Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold55
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: 4293517
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.26
Warning! 910309 characters in sequence are not A, C, G, or T
File 9 of 21
Found at i:2261184 original size:22 final size:22
Alignment explanation
Indices: 2261159--2261202 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2261149 ATGTTTAATA
2261159 AAGAAATTCTTAAATTTTATTT
1 AAGAAATTCTTAAATTTTATTT
2261181 AAGAAATTCTTAAATTTTATTT
1 AAGAAATTCTTAAATTTTATTT
2261203 CTTTCTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (22 bp):
AAGAAATTCTTAAATTTTATTT
Found at i:2263627 original size:33 final size:33
Alignment explanation
Indices: 2263568--2263630 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
2263558 TTGGGCACAA
* * *
2263568 TGTATCGATACATTTTACTATTTATCGATATAT
1 TGTATCGATACAATGTACTATGTATCGATATAT
2263601 TGTATCGATACAATGT-CTTATGTATCGATA
1 TGTATCGATACAATGTAC-TATGTATCGATA
2263631 CATTTCACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATGTACTATGTATCGATATAT
Found at i:2263686 original size:20 final size:20
Alignment explanation
Indices: 2263661--2263715 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
2263651 CTGCCAGTTT
2263661 TATGTATCGATACAATTGAG
1 TATGTATCGATACAATTGAG
2263681 TATGTATCGATACAA-TGAG
1 TATGTATCGATACAATTGAG
* *
2263700 CATGTATCAATACAAT
1 TATGTATCGATACAAT
2263716 GTATCGATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
TATGTATCGATACAATTGAG
Found at i:2264069 original size:35 final size:35
Alignment explanation
Indices: 2264030--2264138 Score: 110
Period size: 35 Copynumber: 3.1 Consensus size: 35
2264020 CGATCAAATT
*
2264030 TTTCCATCATCATTCGACTGTATCTGGTCAAACTC
1 TTTCCATCATCATTTGACTGTATCTGGTCAAACTC
* * * **
2264065 TTTCCACCACCATTTGACTATATCCAGTCAAACTC
1 TTTCCATCATCATTTGACTGTATCTGGTCAAACTC
* * * * *
2264100 TTTTCATCTCTCGTTTGACTGTACCTGGCCAAACTC
1 TTTCCATC-ATCATTTGACTGTATCTGGTCAAACTC
2264136 TTT
1 TTT
2264139 TCTTACCTTA
Statistics
Matches: 57, Mismatches: 16, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
35 35 0.61
36 22 0.39
ACGTcount: A:0.22, C:0.30, G:0.10, T:0.38
Consensus pattern (35 bp):
TTTCCATCATCATTTGACTGTATCTGGTCAAACTC
Found at i:2264291 original size:44 final size:44
Alignment explanation
Indices: 2264243--2264359 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 44
2264233 TTCTTTCCTG
* *
2264243 TTTGACGTATGGTTACCACCCTAGTCAAATTCTT-TTCATTTCAA
1 TTTGACGTATGGTTACCACCCTAGTCAAA-TCTTCCTCATTCCAA
* * * *
2264287 TTTGATGTATGGTTACCACCCTATTCAAATCTTCCTCCTTCCTA
1 TTTGACGTATGGTTACCACCCTAGTCAAATCTTCCTCATTCCAA
* * *
2264331 TTTGACATATGGTTACCACCTTGGTCAAA
1 TTTGACGTATGGTTACCACCCTAGTCAAA
2264360 CAATTTACAT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 4 0.07
44 57 0.93
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (44 bp):
TTTGACGTATGGTTACCACCCTAGTCAAATCTTCCTCATTCCAA
Found at i:2264500 original size:43 final size:43
Alignment explanation
Indices: 2264437--2264634 Score: 290
Period size: 43 Copynumber: 4.6 Consensus size: 43
2264427 ATACTGTCAT
* * *
2264437 CTTAAGTCTGCCTGTCGGCTTTGATC-TGAGCGACTTCTTCACC
1 CTTAAGTCTGCCTGTTGGCTTTGACCTTG-GAGACTTCTTCACC
* *
2264480 CTTAAGTTTGCCTGTTGGCTTTGACCTTGGAGACTTCCTCACC
1 CTTAAGTCTGCCTGTTGGCTTTGACCTTGGAGACTTCTTCACC
* * *
2264523 CTTAAGTCTACCTGTCGGCTTTGACCCTGGAGACTTCTTCACC
1 CTTAAGTCTGCCTGTTGGCTTTGACCTTGGAGACTTCTTCACC
2264566 CTTAAGTCTGCCTGTTGGCTTTGACCTTGGAGACTTCTTCACC
1 CTTAAGTCTGCCTGTTGGCTTTGACCTTGGAGACTTCTTCACC
* *
2264609 CTTAAGTCTGCCTCTTGGCTTAGACC
1 CTTAAGTCTGCCTGTTGGCTTTGACC
2264635 CGAGAGACTT
Statistics
Matches: 139, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
43 137 0.99
44 2 0.01
ACGTcount: A:0.15, C:0.30, G:0.20, T:0.35
Consensus pattern (43 bp):
CTTAAGTCTGCCTGTTGGCTTTGACCTTGGAGACTTCTTCACC
Found at i:2264582 original size:86 final size:87
Alignment explanation
Indices: 2264437--2264667 Score: 326
Period size: 86 Copynumber: 2.7 Consensus size: 87
2264427 ATACTGTCAT
* * *
2264437 CTTAAGTCTGCCTGTCGGCTTTGA-TCTGAGCGACTTCTTCACCCTTAAGTTTGCCTGTTGGCTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGAGAGACTTCTTCACCCTTAAGTCTGCCTGTTGGCTT
2264501 TGACCTTGGAGACTTCCTCACC
66 TGACCTTGGAGACTTCCTCACC
*
2264523 CTTAAGTCTACCTGTCGGCTTTGACCCTG-GAGACTTCTTCACCCTTAAGTCTGCCTGTTGGCTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGAGAGACTTCTTCACCCTTAAGTCTGCCTGTTGGCTT
*
2264587 TGACCTTGGAGACTTCTTCACC
66 TGACCTTGGAGACTTCCTCACC
* * * * * * *
2264609 CTTAAGTCTGCCTCTTGGCTTAGACCC-GAGAGACTTATTTACCCTT-TGTCTGCCCGTTG
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGAGAGACTTCTTCACCCTTAAGTCTGCCTGTTG
2264668 ACTCGGGAGA
Statistics
Matches: 130, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
85 12 0.09
86 115 0.88
87 3 0.02
ACGTcount: A:0.15, C:0.29, G:0.20, T:0.35
Consensus pattern (87 bp):
CTTAAGTCTGCCTGTCGGCTTTGACCCTGAGAGACTTCTTCACCCTTAAGTCTGCCTGTTGGCTT
TGACCTTGGAGACTTCCTCACC
Found at i:2264642 original size:43 final size:42
Alignment explanation
Indices: 2264437--2264667 Score: 284
Period size: 43 Copynumber: 5.4 Consensus size: 42
2264427 ATACTGTCAT
* * *
2264437 CTTAAGTCTGCCTGTCGGCTTTGATCTGAGCGACTTCTTCACC
1 CTTAAGTCTGCCTGTTGGCTTTGACCTG-GAGACTTCTTCACC
* *
2264480 CTTAAGTTTGCCTGTTGGCTTTGACCTTGGAGACTTCCTCACC
1 CTTAAGTCTGCCTGTTGGCTTTGACC-TGGAGACTTCTTCACC
* *
2264523 CTTAAGTCTACCTGTCGGCTTTGACCCTGGAGACTTCTTCACC
1 CTTAAGTCTGCCTGTTGGCTTTGA-CCTGGAGACTTCTTCACC
2264566 CTTAAGTCTGCCTGTTGGCTTTGACCTTGGAGACTTCTTCACC
1 CTTAAGTCTGCCTGTTGGCTTTGACC-TGGAGACTTCTTCACC
* * * * *
2264609 CTTAAGTCTGCCTCTTGGCTTAGACCCGAGAGACTTATTTACC
1 CTTAAGTCTGCCTGTTGGCTTTGACCTG-GAGACTTCTTCACC
* *
2264652 CTT-TGTCTGCCCGTTG
1 CTTAAGTCTGCCTGTTG
2264668 ACTCGGGAGA
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
42 13 0.08
43 148 0.90
44 4 0.02
ACGTcount: A:0.15, C:0.29, G:0.20, T:0.35
Consensus pattern (42 bp):
CTTAAGTCTGCCTGTTGGCTTTGACCTGGAGACTTCTTCACC
Found at i:2264724 original size:42 final size:42
Alignment explanation
Indices: 2264675--2264778 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
2264665 TTGACTCGGG
* * *
2264675 AGACTTCTTTATCTTTTGTCTATCCGTCGGTTTTGACCCGAA
1 AGACTTCTTTATCTTTTGTCTACCCGTCAGCTTTGACCCGAA
* *
2264717 AGACTTCTTTATCTTTTGTCTACCCGTTAGCTTTGACCCGGA
1 AGACTTCTTTATCTTTTGTCTACCCGTCAGCTTTGACCCGAA
*
2264759 AGACTTCTTTA-CTTTCGTCT
1 AGACTTCTTTATCTTTTGTCT
2264779 GCCTGTCGAC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
41 8 0.14
42 48 0.86
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.43
Consensus pattern (42 bp):
AGACTTCTTTATCTTTTGTCTACCCGTCAGCTTTGACCCGAA
Found at i:2264915 original size:42 final size:42
Alignment explanation
Indices: 2264860--2264958 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
2264850 TTTATCAATC
* *
2264860 GTCTACCCGTCGGCTTAGACTCGAGAA-ACTTCTTTACCCTTT
1 GTCTGCCCATCGGCTTAGACTCGA-AAGACTTCTTTACCCTTT
* * * *
2264902 GTCTGCCCATCGGCTTTGACTCGAAAGACTTTTTTATCTTTT
1 GTCTGCCCATCGGCTTAGACTCGAAAGACTTCTTTACCCTTT
2264944 GTCTGCCCATCGGCT
1 GTCTGCCCATCGGCT
2264959 CAGTCTCGGG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
41 2 0.04
42 48 0.96
ACGTcount: A:0.16, C:0.29, G:0.18, T:0.36
Consensus pattern (42 bp):
GTCTGCCCATCGGCTTAGACTCGAAAGACTTCTTTACCCTTT
Found at i:2265014 original size:43 final size:42
Alignment explanation
Indices: 2264967--2265151 Score: 140
Period size: 42 Copynumber: 4.4 Consensus size: 42
2264957 CTCAGTCTCG
* * * *
2264967 GGAGACTTCCTTTATCAATCGTCTGCCAGTCGACTTAAACCCA
1 GGAGACTT-CTTCATCAACCATCTGCCCGTCGACTTAAACCCA
**** ** * *
2265010 GGAGACTTCTTCATTTTTCATCTGCCCGTC-AGCTTAGTCTCG
1 GGAGACTTCTTCATCAACCATCTGCCCGTCGA-CTTAAACCCA
*
2265052 GGAGACTTTCTTTATCAACCATCTGCCCGTCGACTTAAACCC-
1 GGAGAC-TTCTTCATCAACCATCTGCCCGTCGACTTAAACCCA
* * * * * * *
2265094 GAAAGACTTCTTCATCCACCGTCTGCCCGTCGGCTCAGACCTA
1 G-GAGACTTCTTCATCAACCATCTGCCCGTCGACTTAAACCCA
2265137 GGAGACTTCTTCATC
1 GGAGACTTCTTCATC
2265152 TTTTTATTTA
Statistics
Matches: 110, Mismatches: 27, Indels: 11
0.74 0.18 0.07
Matches are distributed among these distances:
41 1 0.01
42 70 0.64
43 38 0.35
44 1 0.01
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (42 bp):
GGAGACTTCTTCATCAACCATCTGCCCGTCGACTTAAACCCA
Found at i:2265144 original size:85 final size:85
Alignment explanation
Indices: 2264944--2265131 Score: 243
Period size: 85 Copynumber: 2.2 Consensus size: 85
2264934 TTTATCTTTT
* * *
2264944 GTCTGCCCATCGGCTCAGTCTCGGGAGACTTCCTTTATCAATCGTCTGCCAGTCGACTTAAACCC
1 GTCTGCCCGTCGGCTCAGTCTCGGGAGACTTCCTTTATCAACCATCTGCCAGTCGACTTAAACCC
* ****
2265009 AGGAGACTTCTTCATTTTTC
66 AGAAGACTTCTTCATCCACC
* * * * *
2265029 ATCTGCCCGTCAGCTTAGTCTCGGGAGACTTTCTTTATCAACCATCTGCCCGTCGACTTAAACCC
1 GTCTGCCCGTCGGCTCAGTCTCGGGAGACTTCCTTTATCAACCATCTGCCAGTCGACTTAAACCC
2265094 -GAAAGACTTCTTCATCCACC
66 AG-AAGACTTCTTCATCCACC
2265114 GTCTGCCCGTCGGCTCAG
1 GTCTGCCCGTCGGCTCAG
2265132 ACCTAGGAGA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
84 1 0.01
85 85 0.99
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (85 bp):
GTCTGCCCGTCGGCTCAGTCTCGGGAGACTTCCTTTATCAACCATCTGCCAGTCGACTTAAACCC
AGAAGACTTCTTCATCCACC
Found at i:2265343 original size:43 final size:43
Alignment explanation
Indices: 2265211--2265356 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
2265201 TTTAATGTTG
* *
2265211 GCTTAGTCCCTGGTAAACCCATTACCCTTATGGTGACCTATCA
1 GCTTAGTCCCCGGTAAACCCATTACCCTTATAGTGACCTATCA
* * * * * * *
2265254 GCTCAGTCTCCGGTCAA-CC-TTCATCC--ATTGTTTACCTATCG
1 GCTTAGTCCCCGGTAAACCCATT-ACCCTTATAG-TGACCTATCA
*
2265295 GCTTAGTCCCCGGTAAACCCATTACCCTTATAGTGACCTCTCA
1 GCTTAGTCCCCGGTAAACCCATTACCCTTATAGTGACCTATCA
* *
2265338 GCTTAGTCTCCGGTCAACC
1 GCTTAGTCCCCGGTAAACC
2265357 TTTATCCTTC
Statistics
Matches: 79, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
40 3 0.04
41 24 0.30
42 10 0.13
43 39 0.49
44 3 0.04
ACGTcount: A:0.21, C:0.34, G:0.16, T:0.30
Consensus pattern (43 bp):
GCTTAGTCCCCGGTAAACCCATTACCCTTATAGTGACCTATCA
Found at i:2265382 original size:84 final size:84
Alignment explanation
Indices: 2265186--2265382 Score: 272
Period size: 84 Copynumber: 2.4 Consensus size: 84
2265176 CCCGGGAAAT
* * * *
2265186 AACCTTCATCCATTATTTA-ATGTTGGCTTAGTCCCTGGTAAACCCATTACCCTTATGGTGACCT
1 AACCTTCATCCATTATTCACCTGTTGGCTTAGTCCCCGGTAAACCCATTACCCTTATAGTGACCT
2265250 ATCAGCTCAGTCTCCGGTC
66 ATCAGCTCAGTCTCCGGTC
* * * *
2265269 AACCTTCATCCATTGTTTACCTATCGGCTTAGTCCCCGGTAAACCCATTACCCTTATAGTGACCT
1 AACCTTCATCCATTATTCACCTGTTGGCTTAGTCCCCGGTAAACCCATTACCCTTATAGTGACCT
* *
2265334 CTCAGCTTAGTCTCCGGTC
66 ATCAGCTCAGTCTCCGGTC
*
2265353 AACCTTTATCC-TTCATTCACCTGTTGGCTT
1 AACCTTCATCCATT-ATTCACCTGTTGGCTT
2265383 GGTCACGAGT
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
83 20 0.20
84 79 0.80
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.35
Consensus pattern (84 bp):
AACCTTCATCCATTATTCACCTGTTGGCTTAGTCCCCGGTAAACCCATTACCCTTATAGTGACCT
ATCAGCTCAGTCTCCGGTC
Found at i:2265631 original size:85 final size:83
Alignment explanation
Indices: 2265523--2265682 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 83
2265513 CCTATTTAAT
* * * * *
2265523 CTTTCATCCTTTGTTTACTTGTCGGCTTAGTCCTAGGTAAATCCCTTTTAT-CTTTGGTTACCTT
1 CTTTCATCCTTTGCTTACCTGTCGGCTTAGTCCCAAGTAAAT-CCTTTTATCCTTT--TTAACTT
2265587 GTTGGTTCATTCTCGATCGAC
63 GTTGGTTCATTCTCGATCGAC
* * *
2265608 CTTTTATCCTTTGCTTACCTGTCGGCTTAGTCCCAAGTGAATCTTTTTATCCTTTTTAACTTGTT
1 CTTTCATCCTTTGCTTACCTGTCGGCTTAGTCCCAAGTAAATCCTTTTATCCTTTTTAACTTGTT
*
2265673 GGTTTATTCT
66 GGTTCATTCT
2265683 TAGCCACCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 18 0.28
84 7 0.11
85 40 0.62
ACGTcount: A:0.14, C:0.23, G:0.15, T:0.48
Consensus pattern (83 bp):
CTTTCATCCTTTGCTTACCTGTCGGCTTAGTCCCAAGTAAATCCTTTTATCCTTTTTAACTTGTT
GGTTCATTCTCGATCGAC
Found at i:2266204 original size:10 final size:12
Alignment explanation
Indices: 2266180--2266216 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
2266170 AAATTTCCTA
2266180 TTTTTGAGAATT
1 TTTTTGAGAATT
2266192 TTTTTGAG-ATT
1 TTTTTGAGAATT
*
2266203 TTTTTGAAAATT
1 TTTTTGAGAATT
2266215 TT
1 TT
2266217 AAGAATTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (12 bp):
TTTTTGAGAATT
Found at i:2267005 original size:166 final size:167
Alignment explanation
Indices: 2266717--2267537 Score: 974
Period size: 166 Copynumber: 5.0 Consensus size: 167
2266707 AAATATAGAG
* * *
2266717 TTTTTTACTCCGTAAATTTTTTTCGAAGGGATTTTTCTTGGTTTTCAA-TTTTAAAATTCATCAA
1 TTTTCTACTTCGTAAATTTTTTTCGAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAA
* * *
2266781 ATATTATCATTTATTTCTTATTAATTCAGTTTTAAAAAATAAATTTATTTTCATGAGTTTTTGAT
66 ACATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTTATTTTCATGAGTTTTT-AT
2266846 TTTTTTCCTTGAAATTTCCTTTTTTCTAAAATACGGT-
130 TTTTTTCCTTGAAATTTCCTTTTTTCTAAAATACGGTA
*
2266883 TTTTCTACTTCGTAAATTTTTTTCGAGGGGATTTTTCTTGGTTTTCAATTTTTAAAACTCATCAA
1 TTTTCTACTTCGTAAATTTTTTTCGAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAA
* * * *
2266948 ATATTATAATTTATTTCATATTAATTCAGTTTTAATAAAT-AATTTATTTTTATGAGTTTTTATT
66 ACATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTTATTTTCATGAGTTTTTATT
* * * * *
2267012 TTTTTACTT-AAAATTCTTTTTTTTCTGAAATACAGTA
131 TTTTTCCTTGAAATTTC-CTTTTTTCTAAAATACGGTA
** * * ** *
2267049 TTTTCTAC-TCCAAAAATTTTTTCGAGGGGACTTTTCGCGGTTTTCAATATTTAAAATTCATCAA
1 TTTTCTACTTCGTAAATTTTTTTCGAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAA
* * *
2267113 ACATCATTATTTATTTCATATTAATTCTGTTTTAAAAAATAAATTCATTTTCATGAGTTTTTTAT
66 ACATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTTATTTTCATGAG-TTTTTAT
* * * *
2267178 TTTTTT-CTTGAAATTTTTCTTTTTTC-GAAATATGGTG
130 TTTTTTCCTTGAAA-TTTCCTTTTTTCTAAAATACGGTA
* * * *
2267215 TTTTCTA-TTCCATAAA-TTTTTTAGAGGGGATTTTTCTTCGTTTTCAATTTTTAAAATTCATTA
1 TTTTCTACTT-CGTAAATTTTTTTCGAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCA
* * * * * * *
2267278 CACATCATTATTAATTTCATATTAATTTAGTTTTAAAAAATAAAATCATTTTCTTGAGTATTTTA
65 AACATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTTATTTTCATGAGT-TTTTA
*
2267343 -TTTTTTCCTTGAAATTTTCTTTTTT-TCAAAATACGGTA
129 TTTTTTTCCTTGAAATTTCCTTTTTTCT-AAAATACGGTA
* * *
2267381 TTTTCTACTCCGTAAATTTTTTT-GAGGGGATTTTTCTTGGTTTTAAAATTTTAAAATTCATCAA
1 TTTTCTACTTCGTAAATTTTTTTCGAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAA
* ** * * *
2267445 ACATTATTATTTGA-TTCATTTTAATTTGGTTTTAAAAAATTAATTTATTTTCATAAGTTTTGGA
66 ACATTATTATTT-ATTTCATATTAATTCAGTTTTAAAAAATAAATTTATTTTCATGAGTTTT-TA
2267509 -TTTTTT--TTGAAA-TTCCTTTTTTCATAAAA
129 TTTTTTTCCTTGAAATTTCCTTTTTTC-TAAAA
2267538 AATCGAGTTT
Statistics
Matches: 566, Mismatches: 70, Indels: 40
0.84 0.10 0.06
Matches are distributed among these distances:
163 9 0.02
164 16 0.03
165 132 0.23
166 320 0.57
167 87 0.15
168 2 0.00
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (167 bp):
TTTTCTACTTCGTAAATTTTTTTCGAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAA
ACATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTTATTTTCATGAGTTTTTATT
TTTTTCCTTGAAATTTCCTTTTTTCTAAAATACGGTA
Found at i:2272934 original size:19 final size:17
Alignment explanation
Indices: 2272910--2272946 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
2272900 ATTTTAAAAT
2272910 ATTTTATTTATTATTTTTA
1 ATTTTA-TT-TTATTTTTA
2272929 ATTTTATTTTATTTTTA
1 ATTTTATTTTATTTTTA
2272946 A
1 A
2272947 ATGATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 2 0.11
19 6 0.33
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTATTTTATTTTTA
Found at i:2273481 original size:22 final size:24
Alignment explanation
Indices: 2273442--2273495 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
2273432 TAAAATTTAT
2273442 ATTTAATTTTAAATAATT-ATCAA
1 ATTTAATTTTAAATAATTAATCAA
2273465 ATTTAATTTT-AATAATTAATCAA
1 ATTTAATTTTAAATAATTAATCAA
*
2273488 ATATAATT
1 ATTTAATT
2273496 ATTTAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
ATTTAATTTTAAATAATTAATCAA
Found at i:2274513 original size:2 final size:2
Alignment explanation
Indices: 2274506--2274542 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2274496 TTCTTTTATT
*
2274506 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2274543 GTATGTATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2276792 original size:20 final size:20
Alignment explanation
Indices: 2276767--2276807 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2276757 TGGTTTGACC
* *
2276767 TAAAATAGTATTTTTTTAAT
1 TAAAATAATATATTTTTAAT
2276787 TAAAATAATATATTTTTAAT
1 TAAAATAATATATTTTTAAT
2276807 T
1 T
2276808 TAGATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TAAAATAATATATTTTTAAT
Found at i:2277256 original size:131 final size:130
Alignment explanation
Indices: 2277084--2277333 Score: 437
Period size: 131 Copynumber: 1.9 Consensus size: 130
2277074 TATTTCGTTC
* *
2277084 TCGTTTATTTTACATGTTAAAGTAAATGAAAGTAAATATGGCTTATTCATTACTTTTGTTTTTAC
1 TCGTTTATTTTACATGTAAAAGTAAATGAAAGTAAATATGGCTTATTCACTACTTTTGTTTTTAC
*
2277149 TGTTAAAATGTTGCATATAATGAATTTCTATATGCAGAAAGGCAACATTTTGATATATTTCATCT
66 TGTTAAAATGTTGCATATAATGAATTTCTATATGCAGAAAGGCAACATTCTGATATATTTCATCT
*
2277214 TCGTTTATTTTACATGTAAAAAGTAAATGAAAGTAACTATGGCTTATTCACTACTTTTGTTTTTA
1 TCGTTTATTTTACATGT-AAAAGTAAATGAAAGTAAATATGGCTTATTCACTACTTTTGTTTTTA
* *
2277279 CTGTTAAAATGTTGCATATAATGAATTTTTATATGTAGAAAGGCAACATTCTGAT
65 CTGTTAAAATGTTGCATATAATGAATTTCTATATGCAGAAAGGCAACATTCTGAT
2277334 GTAGTTAGTC
Statistics
Matches: 113, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
130 17 0.15
131 96 0.85
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.43
Consensus pattern (130 bp):
TCGTTTATTTTACATGTAAAAGTAAATGAAAGTAAATATGGCTTATTCACTACTTTTGTTTTTAC
TGTTAAAATGTTGCATATAATGAATTTCTATATGCAGAAAGGCAACATTCTGATATATTTCATCT
Found at i:2278381 original size:120 final size:119
Alignment explanation
Indices: 2278168--2278401 Score: 369
Period size: 120 Copynumber: 2.0 Consensus size: 119
2278158 GCTCAACATA
* * * * * * *
2278168 ATTCCTTAATGACTGGTTATTGATCGGATTGTCCAAAGTTAGAAGATTCTCAATATGGTGAATAG
1 ATTCCTTAATCAATAGTTATCGATCAGATTATCCAAAGTTAGAAGATTCTCAATATAGTGAATAG
*
2278233 GTATGTCGGACACACTCTTTTTTAAGGGTGCAGGTATTTTTTTCAATAAAATATT
66 GTATGTCGGACACACTCCTTTTTAAGGGTGCAGGTATTTTTTT-AATAAAATATT
*
2278288 ATTCCTTAATCAATAGTTATCGATCAGATTATCCAAAGTTGGAAGATTCTCAATATAGTGAATAG
1 ATTCCTTAATCAATAGTTATCGATCAGATTATCCAAAGTTAGAAGATTCTCAATATAGTGAATAG
*
2278353 GTATGTCGGACACACTCCTTTTTAAGGGTGTAGGTATTTTTTTAATAAA
66 GTATGTCGGACACACTCCTTTTTAAGGGTGCAGGTATTTTTTTAATAAA
2278402 TAATAAAAGA
Statistics
Matches: 104, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
119 6 0.06
120 98 0.94
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.38
Consensus pattern (119 bp):
ATTCCTTAATCAATAGTTATCGATCAGATTATCCAAAGTTAGAAGATTCTCAATATAGTGAATAG
GTATGTCGGACACACTCCTTTTTAAGGGTGCAGGTATTTTTTTAATAAAATATT
Found at i:2284655 original size:11 final size:13
Alignment explanation
Indices: 2284631--2284667 Score: 60
Period size: 11 Copynumber: 3.0 Consensus size: 13
2284621 TAGATTTCTC
2284631 TTTTTCTCTCTTT
1 TTTTTCTCTCTTT
2284644 TTTTTC-CT-TTT
1 TTTTTCTCTCTTT
2284655 TTTTTCTCTCTTT
1 TTTTTCTCTCTTT
2284668 CAGCTGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.41
12 4 0.18
13 9 0.41
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTCTCTCTTT
Found at i:2287775 original size:21 final size:21
Alignment explanation
Indices: 2287751--2287808 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
2287741 GAACTAGAGG
*
2287751 AGAAAATGAATGAGTTGGAAA
1 AGAAAATGAATGAGTTGCAAA
2287772 AGAAAA-GAAATGAGTTGCAAA
1 AGAAAATG-AATGAGTTGCAAA
2287793 ATGAAAATG-ATGAGTT
1 A-GAAAATGAATGAGTT
2287809 AACTAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.03
21 26 0.79
22 5 0.15
23 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.26, T:0.21
Consensus pattern (21 bp):
AGAAAATGAATGAGTTGCAAA
Found at i:2290452 original size:51 final size:51
Alignment explanation
Indices: 2290320--2290465 Score: 213
Period size: 50 Copynumber: 2.9 Consensus size: 51
2290310 AAAAATCACA
* *
2290320 TTTTTACCCAGATGTATTGATACATTTTTCAATGTATCGATACATTTTGTC
1 TTTTTACCCAGATGTATTGATACATTTTTCAATGTATCGATACATTCTATC
* * *
2290371 -TTTTACCCAGATGTATTGATGCATTCTTCAATGTATTGATACATTCTATC
1 TTTTTACCCAGATGTATTGATACATTTTTCAATGTATCGATACATTCTATC
* * *
2290421 TTTTTACCCATATATATTGATACATTTTTCAATGTGTCGATACAT
1 TTTTTACCCAGATGTATTGATACATTTTTCAATGTATCGATACAT
2290466 CTAGCTAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
50 45 0.54
51 38 0.46
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (51 bp):
TTTTTACCCAGATGTATTGATACATTTTTCAATGTATCGATACATTCTATC
Found at i:2295122 original size:22 final size:22
Alignment explanation
Indices: 2295091--2295147 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
2295081 TTTCCCTGTT
* *
2295091 CATCATTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCAATA
*
2295113 CATCACTGTTCACGTATCAATA
1 CATCACTGTTCATGTATCAATA
2295135 CATCACTGTTCAT
1 CATCACTGTTCAT
2295148 CACTATACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.37
Consensus pattern (22 bp):
CATCACTGTTCATGTATCAATA
Found at i:2295667 original size:32 final size:34
Alignment explanation
Indices: 2295586--2295671 Score: 115
Period size: 36 Copynumber: 2.5 Consensus size: 34
2295576 AAGTGATTGA
*
2295586 GAGGTTCTATCTTAGCCTTTGAAAAAGATATGGAGG
1 GAGGTTCTATCTTAGCCTGTGAAAAAGA-AT-GAGG
2295622 GAGGTTCTATCTTAGCCTGTG-AAAAG-AT-AGG
1 GAGGTTCTATCTTAGCCTGTGAAAAAGAATGAGG
2295653 GAGGTTTCTATCTTAGCCT
1 GAGG-TTCTATCTTAGCCT
2295672 ACGAAAAATA
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
31 7 0.15
32 14 0.29
33 2 0.04
35 5 0.10
36 20 0.42
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (34 bp):
GAGGTTCTATCTTAGCCTGTGAAAAAGAATGAGG
Found at i:2295678 original size:32 final size:30
Alignment explanation
Indices: 2295619--2295682 Score: 92
Period size: 32 Copynumber: 2.1 Consensus size: 30
2295609 AAAGATATGG
**
2295619 AGGGAGGTTCTATCTTAGCCTGTGAAAAGAT
1 AGGGAGGTTCTATCTTAGCCTACGAAAA-AT
2295650 AGGGAGGTTTCTATCTTAGCCTACGAAAAAT
1 AGGGAGG-TTCTATCTTAGCCTACGAAAAAT
2295681 AG
1 AG
2295683 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 11 0.37
32 19 0.63
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (30 bp):
AGGGAGGTTCTATCTTAGCCTACGAAAAAT
Found at i:2296342 original size:20 final size:20
Alignment explanation
Indices: 2296317--2296461 Score: 101
Period size: 20 Copynumber: 6.7 Consensus size: 20
2296307 TTTTACCTAG
2296317 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
2296337 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
2296357 ATGTATCGATACCTTCTGTCTTTTTACCTA
1 ATGTATCGATA----C---ATTTTT--C-A
*
2296387 GATGTATTGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * *
2296408 ATGTATCGATACATATATGA
1 ATGTATCGATACATTTTTCA
*
2296428 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
2296448 ATGTATCGAAACAT
1 ATGTATCGATACAT
2296462 CTAGTTAAAA
Statistics
Matches: 96, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
20 73 0.76
21 1 0.01
22 1 0.01
24 6 0.06
27 4 0.04
30 1 0.01
31 10 0.10
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2296427 original size:71 final size:71
Alignment explanation
Indices: 2296306--2296444 Score: 251
Period size: 71 Copynumber: 2.0 Consensus size: 71
2296296 AAAAGTCACA
* *
2296306 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACCT
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATATATGAATGTATCGATACAT
2296371 TCTGTC
66 TCTGTC
*
2296377 TTTTTACCTAGATGTATTGATACATTTTTCAATGTATCGATACATATATGAATGTATCGATACAT
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATATATGAATGTATCGATACAT
2296442 TCT
66 TCT
2296445 TCAATGTATC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (71 bp):
TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATATATGAATGTATCGATACAT
TCTGTC
Found at i:2300087 original size:167 final size:167
Alignment explanation
Indices: 2299888--2300188 Score: 469
Period size: 167 Copynumber: 1.8 Consensus size: 167
2299878 GAAAAGGAAG
* *
2299888 ATTTCAAAGAAAAAAATCCAAAACTCATGAAAATGAATTAAATTTTCAAAAAT-ATTTTAATATG
1 ATTTCAAAGAAAAAAATCAAAAACTCATGAAAATGAATGAAATTTTCAAAAATGA-TTTAATATG
* * ** *
2299952 AATCAAATAATAATATTTGATGAATTTTTAAAATTAAAAATCAAGAAAAATCCTTTCGAAAAAAT
65 AATCAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAAT
2300017 TTACGAAGTAGAAAGCTCCGTATTTTAGAAACTTAGGA
130 TTACGAAGTAGAAAGCTCCGTATTTTAGAAACTTAGGA
* * * * *
2300055 ATTTCAAGGAAAAAATTCAAAAACTTATGAAAATGAATGAATTTTTGAAAAATGATTTAATATGA
1 ATTTCAAAGAAAAAAATCAAAAACTCATGAAAATGAATGAAATTTTCAAAAATGATTTAATATGA
*
2300120 ATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATT
66 ATCAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATT
2300185 TACG
131 TACG
2300189 GAAAAGAAAA
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
167 119 0.99
168 1 0.01
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (167 bp):
ATTTCAAAGAAAAAAATCAAAAACTCATGAAAATGAATGAAATTTTCAAAAATGATTTAATATGA
ATCAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATT
TACGAAGTAGAAAGCTCCGTATTTTAGAAACTTAGGA
Found at i:2300605 original size:2 final size:2
Alignment explanation
Indices: 2300598--2300629 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2300588 TAAAATGCTA
2300598 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
2300630 TTTTGAATAT
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:2304274 original size:52 final size:52
Alignment explanation
Indices: 2304196--2304350 Score: 231
Period size: 52 Copynumber: 3.0 Consensus size: 52
2304186 CGAAATATGA
2304196 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
* * * *
2304248 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
***
2304300 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACATTTGGG
1 AAATTTGCCTGCATGTATCGATACATTTCAT-AGTGTATCGATACATTTGGG
2304351 TAATGTATTG
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 2 0.02
52 90 0.98
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
Found at i:2304437 original size:19 final size:18
Alignment explanation
Indices: 2304397--2304444 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
2304387 AGCGATACAT
*
2304397 TGTATCGATAC-AACTTA
1 TGTATCGATACAAACTCA
2304414 TGTATCGATACAACACTCA
1 TGTATCGATACAA-ACTCA
2304433 TGTATCGATACA
1 TGTATCGATACA
2304445 TTGTATCGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 11 0.39
18 1 0.04
19 16 0.57
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (18 bp):
TGTATCGATACAAACTCA
Found at i:2304451 original size:13 final size:13
Alignment explanation
Indices: 2304433--2304457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2304423 ACAACACTCA
2304433 TGTATCGATACAT
1 TGTATCGATACAT
2304446 TGTATCGATACA
1 TGTATCGATACA
2304458 AATCGTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2304557 original size:21 final size:21
Alignment explanation
Indices: 2304495--2304550 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
2304485 GTTGGGACCT
2304495 TGTATCGATACATTCTAACAA
1 TGTATCGATACATTCTAACAA
2304516 TGTATCGATACATTCTAACAA
1 TGTATCGATACATTCTAACAA
2304537 TGTATCGATACATT
1 TGTATCGATACATT
2304551 TGGACAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTAACAA
Found at i:2305296 original size:102 final size:101
Alignment explanation
Indices: 2305174--2305770 Score: 827
Period size: 102 Copynumber: 6.1 Consensus size: 101
2305164 TTTAGGAATG
* *
2305174 TTAAAGATGAAGGTGGCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTGAAAGATGACAAAG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGACAAAG
* * *
2305239 GCGCCAATATGCTAATTCAAGGCCAACGATATTGGAC
65 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
2305276 TTAAAGATGAAGGTGCCAATGTGCAGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGACAAAG
*
2305341 GAT-CCAATATGCTGATTCAAGGCCAGCAATATTGGAC
65 G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
2305378 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAAGATGACAAAG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGACAAAG
*
2305443 GCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
65 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2305480 TTAAAGATGAAGGTGCCAATGTGCGGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAAGG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGG
*
2305542 TGCCAATATGCTGATTCAAGG-TAGCGATATTGGA-
66 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
2305576 TT-----TAAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCGTAAAGATG----AGG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGG
*
2305632 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
66 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2305668 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATG----AGG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGG
* *
2305729 TGCCAATATGCTGATTCAAGACCAGCGATATTGGAT
66 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
2305765 TTAAAG
1 TTAAAG
2305771 GTGCCACCGA
Statistics
Matches: 454, Mismatches: 29, Indels: 29
0.89 0.06 0.06
Matches are distributed among these distances:
90 24 0.05
91 51 0.11
92 4 0.01
93 1 0.00
94 1 0.00
96 2 0.00
97 102 0.22
98 28 0.06
99 1 0.00
100 2 0.00
102 238 0.52
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (101 bp):
TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGG
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:2305322 original size:49 final size:49
Alignment explanation
Indices: 2305174--2305770 Score: 701
Period size: 49 Copynumber: 12.1 Consensus size: 49
2305164 TTTAGGAATG
* * *
2305174 TTAAAGATGAAGGTGGCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
2305223 TTGAAAGATGACAAAGGCGCCAATATGCTAATTCAAGGCCAACGATATTGGAC
1 TT-AAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
2305276 TTAAAGATGAAGGTGCCAATGTGCAGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
2305325 TTAAAAGATGACAAAGGAT-CCAATATGCTGATTCAAGGCCAGCAATATTGGAC
1 TT-AAAGATG---AAGG-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
2305378 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
2305427 TTAAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
2305480 TTAAAGATGAAGGTGCCAATGTGCGGATTCAAGGCCAGCGACATTGGTC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
** * *
2305529 TTAAAGACAAAGGTGCCAATATGCTGATTCAAGG-TAGCGATATTGGA-
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
2305576 TT-----TAAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
*
2305620 GTAAAGATG-AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
2305668 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
2305717 TTAAAGATG-AGGTGCCAATATGCTGATTCAAGACCAGCGATATTGGAT
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
2305765 TTAAAG
1 TTAAAG
2305771 GTGCCACCGA
Statistics
Matches: 468, Mismatches: 58, Indels: 45
0.82 0.10 0.08
Matches are distributed among these distances:
42 25 0.05
43 11 0.02
44 1 0.00
47 2 0.00
48 93 0.20
49 184 0.39
50 21 0.04
52 21 0.04
53 109 0.23
54 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
Found at i:2305604 original size:21 final size:20
Alignment explanation
Indices: 2305538--2305604 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
2305528 CTTAAAGACA
2305538 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
* *
2305559 AAGGTAGCGATATTG--GATTTA
1 AAGGT-GCCA-ATTGCTGA-TTC
2305580 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
2305601 AAGG
1 AAGG
2305605 CTAGCGACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
19 2 0.06
20 7 0.19
21 18 0.50
22 7 0.19
23 2 0.06
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (20 bp):
AAGGTGCCAATTGCTGATTC
Found at i:2305693 original size:139 final size:140
Alignment explanation
Indices: 2305439--2305763 Score: 420
Period size: 139 Copynumber: 2.3 Consensus size: 140
2305429 AAAAGATGAC
* * *
2305439 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACGTAAAGATGAAGGTGCCAATATGC
*
2305504 GGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAAGGTAGCGA
66 GGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGCTGATTCAAGGTAGCGA
2305569 TATTGGATTT
131 TATTGGATTT
* * * *
2305579 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCGTAAAGATG-AGGTGCCAATATGC
1 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACGTAAAGATGAAGGTGCCAATATGC
* * * * *
2305643 TGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAACG
66 GGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGCTGATTCAAGG-TAGCG
*
2305708 ACATTGG-TCTT
130 ATATTGGAT-TT
* * *
2305719 AAAGATGAGGTGCCAATATGCTGATTCAAGACCAGCGATATTGGA
1 --A-A--AGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGA
2305764 TTTAAAGGTG
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
139 69 0.43
140 55 0.35
142 1 0.01
143 1 0.01
145 33 0.21
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (140 bp):
AAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACGTAAAGATGAAGGTGCCAATATGC
GGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGCTGATTCAAGGTAGCGA
TATTGGATTT
Found at i:2305815 original size:33 final size:33
Alignment explanation
Indices: 2305772--2305861 Score: 171
Period size: 33 Copynumber: 2.7 Consensus size: 33
2305762 GATTTAAAGG
2305772 TGCCACCGACTTGTGTGGGCTTTAGAGAATGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAATGGT
*
2305805 TGCCATCGACTTGTGTGGGCTTTAGAGAATGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAATGGT
2305838 TGCCACCGACTTGTGTGGGCTTTA
1 TGCCACCGACTTGTGTGGGCTTTA
2305862 AAAGGGGGTG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.32
Consensus pattern (33 bp):
TGCCACCGACTTGTGTGGGCTTTAGAGAATGGT
Found at i:2305941 original size:34 final size:33
Alignment explanation
Indices: 2305868--2306055 Score: 129
Period size: 32 Copynumber: 5.7 Consensus size: 33
2305858 TTTAAAAGGG
* *
2305868 GGTGCCACGAGGTTGTGGAC-TTAAAAGGAAAA
1 GGTGCCACGAAGTTGTGGACTTTAAAAGAAAAA
*
2305900 GGATGCCACAAAGTTGTGGACTTTGAAAAGAAAAA
1 GG-TGCCACGAAGTTGTGGACTTT-AAAAGAAAAA
* * *
2305935 GGTGCCATGGAGTTGTGGA-TTTAGAAGGAAAAA
1 GGTGCCACGAAGTTGTGGACTTTA-AAAGAAAAA
* * * *
2305968 GAGTGCCACGGAGTTGTGGGCTTT-GAAG-AATA
1 G-GTGCCACGAAGTTGTGGACTTTAAAAGAAAAA
* * *
2306000 GGATGCCACTGAA-TCGTGGACTTT-GAAGAAAAT
1 GG-TGCCAC-GAAGTTGTGGACTTTAAAAGAAAAA
* *
2306033 GATGCCACTGAA-TCGTGGACTTT
1 GGTGCCAC-GAAGTTGTGGACTTT
2306056 GAGACAAAAT
Statistics
Matches: 129, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
31 1 0.01
32 47 0.36
33 35 0.27
34 32 0.25
35 14 0.11
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.23
Consensus pattern (33 bp):
GGTGCCACGAAGTTGTGGACTTTAAAAGAAAAA
Found at i:2306024 original size:32 final size:30
Alignment explanation
Indices: 2305965--2306121 Score: 149
Period size: 32 Copynumber: 5.1 Consensus size: 30
2305955 TTAGAAGGAA
* * * *
2305965 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAGA-TGCCACTGAATCGTGGACTTTGAAG
2305996 AATAGGATGCCACTGAATCGTGGACTTTGAAG
1 AA-A-GATGCCACTGAATCGTGGACTTTGAAG
2306028 AAAATGATGCCACTGAATCGTGGACTTTG-AG
1 -AAA-GATGCCACTGAATCGTGGACTTTGAAG
* * *
2306059 ACAAAATGCCACTGAGTCGTGGGCTTTG-AG
1 A-AAGATGCCACTGAATCGTGGACTTTGAAG
*
2306089 AAGAGATTGCCACTGAGTCGTGGACTTT-AAG
1 AA-AGA-TGCCACTGAATCGTGGACTTTGAAG
2306120 AA
1 AA
2306122 GGTATTTGAA
Statistics
Matches: 109, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
29 1 0.01
30 27 0.25
31 30 0.28
32 47 0.43
33 4 0.04
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (30 bp):
AAAGATGCCACTGAATCGTGGACTTTGAAG
Found at i:2307369 original size:17 final size:18
Alignment explanation
Indices: 2307342--2307379 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2307332 TGTGTGTGTT
**
2307342 TTTTATTTTTTTGTTTTG
1 TTTTATTTTTTACTTTTG
2307360 TTTT-TTTTTTACTTTTG
1 TTTTATTTTTTACTTTTG
2307377 TTT
1 TTT
2307380 GTGTGTTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.05, C:0.03, G:0.08, T:0.84
Consensus pattern (18 bp):
TTTTATTTTTTACTTTTG
Found at i:2307379 original size:22 final size:20
Alignment explanation
Indices: 2307327--2307369 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
2307317 CCTTTGCACC
*
2307327 TTTTTTGTGTGTGTTTTTTAT
1 TTTTTTGT-TTTGTTTTTTAT
2307348 TTTTTTGTTTTGTTTTTT-T
1 TTTTTTGTTTTGTTTTTTAT
2307367 TTT
1 TTT
2307370 ACTTTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 9 0.43
21 8 0.38
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (20 bp):
TTTTTTGTTTTGTTTTTTAT
Found at i:2307380 original size:21 final size:19
Alignment explanation
Indices: 2307327--2307381 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
2307317 CCTTTGCACC
*
2307327 TTTTTTGTGTGTGTTTTTTA
1 TTTTTT-TGTTTGTTTTTTA
*
2307347 TTTTTTTGTTTTGTTTTTTT
1 TTTTTTTG-TTTGTTTTTTA
2307367 TTTACTTTTGTTTGT
1 TTT--TTTTGTTTGT
2307382 GTGTTTACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 2 0.07
20 18 0.60
21 5 0.17
22 5 0.17
ACGTcount: A:0.04, C:0.02, G:0.15, T:0.80
Consensus pattern (19 bp):
TTTTTTTGTTTGTTTTTTA
Found at i:2307393 original size:25 final size:22
Alignment explanation
Indices: 2307350--2307400 Score: 57
Period size: 25 Copynumber: 2.2 Consensus size: 22
2307340 TTTTTTATTT
* *
2307350 TTTTGTTTTGTTTTTTTTTTAC
1 TTTTGTTTTGTTTTCTTTTGAC
2307372 TTTTGTTTGTGTGTTTACTTTTGAC
1 TTTTGTTT-TGT-TTT-CTTTTGAC
2307397 TTTT
1 TTTT
2307401 TCATTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.33
23 3 0.12
24 3 0.12
25 10 0.42
ACGTcount: A:0.06, C:0.06, G:0.14, T:0.75
Consensus pattern (22 bp):
TTTTGTTTTGTTTTCTTTTGAC
Found at i:2311755 original size:42 final size:40
Alignment explanation
Indices: 2311644--2311756 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 40
2311634 GGCTTGAGCC
* * *
2311644 GACAGGCAGACCAAAAAATGAAAAAGTCTTTCGAGCTTAAG
1 GACAGGCAGA-CAAAAGATAAAAAAGTCTTCCGAGCTTAAG
* * * *
2311685 CAAAGGGCAAACAAAAGATAAAGGAAGTCTTCCGAGCTTAAG
1 GACA-GGCAGACAAAAGATAAA-AAAGTCTTCCGAGCTTAAG
2311727 TTGACAGGCAGACAAAAGATAAAAAAGTCT
1 --GACAGGCAGACAAAAGATAAAAAAGTCT
2311757 CCTGGGTCTG
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
41 11 0.19
42 28 0.49
43 16 0.28
44 2 0.04
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (40 bp):
GACAGGCAGACAAAAGATAAAAAAGTCTTCCGAGCTTAAG
Found at i:2311784 original size:42 final size:42
Alignment explanation
Indices: 2311733--2312513 Score: 436
Period size: 42 Copynumber: 18.5 Consensus size: 42
2311723 TAAGTTGACA
* *
2311733 GGCAGACAAAAGATAAAAAAGTCTCCTGGGTCTGAGCCAATG
1 GGCAGACAAAAGATAAAGAAGTCTCCTGGGTCTGAGCCGATG
* *** * *
2311775 GGCAAACAAAAGATAAAGAAGTCTCCCAAGTTTGAGCCAACT-
1 GGCAGACAAAAGATAAAGAAGTCTCCTGGGTCTGAGCCGA-TG
* * * * * *
2311817 GGTAGACAAATGATAAAAAAGTCTCC-GGGTTTAAGCTGATG
1 GGCAGACAAAAGATAAAGAAGTCTCCTGGGTCTGAGCCGATG
* * * *
2311858 GGCAGATAAAAAGATGAAGAAG--TCCTGGGGTTTGAGCCGATA
1 GGCAGA-CAAAAGATAAAGAAGTCTCCT-GGGTCTGAGCCGATG
* * * * *
2311900 GGTAGACAAAAGATAAAAAAGTCTCTTGAGTTTGAGCCGATG
1 GGCAGACAAAAGATAAAGAAGTCTCCTGGGTCTGAGCCGATG
* * * * *
2311942 GGTAGACAAATGATAAAAAAGTCTCCTAGGTCTGAGCTGATG
1 GGCAGACAAAAGATAAAGAAGTCTCCTGGGTCTGAGCCGATG
* * * * * * ** ** *
2311984 AGCAAACAAATGAAAAAAAAATCTTTTAAGTCTGAGCCGAGG
1 GGCAGACAAAAGATAAAGAAGTCTCCTGGGTCTGAGCCGATG
* * * * **
2312026 GGCAGGCAAAAAGATGAAGAAGTCTCAC-AGGTTTGAGTTGAT-
1 GGCAGAC-AAAAGATAAAGAAGTCTC-CTGGGTCTGAGCCGATG
* * * * *
2312068 GGTAGACAAAAAGATGAAGAAGTCTTCC-GAGTCTAAGCCAATG
1 GGCAGAC-AAAAGATAAAGAAGTC-TCCTGGGTCTGAGCCGATG
* *
2312111 GGCAGACAAAAAGATAAAGAAGTCT-CTCGGGTCTAAGCCAATG
1 GGCAGAC-AAAAGATAAAGAAGTCTCCT-GGGTCTGAGCCGATG
* * * * * *
2312154 GGCAAAGAAAAAAGATAAAAAAGTCTTCC-GAGTCTGAGTCAACG
1 GGC--AGACAAAAGATAAAGAAGTC-TCCTGGGTCTGAGCCGATG
* * *
2312198 GGCAGACAAAAGATAAAGAA-ACTCCTGAGTCTGAGCCGACG
1 GGCAGACAAAAGATAAAGAAGTCTCCTGGGTCTGAGCCGATG
* **
2312239 GGCAGAAAAAAGATAAAGATA-TCTCCCAGGTCTGAGCCGATG
1 GGCAGACAAAAGATAAAGA-AGTCTCCTGGGTCTGAGCCGATG
* * * * ** **
2312281 GGTAGACAAATAGATGAAGAAGTCTCCTAGG-CTGAACTAACA
1 GGCAGACAAA-AGATAAAGAAGTCTCCTGGGTCTGAGCCGATG
* * * ** *
2312323 GGTAGACAAAAGATAAAGAAGTTTCTTGGGTCTGAATCAATG
1 GGCAGACAAAAGATAAAGAAGTCTCCTGGGTCTGAGCCGATG
* * * * * *
2312365 GTCAGACAAATGATAAAGAAGTTTCTTGTGTCTGAGTCGATG
1 GGCAGACAAAAGATAAAGAAGTCTCCTGGGTCTGAGCCGATG
* * * * *
2312407 GGCAGACAAATA-ATAAAGAAGTTTCCCGGGTTTGAGCTGATA
1 GGCAGACAAA-AGATAAAGAAGTCTCCTGGGTCTGAGCCGATG
* * * * * * * *
2312449 AGTAGACAAAAAGATAAAGAAGGCTCCCGAGTCTGGGCTGACG
1 GGCAGAC-AAAAGATAAAGAAGTCTCCTGGGTCTGAGCCGATG
* *
2312492 GGCTGACAAATGATAAAGAAGT
1 GGCAGACAAAAGATAAAGAAGT
2312514 TTGGAATGAG
Statistics
Matches: 578, Mismatches: 136, Indels: 50
0.76 0.18 0.07
Matches are distributed among these distances:
40 7 0.01
41 74 0.13
42 351 0.61
43 112 0.19
44 29 0.05
45 4 0.01
46 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (42 bp):
GGCAGACAAAAGATAAAGAAGTCTCCTGGGTCTGAGCCGATG
Found at i:2312201 original size:44 final size:41
Alignment explanation
Indices: 2312075--2312255 Score: 177
Period size: 43 Copynumber: 4.3 Consensus size: 41
2312065 GATGGTAGAC
* * *
2312075 AAAAAGATGAAGAAGTCTTCCGAGTCTAAGCCAATGGGCAGA
1 AAAAAGATAAAAAAGTC-TCCGAGTCTAAGCCAACGGGCAGA
* * *
2312117 CAAAAAGATAAAGAAGTCTCTCGGGTCTAAGCCAATGGGCAAAGA
1 -AAAAAGATAAAAAAGTCTC-CGAGTCTAAGCCAACGGGC--AGA
* *
2312162 AAAAAGATAAAAAAGTCTTCCGAGTCTGAGTCAACGGGCAGA
1 AAAAAGATAAAAAAGTC-TCCGAGTCTAAGCCAACGGGCAGA
* * *
2312204 CAAAAGATAAAGAAA--CTCCTGAGTCTGAGCCGACGGGCAGA
1 AAAAAGATAAA-AAAGTCTCC-GAGTCTAAGCCAACGGGCAGA
2312245 AAAAAGATAAA
1 AAAAAGATAAA
2312256 GATATCTCCC
Statistics
Matches: 121, Mismatches: 11, Indels: 14
0.83 0.08 0.10
Matches are distributed among these distances:
40 3 0.02
41 30 0.25
42 15 0.12
43 37 0.31
44 31 0.26
45 5 0.04
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (41 bp):
AAAAAGATAAAAAAGTCTCCGAGTCTAAGCCAACGGGCAGA
Found at i:2313042 original size:89 final size:89
Alignment explanation
Indices: 2312907--2313252 Score: 467
Period size: 89 Copynumber: 3.9 Consensus size: 89
2312897 TGGGAAGCAC
* * * * ** *
2312907 CTTTGCTCCAAGGAAATCAAGTTTTGGGACGCATCAATACTATCTAGTGGTTGGATGAAGGGGAT
1 CTTTGCCCCAAGGAAATCAGGCTTTGTGATACATCAATACCATCTAGTGGTTGGATGAAGGGGAT
*
2312972 ATGATTAGGGATGTGTGGGCTACA
66 ATGATTAGGGATGTATGGGCTACA
* * *
2312996 CCTTGCCCCAAGGAAATTAGGCTTTGTGATACATGAATACCATCTAGTGGTTGGATGAAGGGGAT
1 CTTTGCCCCAAGGAAATCAGGCTTTGTGATACATCAATACCATCTAGTGGTTGGATGAAGGGGAT
* *
2313061 ATGATTAAGGATATATGGGCTACA
66 ATGATTAGGGATGTATGGGCTACA
*
2313085 CTTTGCCCCAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGGATGAAGGGGAT
1 CTTTGCCCCAAGGAAATCAGGCTTTGTGATACATCAATACCATCTAGTGGTTGGATGAAGGGGAT
* * *
2313150 ATAATTTGGGATGTATGCGCTACA
66 ATGATTAGGGATGTATGGGCTACA
* ** * * * *
2313174 CTTTGCCCTAAGGAAATCAGGCTTCATGATACATCAATGCCATTTAGTGATTGGGTGAAGGGGAT
1 CTTTGCCCCAAGGAAATCAGGCTTTGTGATACATCAATACCATCTAGTGGTTGGATGAAGGGGAT
*
2313239 ATGATTAGGAATGT
66 ATGATTAGGGATGT
2313253 GTGCTTTCCA
Statistics
Matches: 224, Mismatches: 33, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 224 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (89 bp):
CTTTGCCCCAAGGAAATCAGGCTTTGTGATACATCAATACCATCTAGTGGTTGGATGAAGGGGAT
ATGATTAGGGATGTATGGGCTACA
Found at i:2313947 original size:81 final size:81
Alignment explanation
Indices: 2313797--2313949 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
2313787 AGGCAAATGT
* * * * * * * ***
2313797 GAATGTTATCTAATGGTGCGGATGCATGTTAAATGATGTAAATGCAAGCATCAATAAAATGGTGG
1 GAATGTTATCTAATAGTGCAGATGCACGTGAAATGATGCAAATGCAAGCATAAATAAAATAGCAA
2313862 ATGCATACGAGTTGAG
66 ATGCATACGAGTTGAG
* *
2313878 GAATGTTATCTAATAGTGTAGATGCACGTGGAATGATGCAAATGCAAGCATAAATAAAATAGCAA
1 GAATGTTATCTAATAGTGCAGATGCACGTGAAATGATGCAAATGCAAGCATAAATAAAATAGCAA
2313943 ATGCATA
66 ATGCATA
2313950 TGGAATGATG
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (81 bp):
GAATGTTATCTAATAGTGCAGATGCACGTGAAATGATGCAAATGCAAGCATAAATAAAATAGCAA
ATGCATACGAGTTGAG
Found at i:2315059 original size:11 final size:10
Alignment explanation
Indices: 2315034--2315058 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2315024 TTTCCTCATC
2315034 TTTTTCATTT
1 TTTTTCATTT
2315044 TTTTTCATTT
1 TTTTTCATTT
2315054 TTTTT
1 TTTTT
2315059 TTTCTGCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:2315114 original size:12 final size:13
Alignment explanation
Indices: 2315089--2315124 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
2315079 TGCACGTTTT
*
2315089 TTTTTCATTCTCA
1 TTTTTCATTTTCA
2315102 TTTTTC-TTTTCA
1 TTTTTCATTTTCA
2315114 TTTTTCATTTT
1 TTTTTCATTTT
2315125 TTGGTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTCATTTTCA
Found at i:2315121 original size:19 final size:17
Alignment explanation
Indices: 2315048--2315126 Score: 63
Period size: 18 Copynumber: 4.5 Consensus size: 17
2315038 TCATTTTTTT
2315048 TCATTTTTTTTT--TTC
1 TCATTTTTTTTTCATTC
* *
2315063 TGCACTTTTTCTTCATTGC
1 T-CATTTTTTTTTCATT-C
* *
2315082 ACGTTTTTTTTTCATTC
1 TCATTTTTTTTTCATTC
*
2315099 TCATTTTTCTTTTCATTTT
1 TCATTTTT-TTTTCA-TTC
2315118 TCATTTTTT
1 TCATTTTTT
2315127 GGTTTTTCTT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
15 1 0.02
16 9 0.18
17 7 0.14
18 21 0.43
19 11 0.22
ACGTcount: A:0.10, C:0.18, G:0.04, T:0.68
Consensus pattern (17 bp):
TCATTTTTTTTTCATTC
Found at i:2315125 original size:36 final size:34
Alignment explanation
Indices: 2315044--2315135 Score: 80
Period size: 36 Copynumber: 2.6 Consensus size: 34
2315034 TTTTTCATTT
2315044 TTTTTCATTTTTTTTTTTCTGCACTTTTTCTTCA
1 TTTTTCATTTTTTTTTTTCTGCACTTTTTCTTCA
*** *
2315078 TTGCACGTTTTTTTTTCATTCT-CA-TTTTTCTTTTCA
1 TTTTTCATTTTTTTTT--TTCTGCACTTTTTC--TTCA
2315114 TTTTTCATTTTTTGGTTTTTCT
1 TTTTTCATTTTTT--TTTTTCT
2315136 TATTTAGAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
34 18 0.41
35 2 0.05
36 21 0.48
38 3 0.07
ACGTcount: A:0.09, C:0.16, G:0.05, T:0.70
Consensus pattern (34 bp):
TTTTTCATTTTTTTTTTTCTGCACTTTTTCTTCA
Found at i:2323436 original size:1 final size:1
Alignment explanation
Indices: 2323430--2323581 Score: 106
Period size: 1 Copynumber: 152.0 Consensus size: 1
2323420 AAATCTTCAC
* * ** * **
2323430 TTTTTTTTTTGTTTTTTTTTTTTTCTTTTTCCTTTTTTTTTTTTTTTCTTTTTCCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * **** * * * * **
2323495 TCTTTTTTCTTTTTTTTTTTCCAATTTTTTTTTTGTTTTGTTTTTTTCTTTTCTTTTTCCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
2323560 TTTGTTTTGTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
2323582 CCAATTGCCA
Statistics
Matches: 118, Mismatches: 33, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 118 1.00
ACGTcount: A:0.01, C:0.10, G:0.03, T:0.86
Consensus pattern (1 bp):
T
Found at i:2323548 original size:70 final size:65
Alignment explanation
Indices: 2323462--2323587 Score: 171
Period size: 67 Copynumber: 1.9 Consensus size: 65
2323452 TTCTTTTTCC
* * * *
2323462 TTTTTTTTTTTTTTTCTTTTTCCTTTTTTTTTTTCTTTTTTCTTTTTTTTTTTCCAATTTTTTTT
1 TTTTTTTTTTTCTTTCTTTTTCC-TTTTTTTTGT-TTTGTT-TTTTTCTTTTTCCAATTTTTTTT
2323527 TTG
63 TTG
2323530 TTTTGTTTTTTTCTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTCTTTTTCCAATT
1 TTTT-TTTTTTTC-TTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTCTTTTTCCAATT
2323588 GCCATGCATC
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
67 16 0.31
68 9 0.17
69 16 0.31
70 11 0.21
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (65 bp):
TTTTTTTTTTTCTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTCTTTTTCCAATTTTTTTTTTG
Found at i:2337992 original size:34 final size:33
Alignment explanation
Indices: 2337944--2338007 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
2337934 CAAGTGATTG
*
2337944 AGAGGTCCTCTCTTAGCCTTGTAAAAGATAGGGA
1 AGAGGTCCTATCTTAGCCTT-TAAAAGATAGGGA
* *
2337978 AGAGGTTCTATCTTAGCCTTTGAAAGATAG
1 AGAGGTCCTATCTTAGCCTTTAAAAGATAG
2338008 TGTTGTAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (33 bp):
AGAGGTCCTATCTTAGCCTTTAAAAGATAGGGA
Found at i:2339132 original size:3 final size:3
Alignment explanation
Indices: 2339124--2339149 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2339114 CCAAGAGGAA
2339124 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
2339150 GCAAGAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:2343351 original size:27 final size:27
Alignment explanation
Indices: 2343321--2343374 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
2343311 CGTGTAGCAC
*
2343321 TTTTGATGATGTTTGAATGATCTTGTA
1 TTTTGATGATATTTGAATGATCTTGTA
* * * *
2343348 TTTTTATGCTATTTGATTGATGTTGTA
1 TTTTGATGATATTTGAATGATCTTGTA
2343375 ATTGTTTGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.20, C:0.04, G:0.20, T:0.56
Consensus pattern (27 bp):
TTTTGATGATATTTGAATGATCTTGTA
Found at i:2344487 original size:33 final size:33
Alignment explanation
Indices: 2344445--2344508 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2344435 CAAGGAATTT
***
2344445 TATCGATACATTTTTCTGTGTATCGATACATTA
1 TATCGATACATCGATCTGTGTATCGATACATTA
*
2344478 TATCGATACATCGATCTTTGTATCGATACAT
1 TATCGATACATCGATCTGTGTATCGATACAT
2344509 CTAGGAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (33 bp):
TATCGATACATCGATCTGTGTATCGATACATTA
Found at i:2346768 original size:51 final size:51
Alignment explanation
Indices: 2346711--2346894 Score: 221
Period size: 51 Copynumber: 3.6 Consensus size: 51
2346701 TTAAGTTTCT
*
2346711 CAATTTTTCATAATCGAGGG-TACTCCAACCCCGGTTTTATTTCTAAAACAC
1 CAATTTTCCATAATCG-GGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
* * * * *
2346762 TAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTT-TCGAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACAC
* *
2346813 CAATTTTCCACT-ATCGGGGATACTCCAACCCCAGTTTTATTTCCAAAACAC
1 CAATTTTCCA-TAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
* **
2346864 CAATTTTCTATAATTAGGGATACTCCAACCC
1 CAATTTTCCATAATCGGGGATACTCCAACCC
2346895 TGTTATTTCC
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
50 5 0.04
51 107 0.96
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (51 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
Found at i:2349052 original size:4 final size:4
Alignment explanation
Indices: 2349043--2349069 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2349033 TTTTGAGGTG
2349043 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
2349070 GTTTGTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:2359356 original size:6 final size:6
Alignment explanation
Indices: 2359345--2359396 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
2359335 CTCTTCTAAA
*
2359345 AAAAAC AAAAAC AAAAAC -GAAA- AAAAAC AAAAAC -AAAA- AAAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
2359389 -AAAAC AAA
1 AAAAAC AAA
2359397 GAAAAAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
5 19 0.49
6 20 0.51
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:2359367 original size:22 final size:20
Alignment explanation
Indices: 2359342--2359396 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 20
2359332 CTTCTCTTCT
2359342 AAAAAAAACAAAAACAAAAA
1 AAAAAAAACAAAAACAAAAA
2359362 CGAAAAAAAACAAAAACAAAAA
1 --AAAAAAAACAAAAACAAAAA
2359384 AAAACAAAACAAA
1 AAAA-AAAACAAA
2359397 GAAAAAAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.12
21 8 0.25
22 20 0.62
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAAAAAACAAAAACAAAAA
Found at i:2359370 original size:16 final size:16
Alignment explanation
Indices: 2359342--2359403 Score: 83
Period size: 16 Copynumber: 3.9 Consensus size: 16
2359332 CTTCTCTTCT
*
2359342 AAAAA-AAACAAAAAC
1 AAAAACAAAAAAAAAC
*
2359357 AAAAACGAAAAAAAAC
1 AAAAACAAAAAAAAAC
2359373 AAAAACAAAAAAAAAC
1 AAAAACAAAAAAAAAC
2359389 -AAAACAAAGAAAAAA
1 AAAAACAAA-AAAAAA
2359404 GAGAGAAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
15 13 0.31
16 29 0.69
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAACAAAAAAAAAC
Found at i:2360499 original size:55 final size:55
Alignment explanation
Indices: 2360405--2360744 Score: 373
Period size: 55 Copynumber: 6.0 Consensus size: 55
2360395 GACGCCTTTT
*
2360405 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACG
* * *
2360460 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGAACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
* * *
2360515 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
* * * *
2360570 CCTCTT-AAAGCCCACACAAGTTGGTAGCATTTTCTAGTTCTCAAAAAGCAGGATGCTTT
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGA--C--G
* ** *
2360629 CTCTTTGCAAAGCCCATACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTTT
1 C-CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGG--A-C--G
2360691 CCTTTTCAAAGCCCACACGAA-TTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGA
1 CC-TTTCAAAGCCCACAC-AAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGA
2360745 TGCACTTCAT
Statistics
Matches: 248, Mismatches: 23, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
54 3 0.01
55 144 0.58
56 2 0.01
57 1 0.00
59 4 0.02
60 2 0.01
61 79 0.32
62 12 0.05
63 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (55 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
Found at i:2360547 original size:27 final size:27
Alignment explanation
Indices: 2360466--2360547 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 27
2360456 GACGCCTTTC
2360466 AAAGCCCACACAAGTTGGTGGCATTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT
** * * * * *** *
2360493 CCAGTCCTCAAAGAGTAGAACGCCTTTT
1 AAAGCCCACACA-AGTTGGTGGCATTTT
2360521 AAAGCCCACACAAGTTGGTGGCATTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT
2360548 CCAGTCCTCA
Statistics
Matches: 34, Mismatches: 20, Indels: 2
0.61 0.36 0.04
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (27 bp):
AAAGCCCACACAAGTTGGTGGCATTTT
Found at i:2360801 original size:41 final size:42
Alignment explanation
Indices: 2360722--2360807 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 42
2360712 TTGGTGGCAC
* *
2360722 TTTTTAGTCCTCAAAGAGCAGGATGCACTTCATTTTTCTCTTT
1 TTTTTAGTCCTCAAAGAGCAGGACGCACTTCA-GTTTCTCTTT
* *
2360765 TTTTTTGTCCTCAAAGAGCAGGACGCATTTC-GTTTCTCTTT
1 TTTTTAGTCCTCAAAGAGCAGGACGCACTTCAGTTTCTCTTT
2360806 TT
1 TT
2360808 CCTCGAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 11 0.28
43 28 0.72
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (42 bp):
TTTTTAGTCCTCAAAGAGCAGGACGCACTTCAGTTTCTCTTT
Found at i:2361430 original size:13 final size:13
Alignment explanation
Indices: 2361412--2361437 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2361402 CATTTTTCTG
2361412 TGTATCGATACAT
1 TGTATCGATACAT
2361425 TGTATCGATACAT
1 TGTATCGATACAT
2361438 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2361434 original size:33 final size:33
Alignment explanation
Indices: 2361392--2361457 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2361382 ACCAAGGAAA
***
2361392 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATCGATCTGTGTATCGATACAT
*
2361425 TGTATCGATACATCGATCTTTGTATCGATACAT
1 TGTATCGATACATCGATCTGTGTATCGATACAT
2361458 CTAGGAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATCGATCTGTGTATCGATACAT
Found at i:2363852 original size:51 final size:50
Alignment explanation
Indices: 2363796--2363978 Score: 231
Period size: 51 Copynumber: 3.6 Consensus size: 50
2363786 TAAGTTTCTC
* * * *
2363796 AATTTTTCATAATCGGGGGTACTCCAACCCCGGTTTTATTTCTAAAACACT
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTT-TAAAACACT
* * * *
2363847 AATTTTCCACAATCGAGGATACTCCAACTCCGATTTTATTTTTGAAACACC
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTA-TTTTAAAACACT
2363898 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACT
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTT-AAAACACT
* * **
2363949 AATTTTCTATAATTAGGGATACTCCAACCC
1 AATTTTCCACAATCGGGGATACTCCAACCC
2363979 TGTTATTTCC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
50 4 0.04
51 107 0.94
52 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (50 bp):
AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTAAAACACT
Found at i:2366531 original size:13 final size:13
Alignment explanation
Indices: 2366513--2366552 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
2366503 ACATATTGCT
2366513 TTGTATCGATACA
1 TTGTATCGATACA
* *
2366526 TTGTATTGATATA
1 TTGTATCGATACA
*
2366539 TTATATCGATACA
1 TTGTATCGATACA
2366552 T
1 T
2366553 GTTCATTGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2369802 original size:155 final size:155
Alignment explanation
Indices: 2369507--2369899 Score: 525
Period size: 155 Copynumber: 2.5 Consensus size: 155
2369497 TAAGTTCAAG
* * ** *
2369507 AAAAATTATGAAAATACCCCTAAGGGATACCTTCGATATAGAAGTACCGGATACTCCTAAAGGAC
1 AAAAATTACGAAAATACCCCTAAGGGATACCTTCGATATAGAAGTGCTTGATACCCCTAAAGGAC
* * *
2369572 TTAAAAAGGATTATAGACGGGATGAACTTACCCTAAATACCCATCTTCGGCATAAAAGCAAACTC
66 TTAAAAAGGATTATAAACGGGATGAACCTACCCTAAATACCCACCTTCGGCATAAAAGCAAACTC
**
2369637 GGTGGTAACCTAGGACTCGATTCTA
131 GGTGACAACCTAGGACTCGATTCTA
* * * ** *
2369662 AAAAATTACCAAAATACCCCTAAGAGATATCTTCGACGTAGAAGTGTTTGATACCCCTAAAGGAC
1 AAAAATTACGAAAATACCCCTAAGGGATACCTTCGATATAGAAGTGCTTGATACCCCTAAAGGAC
* * * * * *
2369727 TTAAAAAGGATTATAAATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTT
66 TTAAAAAGGATTATAAACGGGATGAACCTACCCTAAATACCCACCTTCGGCATAAAAGCAAACTC
*
2369792 GGTGACAACCTAGGACTTGATTCTA
131 GGTGACAACCTAGGACTCGATTCTA
* * * *
2369817 AAAAATTACGAAAATGCTCCTAGGGGATACCTTCGATATAAAAGTGCTTGATACCCCTAAAGGAC
1 AAAAATTACGAAAATACCCCTAAGGGATACCTTCGATATAGAAGTGCTTGATACCCCTAAAGGAC
*
2369882 TTAAAAAAGGAGTATAAA
66 TT-AAAAAGGATTATAAA
2369900 AGGTGACTTT
Statistics
Matches: 203, Mismatches: 34, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
155 189 0.93
156 14 0.07
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (155 bp):
AAAAATTACGAAAATACCCCTAAGGGATACCTTCGATATAGAAGTGCTTGATACCCCTAAAGGAC
TTAAAAAGGATTATAAACGGGATGAACCTACCCTAAATACCCACCTTCGGCATAAAAGCAAACTC
GGTGACAACCTAGGACTCGATTCTA
Found at i:2371486 original size:10 final size:10
Alignment explanation
Indices: 2371469--2371509 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
2371459 CTTAGCTAGA
2371469 TTTCTCTTTT
1 TTTCTCTTTT
*
2371479 TCTCTCTTTT
1 TTTCTCTTTT
*
2371489 TTTCTTTTTT
1 TTTCTCTTTT
2371499 TTTC-CTTTT
1 TTTCTCTTTT
2371508 TT
1 TT
2371510 GGCTCTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
9 6 0.22
10 21 0.78
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTCTCTTTT
Found at i:2372244 original size:165 final size:165
Alignment explanation
Indices: 2372056--2372445 Score: 416
Period size: 165 Copynumber: 2.4 Consensus size: 165
2372046 GTTCATTGAC
* * ** * * * *
2372056 AATATTAGATGCATTTTAAAAATTTTAGACCAA-AGAAAATCCCCTCGAGAATATTTATGGAATA
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGA-AAAATCCCC-CGAAAAAATTTACGGAATA
* * *
2372120 GAAAAC-CTAGT-TTTTCGGGAAAATGGAG-ATTTCAAA-AAAAAATCTAAAA-TGAATTAAAAT
64 GAAAACTC-AGTATTTT--GGAAAAGGGAGAATTTCAAAGAAAAAATCAAAAACT-AATGAAAAT
* * * *
2372180 GAATTAAATTTTCAAAATTG-TTTCAATATGAATCAAATGAT
125 AAATGAAATTTTCAAAACTGATTT-AATATGAATCAAATAAT
* * *
2372221 AATATTTGATGAATTTTAAAAATTAAAAAGCAAGAAAAATCTCCCGAAAAAATTTACGGAGTAGA
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCGAAAAAATTTACGGAATAGA
* * * *
2372286 AAACTCCGTATTTTGGAAACGGGAGAATTTCAAAGAAAAATTCAAAAACTTATGAAAATAAATGA
66 AAACTCAGTATTTTGGAAAAGGGAGAATTTCAAAGAAAAAATCAAAAACTAATGAAAATAAATGA
* * *
2372351 ATTTTTGAAAACTGATTTAATATGAATTAAATAAT
131 AATTTTCAAAACTGATTTAATATGAATCAAATAAT
* *
2372386 AATATTTGTTGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATTTACGG
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCC-CCCGAAAAAATTTACGG
2372446 GGAAGAAAAT
Statistics
Matches: 188, Mismatches: 29, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
163 9 0.05
164 31 0.16
165 127 0.68
166 21 0.11
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (165 bp):
AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCGAAAAAATTTACGGAATAGA
AAACTCAGTATTTTGGAAAAGGGAGAATTTCAAAGAAAAAATCAAAAACTAATGAAAATAAATGA
AATTTTCAAAACTGATTTAATATGAATCAAATAAT
Found at i:2376580 original size:13 final size:13
Alignment explanation
Indices: 2376562--2376587 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2376552 CAATTTTTTG
2376562 TGTATCGATACAT
1 TGTATCGATACAT
2376575 TGTATCGATACAT
1 TGTATCGATACAT
2376588 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2377226 original size:21 final size:21
Alignment explanation
Indices: 2377185--2377228 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2377175 CTCTCCTTTA
* *
2377185 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
2377206 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
2377227 TC
1 TC
2377229 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:2379051 original size:13 final size:13
Alignment explanation
Indices: 2379033--2379071 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2379023 ATAATCACCC
2379033 TGTATCGATACAA
1 TGTATCGATACAA
2379046 TGTATCGATACAA
1 TGTATCGATACAA
2379059 TGTATCGATACAA
1 TGTATCGATACAA
2379072 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2381168 original size:15 final size:15
Alignment explanation
Indices: 2381148--2381178 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2381138 ATTTCGTTTG
*
2381148 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2381163 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2381178 G
1 G
2381179 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2383003 original size:21 final size:21
Alignment explanation
Indices: 2382974--2383018 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2382964 AAGTTTTCAT
*
2382974 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2382994 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2383016 TTT
1 TTT
2383019 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2385228 original size:13 final size:13
Alignment explanation
Indices: 2385210--2385235 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2385200 CAATTTTTTG
2385210 TGTATCGATACAT
1 TGTATCGATACAT
2385223 TGTATCGATACAT
1 TGTATCGATACAT
2385236 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2386042 original size:13 final size:13
Alignment explanation
Indices: 2386024--2386049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2386014 CATTTTTCTG
2386024 TGTATCGATACAT
1 TGTATCGATACAT
2386037 TGTATCGATACAT
1 TGTATCGATACAT
2386050 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2386046 original size:33 final size:33
Alignment explanation
Indices: 2386004--2386070 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2385994 GCCAAGGAAA
***
2386004 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2386037 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2386070 T
1 T
2386071 TAGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2388465 original size:51 final size:51
Alignment explanation
Indices: 2388410--2388526 Score: 147
Period size: 51 Copynumber: 2.4 Consensus size: 51
2388400 AATTCTCCGC
2388410 AATCGGGGATA-TCCCAACTCCGATTTCATTT-TCAAAACA-CTAATTTTCTAT
1 AATCGGGGATACT-CCAACTCCGATTTCATTTCT-AAAACATC-AATTTTCTAT
*
2388461 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAA-TTT-T-T
1 AATCGGGGATACTCCAACTCCGATTTCATTTCTAAAACATCAATTTTCTAT
*
2388509 CATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
2388527 CCCGTTATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
48 18 0.30
49 1 0.02
50 3 0.05
51 36 0.59
52 3 0.05
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTCATTTCTAAAACATCAATTTTCTAT
Found at i:2388663 original size:80 final size:77
Alignment explanation
Indices: 2388465--2388714 Score: 279
Period size: 80 Copynumber: 3.2 Consensus size: 77
2388455 TTCTATAATC
*
2388465 GGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAATTTT--TCATCGGGGATACTCCAACC
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAATTTTCATAATCGGGGATACTCCAACC
*
2388528 CCGTTATTTTCGA
66 CCGTTA-TTTCAA
* ** * * *
2388541 GGGGATACTCCAACCCTCGGCTTTATTTTTAAAATATTAATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACTC-CGATTTTATTTCTAAAACATCAATTT-TCATAATCGGGGATACTCCAA
*
2388606 CCCCGTTATCTCCAA
64 CCCCGTTAT-TTCAA
* * * * *
2388621 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATTGAGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTATTT-CTAAAACATCAA-TTTTCATAATCGGGGATACTCCAA
* *
2388686 CCACGTTATTTCATC
64 CCCCGTTATTTCA-A
2388701 GGGGATACTCCAAC
1 GGGGATACTCCAAC
2388715 CCCGTTACCT
Statistics
Matches: 143, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
76 15 0.10
77 21 0.15
78 1 0.01
79 13 0.09
80 90 0.63
81 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (77 bp):
GGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAATTTTCATAATCGGGGATACTCCAACC
CCGTTATTTCAA
Found at i:2388832 original size:79 final size:79
Alignment explanation
Indices: 2388700--2388901 Score: 219
Period size: 79 Copynumber: 2.6 Consensus size: 79
2388690 GTTATTTCAT
* *
2388700 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAAT-A
1 CGGGGATACTCCAACCCCGTTACCTCCGAAGGGATACTCCAACCCCGACTTTATTCCC-AAATCA
* * *
2388764 TTGATTTCTCATAAT
65 TCGATTTCTCACAAC
* *** * * *
2388779 TGGGGATACTCCAACCCCGTTACCTCCGAAGGGATACTCCAATTTCGATTTTATTTCCTAATCAT
1 CGGGGATACTCCAACCCCGTTACCTCCGAAGGGATACTCCAACCCCGACTTTATTCCCAAATCAT
* *
2388844 CGATTTTTTACAAC
66 CGATTTCTCACAAC
** *
2388858 CGGGGATACTCCAACCCCGTTATTTTC-AAGGGGATACTCCAACC
1 CGGGGATACTCCAACCCCGTTACCTCCGAA-GGGATACTCCAACC
2388902 TCGTTATTAT
Statistics
Matches: 101, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 5 0.05
79 96 0.95
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTACCTCCGAAGGGATACTCCAACCCCGACTTTATTCCCAAATCAT
CGATTTCTCACAAC
Found at i:2401322 original size:15 final size:14
Alignment explanation
Indices: 2401302--2401348 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 14
2401292 CCTTCTCTAC
2401302 AAAAAAAAAGCAAAA
1 AAAAAAAAAG-AAAA
2401317 AAAAAAAAAGAAAAA
1 AAAAAAAAAG-AAAA
2401332 AACAAAACAAAGAAAA
1 AA-AAAA-AAAGAAAA
2401348 A
1 A
2401349 GAGAGAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 16 0.55
16 9 0.31
17 4 0.14
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAA
Found at i:2401332 original size:27 final size:27
Alignment explanation
Indices: 2401302--2401357 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
2401292 CCTTCTCTAC
*
2401302 AAAAAA-AAAGCAAAAAAAAAAAAAGA
1 AAAAAACAAAACAAAAAAAAAAAAAGA
* * *
2401328 AAAAAACAAAACAAAGAAAAAGAGAGA
1 AAAAAACAAAACAAAAAAAAAAAAAGA
2401355 AAA
1 AAA
2401358 GAGACTAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (27 bp):
AAAAAACAAAACAAAAAAAAAAAAAGA
Found at i:2401333 original size:17 final size:17
Alignment explanation
Indices: 2401313--2401348 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2401303 AAAAAAAAGC
2401313 AAAAAAAAAAAAAGAAA
1 AAAAAAAAAAAAAGAAA
* *
2401330 AAAACAAAACAAAGAAA
1 AAAAAAAAAAAAAGAAA
2401347 AA
1 AA
2401349 GAGAGAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.89, C:0.06, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAGAAA
Found at i:2402497 original size:59 final size:59
Alignment explanation
Indices: 2402299--2403061 Score: 839
Period size: 55 Copynumber: 13.3 Consensus size: 59
2402289 GCTTTTTAGC
* * *
2402299 CCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACG-CATTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGT
* **
2402360 CCCCAAAGAGCAGGAC-C----CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGT
1 CCTCAAAGAGCAGGACGCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGT
* * *
2402415 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* *
2402474 CCTCAAAGAGCGGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
*
2402533 CCTCAAAGAGCAGGA--CA---CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTCAGT
1 CCTCAAAGAGCAGGACGCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-TCAGT
* *
2402588 CCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCATT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * *
2402648 CCTCAAAGAGCGGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGT
1 CCTCAAAGAGCAGGACGCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * *
2402707 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * *
2402766 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACGCATTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGT
* * * *
2402827 CCCCAAAGAGTAGGAC-C----CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAAT
1 CCTCAAAGAGCAGGACGCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGT
* * * * **
2402882 CCCCAAAGAGCAGGA--CA---CCTTTCAAAGCCCATACAAGCTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGT
*
2402937 CCTCAAAGAGCAGGA--CA---CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACGCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGT
* * * * * ** *
2402992 CCTCAAAGAGTA-G--G-A-TGCCTTTCAAAGCCCACACGAGTTGGTGGTAGTTTTTAGT
1 CCTCAAAGAGCAGGACGCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGT
2403047 CCTCAAAGAGCAGGA
1 CCTCAAAGAGCAGGA
2403062 TACACTTTAT
Statistics
Matches: 622, Mismatches: 56, Indels: 52
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.00
54 34 0.05
55 241 0.39
56 8 0.01
57 3 0.00
59 196 0.32
60 76 0.12
61 63 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (59 bp):
CCTCAAAGAGCAGGACGCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
Found at i:2402627 original size:174 final size:176
Alignment explanation
Indices: 2402299--2403061 Score: 962
Period size: 174 Copynumber: 4.4 Consensus size: 176
2402289 GCTTTTTAGC
* * *
2402299 CCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCC
1 CCTCAAAGAGCAGGACGCATTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCC
* * *
2402364 AAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCGGG
65 AAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGG
*
2402429 ACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGT
130 ACACCTTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
2402474 CCTCAAAGAGCGGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCA
1 CCTCAAAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCA
*
2402538 AAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGA
66 AAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
*
2402603 CACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGT
131 CACCTTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
2402648 CCTCAAAGAGCGGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCA
1 CCTCAAAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCA
* * *
2402712 AAGAGCAGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAG
66 AAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAG
** *
2402776 CAGGA-TGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
126 CAGGACACCTTCTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * * * *
2402827 CCCCAAAGAGTAGGAC-C----CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCCCA
1 CCTCAAAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCA
* * *
2402887 AAGAGCAGGACACCTTTCAAAGCCCATACAAGCTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGG
66 AAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGG
2402951 ACA-C--C-TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
130 ACACCTTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * * * * ** * *
2402992 CCTCAAAGAGTAGGATGC-----CTTTCAAAGCCCACACGAGTTGGTGGTAGTTTTTAGTCCTCA
1 CCTCAAAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCA
2403052 AAGAGCAGGA
66 AAGAGCAGGA
2403062 TACACTTTAT
Statistics
Matches: 531, Mismatches: 43, Indels: 38
0.87 0.07 0.06
Matches are distributed among these distances:
165 91 0.17
166 3 0.01
168 2 0.00
170 26 0.05
171 20 0.04
173 77 0.15
174 168 0.32
175 42 0.08
177 9 0.02
178 46 0.09
179 47 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (176 bp):
CCTCAAAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCA
AAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
CACCTTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
Found at i:2402857 original size:26 final size:26
Alignment explanation
Indices: 2402828--2402912 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
2402818 CCTTTCAGTC
*
2402828 CCCAAAGAGTAGGACCCCTTTCAAAG
1 CCCAAAGAGTAGGACACCTTTCAAAG
* * **
2402854 CCCACACA-AGTTGGTGGCACCTTTCAATC
1 CCCA-A-AGAG-TAG-GACACCTTTCAAAG
*
2402883 CCCAAAGAGCAGGACACCTTTCAAAG
1 CCCAAAGAGTAGGACACCTTTCAAAG
2402909 CCCA
1 CCCA
2402913 TACAAGCTGG
Statistics
Matches: 44, Mismatches: 10, Indels: 10
0.69 0.16 0.16
Matches are distributed among these distances:
26 19 0.43
27 5 0.11
28 6 0.14
29 14 0.32
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.16
Consensus pattern (26 bp):
CCCAAAGAGTAGGACACCTTTCAAAG
Found at i:2403754 original size:13 final size:13
Alignment explanation
Indices: 2403736--2403760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2403726 CATAAAATGT
2403736 TGTATCGATACAA
1 TGTATCGATACAA
2403749 TGTATCGATACA
1 TGTATCGATACA
2403761 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2403758 original size:33 final size:33
Alignment explanation
Indices: 2403716--2403785 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2403706 TTCAACGATT
2403716 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2403749 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2403782 TGTA
1 TGTA
2403786 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2403843 original size:13 final size:13
Alignment explanation
Indices: 2403825--2403849 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2403815 ATTACTCACA
2403825 TGTATCGATACAT
1 TGTATCGATACAT
2403838 TGTATCGATACA
1 TGTATCGATACA
2403850 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2403914 original size:52 final size:52
Alignment explanation
Indices: 2403858--2403982 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
2403848 CACTGATCTT
*
2403858 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2403910 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2403962 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
2403983 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2407478 original size:19 final size:19
Alignment explanation
Indices: 2407454--2407521 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2407444 AATTCAACCA
2407454 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2407473 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2407488 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2407505 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2407522 TTAGCTACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2407492 original size:32 final size:32
Alignment explanation
Indices: 2407456--2407518 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2407446 TTCAACCATT
*
2407456 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2407488 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2407519 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2407493 original size:13 final size:13
Alignment explanation
Indices: 2407475--2407499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2407465 ACATAAGTTT
2407475 TGTATCGATACAA
1 TGTATCGATACAA
2407488 TGTATCGATACA
1 TGTATCGATACA
2407500 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2407579 original size:13 final size:13
Alignment explanation
Indices: 2407561--2407586 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2407551 TATTTTTCTG
2407561 TGTATCGATACAT
1 TGTATCGATACAT
2407574 TGTATCGATACAT
1 TGTATCGATACAT
2407587 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2409989 original size:51 final size:51
Alignment explanation
Indices: 2409934--2410050 Score: 147
Period size: 51 Copynumber: 2.4 Consensus size: 51
2409924 AATTCTCCGC
2409934 AATCGGGGATA-TCCCAACTCCGATTTCATTT-TCAAAACA-CTAATTTTCTAT
1 AATCGGGGATACT-CCAACTCCGATTTCATTTCT-AAAACATC-AATTTTCTAT
*
2409985 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAA-TTT-T-T
1 AATCGGGGATACTCCAACTCCGATTTCATTTCTAAAACATCAATTTTCTAT
*
2410033 CATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
2410051 CCCGTTAATC
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
48 18 0.30
49 1 0.02
50 3 0.05
51 36 0.59
52 3 0.05
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTCATTTCTAAAACATCAATTTTCTAT
Found at i:2410070 original size:27 final size:27
Alignment explanation
Indices: 2410032--2410084 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
2410022 CATCAATTTT
2410032 TCATCGGGGATACTCCAACCCCGTTAA
1 TCATCGGGGATACTCCAACCCCGTTAA
2410059 TCATCGGGGATACTCCAACCCCGTTA
1 TCATCGGGGATACTCCAACCCCGTTA
2410085 TTTTTGAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.23
Consensus pattern (27 bp):
TCATCGGGGATACTCCAACCCCGTTAA
Found at i:2410213 original size:80 final size:79
Alignment explanation
Indices: 2410061--2410423 Score: 332
Period size: 79 Copynumber: 4.6 Consensus size: 79
2410051 CCCGTTAATC
** * * * * *
2410061 ATCGGGGATACTCCAACCCCGTTATTTTTGAGGTGATACTCTAACCCTCGGCTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTC-CGACTTTATTTCCAAAA
* *
2410126 TATTAATTTCTCATA
65 CATTAATTTCTCACA
* *
2410141 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACTCCGATTTTATTTCCAAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGACTTTATTTCC-AAAA
* *
2410206 CACTAATTTTTCACA
65 CATTAATTTCTCACA
* * * *** * *
2410221 ATTGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAAC-CCCAGCTTTATTCCCAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGA-CTTTATTTCCAAAA
* * *
2410285 TATTGATTTCTCATA
65 CATTAATTTCTCACA
* ** * * * * * *
2410300 ATTGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAATTTCGATTTTATTTCCTAATC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGACTTTATTTCCAAAAC
** *
2410365 ATCGATTTTTCACA
66 ATTAATTTCTCACA
* * * *
2410379 ACCGGGAATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAAC
2410424 CTTGTTATTA
Statistics
Matches: 225, Mismatches: 55, Indels: 7
0.78 0.19 0.02
Matches are distributed among these distances:
79 121 0.54
80 104 0.46
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGACTTTATTTCCAAAAC
ATTAATTTCTCACA
Found at i:2410301 original size:159 final size:158
Alignment explanation
Indices: 2410065--2410457 Score: 467
Period size: 159 Copynumber: 2.5 Consensus size: 158
2410055 TTAATCATCG
* * * * * *
2410065 GGGATACTCCAACCCCGTTATTT-TTGAGGTGATACTCTAACCCTCGGCTTTATTTCTAAAATAT
1 GGGATACTCCAACCCCGTTATTTCAT-AGGGGATACTCCAACCCTCAGCTTTATTCCCAAAATAT
*
2410129 TAATTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACTCCGATTT
65 TAATTTCTCATAATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACTCCGATTT
**
2410194 TATTTCCAAAAACA-CTAATTTTTCACAATT
130 TATTTCC-AAAACATC-AATTTTTCACAACC
* *
2410224 GAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCC-CAGCTTTATTCCCAAAATAT
1 G-GGATACTCCAACCCCGTTATTTCATAGGGGATACTCCAACCCTCAGCTTTATTCCCAAAATAT
* * * * *
2410288 TGATTTCTCATAATTGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAATTTCGATTT
65 TAATTTCTCATAATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACTCCGATTT
* * *
2410353 TATTTCCTAATCATCGATTTTTCACAACC
130 TATTTCCAAAACATCAATTTTTCACAACC
* *
2410382 GGGAATACTCCAACCCCGTTATTTTCA-AGGGGATACTCCAA-CCT-TGTTATTA-TCTCCAAAA
1 GGG-ATACTCCAACCCCGTTA-TTTCATAGGGGATACTCCAACCCTCAGCT-TTATTC-CCAAAA
2410443 TATTAAATTTCTCAT
62 TATT-AATTTCTCAT
2410458 CGGGACGTAT
Statistics
Matches: 201, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
157 8 0.04
158 58 0.29
159 99 0.49
160 35 0.17
161 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (158 bp):
GGGATACTCCAACCCCGTTATTTCATAGGGGATACTCCAACCCTCAGCTTTATTCCCAAAATATT
AATTTCTCATAATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACTCCGATTTT
ATTTCCAAAACATCAATTTTTCACAACC
Found at i:2410335 original size:79 final size:78
Alignment explanation
Indices: 2410064--2410343 Score: 310
Period size: 80 Copynumber: 3.5 Consensus size: 78
2410054 GTTAATCATC
* * * * * *
2410064 GGGGATACTCCAACCCCGTTATTTTTGAGGTGATACTCTAACCCTCGGCTTTATTTCTAAAATAT
1 GGGGATACTCCAACCCCGTTATCTCTGAGGGGATACTCCAACCC-C-GCTTTATTCCAAAAATAT
*
2410129 TAATTTCTCATAATC
64 TAATTTCTCATAATT
* * * * *
2410144 GGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 GGGGATACTCCAACCCCGTTATCTCTGAGGGGATACTCCAACCCCG-CTTTA-TTCCAAAAATAT
* *
2410209 TAATTTTTCACAATT
64 TAATTTCTCATAATT
* * * * *
2410224 GAGGATACTCCAACCTCGTTATTTCAT-CGGGGATACTCCAACCCCAGCTTTATTCCCAAAATAT
1 GGGGATACTCCAACCCCGTTATCTC-TGAGGGGATACTCCAACCCC-GCTTTATTCCAAAAATAT
*
2410288 TGATTTCTCATAATT
64 TAATTTCTCATAATT
*
2410303 GGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAA
1 GGGGATACTCCAACCCCGTTATCTCTGAGGGGATACTCCAA
2410344 TTTCGATTTT
Statistics
Matches: 163, Mismatches: 32, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
78 2 0.01
79 60 0.37
80 100 0.61
81 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGTTATCTCTGAGGGGATACTCCAACCCCGCTTTATTCCAAAAATATTA
ATTTCTCATAATT
Found at i:2413600 original size:14 final size:15
Alignment explanation
Indices: 2413581--2413614 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2413571 TTTATCTTAA
2413581 TTTTTA-AATTTTAT
1 TTTTTACAATTTTAT
2413595 TTTTTACAATTTTAT
1 TTTTTACAATTTTAT
2413610 TTTTT
1 TTTTT
2413615 TATTAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTACAATTTTAT
Found at i:2417708 original size:5 final size:5
Alignment explanation
Indices: 2417698--2417724 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2417688 TTAGGATAGA
2417698 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
2417725 GAGTCACAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:2419025 original size:13 final size:13
Alignment explanation
Indices: 2419007--2419033 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2418997 ACATATTGTT
2419007 TTGTATCGATACA
1 TTGTATCGATACA
2419020 TTGTATCGATACA
1 TTGTATCGATACA
2419033 T
1 T
2419034 GTTCAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2419069 original size:20 final size:20
Alignment explanation
Indices: 2419019--2419075 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
2419009 GTATCGATAC
**
2419019 ATTGTATCGATACATGTTCA
1 ATTGTATCGATACATGAACA
* *
2419039 A-TGTATTGATACATGAAGA
1 ATTGTATCGATACATGAACA
2419058 ATTGTATCGATACATGAA
1 ATTGTATCGATACATGAA
2419076 ACTAGCAGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (20 bp):
ATTGTATCGATACATGAACA
Found at i:2419160 original size:33 final size:33
Alignment explanation
Indices: 2419103--2419167 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2419093 TACTACTGTT
* *
2419103 TGTATCGATACATAGGACATTGTATAGATACAA
1 TGTATCGATACATAGGAAAATGTATAGATACAA
* *
2419136 TGTATCGATACATAGTAAAATGTATCGATACA
1 TGTATCGATACATAGGAAAATGTATAGATACA
2419168 TTGTGCCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATAGGAAAATGTATAGATACAA
Found at i:2428699 original size:19 final size:19
Alignment explanation
Indices: 2428675--2428768 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
2428665 CGTATCAATA
*
2428675 CATTGTATTGATACATGTT
1 CATTGTATCGATACATGTT
2428694 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
2428713 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
* **
2428732 CATTATATCGATACATACT
1 CATTGTATCGATACATGTT
2428751 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
2428769 AAAGTGGCAG
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
19 54 0.79
20 14 0.21
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:2428815 original size:13 final size:13
Alignment explanation
Indices: 2428797--2428822 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2428787 CTAAGTGAAA
2428797 TGTATCGATACAT
1 TGTATCGATACAT
2428810 TGTATCGATACAT
1 TGTATCGATACAT
2428823 GAAGAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2434154 original size:13 final size:13
Alignment explanation
Indices: 2434136--2434194 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
2434126 ACATTATGCT
2434136 TTGTATCGATACA
1 TTGTATCGATACA
2434149 TTGTATCGATACA
1 TTGTATCGATACA
2434162 -TG--T---T-CA
1 TTGTATCGATACA
2434168 TTGTATCGATACA
1 TTGTATCGATACA
2434181 TTGTATCGATACA
1 TTGTATCGATACA
2434194 T
1 T
2434195 GTTCATTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
6 2 0.05
7 3 0.08
9 1 0.03
10 1 0.03
12 3 0.08
13 29 0.74
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2434171 original size:19 final size:19
Alignment explanation
Indices: 2434147--2434213 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
2434137 TGTATCGATA
2434147 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
2434166 CATTGTATCGAT--A----
1 CATTGTATCGATACATGTT
2434179 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
2434198 CATTGTATCGATACAT
1 CATTGTATCGATACAT
2434214 ACTCAATTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 12 0.29
15 1 0.02
17 1 0.02
19 28 0.67
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.40
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:2434177 original size:32 final size:32
Alignment explanation
Indices: 2434117--2434213 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
2434107 CATATCCAGA
*
2434117 TGTATCGATACAT-TATGCTTTGTATCGATACAT
1 TGTATCGATACATGT-T-CATTGTATCGATACAT
2434150 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTTCATTGTATCGATACAT
2434182 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTTCATTGTATCGATACAT
2434214 ACTCAATTGT
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
32 47 0.76
33 14 0.23
34 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAT
Found at i:2434320 original size:33 final size:33
Alignment explanation
Indices: 2434261--2434327 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
2434251 CCCTAAGTGA
*
2434261 AATGTATCGATACATGGGACAATGTATAGATAC
1 AATGTATCGATACATGAGACAATGTATAGATAC
* * *
2434294 AATGTGTCGATACATGAAGA-ATTGTATTGATAC
1 AATGTATCGATACATG-AGACAATGTATAGATAC
2434327 A
1 A
2434328 TTATGCCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACATGAGACAATGTATAGATAC
Found at i:2434393 original size:20 final size:20
Alignment explanation
Indices: 2434368--2434420 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
2434358 TTCAAATGCA
*
2434368 TGTATCGATACATTATGAAT
1 TGTATCGATACATTACGAAT
2434388 TGTATCGATACATTACGAAT
1 TGTATCGATACATTACGAAT
2434408 TGTATCGATACAT
1 TGTATCGATACAT
2434421 AGTAACGGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTACGAAT
Done.