGCA
1 TTGAAACTTTAAAATTTTAAAAAGCTCCTCTAACTAGAGGCA
** * *
12814790 TTGAAA-TGTTAAAAATTCAAAATCGAAAAGCTTCTATTTAAC-AGAGGCA
1 TTGAAACT-TT-AAAATT-----TTAAAAAGC-TC-CTCTAACTAGAGGCA
* * * * * *
12814839 TTAAAATTTTAGAAA-TTTAAAAAGCTCCTCTAACCAAAAGTA
1 TTGAAACTTTA-AAATTTTAAAAAGCTCCTCTAACTAGAGGCA
* ** * * *
12814881 TTGAAAATTTAAAATTTTAAATGGATCCTTTAACCAGAGGCA
1 TTGAAACTTTAAAATTTTAAAAAGCTCCTCTAACTAGAGGCA
** * *
12814923 TTGAAACTTTCAAAA-AATAAACACA-TTCCTCTAACTAGAGAC-
1 TTGAAACTTT-AAAATTTTAAA-A-AGCTCCTCTAACTAGAGGCA
12814965 TATGAAACTTTAAAATTT
1 T-TGAAACTTTAAAATTT
12814983 GTAACCAAAA
Statistics
Matches: 178, Mismatches: 38, Indels: 38
0.70 0.15 0.15
Matches are distributed among these distances:
41 11 0.06
42 68 0.38
43 65 0.37
48 9 0.05
49 19 0.11
50 6 0.03
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.31
Consensus pattern (42 bp):
TTGAAACTTTAAAATTTTAAAAAGCTCCTCTAACTAGAGGCA
Found at i:12816067 original size:14 final size:14
Alignment explanation
Indices: 12816048--12816086 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
12816038 CTTTTTCTTT
12816048 TTTTTTTTCATATA
1 TTTTTTTTCATATA
*
12816062 TTTTTTTTCATATG
1 TTTTTTTTCATATA
*
12816076 TTTTCTTTCAT
1 TTTTTTTTCAT
12816087 TTCTCTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (14 bp):
TTTTTTTTCATATA
Found at i:12816394 original size:17 final size:15
Alignment explanation
Indices: 12816359--12816408 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
12816349 CCTTCATTAG
12816359 TTCTCTCATTTTC-TT
1 TTCT-TCATTTTCTTT
12816374 TTCTTCATTTCTCCTTT
1 TTCTTCATTT-T-CTTT
*
12816391 TTCTTTATTTTCTTT
1 TTCTTCATTTTCTTT
12816406 TTC
1 TTC
12816409 ATTTTTGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 6 0.19
15 12 0.39
16 2 0.06
17 11 0.35
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCTTCATTTTCTTT
Found at i:12817292 original size:13 final size:13
Alignment explanation
Indices: 12817274--12817342 Score: 93
Period size: 13 Copynumber: 5.2 Consensus size: 13
12817264 AACCAAGTGG
12817274 AAAATTTATTATA
1 AAAATTTATTATA
*
12817287 AAAATTTATTTTAA
1 AAAATTTATTAT-A
12817301 ATAAATTTATTATA
1 A-AAATTTATTATA
*
12817315 AAAATTTATTACA
1 AAAATTTATTATA
*
12817328 AAAATTTATTTTA
1 AAAATTTATTATA
12817341 AA
1 AA
12817343 TAAAGAAGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
13 35 0.71
14 4 0.08
15 10 0.20
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATTTATTATA
Found at i:12817359 original size:41 final size:41
Alignment explanation
Indices: 12817274--12817359 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
12817264 AACCAAGTGG
* ** ** *
12817274 AAAATTTATTATAAAAATTTATTTTAAATAAATTTATTATA
1 AAAATTTATTACAAAAATTTATTTTAAATAAATGAAAAAGA
12817315 AAAATTTATTACAAAAATTTATTTTAAATAAA-GAAGAAAGA
1 AAAATTTATTACAAAAATTTATTTTAAATAAATGAA-AAAGA
12817356 AAAA
1 AAAA
12817360 CAACTAAGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (41 bp):
AAAATTTATTACAAAAATTTATTTTAAATAAATGAAAAAGA
Found at i:12817637 original size:20 final size:21
Alignment explanation
Indices: 12817614--12817654 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
12817604 ACTCTTTCTC
*
12817614 TCTTGATTTT-TCTGATTGAT
1 TCTTGATTTTCTCTAATTGAT
12817634 TCTTGATTTTCTCTAATTGAT
1 TCTTGATTTTCTCTAATTGAT
12817655 CATAATAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.59
Consensus pattern (21 bp):
TCTTGATTTTCTCTAATTGAT
Found at i:12818159 original size:21 final size:20
Alignment explanation
Indices: 12818110--12818177 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 20
12818100 TTGAAAGTCG
*
12818110 CAATTGAAATTCAAGGATTC-
1 CAATT-AAATTCAAAGATTCA
*
12818130 CTAACTTAAATCTCAAAGGTTCA
1 C-AA-TTAAAT-TCAAAGATTCA
*
12818153 CAATTAAATTCAAAGATTCT
1 CAATTAAATTCAAAGATTCA
12818173 CAATT
1 CAATT
12818178 TGAATTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 15 0.38
21 12 0.30
22 12 0.30
23 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (20 bp):
CAATTAAATTCAAAGATTCA
Found at i:12818241 original size:20 final size:20
Alignment explanation
Indices: 12818216--12818253 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12818206 GGTTCTCTCA
12818216 AAATTCAAAGA-TTTGCAATT
1 AAATTCAAA-ATTTTGCAATT
12818236 AAATTCAAAATTTTGCAA
1 AAATTCAAAATTTTGCAA
12818254 AATAATCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (20 bp):
AAATTCAAAATTTTGCAATT
Found at i:12818312 original size:18 final size:19
Alignment explanation
Indices: 12818271--12818327 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
12818261 AACAATTCAC
* *
12818271 AAAGATTTAAAGATTTGC-
1 AAAGATTCAAAGAATTGCA
12818289 -AAGATTC-AAGAATTGCA
1 AAAGATTCAAAGAATTGCA
**
12818306 AAAGATTCAAAGGTTTGCA
1 AAAGATTCAAAGAATTGCA
12818325 AAA
1 AAA
12818328 AATTTCAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 8 0.25
17 6 0.19
18 7 0.22
19 11 0.34
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.26
Consensus pattern (19 bp):
AAAGATTCAAAGAATTGCA
Found at i:12818383 original size:18 final size:18
Alignment explanation
Indices: 12818362--12818419 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
12818352 TAAGATTTTT
12818362 AAAGGTTCCAAGATTCGC
1 AAAGGTTCCAAGATTCGC
* * *
12818380 AAAGATTACAAGTTTCGC
1 AAAGGTTCCAAGATTCGC
*
12818398 AAAGGTTCCAAGATTTGC
1 AAAGGTTCCAAGATTCGC
12818416 AAAG
1 AAAG
12818420 AATTTCAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (18 bp):
AAAGGTTCCAAGATTCGC
Found at i:12818581 original size:17 final size:17
Alignment explanation
Indices: 12818559--12818607 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
12818549 AAAAATTTTT
*
12818559 AGATTCGAAAGGATTAA
1 AGATTCGAAAGAATTAA
* *
12818576 AGATTCGTAAGAATTTA
1 AGATTCGAAAGAATTAA
12818593 AGATTC-ATAAGAATT
1 AGATTCGA-AAGAATT
12818608 TAAATTTGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (17 bp):
AGATTCGAAAGAATTAA
Found at i:12818608 original size:17 final size:17
Alignment explanation
Indices: 12818575--12818610 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
12818565 GAAAGGATTA
*
12818575 AAGATTCGTAAGAATTT
1 AAGATTCATAAGAATTT
12818592 AAGATTCATAAGAATTT
1 AAGATTCATAAGAATTT
12818609 AA
1 AA
12818611 ATTTGCAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (17 bp):
AAGATTCATAAGAATTT
Found at i:12818651 original size:16 final size:16
Alignment explanation
Indices: 12818632--12818665 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12818622 TTCGGTTTTG
12818632 AAAATTTTCA-ATTCTC
1 AAAATTTT-AGATTCTC
12818648 AAAATTTTAGATTCTC
1 AAAATTTTAGATTCTC
12818664 AA
1 AA
12818666 GAACTCAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (16 bp):
AAAATTTTAGATTCTC
Found at i:12819053 original size:43 final size:45
Alignment explanation
Indices: 12819005--12819172 Score: 124
Period size: 46 Copynumber: 3.7 Consensus size: 45
12818995 TTCATTCGAG
* * * * *
12819005 TTCAAAGATTCACATTCGATATATTTAGAGTTTCACATCT-AAA-
1 TTCAAAGATTCTCATTCAAAAAATTTAGAGATTCACATCTAAAAT
* * *
12819048 TTCAAAGGTTTTCATTCAAAAAATTTAGGGATTCACATCTAAAAT
1 TTCAAAGATTCTCATTCAAAAAATTTAGAGATTCACATCTAAAAT
* ** * * ** * *
12819093 TTCAAAGCTTCTCATTCAAAATCTTTTGGTGATTCACATCCGATAC
1 TTCAAAGATTCTCATTCAAAA-AATTTAGAGATTCACATCTAAAAT
** *
12819139 TTCAAAGATTCAGATTCAAAAAACTTTGGAGATT
1 TTCAAAGATTCTCATTCAAAAAA-TTTAGAGATT
12819173 TACACAAATT
Statistics
Matches: 97, Mismatches: 24, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
43 32 0.33
44 3 0.03
45 19 0.20
46 43 0.44
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (45 bp):
TTCAAAGATTCTCATTCAAAAAATTTAGAGATTCACATCTAAAAT
Found at i:12819112 original size:45 final size:43
Alignment explanation
Indices: 12819027--12819132 Score: 122
Period size: 45 Copynumber: 2.4 Consensus size: 43
12819017 CATTCGATAT
* * * *
12819027 ATTTAGAGTTTCACATCTAAATTCAAAGGTTTTCATTCAAAAA
1 ATTTAGGGATTCACATCTAAATTCAAAGCTTCTCATTCAAAAA
*
12819070 ATTTAGGGATTCACATCTAAAATTTCAAAGCTTCTCATTCAAAAT
1 ATTTAGGGATTCACATCT-AAA-TTCAAAGCTTCTCATTCAAAAA
* *
12819115 CTTTTGGTGATTCACATC
1 ATTTAGG-GATTCACATC
12819133 CGATACTTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 16 0.30
44 3 0.06
45 24 0.45
46 10 0.19
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (43 bp):
ATTTAGGGATTCACATCTAAATTCAAAGCTTCTCATTCAAAAA
Found at i:12819144 original size:46 final size:45
Alignment explanation
Indices: 12819005--12819161 Score: 120
Period size: 43 Copynumber: 3.5 Consensus size: 45
12818995 TTCATTCGAG
* * * * * * *
12819005 TTCAAAGATTCACATTCGATATATTTAGAGTTTCACAT-CTAAA-
1 TTCAAAGATTCTCATTCAAAAAATTTAGGGATTCACATCCAAAAC
* * * *
12819048 TTCAAAGGTTTTCATTCAAAAAATTTAGGGATTCACATCTAAAAT
1 TTCAAAGATTCTCATTCAAAAAATTTAGGGATTCACATCCAAAAC
* ** * * *
12819093 TTCAAAGCTTCTCATTCAAAATCTTTTGGTGATTCACATCCGATAC
1 TTCAAAGATTCTCATTCAAAAAATTTAGG-GATTCACATCCAAAAC
**
12819139 TTCAAAGATTCAGATTCAAAAAA
1 TTCAAAGATTCTCATTCAAAAAA
12819162 CTTTGGAGAT
Statistics
Matches: 87, Mismatches: 24, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
43 30 0.34
44 3 0.03
45 24 0.28
46 30 0.34
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (45 bp):
TTCAAAGATTCTCATTCAAAAAATTTAGGGATTCACATCCAAAAC
Found at i:12819247 original size:14 final size:14
Alignment explanation
Indices: 12819211--12819237 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12819201 ACTCAAAGAC
12819211 AAAGATTCTCATTG
1 AAAGATTCTCATTG
12819225 AAAGATTCTCATT
1 AAAGATTCTCATT
12819238 TAAAACTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (14 bp):
AAAGATTCTCATTG
Found at i:12819260 original size:24 final size:24
Alignment explanation
Indices: 12819225--12819337 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
12819215 ATTCTCATTG
12819225 AAAGATTCTCATTTAAAACTTCTT
1 AAAGATTCTCATTTAAAACTTCTT
* * *
12819249 AAAGATTGTCATTCAAAACTTTTT
1 AAAGATTCTCATTTAAAACTTCTT
12819273 AAAGATTCTCATTTAAAAC-TC--
1 AAAGATTCTCATTTAAAACTTCTT
* *
12819294 AAAGATTCTCATTTAAAAGTCCTT
1 AAAGATTCTCATTTAAAACTTCTT
12819318 AAAGATTCTCATTTAAAACT
1 AAAGATTCTCATTTAAAACT
12819338 CAAATATTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
21 18 0.23
22 1 0.01
23 1 0.01
24 57 0.74
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.38
Consensus pattern (24 bp):
AAAGATTCTCATTTAAAACTTCTT
Found at i:12819303 original size:69 final size:65
Alignment explanation
Indices: 12819225--12819370 Score: 184
Period size: 69 Copynumber: 2.2 Consensus size: 65
12819215 ATTCTCATTG
* * *
12819225 AAAGATTCTCATTTAAAACTTCTTAAAGATTGTCATTCAAAACTTTTTAAAGATTCTCATTTAAA
1 AAAGATTCTCATTTAAAACTCCTTAAAGATTCTCATTCAAAAC---TCAAAGATTCTCATTT-AA
12819290 ACTC
62 ACTC
* * * * *
12819294 AAAGATTCTCATTTAAAAGTCCTTAAAGATTCTCATTTAAAACTCAAATATTTTCATTTAAACTT
1 AAAGATTCTCATTTAAAACTCCTTAAAGATTCTCATTCAAAACTCAAAGATTCTCATTTAAACTC
12819359 AAAGATTCTCAT
1 AAAGATTCTCAT
12819371 CATTTTTAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
65 17 0.25
66 13 0.19
69 39 0.57
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (65 bp):
AAAGATTCTCATTTAAAACTCCTTAAAGATTCTCATTCAAAACTCAAAGATTCTCATTTAAACTC
Found at i:12819320 original size:45 final size:43
Alignment explanation
Indices: 12819225--12819370 Score: 170
Period size: 45 Copynumber: 3.3 Consensus size: 43
12819215 ATTCTCATTG
* * *
12819225 AAAGATTCTCATTTAAAACTTCTTAAAGATTGTCATTCAAAACTTTTT
1 AAAGATTCTCATTTAAAAC-TC--AAAGATTCTCATTTAAAA--TCTT
12819273 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTAAAAGTCCTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTAAAA-T-CTT
* *
12819318 AAAGATTCTCATTTAAAACTCAAATATTTTCATTT-AAA-CTT
1 AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTAAAATCTT
12819359 AAAGATTCTCAT
1 AAAGATTCTCAT
12819371 CATTTTTAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
41 15 0.16
44 4 0.04
45 51 0.56
47 2 0.02
48 19 0.21
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (43 bp):
AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTAAAATCTT
Found at i:12820546 original size:6 final size:7
Alignment explanation
Indices: 12820528--12820583 Score: 76
Period size: 7 Copynumber: 7.4 Consensus size: 7
12820518 TTTTCACTTT
12820528 TTTTTCA
1 TTTTTCA
12820535 TTTTTTCA
1 -TTTTTCA
12820543 TTTTTCA
1 TTTTTCA
12820550 TTTTTCA
1 TTTTTCA
12820557 TTTGTTCA
1 TTT-TTCA
12820565 CTTTTTTCA
1 --TTTTTCA
12820574 TTTTTCA
1 TTTTTCA
12820581 TTT
1 TTT
12820584 CTTTTTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
7 27 0.60
8 11 0.24
9 4 0.09
10 3 0.07
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (7 bp):
TTTTTCA
Found at i:12820593 original size:24 final size:24
Alignment explanation
Indices: 12820502--12820593 Score: 80
Period size: 24 Copynumber: 3.8 Consensus size: 24
12820492 AATTTGAGTC
* *
12820502 TTTCTTTTCTCTTTTTTTTTCACTT
1 TTTCATTTCTTTTTTTTTTTCA-TT
12820527 TTT--TTTCATTTTTTCATTTTTCATT
1 TTTCATTTC-TTTTTT--TTTTTCATT
* ***
12820552 TTTCATTTGTTCACTTTTTTCATT
1 TTTCATTTCTTTTTTTTTTTCATT
12820576 TTTCATTTCTTTTTTTTT
1 TTTCATTTCTTTTTTTTT
12820594 ATCCATTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
23 4 0.08
24 28 0.53
25 8 0.15
26 10 0.19
27 3 0.06
ACGTcount: A:0.09, C:0.15, G:0.01, T:0.75
Consensus pattern (24 bp):
TTTCATTTCTTTTTTTTTTTCATT
Found at i:12824681 original size:37 final size:36
Alignment explanation
Indices: 12824626--12824752 Score: 121
Period size: 37 Copynumber: 3.5 Consensus size: 36
12824616 GATGGGATGA
* *
12824626 AATGTATGTACCATCTATTAACATGTACATGAAATGG
1 AATGCATGTACTATCTATTAACATGT-CATGAAATGG
* * * *
12824663 AATGCATGTACTATCTATTGATATG-GATGAGATGG
1 AATGCATGTACTATCTATTAACATGTCATGAAATGG
* * * * *
12824698 AATGCATGTATTATCCATCAAGATGTGTATGAAATGG
1 AATGCATGTACTATCTATTAACATGT-CATGAAATGG
*
12824735 AATGCAAGTACTATCTAT
1 AATGCATGTACTATCTAT
12824753 CAAGATAAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
35 28 0.39
37 44 0.61
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (36 bp):
AATGCATGTACTATCTATTAACATGTCATGAAATGG
Found at i:12824705 original size:35 final size:35
Alignment explanation
Indices: 12824608--12824752 Score: 119
Period size: 37 Copynumber: 4.0 Consensus size: 35
12824598 GCACTGCCTG
** * * *
12824608 TTGATATGGATGGGATGAAATGTATGTACCATCTA
1 TTGATATGGATGAAATGGAATGCATGTACTATCTA
* * *
12824643 TTAACATGTACATGAAATGGAATGCATGTACTATCTA
1 TTGATATG--GATGAAATGGAATGCATGTACTATCTA
* * *
12824680 TTGATATGGATGAGATGGAATGCATGTATTATCCA
1 TTGATATGGATGAAATGGAATGCATGTACTATCTA
* * * *
12824715 TCAAGATGTGTATGAAATGGAATGCAAGTACTATCTA
1 T--TGATATGGATGAAATGGAATGCATGTACTATCTA
12824752 T
1 T
12824753 CAAGATAAAA
Statistics
Matches: 85, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
35 30 0.35
37 55 0.65
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.33
Consensus pattern (35 bp):
TTGATATGGATGAAATGGAATGCATGTACTATCTA
Found at i:12824730 original size:72 final size:72
Alignment explanation
Indices: 12824608--12824752 Score: 191
Period size: 72 Copynumber: 2.0 Consensus size: 72
12824598 GCACTGCCTG
* * * * *
12824608 TTGATATGGATGGGATGAAATGTATGTACCATCTATTAACATGTACATGAAATGGAATGCATGTA
1 TTGATATGGATGAGATGAAATGCATGTACCATCCATCAACATGTACATGAAATGGAATGCAAGTA
12824673 CTATCTA
66 CTATCTA
* ** * **
12824680 TTGATATGGATGAGATGGAATGCATGTATTATCCATCAAGATGTGTATGAAATGGAATGCAAGTA
1 TTGATATGGATGAGATGAAATGCATGTACCATCCATCAACATGTACATGAAATGGAATGCAAGTA
12824745 CTATCTA
66 CTATCTA
12824752 T
1 T
12824753 CAAGATAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.33
Consensus pattern (72 bp):
TTGATATGGATGAGATGAAATGCATGTACCATCCATCAACATGTACATGAAATGGAATGCAAGTA
CTATCTA
Found at i:12824755 original size:37 final size:37
Alignment explanation
Indices: 12824654--12824759 Score: 135
Period size: 37 Copynumber: 2.9 Consensus size: 37
12824644 TAACATGTAC
*
12824654 ATGAAATGGAATGCATGTACTATCTAT--TGATATGG
1 ATGAAATGGAATGCATGTACTATCTATCAAGATATGG
* * * * *
12824689 ATGAGATGGAATGCATGTATTATCCATCAAGATGTGT
1 ATGAAATGGAATGCATGTACTATCTATCAAGATATGG
*
12824726 ATGAAATGGAATGCAAGTACTATCTATCAAGATA
1 ATGAAATGGAATGCATGTACTATCTATCAAGATA
12824760 AAATGCATGT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
35 24 0.41
37 34 0.59
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (37 bp):
ATGAAATGGAATGCATGTACTATCTATCAAGATATGG
Found at i:12825004 original size:17 final size:15
Alignment explanation
Indices: 12824983--12825027 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
12824973 CATTTCTATT
*
12824983 GTTTTTGTTTCTTTTG
1 GTTTTT-TTTTTTTTG
*
12824999 GTTTTTTTTTTCTTG
1 GTTTTTTTTTTTTTG
12825014 GTTTTTTTTTTTTT
1 GTTTTTTTTTTTTT
12825028 TTGTTTAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 20 0.77
16 6 0.23
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.82
Consensus pattern (15 bp):
GTTTTTTTTTTTTTG
Found at i:12825647 original size:2 final size:2
Alignment explanation
Indices: 12825640--12825684 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
12825630 AAAACAAAAT
12825640 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
12825682 TC T
1 TC T
12825685 TTTTAATTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:12826156 original size:7 final size:7
Alignment explanation
Indices: 12826144--12826295 Score: 155
Period size: 7 Copynumber: 23.3 Consensus size: 7
12826134 GCACTTAAGA
12826144 TTAGGGT
1 TTAGGGT
12826151 TTAGGG-
1 TTAGGGT
*
12826157 GTAGGGT
1 TTAGGGT
*
12826164 TTAGGTT
1 TTAGGGT
**
12826171 TTA-GCA
1 TTAGGGT
* *
12826177 TTAAGTT
1 TTAGGGT
*
12826184 TTAAGG-
1 TTAGGGT
*
12826190 TTAGAGT
1 TTAGGGT
12826197 TTAGGGT
1 TTAGGGT
12826204 TTAGGGT
1 TTAGGGT
12826211 TTAGGG-
1 TTAGGGT
12826217 TTAGGG-
1 TTAGGGT
12826223 TTAGGG-
1 TTAGGGT
12826229 TTAGGGT
1 TTAGGGT
12826236 TTAGGG-
1 TTAGGGT
12826242 TTAGGG-
1 TTAGGGT
12826248 TTAGGGT
1 TTAGGGT
12826255 TTAGGGT
1 TTAGGGT
12826262 TTAGGGT
1 TTAGGGT
12826269 TT-GGGT
1 TTAGGGT
12826275 TT-GGGT
1 TTAGGGT
12826281 TT-GGGT
1 TTAGGGT
12826287 TTAGGGT
1 TTAGGGT
12826294 TT
1 TT
12826296 GGGGGTTTTA
Statistics
Matches: 128, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
6 61 0.48
7 67 0.52
ACGTcount: A:0.16, C:0.01, G:0.41, T:0.42
Consensus pattern (7 bp):
TTAGGGT
Found at i:12826167 original size:40 final size:40
Alignment explanation
Indices: 12826123--12826214 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
12826113 GATTTAAGAT
*
12826123 TTTAGGGTTTAGCACTTAAG-ATTAGGGTTTAG-GGGTAGGG
1 TTTAGGGTTTAGCA-TTAAGTATTAAGG-TTAGAGGGTAGGG
* * **
12826163 TTTAGGTTTTAGCATTAAGTTTTAAGGTTAGAGTTTAGGG
1 TTTAGGGTTTAGCATTAAGTATTAAGGTTAGAGGGTAGGG
12826203 TTTAGGGTTTAG
1 TTTAGGGTTTAG
12826215 GGTTAGGGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
39 9 0.20
40 35 0.80
ACGTcount: A:0.23, C:0.03, G:0.33, T:0.41
Consensus pattern (40 bp):
TTTAGGGTTTAGCATTAAGTATTAAGGTTAGAGGGTAGGG
Found at i:12826199 original size:13 final size:13
Alignment explanation
Indices: 12826183--12826294 Score: 149
Period size: 13 Copynumber: 8.7 Consensus size: 13
12826173 AGCATTAAGT
* *
12826183 TTTAAGGTTAGAG
1 TTTAGGGTTAGGG
12826196 TTTAGGGTTTAGGG
1 TTTAGGG-TTAGGG
12826210 TTTAGGGTTAGGG
1 TTTAGGGTTAGGG
12826223 -TTAGGGTTAGGG
1 TTTAGGGTTAGGG
12826235 TTTAGGGTTAGGG
1 TTTAGGGTTAGGG
12826248 -TTAGGGTTTAGGG
1 TTTAGGG-TTAGGG
*
12826261 TTTAGGGTTTGGG
1 TTTAGGGTTAGGG
*
12826274 TTT-GGGTTTGGG
1 TTTAGGGTTAGGG
12826286 TTTAGGGTT
1 TTTAGGGTT
12826295 TGGGGGTTTT
Statistics
Matches: 91, Mismatches: 3, Indels: 10
0.88 0.03 0.10
Matches are distributed among these distances:
12 30 0.33
13 43 0.47
14 18 0.20
ACGTcount: A:0.14, C:0.00, G:0.44, T:0.42
Consensus pattern (13 bp):
TTTAGGGTTAGGG
Found at i:12826222 original size:6 final size:6
Alignment explanation
Indices: 12826197--12826294 Score: 115
Period size: 6 Copynumber: 15.3 Consensus size: 6
12826187 AGGTTAGAGT
12826197 TTAGGG TTTAGGG TTTAGGG TTAGGG TTAGGG TTAGGG TTTAGGG TTAGGG
1 TTAGGG -TTAGGG -TTAGGG TTAGGG TTAGGG TTAGGG -TTAGGG TTAGGG
* * *
12826248 TTAGGG TTTAGGG TTTAGGG TTTGGG TTTGGG TTTGGG TTTAGGG TT
1 TTAGGG -TTAGGG -TTAGGG TTAGGG TTAGGG TTAGGG -TTAGGG TT
12826295 TGGGGGTTTT
Statistics
Matches: 86, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
6 49 0.57
7 37 0.43
ACGTcount: A:0.12, C:0.00, G:0.46, T:0.42
Consensus pattern (6 bp):
TTAGGG
Found at i:12826228 original size:19 final size:19
Alignment explanation
Indices: 12826188--12826295 Score: 139
Period size: 19 Copynumber: 5.6 Consensus size: 19
12826178 TAAGTTTTAA
*
12826188 GGTTAGAGTTTAGGGTTTAG
1 GGTTAGGGTTTAGGG-TTAG
12826208 GGTTTAGGG-TTAGGGTTAG
1 GG-TTAGGGTTTAGGGTTAG
12826227 GGTTAGGGTTTAGGGTTAG
1 GGTTAGGGTTTAGGGTTAG
12826246 GGTTAGGGTTTAGGGTTTAG
1 GGTTAGGGTTTAGGG-TTAG
* *
12826266 GGTTTGGGTTT-GGGTTTG
1 GGTTAGGGTTTAGGGTTAG
12826284 GGTTTAGGGTTT
1 GG-TTAGGGTTT
12826296 GGGGGTTTTA
Statistics
Matches: 80, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
18 11 0.14
19 42 0.52
20 22 0.28
21 5 0.06
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (19 bp):
GGTTAGGGTTTAGGGTTAG
Found at i:12826296 original size:19 final size:19
Alignment explanation
Indices: 12826195--12826323 Score: 118
Period size: 19 Copynumber: 6.6 Consensus size: 19
12826185 TAAGGTTAGA
12826195 GTTTAGGGTTTAGGGTTTAGG
1 GTTTAGGGTTT-GGGTTT-GG
* *
12826216 G-TTAGGGTTAGGGTTAGG
1 GTTTAGGGTTTGGGTTTGG
* *
12826234 GTTTAGGGTTAGGGTTAGG
1 GTTTAGGGTTTGGGTTTGG
12826253 GTTTAGGGTTTAGGGTTTGG
1 GTTTAGGGTTT-GGGTTTGG
12826273 GTTT-GGGTTTGGGTTTAGG
1 GTTTAGGGTTTGGGTTT-GG
* * *
12826292 GTTTGGGGGTTTTAGGTTTCG
1 GTTT-AGGG-TTTGGGTTTGG
*
12826313 ATTTAGGGTTT
1 GTTTAGGGTTT
12826324 CATGTTTATT
Statistics
Matches: 94, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
18 9 0.10
19 47 0.50
20 22 0.23
21 8 0.09
22 8 0.09
ACGTcount: A:0.12, C:0.01, G:0.44, T:0.43
Consensus pattern (19 bp):
GTTTAGGGTTTGGGTTTGG
Found at i:12826495 original size:15 final size:15
Alignment explanation
Indices: 12826475--12826506 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
12826465 ATGCCAAATG
12826475 TATGACTTAAAAACA
1 TATGACTTAAAAACA
12826490 TATGACTTAAAAACA
1 TATGACTTAAAAACA
12826505 TA
1 TA
12826507 ATTACAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (15 bp):
TATGACTTAAAAACA
Found at i:12828482 original size:10 final size:10
Alignment explanation
Indices: 12828469--12828527 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
12828459 TTTTATCAAG
12828469 TTTGACTAAT
1 TTTGACTAAT
* *
12828479 TTTGACAAAA
1 TTTGACTAAT
*
12828489 TTTGATTAAT
1 TTTGACTAAT
*
12828499 TTTGACT-TT
1 TTTGACTAAT
*
12828508 GTTTGACCAAT
1 -TTTGACTAAT
12828519 TTTGACTAA
1 TTTGACTAA
12828528 AGTTGACTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
9 1 0.03
10 35 0.95
11 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (10 bp):
TTTGACTAAT
Found at i:12828513 original size:30 final size:30
Alignment explanation
Indices: 12828479--12828538 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
12828469 TTTGACTAAT
* **
12828479 TTTGACAAAATTTGATTAATTTTGACTTTG
1 TTTGACAAAATTTGACTAAAGTTGACTTTG
* *
12828509 TTTGACCAATTTTGACTAAAGTTGACTTTG
1 TTTGACAAAATTTGACTAAAGTTGACTTTG
12828539 GGGCATTTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (30 bp):
TTTGACAAAATTTGACTAAAGTTGACTTTG
Found at i:12828533 original size:20 final size:20
Alignment explanation
Indices: 12828470--12828535 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
12828460 TTTATCAAGT
* *
12828470 TTGACTAATTTTGACAAAAT
1 TTGACTAATTTTGACTAAAG
* **
12828490 TTGATTAATTTTGACT-TTG
1 TTGACTAATTTTGACTAAAG
*
12828509 TTTGACCAATTTTGACTAAAG
1 -TTGACTAATTTTGACTAAAG
12828530 TTGACT
1 TTGACT
12828536 TTGGGGCATT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
20 33 0.97
21 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (20 bp):
TTGACTAATTTTGACTAAAG
Found at i:12829955 original size:18 final size:17
Alignment explanation
Indices: 12829929--12829966 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
12829919 ATAATTTTGA
12829929 TAATAGTAATGTTATTAT
1 TAATAGTAATGTTA-TAT
*
12829947 TAATTGTAATGTTATAT
1 TAATAGTAATGTTATAT
12829964 TAA
1 TAA
12829967 ATTGCTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (17 bp):
TAATAGTAATGTTATAT
Found at i:12829969 original size:18 final size:18
Alignment explanation
Indices: 12829934--12829985 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
12829924 TTTGATAATA
12829934 GTAATGTTATTATT-AATT
1 GTAATGTTA-TATTAAATT
12829952 GTAATGTTATATTAAATT
1 GTAATGTTATATTAAATT
*
12829970 GCTAATTATTATATTA
1 G-TAA-TGTTATATTA
12829986 TTTAGGTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 4 0.13
18 14 0.47
19 3 0.10
20 9 0.30
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (18 bp):
GTAATGTTATATTAAATT
Found at i:12835672 original size:21 final size:20
Alignment explanation
Indices: 12835620--12835666 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
12835610 TATGCATTAC
12835620 AAATGAAGATATTAATTTAA
1 AAATGAAGATATTAATTTAA
12835640 AAATGAAGATATTAATTTAA
1 AAATGAAGATATTAATTTAA
12835660 AAATGAA
1 AAATGAA
12835667 ACATATGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (20 bp):
AAATGAAGATATTAATTTAA
Found at i:12837469 original size:140 final size:146
Alignment explanation
Indices: 12837273--12837646 Score: 392
Period size: 146 Copynumber: 2.6 Consensus size: 146
12837263 TCATTTTTTG
* * * * * * **
12837273 GATTTTAAA-GCATCAAAAATCATGGAATATTATAATATTAAGATTTTAAAAT-TTTCATGAAAA
1 GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTGAGA-TCTAAAATGTTTCACAAAAA
* * * *
12837336 TCCAAGCTCA-AGAAGATCAAATTACG-AAGTA-CC-T-TAAGGGTATTTTGATCATTTC-TCA-
65 TTCAAGCTCAGAAAAG-CCAAATTACGAAAGTACCCTTATAAGGGTATTTTGATAATTTCAT-AT
*
12837394 CTTTTCAAGGTACTG-TTT
128 CTTTTCAAGGTACTGCTAT
*
12837412 GATTTCAAATGCACCCAAAATCATGAAATATTATAAAATTGAGATCTAAAATGTTTCACAAAAAT
1 GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTGAGATCTAAAATGTTTCACAAAAAT
** * * * *
12837477 TTGAGCTCAGAAAAGCCAAATTATGAAATTACCCTTATAAGGGTATTTTGGTAATTTCATATTTT
66 TCAAGCTCAGAAAAGCCAAATTACGAAAGTACCCTTATAAGGGTATTTTGATAATTTCATATCTT
** *
12837542 TTTGAGGTGCTGCTAT
131 TTCAAGGTACTGCTAT
* * **
12837558 GATTTCAAATGCACTAAAAATCATGAAATATTATAAATTTGAGATCTGCAATGTTTCACAAAAAT
1 GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTGAGATCTAAAATGTTTCACAAAAAT
12837623 TCAAGCTC-GAAAAGGCCAAATTAC
66 TCAAGCTCAGAAAA-GCCAAATTAC
12837647 AAAAATAACT
Statistics
Matches: 193, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
139 15 0.08
140 53 0.27
141 8 0.04
142 2 0.01
143 1 0.01
144 20 0.10
145 17 0.09
146 77 0.40
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (146 bp):
GATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTGAGATCTAAAATGTTTCACAAAAAT
TCAAGCTCAGAAAAGCCAAATTACGAAAGTACCCTTATAAGGGTATTTTGATAATTTCATATCTT
TTCAAGGTACTGCTAT
Found at i:12837677 original size:146 final size:146
Alignment explanation
Indices: 12837411--12837679 Score: 382
Period size: 146 Copynumber: 1.8 Consensus size: 146
12837401 AGGTACTGTT
*
12837411 TGATTTCAAATGCACCCAAAATCATGAAATATTATAAAATTGAGATCTAAAATGTTTCACAAAAA
1 TGATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTGAGATCTAAAATGTTTCACAAAAA
** ** * * *
12837476 TTTGAGCTCAGAAAAGCCAAATTATGAAATTACCCTTATAAGGGTATTTTGGTAATTTCATATTT
66 TTCAAGCTCAGAAAAGCCAAATTAAAAAATAACCCTTATAAGGGCATTTTAGTAATTTCATATTT
12837541 TTTTGAGGTGCTGCTA
131 TTTTGAGGTGCTGCTA
* * **
12837557 TGATTTCAAATGCACTAAAAATCATGAAATATTATAAATTTGAGATCTGCAATGTTTCACAAAAA
1 TGATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTGAGATCTAAAATGTTTCACAAAAA
12837622 TTCAAGCTC-GAAAAGGCCAAATTACAAAAATAACTCC-TA-AAGGGCATTTTAGTAATTT
66 TTCAAGCTCAGAAAA-GCCAAATTA-AAAAATAAC-CCTTATAAGGGCATTTTAGTAATTT
12837680 TATACTCACC
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
145 5 0.05
146 93 0.86
147 8 0.07
148 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (146 bp):
TGATTTCAAATGCACCAAAAATCATGAAATATTATAAAATTGAGATCTAAAATGTTTCACAAAAA
TTCAAGCTCAGAAAAGCCAAATTAAAAAATAACCCTTATAAGGGCATTTTAGTAATTTCATATTT
TTTTGAGGTGCTGCTA
Found at i:12838124 original size:10 final size:9
Alignment explanation
Indices: 12838104--12838170 Score: 75
Period size: 10 Copynumber: 7.2 Consensus size: 9
12838094 CTTCCTTCCC
*
12838104 TTTTTTGTT
1 TTTTTTATT
12838113 TTGTTTTATT
1 TT-TTTTATT
12838123 TTTTTT-TCAT
1 TTTTTTAT--T
12838133 TTTTTTA-T
1 TTTTTTATT
12838141 TTTTTTATTT
1 TTTTTTA-TT
12838151 TTTTTTATT
1 TTTTTTATT
12838160 TTTTTTATT
1 TTTTTTATT
12838169 TT
1 TT
12838171 CTTGGTTTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
8 9 0.18
9 19 0.37
10 23 0.45
ACGTcount: A:0.09, C:0.01, G:0.03, T:0.87
Consensus pattern (9 bp):
TTTTTTATT
Found at i:12838125 original size:1 final size:1
Alignment explanation
Indices: 12838104--12838236 Score: 68
Period size: 1 Copynumber: 133.0 Consensus size: 1
12838094 CTTCCTTCCC
* * * ** * * * *
12838104 TTTTTTGTTTTGTTTTATTTTTTTTTCATTTTTTTATTTTTTTATTTTTTTTTATTTTTTTTATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** * * * ** * * * * *
12838169 TTCTTGGTTTTTTGTTTTTGTTTTTGTTTTTGCTTTTGTTTTTGTTTTTATTTTTTATTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12838234 TTT
1 TTT
12838237 GTGAAAAAAT
Statistics
Matches: 92, Mismatches: 40, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 92 1.00
ACGTcount: A:0.06, C:0.02, G:0.08, T:0.83
Consensus pattern (1 bp):
T
Found at i:12838128 original size:19 final size:17
Alignment explanation
Indices: 12838104--12838230 Score: 92
Period size: 18 Copynumber: 6.9 Consensus size: 17
12838094 CTTCCTTCCC
* *
12838104 TTTTTTGTTTTGTTTTA
1 TTTTTTTTTTTTTTTTA
12838121 TTTTTTTTTCATTTTTTTA
1 TTTTTTTTT--TTTTTTTA
12838140 TTTTTTTATTTTTTTTTA
1 TTTTTTT-TTTTTTTTTA
* **
12838158 TTTTTTTTATTTTCTTGG
1 TTTTTTTT-TTTTTTTTA
*
12838176 TTTTTTGTTTTTGTTTTTG
1 TTTTTT-TTTTT-TTTTTA
* * *
12838195 TTTTTGCTTTTGTTTTTG
1 TTTTT-TTTTTTTTTTTA
12838213 TTTTTATTTTTTATTTTT
1 TTTTT-TTTTTT-TTTTT
12838231 TGTTTTGTGA
Statistics
Matches: 90, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
17 9 0.10
18 45 0.50
19 34 0.38
20 2 0.02
ACGTcount: A:0.06, C:0.02, G:0.08, T:0.83
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTTA
Found at i:12838146 original size:27 final size:27
Alignment explanation
Indices: 12838116--12838231 Score: 98
Period size: 27 Copynumber: 4.4 Consensus size: 27
12838106 TTTTGTTTTG
12838116 TTTTATTTTTTTTTCA-TTTTTTTATTT
1 TTTTATTTTTTTTT-ATTTTTTTTATTT
12838143 TTTTATTTTTTTTTATTTTTTTTATTT
1 TTTTATTTTTTTTTATTTTTTTTATTT
** * * *
12838170 TCTTGGTTTTTTGTT-TTTGTTTT-TGT
1 T-TTTATTTTTTTTTATTTTTTTTATTT
** * *
12838196 TTTTGCTTTTGTTT-TTGTTTTTA-TT
1 TTTTATTTTTTTTTATTTTTTTTATTT
12838221 TTTTATTTTTT
1 TTTTATTTTTT
12838232 GTTTTGTGAA
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
25 24 0.34
26 4 0.06
27 33 0.46
28 10 0.14
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.84
Consensus pattern (27 bp):
TTTTATTTTTTTTTATTTTTTTTATTT
Found at i:12838146 original size:37 final size:35
Alignment explanation
Indices: 12838104--12838192 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 35
12838094 CTTCCTTCCC
* *
12838104 TTTTTTGTTTTGTTTTATTTTTTTTTCATTTTTTTAT
1 TTTTTTGTTTTGTTTTA-TTTTTTTT-ATTTTCTTAG
* * *
12838141 TTTTTTATTTTTTTTTATTTTTTTTATTTTCTTGG
1 TTTTTTGTTTTGTTTTATTTTTTTTATTTTCTTAG
12838176 TTTTTTGTTTTTGTTTT
1 TTTTTTG-TTTTGTTTT
12838193 TGTTTTTGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
35 13 0.30
36 16 0.36
37 15 0.34
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.84
Consensus pattern (35 bp):
TTTTTTGTTTTGTTTTATTTTTTTTATTTTCTTAG
Done.