Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold12
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: 2382857
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 280777 characters in sequence are not A, C, G, or T
File 11 of 12
Found at i:2087056 original size:33 final size:32
Alignment explanation
Indices: 2087014--2087077 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
2087004 TACAAGCCAA
*
2087014 TGTATCGATACA-ACTTTATGTGTATCGATACAT
1 TGTATCGATACATAC-TT-GGTGTATCGATACAT
2087047 TGTATCGATACATACTTGGTGTATCGATACA
1 TGTATCGATACATACTTGGTGTATCGATACA
2087078 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 14 0.48
34 2 0.07
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATACTTGGTGTATCGATACAT
Found at i:2088011 original size:13 final size:13
Alignment explanation
Indices: 2087993--2088017 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2087983 TACATTGGTC
2087993 ATGTATCGATACA
1 ATGTATCGATACA
2088006 ATGTATCGATAC
1 ATGTATCGATAC
2088018 TGTGCAATCT
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):
ATGTATCGATACA
Found at i:2088308 original size:878 final size:856
Alignment explanation
Indices: 2086646--2088329 Score: 2223
Period size: 878 Copynumber: 1.9 Consensus size: 856
2086636 CAAACAAAGT
* * *
2086646 TTGCCTCTAACTAGGCTTGTGTTTGTGAGAATTTAAGCTCGAAATCAAATACAAAGAGCTTAGAA
1 TTGCCTCTAACTAGGCTGGTGTTTGTGAGAATGTAAGCTCAAAATCAAATACAAAGAGCTTAGAA
**
2086711 AAATAATAACAATATGAACAAAAGCTCTTGAAAAATATAAAACACTTTGATCTAAGAAAACTTTG
66 AAATAATAACAATAAAAACAAAAGCTCTTGAAAAATATAAAACACTTTGATCTAAGAAAACTTTG
*
2086776 AATGCTAGATGTTTCTTGCTTGGTTCTACTTCTCTCTTCTTGTGTTTTGCTGCTGGAAGCTCTTA
131 AATGCTAGATGTTTCTTGCTTGG------TTCTCTCTTCTTATGTTTTGCTGCTGGAAGCTCTTA
* * *
2086841 TTTATAGGCTTCAATGTTGTTGTAGCCGTTGGAGTTTGATTGGTGGAGTTTCTAGCCGTTATTGG
190 TTTATAGGCTTCAATGTTGTTGTAGCCGTTGGAGATTGATTAGTGGAGTTTCTAGCCGTTATTGA
* * ** *
2086906 CTTGTTTGGAGCTTATTTTAATGATTTCAAGTGTGAATGTATCGATACAATTTTTGATGTCTCGA
255 CTTGTTTGGAGCTTATTTTAATGATATCAAGTGTAAATGTATCGATACAATTTGGGATGTATCGA
* *
2086971 TACATATTTGAAAATATAGCCGTTTCTAGCCGTTACAAGCCAATGTATCGATACAACTTTATGTG
320 TACATATTTGAAAATATAGCCGTTACTAGCCGTTACAAGCCAATGTATCGATACAACTTTAGGTG
* * * * *
2087036 TATCGATACATTGTATCGATACATACTTGGTGTATCGATACAAGTTTGGCTACTGCCAAGAAATC
385 TATCGATACATTGTATCGATACAAACTTGGTGTATCAATACAAGTATCGATACTGCCAAGAAATC
*
2087101 CCAATGACATGTATCGATACATCTTTTTCATGTATCGATACATTGCAACATGTATCGATACATTG
450 ACAATGACATGTATCGATACA------T-ATGTATCGATACATTGCAACATGTATCGATACATTG
* *
2087166 AATTGTGTATCGATACTTTTAAGGGTTTTGATAATTTTATCCTAAGTCAACCTTAATGTATCGAT
508 AATGGTGTATCGATACTTTTAAGGGTTTTGATAATTTTAGCCTAAGTCAACCTTAATGTATCGAT
* * * *
2087231 ACAAATGCCCTTGTATCGATACTTTGATATATTTTAACTTAAAAATCAATCATTTTAACCTTGAA
573 ACAAATGACCTTGCATCGATACTTTGAAATATTTTAACTGAAAAATCAATCATTTTAACCTTGAA
* * * *
2087296 AACATTTATCCTTAACTAGAAAACATTTGGTGAATCAAAAATCATTTGGTACAAAATTTATAAAG
638 AACATTTATACTTAACTAGAAAACATTTAGTGAATCAAAAATCATTTAGCACAAAATTTATAAAG
* *
2087361 TACTTAATTGAATAAAACATATTTTTGGTATTTTCAAAATAATTTTCGGTTTTATTCAATCTTTT
703 TACTTAATTGAATAAAACACATTTTTGGTATTTTCAAAATAATTTTCGGTTTTATTCAATCCTTT
2087426 GTTATATCAAAACCAAGATCCTAACAGAGATTAACACTTTTCAGTTGAACACAACCTCAACAAAA
768 GTTATATCAAAACCAAGATCCTAACAGAGATTAACACTTTTCAGTTGAACACAACCTCAACAAAA
2087491 ACAAAGAATGCTTACAAATGACAA
833 ACAAAGAATGCTTACAAATGACAA
* * *
2087515 TTGCCTCTAATTAGGCTGGTGTTTGTGGGAATGTAAGCTCAAAATCAAATACAAAAGAGCTTTG-
1 TTGCCTCTAACTAGGCTGGTGTTTGTGAGAATGTAAGCTCAAAATCAAATAC-AAAGAGCTTAGA
* **
2087579 AAAATAATAACAATAAAAACAAAAGCTCTTGAAAAATATAAAACTCTTTGATCTTTGAAAACTTT
65 AAAATAATAACAATAAAAACAAAAGCTCTTGAAAAATATAAAACACTTTGATCTAAGAAAACTTT
*
2087644 GATTGCTAGATGTTTCTTGCTTGG-T-T-T-TTCTTATGTTTTGCTGCTGGAAGCTCTTATTTAT
130 GAATGCTAGATGTTTCTTGCTTGGTTCTCTCTTCTTATGTTTTGCTGCTGGAAGCTCTTATTTAT
* *
2087705 AGGCTTCAATGTTGTTGTAGCCGTTGGAGATTGATTAGTGGAGTTTGTAGCCGTTGTTGACTTG-
195 AGGCTTCAATGTTGTTGTAGCCGTTGGAGATTGATTAGTGGAGTTTCTAGCCGTTATTGACTTGT
**
2087769 TTGGAGCTTATTTTAATGCA-ATCCCGTGTAAATGTATCGATACAATTTGGGATGTATCGATACA
260 TTGGAGCTTATTTTAATG-ATATCAAGTGTAAATGTATCGATACAATTTGGGATGTATCGATACA
* *
2087833 TGCATTTGAAAATATAGCCGTTACTAGCCGTTACAAGCCAATGTATCGATAC-ATTTTGGGATGT
324 T--ATTTGAAAATATAGCCGTTACTAGCCGTTACAAGCCAATGTATCGATACAACTTTAGG-TGT
**
2087897 ATCGATACATAATGTGTGAATCGATACAAACAATTAAGGGTGCTACTGCCAATGACCTGTATCGA
386 ATCGATAC---AT-TGT--ATCGATACAAAC--TT---GGTG-TA-T--CAAT-ACAAGTATCGA
* * * *
2087962 TACATTCTTTACAAG-TATCGATACATTGGTCATGTATCGATACA-ATGTATCGATAC-TGTGCA
435 TAC-TGC----CAAGAAATC---ACAAT-GACATGTATCGATACATATGTATCGATACAT-TGCA
* **
2088024 ATC-TGTATCGATACATTTGAA-GGTGTATCGATACTTTTCAGGGTTTTG-TCCTTTGTAGCCTA
490 A-CATGTATCGATACA-TTGAATGGTGTATCGATACTTTTAAGGGTTTTGATAATTT-TAGCCTA
2088086 AGTCAACACTTAATGTATCGATACAAAT-ACCTATGCATCGATACTTTGAAATATTTTAACTCGA
552 AGTCAAC-CTTAATGTATCGATACAAATGACCT-TGCATCGATACTTTGAAATATTTTAACT-GA
* * * *
2088150 AAAA-CACTCATTTTAAGTCTTGAAAACATTTATACTTATCTAGAAAACATTTAGT-AAGTTAAA
614 AAAATCAATCATTTTAA-CCTTGAAAACATTTATACTTAACTAGAAAACATTTAGTGAA-TCAAA
*
2088213 AATCATTTAGCACAAAATTTATAAAGTACTTAATTGAATAAAACACATTTTTGGTATTTTCAAAT
677 AATCATTTAGCACAAAATTTATAAAGTACTTAATTGAATAAAACACATTTTTGGTATTTTCAAAA
*
2088278 TAATTTTTGGTTTTATTCAATCCTTTGTTATATCAAAACCAAGATCCTAACA
742 TAATTTTCGGTTTTATTCAATCCTTTGTTATATCAAAACCAAGATCCTAACA
2088330 ATCTCCCCCT
Statistics
Matches: 714, Mismatches: 62, Indels: 69
0.84 0.07 0.08
Matches are distributed among these distances:
858 56 0.08
859 98 0.14
860 60 0.08
861 1 0.00
862 1 0.00
863 2 0.00
864 3 0.00
866 11 0.02
868 2 0.00
869 130 0.18
870 10 0.01
871 4 0.01
872 2 0.00
873 1 0.00
875 8 0.01
876 79 0.11
877 67 0.09
878 154 0.22
880 3 0.00
881 4 0.01
883 3 0.00
884 15 0.02
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (856 bp):
TTGCCTCTAACTAGGCTGGTGTTTGTGAGAATGTAAGCTCAAAATCAAATACAAAGAGCTTAGAA
AAATAATAACAATAAAAACAAAAGCTCTTGAAAAATATAAAACACTTTGATCTAAGAAAACTTTG
AATGCTAGATGTTTCTTGCTTGGTTCTCTCTTCTTATGTTTTGCTGCTGGAAGCTCTTATTTATA
GGCTTCAATGTTGTTGTAGCCGTTGGAGATTGATTAGTGGAGTTTCTAGCCGTTATTGACTTGTT
TGGAGCTTATTTTAATGATATCAAGTGTAAATGTATCGATACAATTTGGGATGTATCGATACATA
TTTGAAAATATAGCCGTTACTAGCCGTTACAAGCCAATGTATCGATACAACTTTAGGTGTATCGA
TACATTGTATCGATACAAACTTGGTGTATCAATACAAGTATCGATACTGCCAAGAAATCACAATG
ACATGTATCGATACATATGTATCGATACATTGCAACATGTATCGATACATTGAATGGTGTATCGA
TACTTTTAAGGGTTTTGATAATTTTAGCCTAAGTCAACCTTAATGTATCGATACAAATGACCTTG
CATCGATACTTTGAAATATTTTAACTGAAAAATCAATCATTTTAACCTTGAAAACATTTATACTT
AACTAGAAAACATTTAGTGAATCAAAAATCATTTAGCACAAAATTTATAAAGTACTTAATTGAAT
AAAACACATTTTTGGTATTTTCAAAATAATTTTCGGTTTTATTCAATCCTTTGTTATATCAAAAC
CAAGATCCTAACAGAGATTAACACTTTTCAGTTGAACACAACCTCAACAAAAACAAAGAATGCTT
ACAAATGACAA
Found at i:2088618 original size:22 final size:22
Alignment explanation
Indices: 2088574--2088618 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2088564 TTTTCTTTCC
*
2088574 TCTCCCCCTTAATCAAAACATT
1 TCTCCCCCTTAATCAAAAAATT
*
2088596 TCTCTCCCTTAAT-AAAATAATT
1 TCTCCCCCTTAATCAAAA-AATT
2088618 T
1 T
2088619 AACACTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTCCCCCTTAATCAAAAAATT
Found at i:2090724 original size:8 final size:8
Alignment explanation
Indices: 2090711--2090736 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2090701 AACATCATTC
2090711 ATCACAAA
1 ATCACAAA
2090719 ATCACAAA
1 ATCACAAA
2090727 ATCACAAA
1 ATCACAAA
2090735 AT
1 AT
2090737 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:2097049 original size:13 final size:13
Alignment explanation
Indices: 2097031--2097056 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2097021 CATTTTGGGA
2097031 TGTATCGATACAT
1 TGTATCGATACAT
2097044 TGTATCGATACAT
1 TGTATCGATACAT
2097057 AATGTGTGTA
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:2097054 original size:33 final size:32
Alignment explanation
Indices: 2097011--2097074 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
2097001 TACAAGCCAA
* **
2097011 TGTATTGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATAATGGG-TGTATCGATACAT
*
2097044 TGTATCGATACATAATGTGTGTATCGATACA
1 TGTATCGATACATAATGGGTGTATCGATACA
2097075 AACAATTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATAATGGGTGTATCGATACAT
Found at i:2100103 original size:20 final size:21
Alignment explanation
Indices: 2100075--2100147 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 21
2100065 AGTAGTAGCT
*
2100075 CAAAGGAAACAGCAGCAAGAG
1 CAAAGGAAACAACAGCAAGAG
*
2100096 CAAA-GAAACAACAGC----T
1 CAAAGGAAACAACAGCAAGAG
*
2100112 CAAAGGAAACAACAGCAAAAG
1 CAAAGGAAACAACAGCAAGAG
2100133 CAAA-GAAACAACAGC
1 CAAAGGAAACAACAGC
2100148 TCGAAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
16 4 0.09
17 11 0.25
20 21 0.48
21 8 0.18
ACGTcount: A:0.58, C:0.22, G:0.19, T:0.01
Consensus pattern (21 bp):
CAAAGGAAACAACAGCAAGAG
Found at i:2100112 original size:37 final size:37
Alignment explanation
Indices: 2100071--2100172 Score: 150
Period size: 37 Copynumber: 2.7 Consensus size: 37
2100061 CAACAGTAGT
2100071 AGCTCAAAGGAAACAGCAGCAAGAGCAAAGAAACAAC
1 AGCTCAAAGGAAACAGCAGCAAGAGCAAAGAAACAAC
* *
2100108 AGCTCAAAGGAAACAACAGCAAAAGCAAAGAAACAAC
1 AGCTCAAAGGAAACAGCAGCAAGAGCAAAGAAACAAC
*
2100145 AGCTCGAAAGAAATAGCAGCAGCAAGAG
1 AGCTC-AAAGGAA-A-CAGCAGCAAGAG
2100173 AATCGACAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
37 40 0.70
38 6 0.11
39 1 0.02
40 10 0.18
ACGTcount: A:0.54, C:0.21, G:0.22, T:0.04
Consensus pattern (37 bp):
AGCTCAAAGGAAACAGCAGCAAGAGCAAAGAAACAAC
Found at i:2100122 original size:17 final size:16
Alignment explanation
Indices: 2100096--2100157 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 16
2100086 GCAGCAAGAG
2100096 CAAAGAAACAACAGCT
1 CAAAGAAACAACAGCT
*
2100112 CAAAGGAAACAACAGCAAAAG
1 CAAA-GAAACAACAGC----T
2100133 CAAAGAAACAACAGCT
1 CAAAGAAACAACAGCT
2100149 CGAAAGAAA
1 C-AAAGAAA
2100158 TAGCAGCAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
16 5 0.13
17 18 0.47
20 11 0.29
21 4 0.11
ACGTcount: A:0.60, C:0.21, G:0.16, T:0.03
Consensus pattern (16 bp):
CAAAGAAACAACAGCT
Found at i:2102074 original size:21 final size:21
Alignment explanation
Indices: 2102041--2102090 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2102031 TTGCAAGTTG
*
2102041 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2102063 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
2102084 AAATAAA
1 AAATAAA
2102091 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2105908 original size:20 final size:20
Alignment explanation
Indices: 2105865--2105910 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2105855 AAATCTTTTG
2105865 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2105886 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2105906 CAAAA
1 CAAAA
2105911 CTAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2108306 original size:19 final size:18
Alignment explanation
Indices: 2108278--2108314 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
2108268 TGGCAGTAGC
2108278 CAAATATGTATCGATACA
1 CAAATATGTATCGATACA
2108296 CAAAGTATGTATCGATACA
1 CAAA-TATGTATCGATACA
2108315 ATGTATCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (18 bp):
CAAATATGTATCGATACA
Found at i:2108320 original size:13 final size:13
Alignment explanation
Indices: 2108302--2108327 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2108292 TACACAAAGT
2108302 ATGTATCGATACA
1 ATGTATCGATACA
2108315 ATGTATCGATACA
1 ATGTATCGATACA
2108328 CAAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2108346 original size:34 final size:32
Alignment explanation
Indices: 2108283--2108348 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
2108273 GTAGCCAAAT
**
2108283 ATGTATCGATACACAAAGTATGTATCGATACA
1 ATGTATCGATACACAAAAAATGTATCGATACA
2108315 ATGTATCGATACACAAAAAAATTGTATCGATACA
1 ATGTATCGATACAC-AAAAAA-TGTATCGATACA
2108349 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.47
33 4 0.13
34 12 0.40
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (32 bp):
ATGTATCGATACACAAAAAATGTATCGATACA
Found at i:2110182 original size:21 final size:20
Alignment explanation
Indices: 2110136--2110188 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
2110126 GTAGCCAAAC
**
2110136 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
2110156 -TGTATCGATACACAAAAAAA
1 TTGTATCGATACAC-AAAAAA
2110176 TTGTATCGATACA
1 TTGTATCGATACA
2110189 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:2116363 original size:13 final size:13
Alignment explanation
Indices: 2116345--2116383 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2116335 ACATTTTTCT
2116345 TTGTATCGATACA
1 TTGTATCGATACA
2116358 TTGTATCGATACA
1 TTGTATCGATACA
*
2116371 CTGTATCGATACA
1 TTGTATCGATACA
2116384 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2118894 original size:20 final size:19
Alignment explanation
Indices: 2118852--2118906 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
2118842 AAAACCCTTA
*
2118852 AAAGTATCGATACACAATTC
1 AAAGTATCGATACA-TATTC
*
2118872 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATT-C
*
2118892 AAAGTATTGATACAT
1 AAAGTATCGATACAT
2118907 CAAAAATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATATTC
Found at i:2118995 original size:13 final size:13
Alignment explanation
Indices: 2118977--2119002 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2118967 TACGCCAAGT
2118977 ATGTATCGATACA
1 ATGTATCGATACA
2118990 ATGTATCGATACA
1 ATGTATCGATACA
2119003 CAAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2123743 original size:20 final size:19
Alignment explanation
Indices: 2123689--2123747 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
2123679 TATAATGAGA
*
2123689 AATGTATTGATACAATTGT
1 AATGTATTGATACATTTGT
**
2123708 AAGCTTGTATCAATACATTTAGT
1 AA---TGTATTGATACATTT-GT
2123731 AATGTATTGATACATTT
1 AATGTATTGATACATTT
2123748 CCTTGGCAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 2 0.06
20 13 0.42
22 12 0.39
23 4 0.13
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (19 bp):
AATGTATTGATACATTTGT
Found at i:2123808 original size:19 final size:20
Alignment explanation
Indices: 2123784--2123838 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
2123774 TATTGATACA
2123784 TTGTATCGATACAAAACT-T
1 TTGTATCGATACAAAACTAT
**
2123803 TTGTATCGATACATTTACTAT
1 TTGTATCGATACA-AAACTAT
*
2123824 TTATATCGATACAAA
1 TTGTATCGATACAAA
2123839 TTATAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACAAAACTAT
Found at i:2125148 original size:13 final size:13
Alignment explanation
Indices: 2125130--2125155 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2125120 CAATTTTTTG
2125130 TGTATCGATACAT
1 TGTATCGATACAT
2125143 TGTATCGATACAT
1 TGTATCGATACAT
2125156 ACTTGGTGTA
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:2125170 original size:32 final size:33
Alignment explanation
Indices: 2125110--2125173 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2125100 TACAAGCCAA
** *
2125110 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
2125143 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
2125174 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:2125872 original size:39 final size:40
Alignment explanation
Indices: 2125797--2125877 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 40
2125787 TTTTCTTTCT
**
2125797 CCCTTAATCAAAGTAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAATCAAAGTAATTTTAACAAATTCACACATTCTCC
* *
2125837 CCCTTAAT--AAGATAATTTTAGCAAATTCACGCATTCTCC
1 CCCTTAATCAAAG-TAATTTTAACAAATTCACACATTCTCC
2125876 CC
1 CC
2125878 TTTTATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 3 0.08
39 25 0.69
40 8 0.22
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (40 bp):
CCCTTAATCAAAGTAATTTTAACAAATTCACACATTCTCC
Found at i:2125909 original size:27 final size:27
Alignment explanation
Indices: 2125879--2125932 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2125869 ATTCTCCCCT
2125879 TTTATTAAAAAATCTCCCCCTTAATCA
1 TTTATTAAAAAATCTCCCCCTTAATCA
2125906 TTTATTAAAAAATCTCCCCCTTAATCA
1 TTTATTAAAAAATCTCCCCCTTAATCA
2125933 AGTAATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (27 bp):
TTTATTAAAAAATCTCCCCCTTAATCA
Found at i:2127765 original size:13 final size:13
Alignment explanation
Indices: 2127747--2127785 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2127737 ATAATCCCCC
*
2127747 TGTATCGATACAG
1 TGTATCGATACAA
2127760 TGTATCGATACAA
1 TGTATCGATACAA
2127773 TGTATCGATACAA
1 TGTATCGATACAA
2127786 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2127842 original size:20 final size:20
Alignment explanation
Indices: 2127771--2127850 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
2127761 GTATCGATAC
*
2127771 AATGTATCGATACAAAGAAA
1 AATGTATCGATACATAGAAA
*
2127791 AATGTATCGATACATTGAATTTCCA
1 AATGTATCGATACATAGAA-----A
*
2127816 TATGTATCGATACATAGAAA
1 AATGTATCGATACATAGAAA
*
2127836 CATGTATCGATACAT
1 AATGTATCGATACAT
2127851 TTTGGATATT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATAGAAA
Found at i:2133973 original size:13 final size:13
Alignment explanation
Indices: 2133955--2133980 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2133945 AATTTTTTGT
2133955 GTATCGATACATA
1 GTATCGATACATA
2133968 GTATCGATACATA
1 GTATCGATACATA
2133981 CTTGGTGTAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
GTATCGATACATA
Found at i:2133994 original size:32 final size:33
Alignment explanation
Indices: 2133935--2133997 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
2133925 ACAAGCCAAT
** *
2133935 GTATCGATACAATTTTTTGTGTATCGATACATA
1 GTATCGATACAATACTTGGTGTATCGATACATA
2133968 GTATCGATAC-ATACTTGGTGTATCGATACA
1 GTATCGATACAATACTTGGTGTATCGATACA
2133998 AGTTTGGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (33 bp):
GTATCGATACAATACTTGGTGTATCGATACATA
Found at i:2135120 original size:152 final size:152
Alignment explanation
Indices: 2134630--2135381 Score: 743
Period size: 152 Copynumber: 4.9 Consensus size: 152
2134620 AGTCCTAGCA
* * * * * * * * *
2134630 AAGGTGTACGATTATGATAGGTTCATTCCTTTACCTTTTTAAGTCCTTTAGGGTT-GCTAGGATA
1 AAGGTGTATGTTTAGGATAGGTTCATCCCTTTTCATTTTTAAGTCTTTTAGGGTTACCGA-GATA
* * * * *
2134694 CTTTCACATCGAAGGTATACCCCTAGAGGCATTTTAATAATTTTTTTTAAAATTGAGTCCAAGGT
65 CTTTCACGTCGAAGGTAT-CCCCTAGGGGCATTTTAATAA-TTTTTCTAAAATCGAGTCCTAGGT
*
2134759 TATCACCGAGAATGCTTCTATGCCG
128 TATCACCGAGTATGCTTCTATGCCG
* * * ** * *
2134784 AAGGCGTATATTTAGGATAGGGTCATATCTTTTCATTTTTAAGTTTTTTAGGGTTACCAAGATAC
1 AAGGTGTATGTTTAGGATAGGTTCATCCCTTTTCATTTTTAAGTCTTTTAGGGTTACCGAGATAC
* * * ** * * *
2134849 TTTCATGTCGAAGGTATATCCCTAGGGGTATTTTTGTAATTTTCTTTTAAAATCGAGTCTTAAGT
66 TTTCACGTCGAAGGTAT-CCCCTAGGGGCATTTTAATAA-TTT-TTCTAAAATCGAGTCCTAGGT
** * * ** *
2134914 TATCATAGGGTAAGCTTCCGTGCCA
128 TATCACCGAGTATGCTTCTATGCCG
* * *
2134939 AAGGTGTACGTTTAGGATAGGTTCATCCCTTTTCATTTTTAAGTCTTTGAGGGTTATCGAGATAC
1 AAGGTGTATGTTTAGGATAGGTTCATCCCTTTTCATTTTTAAGTCTTTTAGGGTTACCGAGATAC
* ** * * * * * *
2135004 TTTTACACCGAAGGTATCTCTTAGGGGCATTTTAATAATTTTCCTAGAATCGGGTCCTAGGGTAT
66 TTTCACGTCGAAGGTATCCCCTAGGGGCATTTTAATAATTTTTCTAAAATCGAGTCCTAGGTTAT
*
2135069 CACCGAGTATGCTTCTATGCTG
131 CACCGAGTATGCTTCTATGCCG
* * * * * *
2135091 AAGGTGTATGTTTAGGACAAGTTCATCCCTTTTCCTTTTTAAGTGTTTTAGAGTTA-CTAGGATA
1 AAGGTGTATGTTTAGGATAGGTTCATCCCTTTTCATTTTTAAGTCTTTTAGGGTTACCGA-GATA
** * * * *
2135155 CTTTCACGTCGAAGGTATCCTTTAGGGGTATTTTAGTATTTTTTCTAAAACCGAGTCCTAGGTTA
65 CTTTCACGTCGAAGGTATCCCCTAGGGGCATTTTAATAATTTTTCTAAAATCGAGTCCTAGGTTA
2135220 TCACCGAGTATGCTTCTATGCCG
130 TCACCGAGTATGCTTCTATGCCG
* * * * * * *
2135243 AAGTTGTATGTTTAGGATAGGTTCATCCCTTTTTATTTTAAAATCTTTAAAGGTTACCGAGGTAC
1 AAGGTGTATGTTTAGGATAGGTTCATCCCTTTTCATTTTTAAGTCTTTTAGGGTTACCGAGATAC
* * * * * *
2135308 TTTCATGTCGAAGGTATACCCCTAGAGACATTTTACTAATTTTTCTAGAATCGAGTCTTAGGTTA
66 TTTCACGTCGAAGGTAT-CCCCTAGGGGCATTTTAATAATTTTTCTAAAATCGAGTCCTAGGTTA
2135373 TCACCGAGT
130 TCACCGAGT
2135382 CCATTTTTAC
Statistics
Matches: 479, Mismatches: 114, Indels: 11
0.79 0.19 0.02
Matches are distributed among these distances:
151 2 0.00
152 223 0.47
153 51 0.11
154 99 0.21
155 104 0.22
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (152 bp):
AAGGTGTATGTTTAGGATAGGTTCATCCCTTTTCATTTTTAAGTCTTTTAGGGTTACCGAGATAC
TTTCACGTCGAAGGTATCCCCTAGGGGCATTTTAATAATTTTTCTAAAATCGAGTCCTAGGTTAT
CACCGAGTATGCTTCTATGCCG
Found at i:2138757 original size:18 final size:18
Alignment explanation
Indices: 2138730--2138772 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
2138720 CTCCACATTG
*
2138730 GAGGGCATGAAGAAAATC
1 GAGGGAATGAAGAAAATC
2138748 GAGGGAATGAAGAAAATC
1 GAGGGAATGAAGAAAATC
2138766 GAGGGAA
1 GAGGGAA
2138773 AATGAGGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.07, G:0.37, T:0.09
Consensus pattern (18 bp):
GAGGGAATGAAGAAAATC
Found at i:2139724 original size:112 final size:112
Alignment explanation
Indices: 2139519--2139727 Score: 260
Period size: 112 Copynumber: 1.9 Consensus size: 112
2139509 AGCTTGGAAG
* * *
2139519 AACATTAAATTTGTTTGATTTTTGAAGAAATTCATACTTTATACATTCCAATCCATTTGCTTGTA
1 AACATTAAATTTGTCTGATTTTTGAAGAAATTCATACTCTATACATTCCAATCCATTTGC-TCTA
* * * *
2139584 AGAAAATAGGGCACATATCCTATGAGTTTTGAGACCTTTGAGTCTAAC
65 AGAAAATAGGGAACATACCCAATCAGTTTTGAGACCTTTGAGTCTAAC
* * *
2139632 AACATTAAATTTGTCTGATTTTTG-AGAAATTCATGCTCTATACATTTCGATCCATTCATGC-CT
1 AACATTAAATTTGTCTGATTTTTGAAGAAATTCATACTCTATACATTCCAATCCATT--TGCTCT
* **
2139695 AGGAAAATAGGGAATGTACCCAATCAGTTTTGA
64 AAGAAAATAGGGAACATACCCAATCAGTTTTGA
2139728 AATTGTTAGG
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
112 55 0.68
113 23 0.28
114 3 0.04
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (112 bp):
AACATTAAATTTGTCTGATTTTTGAAGAAATTCATACTCTATACATTCCAATCCATTTGCTCTAA
GAAAATAGGGAACATACCCAATCAGTTTTGAGACCTTTGAGTCTAAC
Found at i:2140193 original size:13 final size:13
Alignment explanation
Indices: 2140175--2140200 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2140165 TACACCATGT
2140175 ATGTATCGATACA
1 ATGTATCGATACA
2140188 ATGTATCGATACA
1 ATGTATCGATACA
2140201 CCAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2140193 original size:17 final size:18
Alignment explanation
Indices: 2140157--2140193 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
2140147 TAGCCAAACT
2140157 TGTATCGATACACCATGTA
1 TGTATCGATACA-CATGTA
2140176 TGTATCGATACA-ATGTA
1 TGTATCGATACACATGTA
2140193 T
1 T
2140194 CGATACACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (18 bp):
TGTATCGATACACATGTA
Found at i:2142399 original size:22 final size:21
Alignment explanation
Indices: 2142372--2142423 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
2142362 TTGCAAGTTG
2142372 AAATAAAAAATTTAGCTAATG-A
1 AAATAAAAAA-TTAGCTAA-GAA
**
2142394 AAATAATGAATTAGCTAAGAA
1 AAATAAAAAATTAGCTAAGAA
2142415 AAATAAAAA
1 AAATAAAAA
2142424 CTTGCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.23
Consensus pattern (21 bp):
AAATAAAAAATTAGCTAAGAA
Found at i:2146344 original size:13 final size:13
Alignment explanation
Indices: 2146326--2146363 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2146316 CATTTTTCTT
2146326 TGTATCGATACAA
1 TGTATCGATACAA
*
2146339 TGTATCGATACAC
1 TGTATCGATACAA
2146352 TGTATCGATACA
1 TGTATCGATACA
2146364 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2150108 original size:87 final size:86
Alignment explanation
Indices: 2149950--2150340 Score: 315
Period size: 87 Copynumber: 4.5 Consensus size: 86
2149940 CTACATTAGT
* * * * * **
2149950 ATTTGCATATTTTCAT-ATGCATTTGTCATTCTATTGATGCTTGCATTTGCATTATCTCACCTAC
1 ATTTGCATA-TTTCATAAT-CATTTGCCCTT-TATTGATGCTTGCATTTGCATCATTTTATGTAC
* *
2150014 ATTTGCATTTTAAATGGCATTGGC
63 ATCTGCATTTTAGATGGCATTGGC
* * * * * *
2150038 ATTTGCATCATTGCATAATCATTTACCCTTTATTTATGCTTGTAATTGCATCATTTTATGCACAT
1 ATTTGCAT-ATTTCATAATCATTTGCCCTTTATTGATGCTTGCATTTGCATCATTTTATGTACAT
*
2150103 CTGCATTTTAGATAAG-ATTGGC
65 CTGCATTTTAGAT-GGCATTGGC
** * * * *
2150125 ATTTGCATAATTTCATACGCATTTGCCACTTTGTTGATACTTGCATTTGCATCATTTCACGTACA
1 ATTTGCAT-ATTTCATAATCATTTGCC-CTTTATTGATGCTTGCATTTGCATCATTTTATGTACA
* * * *
2150190 TGTGCATTTTAGATGACATCGGT
64 TCTGCATTTTAGATGGCATTGGC
*
2150213 ATTTGCAATATTTCAT-ATGCATTTGCCTTTTATTGATGCTTGCATTTGCATCATTTCT-TGTAC
1 ATTTGC-ATATTTCATAAT-CATTTGCCCTTTATTGATGCTTGCATTTGCATCATTT-TATGTAC
* * ** * *
2150276 ATCTACATTTTGGATAACATTAGT
63 ATCTGCATTTTAGATGGCATTGGC
* *
2150300 ATTTACATCATTTCATATAT-GTTTGCCACTTTATTGATGCT
1 ATTTGCAT-ATTTCATA-ATCATTTGCC-CTTTATTGATGCT
2150341 ACACTTACAT
Statistics
Matches: 241, Mismatches: 50, Indels: 24
0.77 0.16 0.08
Matches are distributed among these distances:
86 2 0.01
87 131 0.54
88 101 0.42
89 7 0.03
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (86 bp):
ATTTGCATATTTCATAATCATTTGCCCTTTATTGATGCTTGCATTTGCATCATTTTATGTACATC
TGCATTTTAGATGGCATTGGC
Found at i:2150254 original size:175 final size:175
Alignment explanation
Indices: 2149942--2150316 Score: 434
Period size: 175 Copynumber: 2.1 Consensus size: 175
2149932 GAAATAGACT
* * * * * *
2149942 ACATTAGTATTTGCATATTTTCATATGCATTTGTCATTCTATTGATGCTTGCATTTGCATTATCT
1 ACATTAGCATTTGCATAATTTCATACGCATTTGCCATTCTATTGATACTTGCATTTGCATCATCT
* * *
2150007 CACCTACATTTGCATTTTAAATGGCATTGGCATTTGCATCATTGCATAATCATTTACCCTTTATT
66 CACCTACATGTGCATTTTAAATGACATCGGCATTTGCATCATTGCATAATCATTTACCCTTTATT
* * *
2150072 TATGCTTGTAATTGCATCATTT-TATGCACATCTGCATTTTAGATA
131 GATGCTTGCAATTGCATCATTTCT-TGCACATCTACATTTTAGATA
* * * *
2150117 AGATTGGCATTTGCATAATTTCATACGCATTTGCCACTT-TGTTGATACTTGCATTTGCATCATT
1 ACATTAGCATTTGCATAATTTCATACGCATTTGCCA-TTCTATTGATACTTGCATTTGCATCATC
* * * * * *
2150181 TCACGTACATGTGCATTTTAGATGACATCGGTATTTGCAAT-ATTTCAT-ATGCATTTGCCTTTT
65 TCACCTACATGTGCATTTTAAATGACATCGGCATTTGC-ATCATTGCATAAT-CATTTACCCTTT
* * *
2150244 ATTGATGCTTGCATTTGCATCATTTCTTGTACATCTACATTTTGGATA
128 ATTGATGCTTGCAATTGCATCATTTCTTGCACATCTACATTTTAGATA
* * *
2150292 ACATTAGTATTTACATCATTTCATA
1 ACATTAGCATTTGCATAATTTCATA
2150317 TATGTTTGCC
Statistics
Matches: 166, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
174 2 0.01
175 159 0.96
176 5 0.03
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (175 bp):
ACATTAGCATTTGCATAATTTCATACGCATTTGCCATTCTATTGATACTTGCATTTGCATCATCT
CACCTACATGTGCATTTTAAATGACATCGGCATTTGCATCATTGCATAATCATTTACCCTTTATT
GATGCTTGCAATTGCATCATTTCTTGCACATCTACATTTTAGATA
Found at i:2150664 original size:90 final size:89
Alignment explanation
Indices: 2150533--2150720 Score: 236
Period size: 89 Copynumber: 2.1 Consensus size: 89
2150523 GATGGTACTA
* *
2150533 ATGCATCACAAAGCCTAATACCTTGGGCCAAGGGTGTAGCCCATC-CATTTCCTAATCATATCCT
1 ATGCATCACAAAGCCTAATACCTTGGGCCAAAGGTGCAGCCCA-CACATTT-CTAATCATATCCT
*
2150597 TTTTCTTCAAACGCTAGTTGGTATTG
64 TTTTCTTCAAACACTAGTTGGTATTG
* * * *
2150623 ATGCATCATAGAGCCTAATACCTTAGGG-CAAAGGTGCAGCCCACACCTTTCTAATCATATCTTT
1 ATGCATCACAAAGCCTAATACCTT-GGGCCAAAGGTGCAGCCCACACATTTCTAATCATATCCTT
* * * *
2150687 TTTCTTCAAACACTAGATGATACTA
65 TTTCTTCAAACACTAGTTGGTATTG
2150712 ATGCATCAC
1 ATGCATCAC
2150721 TATCACAACA
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
89 42 0.50
90 39 0.46
91 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (89 bp):
ATGCATCACAAAGCCTAATACCTTGGGCCAAAGGTGCAGCCCACACATTTCTAATCATATCCTTT
TTCTTCAAACACTAGTTGGTATTG
Found at i:2150716 original size:89 final size:90
Alignment explanation
Indices: 2150522--2150720 Score: 260
Period size: 90 Copynumber: 2.2 Consensus size: 90
2150512 CCCAACCACC
* *
2150522 AGATGGTACTAATGCATCACAAAGCCTAATACCTTGGGCCAAGGGTGTAGCCCATCCATTTCCTA
1 AGATGGTACTAATGCATCACAAAGCCTAATACCTTGGGCCAAAGGTGCAGCCCATCCATTTCCTA
*
2150587 ATCATATCCTTTTTCTTCAAACGCT
66 ATCATATCCTTTTTCTTCAAACACT
* * * * * *
2150612 AGTTGGTATTGATGCATCATAGAGCCTAATACCTTAGGG-CAAAGGTGCAGCCCA-CACCTTT-C
1 AGATGGTACTAATGCATCACAAAGCCTAATACCTT-GGGCCAAAGGTGCAGCCCATC-CATTTCC
*
2150674 TAATCATATCTTTTTTCTTCAAACACT
64 TAATCATATCCTTTTTCTTCAAACACT
*
2150701 AGATGATACTAATGCATCAC
1 AGATGGTACTAATGCATCAC
2150721 TATCACAACA
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
89 42 0.46
90 47 0.51
91 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (90 bp):
AGATGGTACTAATGCATCACAAAGCCTAATACCTTGGGCCAAAGGTGCAGCCCATCCATTTCCTA
ATCATATCCTTTTTCTTCAAACACT
Found at i:2154744 original size:52 final size:51
Alignment explanation
Indices: 2154666--2154814 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 51
2154656 CGAAATATAA
2154666 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGAGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGAGC
* * *
2154718 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGAGC
**
2154770 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
2154815 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGAGC
Found at i:2154908 original size:13 final size:13
Alignment explanation
Indices: 2154890--2154914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2154880 CAAAAAAATA
2154890 TGTATCGATACAT
1 TGTATCGATACAT
2154903 TGTATCGATACA
1 TGTATCGATACA
2154915 ACACTTTATG
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:2154925 original size:33 final size:33
Alignment explanation
Indices: 2154868--2154934 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2154858 AGTAGCTTAA
*
2154868 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCAATAC
* ***
2154901 ATTGTATCGATACAACACTTTATGTATCAATAC
1 ATTGTATCGATACAAAAAAATATGTATCAATAC
2154934 A
1 A
2154935 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCAATAC
Found at i:2157210 original size:30 final size:30
Alignment explanation
Indices: 2157174--2157240 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
2157164 TAATGCCTAT
2157174 GGTGGCTAACAGAGCTCAAGAAGAAGGTAA
1 GGTGGCTAACAGAGCTCAAGAAGAAGGTAA
* * *
2157204 GGTGGCTAGCAGAGCTCAGGAGGAAGGTAA
1 GGTGGCTAACAGAGCTCAAGAAGAAGGTAA
2157234 GGTGGCT
1 GGTGGCT
2157241 GGAGTTAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.31, C:0.13, G:0.40, T:0.15
Consensus pattern (30 bp):
GGTGGCTAACAGAGCTCAAGAAGAAGGTAA
Found at i:2157548 original size:22 final size:22
Alignment explanation
Indices: 2157520--2157593 Score: 89
Period size: 22 Copynumber: 3.5 Consensus size: 22
2157510 ATGAGAAATA
2157520 TATCGATACAATTTGAAGCATT
1 TATCGATACAATTTGAAGCATT
*** *
2157542 TATCGATAC-ATTT-ATTAATA
1 TATCGATACAATTTGAAGCATT
*
2157562 TATTGATACAATTTGAAGCATT
1 TATCGATACAATTTGAAGCATT
2157584 TATCGATACA
1 TATCGATACA
2157594 TTTATTAATA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 11 0.28
21 8 0.20
22 21 0.52
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (22 bp):
TATCGATACAATTTGAAGCATT
Found at i:2157562 original size:42 final size:42
Alignment explanation
Indices: 2157516--2157613 Score: 187
Period size: 42 Copynumber: 2.3 Consensus size: 42
2157506 TACAATGAGA
2157516 AATATATCGATACAATTTGAAGCATTTATCGATACATTTATT
1 AATATATCGATACAATTTGAAGCATTTATCGATACATTTATT
*
2157558 AATATATTGATACAATTTGAAGCATTTATCGATACATTTATT
1 AATATATCGATACAATTTGAAGCATTTATCGATACATTTATT
2157600 AATATATCGATACA
1 AATATATCGATACA
2157614 TTTCCTTGGC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (42 bp):
AATATATCGATACAATTTGAAGCATTTATCGATACATTTATT
Found at i:2157571 original size:20 final size:20
Alignment explanation
Indices: 2157542--2157616 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
2157532 TTGAAGCATT
2157542 TATCGATACATTTATTAATA
1 TATCGATACATTTATTAATA
* *** *
2157562 TATTGATACAATTTGAAGCATT
1 TATCGATAC-ATTT-ATTAATA
2157584 TATCGATACATTTATTAATA
1 TATCGATACATTTATTAATA
2157604 TATCGATACATTT
1 TATCGATACATTT
2157617 CCTTGGCAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 24 0.56
21 8 0.19
22 11 0.26
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (20 bp):
TATCGATACATTTATTAATA
Found at i:2158637 original size:93 final size:93
Alignment explanation
Indices: 2158455--2159736 Score: 886
Period size: 93 Copynumber: 13.9 Consensus size: 93
2158445 GTTTGACTAC
* * * * * * *
2158455 ACCTAATCAAACTCTTCTCACTTTTGTTTGATTGTATTGGCATTAGTCCTAGTTAAACTCTTTTC
1 ACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATTAGACCTAGTCAAACTCTTCTC
** * * * **
2158520 AGTTTTGTTTAACTCTATTAGCATTAAA
66 ACCTTTGTTTGACTGTATTAGCGTTAGG
*** * *
2158548 ACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTAATATTAGTCCTAGTCAAACTCTTTTC
1 ACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATTAGACCTAGTCAAACTCTTCTC
* * *
2158613 A-CTTTCATTTGACTGTATTGGCATTAGG
66 ACCTTT-GTTTGACTGTATTAGCGTTAGG
* ** * * *
2158641 ACTTAGTCAAACTCTTCTCATTTTTGTTTGACTATATTAGCATTAAGACCTAGTCAAACTCTTCT
1 ACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATT-AGACCTAGTCAAACTCTTCT
* * * *
2158706 CACCTTCGTTTGATTGTATTGGCGTTATG
65 CACCTTTGTTTGACTGTATTAGCGTTAGG
**
2158735 ACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTAGGACCTAGTCAAACTCTT-T
1 ACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATTA-GACCTAGTCAAACTCTTCT
* * * *
2158799 CATCCTTTATTTGACTATATCCA-AGTTA-G
65 CA-CCTTTGTTTGACTGTAT-TAGCGTTAGG
* * * * * * * * * *
2158828 TCCTGGTTAAA-TCTTTTCA-ATTTGTTTGACTATATTAGCATTAGGACTTGGTCAAACTCTTCT
1 ACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATTA-GACCTAGTCAAACTCTTCT
* * *
2158891 TATCTTCGTTTGACTGTATT-GACGTTAGG
65 CACCTTTGTTTGACTGTATTAG-CGTTAGG
* * * * * *
2158920 ACCTAGTCAAACTCTTCTTACCTT-TTTCTGATTGTATTGGCGTTAGTCCTAGTCAAACTCTTCC
1 ACCTAGTCAAACTCTTCTCACCTTCGTT-TGACTGTATTGGCATTAGACCTAGTCAAACTCTTCT
* * * *
2158984 CACCTTTATTTAACTATATTAGCGTTATG
65 CACCTTTGTTTGACTGTATTAGCGTTAGG
* * * * * *
2159013 ACCTGGTCAAACTCTT-TCCACTTTCGTTTGACTATATTGGCGTTAAGACCTGGTTAAACTCTTC
1 ACCTAGTCAAACTCTTCT-CACCTTCGTTTGACTGTATTGGCATT-AGACCTAGTCAAACTCTTC
* * *
2159077 TCACCTTTATTTGACTGTATTAGCATTTGG
64 TCACCTTTGTTTGACTGTATTAGCGTTAGG
* * * * * *
2159107 ACCTGGTCAAACTTTTCCCACCTTCATTTGACTCTATTGGCA-TAGGACTTAGTCAAACTCTTCT
1 ACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATTA-GACCTAGTCAAACTCTTCT
*
2159171 CACCTTTGTTTGATTGTATTAGCGTTA-G
65 CACCTTTGTTTGACTGTATTAGCGTTAGG
* * * * *
2159199 TCCTGGTCAAACTCCTCTCACCTTCGTTTGACTGTATTAGCGTTAAGACCTAGTCAAACTCTTCT
1 ACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATT-AGACCTAGTCAAACTCTTCT
*
2159264 CACCTTTGTTTGACTGTATTAGTGTTAGG
65 CACCTTTGTTTGACTGTATTAGCGTTAGG
* * * * * * *
2159293 ACTTGGTCAAACTCTTCTCACCTT--TATGACTATATTGGCTTTAAGACCTGGTCAAACTTTTCT
1 ACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATT-AGACCTAGTCAAACTCTTCT
* *
2159356 CACCTTCGTTTGACAGTATT-G-GTAATAGG
65 CACCTTTGTTTGACTGTATTAGCGT--TAGG
* * * * * * * *
2159385 ACTTAGTCAAACTTTTTTCATAC-TCGTTTAATTGTATTGGCGTTAGTCC-AGGTCAAACTCTTC
1 ACCTAGTCAAACTCTTCTCA-CCTTCGTTTGACTGTATTGGCATTAGACCTA-GTCAAACTCTTC
** * * *
2159448 TCACCTTCCTTTGATTG-ATTTGGTGTTA-G
64 TCACCTTTGTTTGACTGTA-TTAGCGTTAGG
* * * * * * * * * *
2159477 TCCTGGTCAAGCTCTTTTCATCATCATTTGATTGTA-T----TT-G-----GTCAAACTCTTTTT
1 ACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATTAGACCTAGTCAAACTCTTCTC
* * * *
2159531 ACCCTTGTTTGACTATATTGGCATTAGG
66 ACCTTTGTTTGACTGTATTAGCGTTAGG
* * * * *
2159559 ACCTAGTCAAACT-TATTTCACCCTT-GTTTGACAGTATTTGCATTAGGACCTGGTTAAACTCTT
1 ACCTAGTCAAACTCT-TCTCA-CCTTCGTTTGACTGTATTGGCATTA-GACCTAGTCAAACTCTT
* * * *
2159622 CTCACCTTCGTTTGATTGAATTAGC-ATAGG
63 CTCACCTTTGTTTGACTGTATTAGCGTTAGG
* * * * * * * *
2159652 ACCTGGTCAAACTCTT-TCCACCCTCGTTTAACTGTATTGGCATTGGGGCTTGGTCAAACTCTTT
1 ACCTAGTCAAACTCTTCT-CACCTTCGTTTGACTGTATTGGCATT-AGACCTAGTCAAACTCTTC
*
2159716 TCACCCTTGTTTGACTGTATT
64 TCACCTTTGTTTGACTGTATT
2159737 GGCATTAGTC
Statistics
Matches: 938, Mismatches: 199, Indels: 104
0.76 0.16 0.08
Matches are distributed among these distances:
81 30 0.03
82 25 0.03
83 3 0.00
86 1 0.00
87 4 0.00
89 1 0.00
90 2 0.00
91 54 0.06
92 163 0.17
93 384 0.41
94 266 0.28
95 5 0.01
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (93 bp):
ACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGCATTAGACCTAGTCAAACTCTTCTC
ACCTTTGTTTGACTGTATTAGCGTTAGG
Found at i:2159118 original size:325 final size:325
Alignment explanation
Indices: 2158489--2159377 Score: 982
Period size: 325 Copynumber: 2.7 Consensus size: 325
2158479 TGTTTGATTG
* ** * * * *
2158489 TATTGGCATTAGTCCTAGTTAAACTCTTTTCAGTTTTGTTTAACTCTATTAGCATTAAAACCTAG
1 TATTGCCATTAGTCCTAGTTAAACTCTTTTCACATTTGTTTGACTATATTAGCATT-AGACCTGG
** *
2158554 TCAAACTCTTCTCACCTTCGTTTGACTGTATTAATATTAGTCCTAGTCAAACTCTT-TT-CACTT
65 TCAAACTCTTCTCACCTTCGTTTGACTGTATT-ACGTTAGACCTAGTCAAACTCTTCTTAC-CTT
* ** *
2158617 TCATTTGACTGTATTGGCATTAGGACTTAGTCAAACTCTTCTCATTTTTGTTTGACTATATTAGC
128 T-ATTTGACTGTATTGGCGTTAGGACTTAGTCAAACTCTTCTCACCTTTATTTGACTATATTAGC
* * * *
2158682 ATTAAGACCTAGTCAAACTC-TTCTCACCTTCGTTTGATTGTATTGGCGTTATGACCTAGTCAAA
192 ATTAAGACCTGGTCAAACTCTTTCTCACCTTCGTTTGACTATATTGGCGTTAAGACCTAGTCAAA
* * ** *
2158746 CTCTTCTCACCTTCGTTTGACTGTATTGGTGTTAGGACCTAGTCAAACTCTTT-CATCCTTTATT
257 CTCTTCTCACCTTCATTTGACTGTATTAGCATTAGGACCTAGTCAAACT-TTTCCA-CCTTCATT
2158810 TGACTA
320 TGACTA
* *
2158816 TA-T-CCAAGTTAGTCCTGGTTAAA-TCTTTTCA-ATTTGTTTGACTATATTAGCATTAGGACTT
1 TATTGCC-A-TTAGTCCTAGTTAAACTCTTTTCACATTTGTTTGACTATATTAGCATTA-GACCT
* *
2158877 GGTCAAACTCTTCTTATCTTCGTTTGACTGTATTGACGTTAGGACCTAGTCAAACTCTTCTTACC
63 GGTCAAACTCTTCTCACCTTCGTTTGACTGTATT-ACGTTA-GACCTAGTCAAACTCTTCTTACC
* * * * *
2158942 TTT-TTCTGATTGTATTGGCGTTA-GTCCTAGTCAAACTCTTCCCACCTTTATTTAACTATATTA
126 TTTATT-TGACTGTATTGGCGTTAGGACTTAGTCAAACTCTTCTCACCTTTATTTGACTATATTA
* * * * *
2159005 GCGTTATGACCTGGTCAAACTCTTTC-CACTTTCGTTTGACTATATTGGCGTTAAGACCTGGTTA
190 GCATTAAGACCTGGTCAAACTCTTTCTCACCTTCGTTTGACTATATTGGCGTTAAGACCTAGTCA
* * *
2159069 AACTCTTCTCACCTTTATTTGACTGTATTAGCATTTGGACCTGGTCAAACTTTTCCCACCTTCAT
255 AACTCTTCTCACCTTCATTTGACTGTATTAGCATTAGGACCTAGTCAAACTTTT-CCACCTTCAT
*
2159134 TTGACTC
319 TTGACTA
* * * * * * * * * *
2159141 TATTGGCA-TAGGACTTAGTCAAACTCTTCTCACCTTTGTTTGATTGTATTAGCGTTAGTCCTGG
1 TATTGCCATTA-GTCCTAGTTAAACTCTTTTCACATTTGTTTGACTATATTAGCATTAGACCTGG
* *
2159205 TCAAACTCCTCTCACCTTCGTTTGACTGTATTAGCGTTAAGACCTAGTCAAACTCTTCTCACCTT
65 TCAAACTCTTCTCACCTTCGTTTGACTGTATTA-CGTT-AGACCTAGTCAAACTCTTCTTACCTT
* * * * * *
2159270 TGTTTGACTGTATTAGTGTTAGGACTTGGTCAAACTCTTCTCACCTTTA--TGACTATATTGGCT
128 TATTTGACTGTATTGGCGTTAGGACTTAGTCAAACTCTTCTCACCTTTATTTGACTATATTAGCA
2159333 TTAAGACCTGGTCAAACT-TTTCTCACCTTCGTTTGAC-AGTATTGG
193 TTAAGACCTGGTCAAACTCTTTCTCACCTTCGTTTGACTA-TATTGG
2159378 TAATAGGACT
Statistics
Matches: 472, Mismatches: 69, Indels: 44
0.81 0.12 0.08
Matches are distributed among these distances:
324 11 0.02
325 259 0.55
326 132 0.28
327 69 0.15
328 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.41
Consensus pattern (325 bp):
TATTGCCATTAGTCCTAGTTAAACTCTTTTCACATTTGTTTGACTATATTAGCATTAGACCTGGT
CAAACTCTTCTCACCTTCGTTTGACTGTATTACGTTAGACCTAGTCAAACTCTTCTTACCTTTAT
TTGACTGTATTGGCGTTAGGACTTAGTCAAACTCTTCTCACCTTTATTTGACTATATTAGCATTA
AGACCTGGTCAAACTCTTTCTCACCTTCGTTTGACTATATTGGCGTTAAGACCTAGTCAAACTCT
TCTCACCTTCATTTGACTGTATTAGCATTAGGACCTAGTCAAACTTTTCCACCTTCATTTGACTA
Found at i:2159325 original size:465 final size:462
Alignment explanation
Indices: 2158455--2159454 Score: 1145
Period size: 465 Copynumber: 2.1 Consensus size: 462
2158445 GTTTGACTAC
* * * * *
2158455 ACCTAATCAAACTCTTCTCACTTTTGTTTGATTGTATTGGCATTAGTCCTAGTTAAACTCTTTTC
1 ACCTAGTCAAACTCTTCTTAC-TTT-TTTGATTGTATTGGCGTTAGTCCTAGTCAAACTCTTCTC
** * * *
2158520 AGTTTTGTTTAACTCTATTAGCATTAAAACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTAT
64 ACCTTTATTTAACTATATTAGCATTAAAACCTAGTCAAACTCTTCTCACCTTCGTTTGACTATAT
* * * * *
2158585 TAATATTAGTCCTAGTCAAACTCTTTTCACTTTCATTTGACTGTATTGGCATTAGGACTTAGTCA
129 TAACATTAGACCTAGTCAAACTCTTCTCACTTTCATTTGACTGTATTAGCATTAGGACCTAGTCA
* ** **
2158650 AACTCTTCTCATTTTTGTTTGACTATATTAGCATTAAGACCTAGTCAAACTCTTCTCACCTTCGT
194 AACTCTTCCCACCTTCATTTGACTATATTAGCATTAAGACCTAGTCAAACTCTTCTCACCTTCGT
* * * *
2158715 TTGATTGTATTGGCGTTATGACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTA
259 TTGATTGTATTAGCGTTATGACCTAGTCAAACTCCTCTCACCTTCGTTTGACTGTATTAGCGTTA
* * * *
2158780 GGACCTAGTCAAACTCTTTCATCCTTTATTTGACTATATCCAAGTTAGTCCTGGTTAAATCTTTT
324 AGACCTAGTCAAACTCTTTCATCCTTTATTTGACTATATCCAAGTTAGACCTGGTCAAATCTTCT
* * * * * * *
2158845 CAATTTGTTTGACTATATTAGCATTAGGACTTGGTCAAACTCTTCTTATCTTCGTTTGACTGTAT
389 CAACTTGTATGACTATATTAGCATTAAGACCTGGTCAAACTCTTCTCACCTTCGTTTGACAGTAT
2158910 TGACGT-TAGG
454 TG--GTATAGG
*
2158920 ACCTAGTCAAACTCTTCTTACCTTTTTCTGATTGTATTGGCGTTAGTCCTAGTCAAACTCTTCCC
1 ACCTAGTCAAACTCTTCTTA-CTTTTT-TGATTGTATTGGCGTTAGTCCTAGTCAAACTCTTCTC
* ** * *
2158985 ACCTTTATTTAACTATATTAGCGTTATGACCTGGTCAAACTCTT-TCCACTTTCGTTTGACTATA
64 ACCTTTATTTAACTATATTAGCATTAAAACCTAGTCAAACTCTTCT-CACCTTCGTTTGACTATA
** * * * * *
2159049 TTGGCGTTAAGACCTGGTTAAACTCTTCTCACCTTT-ATTTGACTGTATTAGCATTTGGACCTGG
128 TTAACATT-AGACCTAGTCAAACTCTTCTCA-CTTTCATTTGACTGTATTAGCATTAGGACCTAG
* * * * *
2159113 TCAAACTTTTCCCACCTTCATTTGACTCTATTGGCA-TAGGACTTAGTCAAACTCTTCTCACCTT
191 TCAAACTCTTCCCACCTTCATTTGACTATATTAGCATTAAGACCTAGTCAAACTCTTCTCACCTT
* * *
2159177 TGTTTGATTGTATTAGCGTTA-GTCCTGGTCAAACTCCTCTCACCTTCGTTTGACTGTATTAGCG
256 CGTTTGATTGTATTAGCGTTATGACCTAGTCAAACTCCTCTCACCTTCGTTTGACTGTATTAGCG
* * * * *
2159241 TTAAGACCTAGTCAAACTCTTCTCA-CCTTTGTTTGACTGTAT-TAGTGTTAGGACTTGGTCAAA
321 TTAAGACCTAGTCAAACTCTT-TCATCCTTTATTTGACTATATCCA-AGTTA-GACCTGGTCAAA
* * * *
2159304 CTCTTCTCACCTT-TATGACTATATTGGCTTTAAGACCTGGTCAAACTTTTCTCACCTTCGTTTG
383 -TCTTCTCAACTTGTATGACTATATTAGCATTAAGACCTGGTCAAACTCTTCTCACCTTCGTTTG
2159368 ACAGTATTGGTAATAGG
447 ACAGTATTGGT-ATAGG
* * * ** *
2159385 ACTTAGTCAAACTTTTTTCATACTCGTTTAATTGTATTGGCGTTAGTCC-AGGTCAAACTCTTCT
1 ACCTAGTCAAAC--TCTTCTTACTTTTTTGATTGTATTGGCGTTAGTCCTA-GTCAAACTCTTCT
2159449 CACCTT
63 CACCTT
2159455 CCTTTGATTG
Statistics
Matches: 449, Mismatches: 72, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
463 3 0.01
464 81 0.18
465 271 0.60
466 84 0.19
467 10 0.02
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (462 bp):
ACCTAGTCAAACTCTTCTTACTTTTTTGATTGTATTGGCGTTAGTCCTAGTCAAACTCTTCTCAC
CTTTATTTAACTATATTAGCATTAAAACCTAGTCAAACTCTTCTCACCTTCGTTTGACTATATTA
ACATTAGACCTAGTCAAACTCTTCTCACTTTCATTTGACTGTATTAGCATTAGGACCTAGTCAAA
CTCTTCCCACCTTCATTTGACTATATTAGCATTAAGACCTAGTCAAACTCTTCTCACCTTCGTTT
GATTGTATTAGCGTTATGACCTAGTCAAACTCCTCTCACCTTCGTTTGACTGTATTAGCGTTAAG
ACCTAGTCAAACTCTTTCATCCTTTATTTGACTATATCCAAGTTAGACCTGGTCAAATCTTCTCA
ACTTGTATGACTATATTAGCATTAAGACCTGGTCAAACTCTTCTCACCTTCGTTTGACAGTATTG
GTATAGG
Found at i:2159396 original size:372 final size:370
Alignment explanation
Indices: 2158461--2159461 Score: 986
Period size: 372 Copynumber: 2.7 Consensus size: 370
2158451 CTACACCTAA
* * * * * * **
2158461 TCAAACTCTTCTCACTTTTGTTTGATTGTATTGGCATT-AGTCCTAGTTAAACTCTTTTCAGTTT
1 TCAAACTCTTCTCACATTTGTTTGACTGTATTAGCATTAAGACCTAGTCAAACTCTTCTCACCTT
* * * ** * **
2158525 TGTTTAACTCTATTAGCATTAAAACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATT-AAT
66 TGTTTGACTGTATTAGCGTTAGGACCTAGTCAAACTCTTCTCACCTT--TATGACTGTATTGGCT
* * *
2158589 ATTAGTCCTAGTCAAACTCTTT-TCACTTTCATTTGACTGTATTGGCATTAGGACTTAGTCAAAC
129 -TTAGTCCTAGTCAAACT-TTTCTCACCTTCATTTGACAGTATTGGTA-TAGGACTTAGTCAAAC
* * * * *
2158653 TC-TTCTCATTTTTGTTTGACTATATTAGCATTAAGACCTAGTCAAACTCTTCTCACCTTCGTTT
191 TCTTTC-CA-TTTCGTTTGACTATATTGGCGTTAAGACCTGGTCAAACTCTTCTCACCTTCATTT
* * * * * * **
2158717 GATTGTATTGGCGTTATGACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTAGG
254 GACTGTATTAGCATTATGACCTAGTCAAACTCTTCCCACCTTCATTTGACTCTATTGGTCATAGG
2158782 ACCTAGTCAAACTCTTTCATCCTTTATTTGACTATATCCAAGTTAGTCCTGG
319 ACCTAGTCAAACTCTTTCATCCTTTATTTGACTATATCCAAGTTAGTCCTGG
* * * * * * * *
2158834 TTAAA-TCTTTTCA-ATTTGTTTGACTATATTAGCATTAGGACTTGGTCAAACTCTTCTTATCTT
1 TCAAACTCTTCTCACATTTGTTTGACTGTATTAGCATTAAGACCTAGTCAAACTCTTCTCACCTT
* * * *
2158897 CGTTTGACTGTATT-GACGTTAGGACCTAGTCAAACTCTTCTTACCTTTTTCTGATTGTATTGGC
66 TGTTTGACTGTATTAG-CGTTAGGACCTAGTCAAACTCTTCTCACC--TTTATGACTGTATTGGC
* * * * * * * *
2158961 GTTAGTCCTAGTCAAACTCTTCCCACCTTTATTTAACTA-TATTAGCGT-TATGACCTGGTCAAA
128 TTTAGTCCTAGTCAAACTTTTCTCACCTTCATTTGAC-AGTATT-G-GTATAGGACTTAGTCAAA
* *
2159024 CTCTTTCCACTTTCGTTTGACTATATTGGCGTTAAGACCTGGTTAAACTCTTCTCACCTTTATTT
190 CTCTTTCCA-TTTCGTTTGACTATATTGGCGTTAAGACCTGGTCAAACTCTTCTCACCTTCATTT
* *
2159089 GACTGTATTAGCATT-TGGACCTGGTCAAACTTTTCCCACCTTCATTTGACTCTATTGG-CATAG
254 GACTGTATTAGCATTAT-GACCTAGTCAAACTCTTCCCACCTTCATTTGACTCTATTGGTCATAG
* * * * * *
2159152 GACTTAGTCAAACTCTTCTCA-CCTTTGTTTGATTGTAT-TAGCGTTAGTCCTGG
318 GACCTAGTCAAACTCTT-TCATCCTTTATTTGACTATATCCA-AGTTAGTCCTGG
* * * *
2159205 TCAAACTCCTCTCACCTTCGTTTGACTGTATTAGCGTTAAGACCTAGTCAAACTCTTCTCACCTT
1 TCAAACTCTTCTCACATTTGTTTGACTGTATTAGCATTAAGACCTAGTCAAACTCTTCTCACCTT
* * * *
2159270 TGTTTGACTGTATTAGTGTTAGGACTTGGTCAAACTCTTCTCACCTTTATGACTATATTGGCTTT
66 TGTTTGACTGTATTAGCGTTAGGACCTAGTCAAACTCTTCTCACCTTTATGACTGTATTGGCTTT
* * * *
2159335 AAGACCTGGTCAAACTTTTCTCACCTTCGTTTGACAGTATTGGTAATAGGACTTAGTCAAACTTT
131 -AGTCCTAGTCAAACTTTTCTCACCTTCATTTGACAGTATTGGT-ATAGGACTTAGTCAAACTCT
* * * * * * * *
2159400 TTTCATACTCGTTTAATTGTATTGGCGTT-AGTCCAGGTCAAACTCTTCTCACCTTCCTTTGA
194 TTCCAT-TTCGTTTGACTATATTGGCGTTAAGACCTGGTCAAACTCTTCTCACCTTCATTTGA
2159462 TTGATTTGGT
Statistics
Matches: 504, Mismatches: 103, Indels: 44
0.77 0.16 0.07
Matches are distributed among these distances:
370 3 0.01
371 118 0.23
372 292 0.58
373 87 0.17
374 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (370 bp):
TCAAACTCTTCTCACATTTGTTTGACTGTATTAGCATTAAGACCTAGTCAAACTCTTCTCACCTT
TGTTTGACTGTATTAGCGTTAGGACCTAGTCAAACTCTTCTCACCTTTATGACTGTATTGGCTTT
AGTCCTAGTCAAACTTTTCTCACCTTCATTTGACAGTATTGGTATAGGACTTAGTCAAACTCTTT
CCATTTCGTTTGACTATATTGGCGTTAAGACCTGGTCAAACTCTTCTCACCTTCATTTGACTGTA
TTAGCATTATGACCTAGTCAAACTCTTCCCACCTTCATTTGACTCTATTGGTCATAGGACCTAGT
CAAACTCTTTCATCCTTTATTTGACTATATCCAAGTTAGTCCTGG
Found at i:2159421 original size:139 final size:139
Alignment explanation
Indices: 2158548--2159760 Score: 716
Period size: 140 Copynumber: 8.8 Consensus size: 139
2158538 TAGCATTAAA
* *** * * *
2158548 ACCTAGTCAAACTCTTCTCACCTTCGTTTGACTGTATTAATATTA-GTCCTAGTCAAACTCTTTT
1 ACCTAGTCAAACTTTTCTCACCTTCGTTTGACTGTATTAGCGTTAGGACCTGGTCAAACTCTTCT
* * * * * * * ** * *
2158612 CACTTTCATTTGACTGTATTGGCATTAGGACTTAGTCAAACTCTTCTCATTTTTGTTTGACTATA
66 CACCTT-GTTTGACTATATTGGCGTTAAGACCTGGTCAAACTCTTCTCACCTTCGTTTGACTGTA
* * *
2158677 TTAGCATTAAG
130 TTGGTA-TAGG
* * * * *
2158688 ACCTAGTCAAACTCTTCTCACCTTCGTTTGATTGTATTGGCGTTATGACCTAGTCAAACTCTTCT
1 ACCTAGTCAAACTTTTCTCACCTTCGTTTGACTGTATTAGCGTTAGGACCTGGTCAAACTCTTCT
* * * * ** *
2158753 CACCTTCGTTTGACTGTATTGGTGTTAGGACCTAGTCAAACTCTT-TCATCCTTTATTTGACTAT
66 CACCTT-GTTTGACTATATTGGCGTTAAGACCTGGTCAAACTCTTCTCA-CCTTCGTTTGACTGT
**
2158817 ATCCAAGT-TA-G
129 AT--TGGTATAGG
* * * * * * * *
2158828 TCCTGGTTAAA-TCTTT-TCA-ATTTGTTTGACTATATTAGCATTAGGACTTGGTCAAACTCTTC
1 ACCTAGTCAAACT-TTTCTCACCTTCGTTTGACTGTATTAGCGTTAGGACCTGGTCAAACTCTTC
* * * * * * * * *
2158890 TTATCTTCGTTTGACTGTATTGACGTTAGGACCTAGTCAAACTCTTCTTACCTT-TTTCTGATTG
65 TCACCTT-GTTTGACTATATTGGCGTTAAGACCTGGTCAAACTCTTCTCACCTTCGTT-TGACTG
2158954 TATTGGCGT-TA-G
128 TATT-G-GTATAGG
* * * ** * * *
2158966 TCCTAGTCAAACTCTTCCCACCTTTATTTAACTATATTAGCGTTATGACCTGGTCAAACTCTT-T
1 ACCTAGTCAAACTTTTCTCACCTTCGTTTGACTGTATTAGCGTTAGGACCTGGTCAAACTCTTCT
* * **
2159030 CCACTTTCGTTTGACTATATTGGCGTTAAGACCTGGTTAAACTCTTCTCACCTTTATTTGACTGT
66 -CACCTT-GTTTGACTATATTGGCGTTAAGACCTGGTCAAACTCTTCTCACCTTCGTTTGACTGT
* * *
2159095 ATTAGCATTTGG
129 ATTGGTA-TAGG
* * * * * * * *
2159107 ACCTGGTCAAACTTTTCCCACCTTCATTTGACTCTATTGGC-ATAGGACTTAGTCAAACTCTTCT
1 ACCTAGTCAAACTTTTCTCACCTTCGTTTGACTGTATTAGCGTTAGGACCTGGTCAAACTCTTCT
* * * * *
2159171 CACCTTTGTTTGATTGTATTAGCGTT-AGTCCTGGTCAAACTCCTCTCACCTTCGTTTGACTGTA
66 CACC-TTGTTTGACTATATTGGCGTTAAGACCTGGTCAAACTCTTCTCACCTTCGTTTGACTGTA
*
2159235 TTAGCGT-TAAG
130 TT-G-GTATAGG
* * * *
2159246 ACCTAGTCAAACTCTTCTCACCTTTGTTTGACTGTATTAGTGTTAGGACTTGGTCAAACTCTTCT
1 ACCTAGTCAAACTTTTCTCACCTTCGTTTGACTGTATTAGCGTTAGGACCTGGTCAAACTCTTCT
* * * *
2159311 CACCTT-TATGACTATATTGGCTTTAAGACCTGGTCAAACTTTTCTCACCTTCGTTTGACAGTAT
66 CACCTTGTTTGACTATATTGGCGTTAAGACCTGGTCAAACTCTTCTCACCTTCGTTTGACTGTAT
2159375 TGGTAATAGG
131 TGGT-ATAGG
* * * * * * * *
2159385 ACTTAGTCAAACTTTTTTCATAC-TCGTTTAATTGTATTGGCGTTA-GTCCAGGTCAAACTCTTC
1 ACCTAGTCAAACTTTTCTCA-CCTTCGTTTGACTGTATTAGCGTTAGGACCTGGTCAAACTCTTC
* * * * * * * * * *
2159448 TCACCTTCCTTTGATTGAT-TTGGTGTT-AGTCCTGGTCAAGCTCTTTTCATCATCATTTGATTG
65 TCACCTT-GTTTGACT-ATATTGGCGTTAAGACCTGGTCAAACTCTTCTCACCTTCGTTTGACTG
2159511 TA-T--T-T--G
128 TATTGGTATAGG
* * * * *
2159517 -----GTCAAACTCTTT-TTACCCTT-GTTTGACTATATTGGCATTAGGACCTAGTCAAACT-TA
1 ACCTAGTCAAACT-TTTCTCA-CCTTCGTTTGACTGTATTAGCGTTAGGACCTGGTCAAACTCT-
* * * * * *
2159574 TTTCACCCTTGTTTGAC-AGTATTTGCATTAGGACCTGGTTAAACTCTTCTCACCTTCGTTTGAT
63 TCTCA-CCTTGTTTGACTA-TATTGGCGTTAAGACCTGGTCAAACTCTTCTCACCTTCGTTTGAC
* * *
2159638 TGAATTAGCATAGG
126 TGTATTGGTATAGG
* * * * * * * * *
2159652 ACCTGGTCAAACTCTTTC-CACCCTCGTTTAACTGTATTGGCATTGGGGCTTGGTCAAACTCTTT
1 ACCTAGTCAAACT-TTTCTCACCTTCGTTTGACTGTATTAGCGTTAGGACCTGGTCAAACTCTTC
* * * *
2159716 TCACCCTTGTTTGACTGTATTGGCATT-AGTCCTGGTCAAATTCTT
65 TCA-CCTTGTTTGACTATATTGGCGTTAAGACCTGGTCAAACTCTT
2159761 TTTATTCTCA
Statistics
Matches: 848, Mismatches: 173, Indels: 105
0.75 0.15 0.09
Matches are distributed among these distances:
126 1 0.00
127 29 0.03
128 29 0.03
129 33 0.04
130 1 0.00
132 1 0.00
133 1 0.00
134 1 0.00
135 1 0.00
136 1 0.00
137 4 0.00
138 141 0.17
139 201 0.24
140 285 0.34
141 117 0.14
143 2 0.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (139 bp):
ACCTAGTCAAACTTTTCTCACCTTCGTTTGACTGTATTAGCGTTAGGACCTGGTCAAACTCTTCT
CACCTTGTTTGACTATATTGGCGTTAAGACCTGGTCAAACTCTTCTCACCTTCGTTTGACTGTAT
TGGTATAGG
Found at i:2159476 original size:46 final size:46
Alignment explanation
Indices: 2158461--2159760 Score: 678
Period size: 47 Copynumber: 28.2 Consensus size: 46
2158451 CTACACCTAA
* * * ** * *
2158461 TCAAACTCTTCTCACTTTTGTTTGATTGTATTGGCATTAGTCCTAG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTAGACCTGG
* * ** * * * * ** * *
2158507 TTAAACTCTTTTCAGTTTTGTTTAACTCTATTAGCATTAAAACCTAG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTT-AGACCTGG
** * * *
2158554 TCAAACTCTTCTCACCTTCGTTTGACTGTATTAATATTAGTCCTAG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTAGACCTGG
* * * ** * *
2158600 TCAAACTCTTTTCACTTTCATTTGACTGTATTGGCATTAGGACTTAG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTA-GACCTGG
** * * * ** *
2158647 TCAAACTCTTCTCATTTTTGTTTGACTATATTAGCATTAAGACCTAG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTT-AGACCTGG
* * *
2158694 TCAAACTCTTCTCACCTTCGTTTGATTGTATTGGCGTTATGACCTAG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTA-GACCTGG
*
2158741 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTAGGACCTAG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTA-GACCTGG
** * **** *
2158788 TCAAACTCTT-TCATCCTTTATTTGACTATATCCAAGTTAGTCCTGG
1 TCAAACTCTTCTCA-CCTTCGTTTGACTGTATTGGTGTTAGACCTGG
* * * * * * ** *
2158834 TTAAA-TCTTTTCA-ATTTGTTTGACTATATTAGCATTAGGACTTGG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTA-GACCTGG
* * ** *
2158879 TCAAACTCTTCTTATCTTCGTTTGACTGTATTGACGTTAGGACCTAG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTA-GACCTGG
* * * * * *
2158926 TCAAACTCTTCTTACCTT-TTTCTGATTGTATTGGCGTTAGTCCTAG
1 TCAAACTCTTCTCACCTTCGTT-TGACTGTATTGGTGTTAGACCTGG
* ** * * * *
2158972 TCAAACTCTTCCCACCTTTATTTAACTATATTAGCGTTATGACCTGG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTA-GACCTGG
* * *
2159019 TCAAACTCTT-TCCACTTTCGTTTGACTATATTGGCGTTAAGACCTGG
1 TCAAACTCTTCT-CACCTTCGTTTGACTGTATTGGTGTT-AGACCTGG
* ** * *
2159066 TTAAACTCTTCTCACCTTTATTTGACTGTATTAGCAT-TTGGACCTGG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATT-G-GTGTTAGACCTGG
* * * * ** * *
2159113 TCAAACTTTTCCCACCTTCATTTGACTCTATTGG-CATAGGACTTAG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTA-GACCTGG
* * * * *
2159159 TCAAACTCTTCTCACCTTTGTTTGATTGTATTAGCGTTAGTCCTGG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTAGACCTGG
* * * *
2159205 TCAAACTCCTCTCACCTTCGTTTGACTGTATTAGCGTTAAGACCTAG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTT-AGACCTGG
* * *
2159252 TCAAACTCTTCTCACCTTTGTTTGACTGTATTAGTGTTAGGACTTGG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTA-GACCTGG
* *
2159299 TCAAACTCTTCTCACCTT--TATGACTATATTGGCT-TTAAGACCTGG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGG-TGTT-AGACCTGG
* * ** * *
2159344 TCAAACTTTTCTCACCTTCGTTTGACAGTATTGGTAATAGGACTTAG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTA-GACCTGG
* * * * * * * *
2159391 TCAAACTTTTTTCATAC-TCGTTTAATTGTATTGGCGTTAGTCCAGG
1 TCAAACTCTTCTCA-CCTTCGTTTGACTGTATTGGTGTTAGACCTGG
* * *
2159437 TCAAACTCTTCTCACCTTCCTTTGATTG-ATTTGGTGTTAGTCCTGG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTA-TTGGTGTTAGACCTGG
* * * * * *
2159483 TCAAGCTCTTTTCATCATC-ATT---TG-ATT-GTATT-----TGG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTAGACCTGG
* * * ** *
2159518 TCAAACTCTTTTTACCCTT-GTTTGACTATATTGGCATTAGGACCTAG
1 TCAAACTCTTCTCA-CCTTCGTTTGACTGTATTGGTGTTA-GACCTGG
* * * **
2159565 TCAAACT-TATTTCACCCTT-GTTTGACAGTATTTGCATTAGGACCTGG
1 TCAAACTCT-TCTCA-CCTTCGTTTGACTGTATTGGTGTTA-GACCTGG
* * * * **
2159612 TTAAACTCTTCTCACCTTCGTTTGATTGAATTAG-CATAGGACCTGG
1 TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTA-GACCTGG
* * ** * * *
2159658 TCAAACTCTT-TCCACCCTCGTTTAACTGTATTGGCATTGGGGCTTGG
1 TCAAACTCTTCT-CACCTTCGTTTGACTGTATTGGTGTT-AGACCTGG
* ** *
2159705 TCAAACTCTTTTCACCCTT-GTTTGACTGTATTGGCATTAGTCCTGG
1 TCAAACTCTTCTCA-CCTTCGTTTGACTGTATTGGTGTTAGACCTGG
*
2159751 TCAAATTCTT
1 TCAAACTCTT
2159761 TTTATTCTCA
Statistics
Matches: 993, Mismatches: 209, Indels: 104
0.76 0.16 0.08
Matches are distributed among these distances:
35 15 0.02
36 4 0.00
39 1 0.00
40 7 0.01
41 6 0.01
42 3 0.00
44 17 0.02
45 55 0.06
46 314 0.32
47 559 0.56
48 12 0.01
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (46 bp):
TCAAACTCTTCTCACCTTCGTTTGACTGTATTGGTGTTAGACCTGG
Found at i:2159750 original size:93 final size:94
Alignment explanation
Indices: 2159514--2159761 Score: 288
Period size: 93 Copynumber: 2.7 Consensus size: 94
2159504 TTGATTGTAT
* * * *
2159514 TTGGTCAAACTCTTTTTACCCTTGTTTGACTATATTGGCATTAGGACCTAGTCAAACT-TATTTC
1 TTGGTCAAACTCTTTTCACCCTTGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTCT-TTCC
* * *
2159578 ACCCTTGTTTGACAGTATTTGCATTAGGAC
65 ACCCTCGTTTAACAGTATTGGCATTAGGAC
* * * * * *
2159608 CTGGTTAAACTCTTCTCA-CCTTCGTTTGATTGAATTAGCA-TAGGACCTGGTCAAACTCTTTCC
1 TTGGTCAAACTCTTTTCACCCTT-GTTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTTCC
* * *
2159671 ACCCTCGTTTAACTGTATTGGCATTGGGGC
65 ACCCTCGTTTAACAGTATTGGCATTAGGAC
* *
2159701 TTGGTCAAACTCTTTTCACCCTTGTTTGACTGTATTGGCATTA-GTCCTGGTCAAATTCTTT
1 TTGGTCAAACTCTTTTCACCCTTGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTT
2159762 TTATTCTCAT
Statistics
Matches: 126, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
93 92 0.73
94 34 0.27
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (94 bp):
TTGGTCAAACTCTTTTCACCCTTGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTTCCA
CCCTCGTTTAACAGTATTGGCATTAGGAC
Found at i:2159828 original size:44 final size:44
Alignment explanation
Indices: 2159780--2160747 Score: 458
Period size: 44 Copynumber: 21.6 Consensus size: 44
2159770 ATTTAACATA
* * *
2159780 ATGGTTTAGCCCTAGTTAAACTCTTTTTGCTTTTGTTTGACGTG
1 ATGGTTTAGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
* * * * * *
2159824 ATGGTTCAACCTTGGTTAAACTCATTTCACTTTCGTTTGACATTTCATTTGACATG
1 ATGGTTTAGCCCTGGTCAAA--C---T--C-TT--TTTG-C-TTTCGTTTGACGTG
* * * * *
2159880 ATAGTTCAGGCCTGGTCAAACTCATTTTGCTTTCGTTTGACATG
1 ATGGTTTAGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
* * * *
2159924 ATAGTTCTA-CCCTGGTCAAACTCCTTTTGCTTTCGTTTAACATG
1 ATGGTT-TAGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
* * * *
2159968 ATGGTTCAGCCCTGGTCAAACTCTTTTTCCTTTCATTTGACGTA
1 ATGGTTTAGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
* * *** *
2160012 ATGGTTTAGCCTTAGTCAAACTCTTTTCATTTTCGTTTGACCTG
1 ATGGTTTAGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
* * *
2160056 ATGGTTTA-CTCTGCTCAAACAACTTTTT-CTTTCGTTTGACGTG
1 ATGGTTTAGCCCTGGTCAAAC-TCTTTTTGCTTTCGTTTGACGTG
* * * **
2160099 ATGGTTCT-GCCTTGGTCAAACTCTATTTGCTTTCATTTGGTGTG
1 ATGGTT-TAGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
*** * * *
2160143 ATGGTTCT-GTGTTGGTCAAA-TGCCTTGTGCTTTCATTTGACGTG
1 ATGGTT-TAGCCCTGGTCAAACT-CTTTTTGCTTTCGTTTGACGTG
* * *
2160187 ATAGTTTTG-CCTCGGTCAAACTGC-TTTTGCTTTCATTTGACGTG
1 ATGGTTTAGCCCT-GGTCAAACT-CTTTTTGCTTTCGTTTGACGTG
* * * * * *
2160231 ATGGTTCAGCCCCGATCAAACATC-TTTTGCTTTTGTTTAATGTG
1 ATGGTTTAGCCCTGGTCAAAC-TCTTTTTGCTTTCGTTTGACGTG
* * * * * * *
2160275 ATGGTTCAACCCTAGTCAAACTTTTTTTGTTTTTGTTTGACATG
1 ATGGTTTAGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
* * * * *** * **
2160319 ATGTTTTAGCCTTAGTTAAACTTCTTTCACCTTT-ATTTGATATG
1 ATGGTTTAGCCCTGGTCAAAC-TCTTTTTGCTTTCGTTTGACGTG
* ** * * ** *
2160363 CTATTTTAGCCTTGGTCAAACTCATTTCACTTTCGTTTAACGTG
1 ATGGTTTAGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
* * *
2160407 ATGGTTCTA-CCTTGGTCGAACTCTTTTTGCTTTCGTTTGACGTA
1 ATGGTT-TAGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
* * * * *
2160451 ATGGTTTTGCCCTGGTTAAACTC-TTTT-CATCCTGTTTAACGTG
1 ATGGTTTAGCCCTGGTCAAACTCTTTTTGCTTTC-GTTTGACGTG
** * * * *
2160494 ATGGTTCT-GCCAAGGTCAAACTCCTTTTGCTTTCATTTAATGTG
1 ATGGTT-TAGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
* ** * *
2160538 ATGGTTCTTAATTCTGCCCTGGTCAAACTCCTTTCACTTTTGTTTGACATG
1 ATGG-T-TT-A----GCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
* * * * * *
2160589 ATGGTTTTGCCCTAGTCAAACTCCTTTCGCTTTCGTTTAATGTG
1 ATGGTTTAGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
* * ** * *
2160633 ATGGTTTCA-CCATGGTCAAACTCCTTTCACTTTTGTTTGACGTA
1 ATGGTTT-AGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
* * * ** * * *
2160677 ATGGTTCT-GCCCTAGTCAAATTCCTTTCACCTTCGTTTTATGTG
1 ATGGTT-TAGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
* *
2160721 ATGGTTCTA-CCCTGATCAAACCCTTTT
1 ATGGTT-TAGCCCTGGTCAAACTCTTTT
2160748 CATCCTCATT
Statistics
Matches: 714, Mismatches: 165, Indels: 90
0.74 0.17 0.09
Matches are distributed among these distances:
42 3 0.00
43 76 0.11
44 533 0.75
45 23 0.03
46 6 0.01
48 1 0.00
49 4 0.01
50 1 0.00
51 33 0.05
52 2 0.00
54 5 0.01
55 1 0.00
56 26 0.04
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.43
Consensus pattern (44 bp):
ATGGTTTAGCCCTGGTCAAACTCTTTTTGCTTTCGTTTGACGTG
Found at i:2160207 original size:175 final size:176
Alignment explanation
Indices: 2159866--2160296 Score: 415
Period size: 175 Copynumber: 2.5 Consensus size: 176
2159856 TCGTTTGACA
* * * * * * * *
2159866 TTTCATTTGACATGATAGTTCAGGCCTGGTCAAAC-TCATTTTGCTTTCGTTTGACATGATAGTT
1 TTTCATTTGACCTGATGGTTCAGCCCCGATCAAACAAC-TTTTGCTTTCGTTTGACGTGATGGTT
* * *
2159930 CTACCCTGGTCAAACTCCTTTTGCTTTCGTTTAACATGATGGTTCAGCCCTGGTCAAACTCTTTT
65 CTACCCTGGTCAAACTCCTTTTGCTTTCATTTAACATGATGGTTCAGCCCTGGTCAAACTCCTTG
* *
2159995 TCCTTTCATTTGACGTAATGGTTTAGCCTTAGTCAAACT-CTTTT-C
130 TCCTTTCATTTGACGTAATAGTTTAGCCTCAGTCAAACTGCTTTTGC
* * * * * *
2160040 ATTTTCGTTTGACCTGATGGTTTA-CTCTGCTCAAACAACTTTTTCTTTCGTTTGACGTGATGGT
1 --TTTCATTTGACCTGATGGTTCAGCCCCGATCAAACAACTTTTGCTTTCGTTTGACGTGATGGT
* * **** * ***
2160104 TCTGCCTTGGTCAAACT-CTATTTGCTTTCATTTGGTGTGATGGTTCTGTGTTGGTCAAA-TGCC
64 TCTACCCTGGTCAAACTCCT-TTTGCTTTCATTTAACATGATGGTTCAGCCCTGGTCAAACT-CC
* * * *
2160167 TTGTGCTTTCATTTGACGTGATAGTTTTGCCTCGGTCAAACTGCTTTTGC
127 TTGTCCTTTCATTTGACGTAATAGTTTAGCCTCAGTCAAACTGCTTTTGC
* * * * *
2160217 TTTCATTTGACGTGATGGTTCAGCCCCGATCAAACATCTTTTGCTTTTGTTTAATGTGATGGTTC
1 TTTCATTTGACCTGATGGTTCAGCCCCGATCAAACAACTTTTGCTTTCGTTTGACGTGATGGTTC
* *
2160282 AACCCTAGTCAAACT
66 TACCCTGGTCAAACT
2160297 TTTTTTGTTT
Statistics
Matches: 204, Mismatches: 45, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
174 3 0.01
175 131 0.64
176 69 0.34
177 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (176 bp):
TTTCATTTGACCTGATGGTTCAGCCCCGATCAAACAACTTTTGCTTTCGTTTGACGTGATGGTTC
TACCCTGGTCAAACTCCTTTTGCTTTCATTTAACATGATGGTTCAGCCCTGGTCAAACTCCTTGT
CCTTTCATTTGACGTAATAGTTTAGCCTCAGTCAAACTGCTTTTGC
Found at i:2160760 original size:88 final size:87
Alignment explanation
Indices: 2160560--2160769 Score: 228
Period size: 88 Copynumber: 2.4 Consensus size: 87
2160550 TCTGCCCTGG
* ** * * *
2160560 TCAAACTCCTTTCACTTTTGTTTGACATGATGGTTTTGCCCTAGTCAAACTCCTTTCGCTTTCGT
1 TCAAACTCCTTTCACTCTCATTTGACAT-ATGGTTCTGCCCTAGTCAAACTCCTTTCACCTTCGT
*
2160625 TTAATGTGATGGTTTCACCATGG
65 TTAATGTGATGGTTTCACCATGA
* ** * *
2160648 TCAAACTCCTTTCACTTTTGTTTGACGTAATGGTTCTGCCCTAGTCAAATTCCTTTCACCTTCGT
1 TCAAACTCCTTTCACTCTCATTTGACAT-ATGGTTCTGCCCTAGTCAAACTCCTTTCACCTTCGT
* *
2160713 TTTATGTGATGG-TTCTACCCTGA
65 TTAATGTGATGGTTTC-ACCATGA
2160736 TCAAAC-CCTTTTCA-TCCTCATTTGACATATGGTT
1 TCAAACTCC-TTTCACT-CTCATTTGACATATGGTT
2160770 ACCACCCTGG
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
87 12 0.11
88 94 0.89
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (87 bp):
TCAAACTCCTTTCACTCTCATTTGACATATGGTTCTGCCCTAGTCAAACTCCTTTCACCTTCGTT
TAATGTGATGGTTTCACCATGA
Found at i:2161848 original size:9 final size:9
Alignment explanation
Indices: 2161801--2161847 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
2161791 TTAATTAAAA
*
2161801 ATTAATTAT
1 ATTAATTTT
2161810 ATTAATTTT
1 ATTAATTTT
2161819 AATTTTAATTTT
1 -A--TTAATTTT
2161831 ATTAATTTT
1 ATTAATTTT
2161840 ATT-ATTTT
1 ATTAATTTT
2161848 TCTTTTCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
8 5 0.15
9 19 0.56
10 1 0.03
11 1 0.03
12 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
ATTAATTTT
Found at i:2162119 original size:27 final size:27
Alignment explanation
Indices: 2162088--2162168 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
2162078 AGAAAATAGT
2162088 AAACATATGAAGAGAAAGAAGAAGAGC
1 AAACATATGAAGAGAAAGAAGAAGAGC
* * ** * *
2162115 CAACAGAAAAAGAGAAA-AAGAAACAGT
1 AAACATATGAAGAGAAAGAAG-AAGAGC
2162142 AAACATATGAAGAGAAAGAAGAAGAGC
1 AAACATATGAAGAGAAAGAAGAAGAGC
2162169 TGGTAGCAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
26 3 0.08
27 34 0.85
28 3 0.08
ACGTcount: A:0.62, C:0.09, G:0.23, T:0.06
Consensus pattern (27 bp):
AAACATATGAAGAGAAAGAAGAAGAGC
Found at i:2162291 original size:20 final size:20
Alignment explanation
Indices: 2162268--2162326 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
2162258 CAACAACAGC
2162268 AGCAGCTCAAAGGAAACAAT
1 AGCAGCTCAAAGGAAACAAT
**
2162288 AGCAAGAGCAAA-GAAAC---
1 AGC-AGCTCAAAGGAAACAAT
*
2162305 AGAAGCTCAAAGGAAACAAT
1 AGCAGCTCAAAGGAAACAAT
2162325 AG
1 AG
2162327 TAGCAAGAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 10
0.66 0.11 0.23
Matches are distributed among these distances:
16 6 0.21
17 7 0.24
20 10 0.34
21 6 0.21
ACGTcount: A:0.54, C:0.17, G:0.22, T:0.07
Consensus pattern (20 bp):
AGCAGCTCAAAGGAAACAAT
Found at i:2164208 original size:153 final size:152
Alignment explanation
Indices: 2163877--2164770 Score: 999
Period size: 153 Copynumber: 5.9 Consensus size: 152
2163867 GGTCCTAGTA
* * * * * *
2163877 AAGGTGTACGTTTAAGATAGGTTCATCCCTTTACCTTTTTAAGTCCTTTAGGGTTACCAGGATAC
1 AAGGTGTACGTTTAGGATAGGTTCATCCTTTTTCATTTTTAAGTCTTTTAGGGTTACCGGGATAC
* * *
2163942 TTTCACATCGAAGGTATACCCTTAAGGGCATTTTAGTAATTTTTTCTAAAATCAAGTCCTAGGTT
66 TTTCACGTCGAAGGTAT-CCCTTAGGGGCATTTTAGTAATTTTTT-TAAAATCGAGTCCTAGGTT
* * *
2164007 ATTACCAGGTATGCTTCTATGTCG
129 ATCACCGGGTATGCTTCTATGCCG
* *
2164031 AAGGTGTATGTTTAGGATA-ATTCATCCTTTTTCATTTTTAAGTCTTTTAGGGTTACCGGGATAC
1 AAGGTGTACGTTTAGGATAGGTTCATCCTTTTTCATTTTTAAGTCTTTTAGGGTTACCGGGATAC
* * *
2164095 TTTCACATCGAAGGTATATCCC-TAGGGGCATTTTAGTAGTTTTCTTAAAATCGAGTCCTAGGTT
66 TTTCACGTCGAAGG--TATCCCTTAGGGGCATTTTAGTAATTTTTTTAAAATCGAGTCCTAGGTT
* *
2164159 ATCATCGGGTTTGCTTCTATGCCG
129 ATCACCGGGTATGCTTCTATGCCG
* * * * * **
2164183 AAGGTGTACGTTTAAGACAGGTTCATTCC-TTTCCATTTTTAAGTCCTTT-GGGTTTCTAGGATA
1 AAGGTGTACGTTTAGGATAGGTTCA-TCCTTTTTCATTTTTAAGTCTTTTAGGGTTACCGGGATA
* * * * * *
2164246 CTTTCTCGTCGAAGGTATCCTTTAGGGGTATTTTGGTAATTTTTTTAGAATTGAGTCCTAGGTTA
65 CTTTCACGTCGAAGGTATCCCTTAGGGGCATTTTAGTAATTTTTTTAAAATCGAGTCCTAGGTTA
* *
2164311 TCACTGGGTATGCTTCTATGCCA
130 TCACCGGGTATGCTTCTATGCCG
* *
2164334 AAGGTGTACGTTTAGGATAGGTTCATCCCTTTTTCATTTTTATGTCTTTTAGGGTTACCGAGATA
1 AAGGTGTACGTTTAGGATAGGTTCAT-CCTTTTTCATTTTTAAGTCTTTTAGGGTTACCGGGATA
* * * * * ** * * * *
2164399 CTTTTATGTTGAAGGTATCCCATAGGGGCATTTTACTAATTTTCCT-AGATTGAGTCTTAGGGTA
65 CTTTCACGTCGAAGGTATCCCTTAGGGGCATTTTAGTAATTTTTTTAAAATCGAGTCCTAGGTTA
* *
2164463 TCATCGGGTATGCTTCTATGCCA
130 TCACCGGGTATGCTTCTATGCCG
* * * *
2164486 AAGGTGTACGTTTAGGATAGGTTCATCCCTTTTCCTTTTTAAGTCTTTTAGGGTTATCGAGATAC
1 AAGGTGTACGTTTAGGATAGGTTCATCCTTTTTCATTTTTAAGTCTTTTAGGGTTACCGGGATAC
* * ** * *
2164551 TTTCATGTCGAAGGTATCCCTTAAGGGTTTTTTAGTAATTTTTTTTAGAACCGAGTCCTAGGTTA
66 TTTCACGTCGAAGGTATCCCTTAGGGGCATTTTAGTAA-TTTTTTTAAAATCGAGTCCTAGGTTA
*
2164616 TGACCGGGTATGCTTCTATGCCG
130 TCACCGGGTATGCTTCTATGCCG
* * * * * *
2164639 AAGGTGTATGTTTAGGATAGGTTCATCCTTTTTTATTTTTAAATCCTTTTAGGATTACTGGGGTA
1 AAGGTGTACGTTTAGGATAGGTTCATCCTTTTTCATTTTTAAGT-CTTTTAGGGTTACCGGGATA
* * * * * * *
2164704 CTTTCATGTCAAAGGTATACCTCTAGAGACATTTTAGTAA-TTTTTCAAGAATCGAGTCTTAGGT
65 CTTTCACGTCGAAGGTATCCCT-TAGGGGCATTTTAGTAATTTTTTTAA-AATCGAGTCCTAGGT
2164768 TAT
128 TAT
2164771 TACCAAGTCC
Statistics
Matches: 619, Mismatches: 108, Indels: 26
0.82 0.14 0.03
Matches are distributed among these distances:
150 6 0.01
151 147 0.24
152 160 0.26
153 217 0.35
154 74 0.12
155 15 0.02
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (152 bp):
AAGGTGTACGTTTAGGATAGGTTCATCCTTTTTCATTTTTAAGTCTTTTAGGGTTACCGGGATAC
TTTCACGTCGAAGGTATCCCTTAGGGGCATTTTAGTAATTTTTTTAAAATCGAGTCCTAGGTTAT
CACCGGGTATGCTTCTATGCCG
Found at i:2164633 original size:305 final size:306
Alignment explanation
Indices: 2163876--2164766 Score: 1104
Period size: 305 Copynumber: 2.9 Consensus size: 306
2163866 CGGTCCTAGT
*
2163876 AAAGGTGTACGTTTAAGATAGGTTCATCCCTTTACCTTTTTAAGTCCTTTAGGGTTA-CCAGGAT
1 AAAGGTGTACGTTTAAGATAGGTTCATCCCTTTTCCTTTTTAAGTCCTTTAGGGTTATCCAGGAT
** * * * *
2163940 ACTTTCACATCGAAGGTATACCCTTAAGGGCATTTTAGTAATTTTTTCTAAAATCAAGTCCTAGG
66 ACTTTCATGTCGAAGGTAT-CCCTTAAGGGTATTTTAGTAATTTTTTTTAGAATCGAGTCCTAGG
* * * *
2164005 TTATTACCAGGTATGCTTCTATGTCGAAGGTGTATGTTTAGGATA-ATTCATCCTTTTTCATTTT
130 TTATCACCGGGTATGCTTCTATGCCGAAGGTGTATGTTTAGGATAGGTTCATCCTTTTTCATTTT
* * *
2164069 TAAGTCTTTTAGGGTTACCGGGATACTTTCACATCGAAGGTATATCCCTAGGGGCATTTTAGTAG
195 TAAGTCTTTTAGGGTTACCGAGATACTTTCACATCGAAGG-ATATCCCTAGGGGCATTTTACTAA
* * *
2164134 TTTTCTTAAAATCGAGTCCTAGGTTATCATCGGGTTTGCTTCTATGCC
259 TTTTCCTAAAATCGAGTCCTAGGGTATCATCGGGTATGCTTCTATGCC
* * * *
2164182 GAAGGTGTACGTTTAAGACAGGTTCATTCC-TTTCCATTTTTAAGTCCTTT-GGGTT-TCTAGGA
1 AAAGGTGTACGTTTAAGATAGGTTCATCCCTTTTCC-TTTTTAAGTCCTTTAGGGTTATCCAGGA
* * * *
2164244 TACTTTC-TCGTCGAAGGTATCCTTTAGGGGTATTTTGGTAA-TTTTTTTAGAATTGAGTCCTAG
65 TACTTTCAT-GTCGAAGGTATCCCTTAAGGGTATTTTAGTAATTTTTTTTAGAATCGAGTCCTAG
* * *
2164307 GTTATCACTGGGTATGCTTCTATGCCAAAGGTGTACGTTTAGGATAGGTTCATCCCTTTTTCATT
129 GTTATCACCGGGTATGCTTCTATGCCGAAGGTGTATGTTTAGGATAGGTTCAT-CCTTTTTCATT
* * ** *
2164372 TTTATGTCTTTTAGGGTTACCGAGATACTTTTATGTTGAAGG-TATCCCATAGGGGCATTTTACT
193 TTTAAGTCTTTTAGGGTTACCGAGATACTTTCACATCGAAGGATATCCC-TAGGGGCATTTTACT
* * *
2164436 AATTTTCCT-AGATTGAGTCTTAGGGTATCATCGGGTATGCTTCTATGCC
257 AATTTTCCTAAAATCGAGTCCTAGGGTATCATCGGGTATGCTTCTATGCC
* * *
2164485 AAAGGTGTACGTTTAGGATAGGTTCATCCCTTTTCCTTTTTAAGTCTTTTAGGGTTATCGA-GAT
1 AAAGGTGTACGTTTAAGATAGGTTCATCCCTTTTCCTTTTTAAGTCCTTTAGGGTTATCCAGGAT
* *
2164549 ACTTTCATGTCGAAGGTATCCCTTAAGGGTTTTTTAGTAATTTTTTTTAGAACCGAGTCCTAGGT
66 ACTTTCATGTCGAAGGTATCCCTTAAGGGTATTTTAGTAATTTTTTTTAGAATCGAGTCCTAGGT
* *
2164614 TATGACCGGGTATGCTTCTATGCCGAAGGTGTATGTTTAGGATAGGTTCATCCTTTTTTATTTTT
131 TATCACCGGGTATGCTTCTATGCCGAAGGTGTATGTTTAGGATAGGTTCATCCTTTTTCATTTTT
* * * * * ** * * * *
2164679 AAATCCTTTTAGGATTACTGGGGTACTTTCATGTCAAAGG-TATACCTCTAGAGACATTTTAGTA
196 AAGT-CTTTTAGGGTTACCGAGATACTTTCACATCGAAGGATAT-CC-CTAGGGGCATTTTACTA
* *
2164743 ATTTTTC-AAGAATCGAGTCTTAGG
258 ATTTTCCTAA-AATCGAGTCCTAGG
2164767 TTATTACCAA
Statistics
Matches: 501, Mismatches: 68, Indels: 31
0.83 0.11 0.05
Matches are distributed among these distances:
303 138 0.28
304 105 0.21
305 182 0.36
306 63 0.13
307 13 0.03
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (306 bp):
AAAGGTGTACGTTTAAGATAGGTTCATCCCTTTTCCTTTTTAAGTCCTTTAGGGTTATCCAGGAT
ACTTTCATGTCGAAGGTATCCCTTAAGGGTATTTTAGTAATTTTTTTTAGAATCGAGTCCTAGGT
TATCACCGGGTATGCTTCTATGCCGAAGGTGTATGTTTAGGATAGGTTCATCCTTTTTCATTTTT
AAGTCTTTTAGGGTTACCGAGATACTTTCACATCGAAGGATATCCCTAGGGGCATTTTACTAATT
TTCCTAAAATCGAGTCCTAGGGTATCATCGGGTATGCTTCTATGCC
Found at i:2166052 original size:22 final size:24
Alignment explanation
Indices: 2166022--2166066 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
2166012 CCTCACAATC
*
2166022 TCTTCAAGA-ATTATACCCCAAAT
1 TCTTCAAGAGATTATAACCCAAAT
*
2166045 TCTT-AAGAGATTGTAACCCAAA
1 TCTTCAAGAGATTATAACCCAAA
2166067 GTTGAATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (24 bp):
TCTTCAAGAGATTATAACCCAAAT
Found at i:2166571 original size:20 final size:20
Alignment explanation
Indices: 2166546--2166600 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
2166536 CTGCCAGTTT
*
2166546 TATGTATCGATACAATTGAG
1 TATGTATCGATACAATTGAA
*
2166566 TATGTATCTATACAA-TGAA
1 TATGTATCGATACAATTGAA
*
2166585 CATGTATCGATACAAT
1 TATGTATCGATACAAT
2166601 GTATTGATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (20 bp):
TATGTATCGATACAATTGAA
Found at i:2167339 original size:44 final size:43
Alignment explanation
Indices: 2167290--2167429 Score: 122
Period size: 44 Copynumber: 3.2 Consensus size: 43
2167280 TGTTAAAATG
2167290 ATTTTCTAAAACGATTTTCTCCCCCTTTGTCAAATGCCAAATTT
1 ATTTTCTAAAA-GATTTTCTCCCCCTTTGTCAAATGCCAAATTT
* ** * *** * *
2167334 ATTTTCTAAAA-TTTTTCT-CCCCTTAATAAAATATTTAAGAATG
1 ATTTTCTAAAAGATTTTCTCCCCCTTTGTCAAAT-GCCAA-ATTT
* *
2167377 CTTTCGCTAAAATGATTTTCTCCCCCTTTGTCAAATGCCAAATTT
1 ATTT-TCTAAAA-GATTTTCTCCCCCTTTGTCAAATGCCAAATTT
2167422 ATTTTCTA
1 ATTTTCTA
2167430 GAATTTCTCC
Statistics
Matches: 68, Mismatches: 22, Indels: 12
0.67 0.22 0.12
Matches are distributed among these distances:
41 11 0.16
42 8 0.12
43 5 0.07
44 20 0.29
45 5 0.07
46 8 0.12
47 11 0.16
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.43
Consensus pattern (43 bp):
ATTTTCTAAAAGATTTTCTCCCCCTTTGTCAAATGCCAAATTT
Found at i:2173755 original size:3 final size:3
Alignment explanation
Indices: 2173747--2173784 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
2173737 CGAGTCAACT
*
2173747 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
2173785 CTTGATGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:2175467 original size:20 final size:19
Alignment explanation
Indices: 2175442--2175495 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
2175432 CTGCCAGTTT
* *
2175442 TATGTATCGATATAATTGAG
1 TATGTATCGATACAA-TGAA
*
2175462 TATGTATCTATACAATGAA
1 TATGTATCGATACAATGAA
*
2175481 CATGTATCGATACAA
1 TATGTATCGATACAA
2175496 AGCATAATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
TATGTATCGATACAATGAA
Found at i:2176472 original size:190 final size:191
Alignment explanation
Indices: 2176148--2176517 Score: 724
Period size: 190 Copynumber: 1.9 Consensus size: 191
2176138 GTAGTCGAGG
2176148 CACCTCGATTTTGGGCCCATCGTGGGTTTGATCCCGTGGATGTATTTTCCTATGCAAATGTGGAG
1 CACCTCGATTTTGGGCCCATCGTGGGTTTGATCCCGTGGATGTATTTTCCTATGCAAATGTGGAG
2176213 GGTTACTCACGAGAGACATAAGTAATTTACATCCTAAAAGTTATTGCTATACATATGTGAAGGGT
66 GGTTACTCACGAGAGACATAAGTAATTTACATCCTAAAAGTTATTGCTATACATATGTGAAGGGT
2176278 TACTCATGAAGGTAGATAGCCCACCTCTTCCTAATAATTGGGTTGTAACCGTGGGTTAGCC
131 TACTCATGAAGGTAGATAGCCCACCTCTTCCTAATAATTGGGTTGTAACCGTGGGTTAGCC
2176339 CACCTCGATTTTGGGCCCATCGTGGGTTTGATCCCGTGGATGTATTTTCCTATGC-AATGTGGAG
1 CACCTCGATTTTGGGCCCATCGTGGGTTTGATCCCGTGGATGTATTTTCCTATGCAAATGTGGAG
*
2176403 GGTTACTCACGAGAGACATAAGTAATTTACATCCTAAAAGTTATTTCTATACATATGTGAAGGGT
66 GGTTACTCACGAGAGACATAAGTAATTTACATCCTAAAAGTTATTGCTATACATATGTGAAGGGT
2176468 TACTCATGAAGGTAGATAGCCCACCTCTTCCTAATAATTGGGTTGTAACC
131 TACTCATGAAGGTAGATAGCCCACCTCTTCCTAATAATTGGGTTGTAACC
2176518 TCGCTATAGA
Statistics
Matches: 178, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
190 123 0.69
191 55 0.31
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (191 bp):
CACCTCGATTTTGGGCCCATCGTGGGTTTGATCCCGTGGATGTATTTTCCTATGCAAATGTGGAG
GGTTACTCACGAGAGACATAAGTAATTTACATCCTAAAAGTTATTGCTATACATATGTGAAGGGT
TACTCATGAAGGTAGATAGCCCACCTCTTCCTAATAATTGGGTTGTAACCGTGGGTTAGCC
Found at i:2178219 original size:13 final size:13
Alignment explanation
Indices: 2178201--2178231 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2178191 CAATACATGG
2178201 TACATTGTATCGA
1 TACATTGTATCGA
2178214 TACATTGTATCGA
1 TACATTGTATCGA
2178227 TACAT
1 TACAT
2178232 AGTGAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2178859 original size:34 final size:35
Alignment explanation
Indices: 2178821--2178887 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2178811 CCTTACAACA
2178821 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2178855 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2178888 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2179365 original size:13 final size:13
Alignment explanation
Indices: 2179347--2179371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2179337 CATTTTATGG
2179347 TGTATCGATACAA
1 TGTATCGATACAA
2179360 TGTATCGATACA
1 TGTATCGATACA
2179372 TACTTTGTGT
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:2179387 original size:32 final size:33
Alignment explanation
Indices: 2179324--2179391 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2179314 CGTTACAAGC
*
2179324 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
2179357 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
2179389 CAA
1 CAA
2179392 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:2181040 original size:9 final size:9
Alignment explanation
Indices: 2181026--2181064 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
2181016 TCAACCATCA
2181026 AAGATGATG
1 AAGATGATG
2181035 AAGATGATG
1 AAGATGATG
*
2181044 ATGATGATG
1 AAGATGATG
*
2181053 ATGATGATG
1 AAGATGATG
2181062 AAG
1 AAG
2181065 TTGACTTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (9 bp):
AAGATGATG
Found at i:2181043 original size:3 final size:3
Alignment explanation
Indices: 2181028--2181062 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
2181018 AACCATCAAA
*
2181028 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
2181063 AGTTGACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.34, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:2183240 original size:79 final size:79
Alignment explanation
Indices: 2183155--2183643 Score: 493
Period size: 79 Copynumber: 6.2 Consensus size: 79
2183145 AAGTTTGATA
* * * * *
2183155 TTTTGGAGATAAAAACGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCAATG
1 TTTTGGAAATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
2183220 GTGGAAAATCGATG
66 GTGGAAAATCGATG
* * *** *
2183234 TTTTGGAAATAAAATCGGGGTTAGAGTATCCCCTC-AGAAATAATATGGTTGGAGTATCCCTGAT
1 TTTTGGAAATAAAAACGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGAT
* * *
2183298 TGTGAAAAATTGATA
65 TGTGGAAAATCGATG
* * * * *
2183313 TTTTAGAAAT-AAAGCTGGGGTTAGAGTATCCCCTCGAAAATAATGGGGTTGGGGTATCCCCGAT
1 TTTTGGAAATAAAAAC-GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
* *
2183377 TGTAGAAAATTGATG
65 TGTGGAAAATCGATG
* * * * *
2183392 TTTTGGAAAT-AAAACTAGGGTCGAAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGGT
1 TTTTGGAAATAAAAAC-GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
* *
2183456 TGTCGAAAGTC-AGTG
65 TGTGGAAAATCGA-TG
* * * * * *
2183471 TTTTGAAAATAAAATCGAGATTGGAGTATCCCCTCGAAAATAACTGGGTTGGA-TATCCCCAATT
1 TTTTGGAAATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
* * *
2183535 GTGAAAAATTGGTG
66 GTGGAAAATCGATG
* * * * * * *
2183549 TTTTGAAAATAAAACCGAGGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGGGTATCCCTGATG
1 TTTTGGAAATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
*
2183614 GTGGAAAATCGATA
66 GTGGAAAATCGATG
*
2183628 TTTTAGAAATAAAAAC
1 TTTTGGAAATAAAAAC
2183644 ATGATTGAAA
Statistics
Matches: 341, Mismatches: 62, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
78 71 0.21
79 265 0.78
80 5 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
TTTTGGAAATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
GTGGAAAATCGATG
Found at i:2186063 original size:50 final size:50
Alignment explanation
Indices: 2185953--2186063 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 50
2185943 AAAAATGCCT
* * *
2185953 GAATGTATCGATACATTGAGAAATGAATCGATACATCTGGGTTAAAACCAA
1 GAATGTATCAATACATGGAGAAAT-AATCGATACATCTAGGTTAAAACCAA
*
2186004 GAATGTATCAATACAATGGAG-AATATATCGATACATCTAGG-TAAAACCTA
1 GAATGTATCAATAC-ATGGAGAAATA-ATCGATACATCTAGGTTAAAACCAA
2186054 GAATGTATCA
1 GAATGTATCA
2186064 CCTAGAATGT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
50 19 0.35
51 30 0.56
52 5 0.09
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (50 bp):
GAATGTATCAATACATGGAGAAATAATCGATACATCTAGGTTAAAACCAA
Found at i:2186068 original size:14 final size:14
Alignment explanation
Indices: 2186049--2186076 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2186039 TCTAGGTAAA
2186049 ACCTAGAATGTATC
1 ACCTAGAATGTATC
2186063 ACCTAGAATGTATC
1 ACCTAGAATGTATC
2186077 GATACAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
ACCTAGAATGTATC
Found at i:2186801 original size:44 final size:43
Alignment explanation
Indices: 2186688--2187553 Score: 612
Period size: 44 Copynumber: 20.3 Consensus size: 43
2186678 CCTTGAGGAC
** * * * *
2186688 AAAGGAAAAAAAGTACGTCCTGCTCTTCGGGGACAACA-AGAAA
1 AAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAA-AGGGAAA
* * * *
2186731 AAAGGAAATGAAGTGTGTTCTACTCTTTAAGGACAAAGGGAAA
1 AAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAA
* *
2186774 ATAAGGAAATGAGGTGCGCCCTGCTCTTTGAGGACAAAGGGAAA
1 A-AAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAA
* ** **
2186818 AGAAGGAAATGAGGTGCACCCTATTCTTTGAGGACAAA-GG-AA
1 A-AAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAA
* *
2186860 AAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAGAAA
1 AAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGGAAA
* * *
2186904 AGAAGGAAATGAAGTGTGTCATGCTCTTTAAGGACAAAGGGAAAA
1 A-AAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGG-AAA
* * * * **
2186949 AAAGGAAATGAGGTGTGTGCTGCTCTTTAAAAACAAA-GG-AA
1 AAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAA
* ** * * * *
2186990 AAATGAAAAAAAGTGTGTCATGCTCTTTGAGGACAAAATAGAAAA
1 AAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC-AAA-GGGAAA
* *
2187035 AAAGGAAATGAAATGCGTCCTGCTATTTGAGGACAAA-GGAAA
1 AAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAA
* * *
2187077 AAAGG-AA--AAG-GCATCCTACTCTTTGAGGACTAAGGGAAA
1 AAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAA
* *
2187116 AGAAGGAAATGAGGTGC-ACCATGCTCTTTGAGGACAAA-GG-AA
1 A-AAGGAAATGAAGTGCGTCC-TGCTCTTTGAGGACAAAGGGAAA
* * ** *
2187158 AAAGGAAATAAAGTGCATTATGCTCTTTGAGGACAAGAGAGAAA
1 AAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAA-AGGGAAA
* * * *
2187202 AAAAGAAATGTAGTGCATCCTGCTCTTTGAAGACAAAGGGCAAA
1 AAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGG-AAA
* * * * * * *
2187246 TAAGGAAATGAGGTGTGCCCTGCTCTTTGCGAATAAA-GG--A
1 AAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAA
** * * * *
2187286 AAAGGAAAAAAAACTACATCCTGCTCTTTAAGGACAAAAGGGAAAA
1 AAAGG-AAATGAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGG-AAA
* * * * *
2187332 AGAAGGAAATAAAATGTGTCTTGCTCTTTGAGGACAAA-GGAGA
1 A-AAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAA
* * *
2187375 AAAGG-AA--AAG-GCATCCTGCTCTTTGAGGACTATGGGAAA
1 AAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAA
* ** ** *
2187414 AGAAGGAAATGAGGTGCACCCTATTCTTTGAAGACGAAA--G-AA
1 A-AAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGGAAA
* * *
2187456 AAAGGAAATAAACTACGTCCTGCTCTTTGAGGACAAAAGGGAAA
1 AAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGGAAA
* * *
2187500 AGAAAGAAATGAAGTGTGTCCTGCTCTTTGAAGACAAA-GGAAA
1 A-AAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAA
*
2187543 AAAGGCAATGA
1 AAAGGAAATGA
2187554 GAAAAATGTC
Statistics
Matches: 641, Mismatches: 141, Indels: 83
0.74 0.16 0.10
Matches are distributed among these distances:
38 37 0.06
39 15 0.02
40 13 0.02
41 135 0.21
42 41 0.06
43 64 0.10
44 215 0.34
45 93 0.15
46 24 0.04
47 4 0.01
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.20
Consensus pattern (43 bp):
AAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAA
Found at i:2186938 original size:130 final size:126
Alignment explanation
Indices: 2186705--2187553 Score: 573
Period size: 130 Copynumber: 6.6 Consensus size: 126
2186695 AAAAAGTACG
* * * * * * * *
2186705 TCCTGCTCTTCGGGGACAACAAGAAAAAAGGAAATGAAGTGTGTTCTACTCTTTAAGGACAAAGG
1 TCCTGCTCTTTGAGGAC-A-AAGGAAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAA-G
* * *
2186770 GAAAATAAGGAAATGAGGTGCGCCCTGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAGGTGC
63 GAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAAA-AAGGAAATGA-GTGC
2186835 A
126 A
* **
2186836 CCCTATTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAG-G
* * * **
2186901 AAAAGAAGGAAATGAAGTGTGTCATGCTCTTTAAGGACAAAGGGAAAAAAAGGAAATGAGGTGTG
64 AAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGG-AAAAAAGGAAATGA-GTGCA
* * ** * * * * *
2186966 TGCTGCTCTTTAAAAACAAAGGAAAAATGAAAAAAAGTGTGTCATGCTCTTTGAGGACAAAATAG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAA-GG
* * *
2187031 AAAAAAAGGAAATGAAATGCGTCCTGCTATTTGAGGACAAA-GGAAAAAAGGAAA--AG-GCA
64 AAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAAAAAGGAAATGAGTGCA
* * * * *
2187090 TCCTACTCTTTGAGGACTAAGGGAAAAGAAGGAAATGAGGTGC-ACCATGCTCTTTGAGGACAAA
1 TCCTGCTCTTTGAGGAC-AAAGG-AAA-AAGGAAATAAAGTGCGTCC-TGCTCTTTGAGGACAAA
* * ** * *
2187154 GG-AAA-AAGGAAATAAAGTGCATTATGCTCTTTGAGGACAAGAGAGAAAAAAAGAAATGTAGTG
62 GGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAA-AGGGAAAAAAGGAAATG-AGTG
2187217 CA
125 CA
* * * * * * * *
2187219 TCCTGCTCTTTGAAGACAAAGGGCAAATAAGGAAATGAGGTGTGCCCTGCTCTTTGCGAATAAAG
1 TCCTGCTCTTTGAGGACAAA-GG-AAA-AAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAG
* * * * * * *
2187284 GAAAAGGAA--AAA-AAACTACATCCTGCTCTTTAAGGACAAAAGGGAAAAAGAAGGAAATAAAA
63 GAAAA-GAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGG-AAAA-AAGGAAAT-GAG
**
2187346 TGTG
123 TGCA
* * **
2187350 TCTTGCTCTTTGAGGACAAAGGAGAAAAGG--A-AAAG-GCATCCTGCTCTTTGAGGACTATGGG
1 TCCTGCTCTTTGAGGACAAAGGA-AAAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAGG
* ** ** * * * * *
2187411 AAAAGAAGGAAATGAGGTGCACCCTATTCTTTGAAGACGAAA--G-AAAAAGGAAATAAACTACG
64 AAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGGAAAAAAGGAAAT-GAGTGCA
* * * *
2187473 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGTGTCCTGCTCTTTGAAGACAAA
1 TCCTGCTCTTTGAGGAC-AAA-GG-AAA-AAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAA
*
2187538 GGAAAA-AAGGCAATGA
62 GGAAAAGAAGGAAATGA
2187554 GAAAAATGTC
Statistics
Matches: 566, Mismatches: 116, Indels: 75
0.75 0.15 0.10
Matches are distributed among these distances:
123 58 0.10
124 23 0.04
125 38 0.07
126 22 0.04
127 28 0.05
128 44 0.08
129 128 0.23
130 179 0.32
131 44 0.08
132 2 0.00
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (126 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGGAA
AAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAGGGAAAAAAGGAAATGAGTGCA
Found at i:2187157 original size:298 final size:296
Alignment explanation
Indices: 2186683--2187554 Score: 1126
Period size: 298 Copynumber: 2.9 Consensus size: 296
2186673 TTGCTCCTTG
* * * * *
2186683 AGGACAAAGGAAAAAAAGTACGTCCTGCTCTTCGGGGACAACAAG-AAAAAAGGAAATGAAGTGT
1 AGGAAAAAGGAAAAAAAGTACGTCCTGCTCTTTGAGGACAAAAAGAAAAAAAGGAAATGAAATGT
* * * ** *
2186747 GTTCTACTCTTTAAGGACAAAGGGAAAATAAGGAAATGAGGTGCGCCCTGCTCTTTGAGGACAAA
66 GTCCTGCTCTTTGAGGACAAA-GGAAAA-AAGGAAA--A-G-GCATCCTGCTCTTTGAGGACTAA
2186812 GGGAAAAGAAGGAAATGAGGTGCACCCTATTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCG
125 GGGAAAAGAAGGAAATGAGGTGCACCCTATTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCG
* *
2186877 TCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGTGTCATGCTCTTT-AAGGACAA
190 TCCTGCTCTTTGAGGACAAAAGAGAAAAGAAAGAAATGAAGTGTGTCCTGCTCTTTGAA-GACAA
**
2186941 AGGGAAAAAAAGGAAATGAGGTGTGTGCTGCTCTTTAAAAACAA
254 AGGG-AAAAAAGGAAATGAGGTGTGCCCTGCTCTTTAAAAACAA
* ** *
2186985 AGGAAAAATGAAAAAAAGTGTGTCATGCTCTTTGAGGACAAAATAGAAAAAAAGGAAATGAAATG
1 AGGAAAAAGGAAAAAAAGTACGTCCTGCTCTTTGAGGACAAAA-AGAAAAAAAGGAAATGAAATG
* * *
2187050 CGTCCTGCTATTTGAGGACAAAGGAAAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAGGGAA
65 TGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAGGGAA
* ** * **
2187115 AAGAAGGAAATGAGGTGCACCATGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCATTATG
130 AAGAAGGAAATGAGGTGCACCCTATTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCGTCCTG
* * **
2187180 CTCTTTGAGGACAAGAGAGAAAA-AAAGAAATGTAGTGCATCCTGCTCTTTGAAGACAAAGGGCA
195 CTCTTTGAGGACAAAAGAGAAAAGAAAGAAATGAAGTGTGTCCTGCTCTTTGAAGACAAAGGG-A
* *** *
2187244 AATAAGGAAATGAGGTGTGCCCTGCTCTTTGCGAATAA
259 AAAAAGGAAATGAGGTGTGCCCTGCTCTTTAAAAACAA
* * * * *
2187282 AGG-AAAAGGAAAAAAAACTACATCCTGCTCTTTAAGGACAAAAGGGAAAAAGAAGGAAATAAAA
1 AGGAAAAAGG-AAAAAAAGTACGTCCTGCTCTTTGAGGACAAAA-AGAAAAA-AAGGAAATGAAA
* * *
2187346 TGTGTCTTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTATGGG
63 TGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAGGG
* * *
2187411 AAAAGAAGGAAATGAGGTGCACCCTATTCTTTGAAGACGAAA-GAAAAAGGAAATAAACTACGTC
128 AAAAGAAGGAAATGAGGTGCACCCTATTCTTTGAGGAC-AAAGGAAAAAGGAAATAAAGTGCGTC
*
2187475 CTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGTGTCCTGCTCTTTGAAGACAAA-G
192 CTGCTCTTTGAGGACAAAAGAGAAAAGAAAGAAATGAAGTGTGTCCTGCTCTTTGAAGACAAAGG
*
2187539 GAAAAAAGGCAATGAG
257 GAAAAAAGGAAATGAG
2187555 AAAAATGTCT
Statistics
Matches: 493, Mismatches: 70, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
296 5 0.01
297 112 0.23
298 254 0.52
299 37 0.08
300 1 0.00
302 42 0.09
303 8 0.02
304 34 0.07
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (296 bp):
AGGAAAAAGGAAAAAAAGTACGTCCTGCTCTTTGAGGACAAAAAGAAAAAAAGGAAATGAAATGT
GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAGGGAAA
AGAAGGAAATGAGGTGCACCCTATTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCGTCCTGC
TCTTTGAGGACAAAAGAGAAAAGAAAGAAATGAAGTGTGTCCTGCTCTTTGAAGACAAAGGGAAA
AAAGGAAATGAGGTGTGCCCTGCTCTTTAAAAACAA
Found at i:2187426 original size:169 final size:170
Alignment explanation
Indices: 2187178--2187547 Score: 458
Period size: 169 Copynumber: 2.2 Consensus size: 170
2187168 AAGTGCATTA
* *
2187178 TGCTCTTTGAGGACAAGAGAGAAAAAAAGAAATGTAGTGCATCCTGCTCTTTGAAGACAAAGGGC
1 TGCTCTTTGAGGACAA-AG-GAAAAAAGGAAA--TAGTGCATCCTGCTCTTTGAAGACAAAGGGA
* ** * * * *
2187243 AAATAAGGAAATGAGGTGTGCCCTGCTCTTTG-CGAATAAAGGAAAAGGAAAAAAAACTACATCC
62 AAAGAAGGAAATGAGGTGCACCCTACTCTTTGAAGAAGAAAGAAAAAGG-AAAAAAACTACATCC
* *
2187307 TGCTCTTTAAGGACAAAAGGGAAAAAGAAGGAAATAAAATGTGTCT
126 TGCTCTTTAAGGACAAAAGGG-AAAAGAAAGAAATAAAATGTGTCC
* * * *
2187353 TGCTCTTTGAGGACAAAGGAGAAAAGGAAA-AG-GCATCCTGCTCTTTGAGGACTATGGGAAAAG
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATAGTGCATCCTGCTCTTTGAAGACAAAGGGAAAAG
* * * *
2187416 AAGGAAATGAGGTGCACCCTATTCTTTGAAGACGAAAGAAAAAGGAAATAAACTACGTCCTGCTC
66 AAGGAAATGAGGTGCACCCTACTCTTTGAAGAAGAAAGAAAAAGGAAAAAAACTACATCCTGCTC
* * *
2187481 TTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGTGTCC
131 TTTAAGGACAAAAGGGAAAAGAAAGAAATAAAATGTGTCC
*
2187521 TGCTCTTTGAAGACAAAGGAAAAAAGG
1 TGCTCTTTGAGGACAAAGGAAAAAAGG
2187548 CAATGAGAAA
Statistics
Matches: 170, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
168 45 0.26
169 83 0.49
170 14 0.08
173 10 0.06
174 2 0.01
175 16 0.09
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (170 bp):
TGCTCTTTGAGGACAAAGGAAAAAAGGAAATAGTGCATCCTGCTCTTTGAAGACAAAGGGAAAAG
AAGGAAATGAGGTGCACCCTACTCTTTGAAGAAGAAAGAAAAAGGAAAAAAACTACATCCTGCTC
TTTAAGGACAAAAGGGAAAAGAAAGAAATAAAATGTGTCC
Found at i:2187759 original size:61 final size:62
Alignment explanation
Indices: 2187565--2187792 Score: 341
Period size: 62 Copynumber: 3.7 Consensus size: 62
2187555 AAAAATGTCT
* * *
2187565 TGCTCTTTAAGGACTAAAGGGTGCCACCATCTCATGTGGGCTTTGAAAAGAAAAAGGCATCA
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCA
* * *
2187627 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCC
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCA
* * *
2187689 TGCTCTTTGAGGACTAAAGGGTG-CACCAACTCGTGTGGGGTTTGAAAAGAAAAAAGCGTCA
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCA
* * *
2187750 TTCTGTTTGAGGACTAAAGGGTGCCACCAACTCATGTGTGCTT
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTT
2187793 GTAGACACCT
Statistics
Matches: 150, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
61 55 0.37
62 95 0.63
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (62 bp):
TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCA
Found at i:2188109 original size:13 final size:13
Alignment explanation
Indices: 2188091--2188115 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2188081 CATAAAGTGT
2188091 TGTATCGATACAA
1 TGTATCGATACAA
2188104 TGTATCGATACA
1 TGTATCGATACA
2188116 TATTTTTTTT
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:2188197 original size:13 final size:13
Alignment explanation
Indices: 2188179--2188203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2188169 ATCACTTAAA
2188179 TGTATCGATACAT
1 TGTATCGATACAT
2188192 TGTATCGATACA
1 TGTATCGATACA
2188204 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:2188268 original size:52 final size:52
Alignment explanation
Indices: 2188212--2188340 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2188202 CACTGATCTT
*
2188212 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
2188264 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2188316 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2188341 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2191349 original size:61 final size:62
Alignment explanation
Indices: 2191254--2191392 Score: 217
Period size: 61 Copynumber: 2.3 Consensus size: 62
2191244 TTACGACAGT
* * *
2191254 GCTTTGAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAAAA-GTGCCACCAACTTGTGTGG
1 GCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAATGTACAACCAACTTGTGTGG
* * *
2191315 GCTTTGAAAAGAAAAAGGCGTCTTACTTTTTGAGGAGTAAAATGTACAACCAACTTGTGTGG
1 GCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAATGTACAACCAACTTGTGTGG
2191377 GCTTTGAAAAGAAAAA
1 GCTTTGAAAAGAAAAA
2191393 AGCAACTAAG
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
61 38 0.54
62 33 0.46
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (62 bp):
GCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAATGTACAACCAACTTGTGTGG
Found at i:2197185 original size:79 final size:78
Alignment explanation
Indices: 2197100--2197586 Score: 350
Period size: 79 Copynumber: 6.2 Consensus size: 78
2197090 AAGTTTAATA
* * * *
2197100 TTTTGGAGATAAAAAC-GGGGTTGGAGTATGCCCTCAGAAATAATAGAGTTTGAGTATCCTCAAT
1 TTTTGGAAAT-AAAACTGGAGTTGGAGTAT-CCCTCAGAAATAATAGAGTTGGAGTATCCTCGAT
* *
2197164 GGTGAAAAATCGATG
64 TGTGGAAAATCGATG
*
2197179 TTTTGGAAATAAAACCGGAGTTGGAGTATCCTCTC-GAAAATAATA-AGGTTGGAGTATCCTCGA
1 TTTTGGAAATAAAACTGGAGTTGGAGTATCC-CTCAG-AAATAATAGA-GTTGGAGTATCCTCGA
2197242 TTGTGGAAAATCGATG
63 TTGTGGAAAATCGATG
* * * * * * *
2197258 TTTTAGAAATAAAGCTGGAGTCGGAGTATTCCCTAAAAAATAACAGAGTTGGGGTATCC-CTGAT
1 TTTTGGAAATAAAACTGGAGTTGGAGTA-TCCCTCAGAAATAATAGAGTTGGAGTATCCTC-GAT
*
2197322 TGTGGAAAATTGATG
64 TGTGGAAAATCGATG
* * *
2197337 TTTTGGAAATAAAACTAGG-GTTGGAGTATCCCCTCAGAAATAACA-AGGTCGGAGTATCCCCG-
1 TTTTGGAAATAAAACT-GGAGTTGGAGTAT-CCCTCAGAAATAATAGA-GTTGGAGTATCCTCGA
* *
2197399 TTGTAGAAAAT-TAGTG
63 TTGTGGAAAATCGA-TG
* ** * * * * *
2197415 TTTTGAAAATAAAA-TCAAGATTGGAGTATCCCCTAAAAAATAA-CGAGGTTAGAGTATCCCCGA
1 TTTTGGAAATAAAACTGGAG-TTGGAGTAT-CCCTCAGAAATAATAGA-GTTGGAGTATCCTCGA
* * *
2197478 TTGTGAAAAATTGGTG
63 TTGTGGAAAATCGATG
* * * * * * *
2197494 TTTTAGAAATAAAACCAGG-GTTAGAGTATCCCCTTAGAAATAAGAGGGTTGGGGTATCC-CTGA
1 TTTTGGAAATAAAA-CTGGAGTTGGAGTAT-CCCTCAGAAATAATAGAGTTGGAGTATCCTC-GA
* * * *
2197557 TGGTGGAAAATTGGTA
63 TTGTGGAAAATCGATG
*
2197573 TTTTAGAAATAAAA
1 TTTTGGAAATAAAA
2197587 ACATGAATGA
Statistics
Matches: 335, Mismatches: 51, Indels: 44
0.78 0.12 0.10
Matches are distributed among these distances:
77 3 0.01
78 74 0.22
79 249 0.74
80 9 0.03
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (78 bp):
TTTTGGAAATAAAACTGGAGTTGGAGTATCCCTCAGAAATAATAGAGTTGGAGTATCCTCGATTG
TGGAAAATCGATG
Found at i:2197489 original size:157 final size:157
Alignment explanation
Indices: 2197119--2197585 Score: 469
Period size: 157 Copynumber: 3.0 Consensus size: 157
2197109 TAAAAACGGG
* * * * * * * * *
2197119 GTTGGAGTATGCCCTCAGAAATAATAGAGTTTGAGTATCCTCAATGGTGAAAAATCGATGTTTTG
1 GTTGGAGTATCCCCTAAAAAATAACAGAGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTG
* * * * * *
2197184 GAAATAAAACCGGAGTTGGAGTATCCTCTC-GAAAATAATAAGGTTGGAGTATCCTCGATTGTGG
66 GAAATAAAACAGG-GTTGGAGTATCCCCTCAG-AAATAACAAGGTCGGAGTATCCCCGATTGTAG
* **
2197248 AAAATCGATGTTTTAGAAATAAAGCTGGA
129 AAAATAGATGTTTTAGAAATAAAGCAAGA
* * * * * *
2197277 GTCGGAGTATTCCCTAAAAAATAACAGAGTTGGGGTATCCCTGATTGTGGAAAATTGATGTTTTG
1 GTTGGAGTATCCCCTAAAAAATAACAGAGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTG
2197342 GAAATAAAACTAGGGTTGGAGTATCCCCTCAGAAATAACAAGGTCGGAGTATCCCCG-TTGTAGA
66 GAAATAAAAC-AGGGTTGGAGTATCCCCTCAGAAATAACAAGGTCGGAGTATCCCCGATTGTAGA
*
2197406 AAATTAG-TGTTTT-GAAAATAAAATCAAGA
130 AAA-TAGATGTTTTAG-AAAT-AAAGCAAGA
*
2197435 -TTGGAGTATCCCCTAAAAAATAAC-GAGGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTT
1 GTTGGAGTATCCCCTAAAAAATAACAGA-GTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTT
* * * * * * * * * *
2197498 AGAAATAAAACCAGGGTTAGAGTATCCCCTTAGAAATAAGAGGGTTGGGGTATCCCTGATGGTGG
65 GGAAATAAAA-CAGGGTTGGAGTATCCCCTCAGAAATAACAAGGTCGGAGTATCCCCGATTGTAG
* * *
2197563 AAAATTGGTATTTTAGAAATAAA
129 AAAATAGATGTTTTAGAAATAAA
2197586 AACATGAATG
Statistics
Matches: 257, Mismatches: 42, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
156 3 0.01
157 125 0.49
158 125 0.49
159 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (157 bp):
GTTGGAGTATCCCCTAAAAAATAACAGAGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTG
GAAATAAAACAGGGTTGGAGTATCCCCTCAGAAATAACAAGGTCGGAGTATCCCCGATTGTAGAA
AATAGATGTTTTAGAAATAAAGCAAGA
Found at i:2202623 original size:13 final size:13
Alignment explanation
Indices: 2202605--2202630 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2202595 AAATTCCCAG
2202605 ATGTATCGATACA
1 ATGTATCGATACA
2202618 ATGTATCGATACA
1 ATGTATCGATACA
2202631 TTGAATAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2202836 original size:32 final size:32
Alignment explanation
Indices: 2202810--2202950 Score: 135
Period size: 32 Copynumber: 4.4 Consensus size: 32
2202800 TTTTCATCCT
* *
2202810 TCACACAAGTCGATGGCAACCGTTTTCAAAGC
1 TCACACAAGTCGATAGCAACCGTTTTCAAACC
* *
2202842 TCACACAAGTCGATAGCAACCCTTCTCAAAAGCC
1 TCACACAAGTCGATAGCAACCGTTTTC-AAA-CC
* * *
2202876 -CACAAAAGTCGATAGTAACCTTTTTCAAAGCC
1 TCACACAAGTCGATAGCAACCGTTTTCAAA-CC
* * *
2202908 -CACACAAGTCGTTAGCAACCCTTTTTAAAGCC
1 TCACACAAGTCGATAGCAACCGTTTTCAAA-CC
2202940 -CACACAAGTCG
1 TCACACAAGTCG
2202951 GTGGCTCTTT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
32 68 0.72
33 25 0.27
34 1 0.01
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.21
Consensus pattern (32 bp):
TCACACAAGTCGATAGCAACCGTTTTCAAACC
Found at i:2202924 original size:65 final size:65
Alignment explanation
Indices: 2202811--2203081 Score: 266
Period size: 65 Copynumber: 4.3 Consensus size: 65
2202801 TTTCATCCTT
* *
2202811 CACACAAGTCGATGGCAACCGTTTTCAAAGCTCACACAAGTCGATAGCAACCCTTCTCAAAAGCC
1 CACACAAGTCGATGGCAACCTTTTTCAAAGCCCACACAAGTCGATAGCAACCCTTCTCAAAAGCC
* * * * **
2202876 CACAAAAGTCGATAGTAACCTTTTTCAAAGCCCACACAAGTCGTTAGCAACCCTT-TTTAAAGCC
1 CACACAAGTCGATGGCAACCTTTTTCAAAGCCCACACAAGTCGATAGCAACCCTTCTCAAAAGCC
* * * * * *
2202940 CACACAAGTCGGTGG----CTCTTTCAAAGCCCACATAAGTCGATGGCAACCTTTCTCAAAAACC
1 CACACAAGTCGATGGCAACCTTTTTCAAAGCCCACACAAGTCGATAGCAACCCTTCTCAAAAGCC
* * * * * * * * * *
2203001 TACACAGGTCGGTGGCATCCTGTTTCAAAGCCCACACAAATTGGTGGCAACCC-TCTCAAAAGCT
1 CACACAAGTCGATGGCAACCTTTTTCAAAGCCCACACAAGTCGATAGCAACCCTTCTCAAAAGCC
* *
2203065 CACATAAGTTGATGGCA
1 CACACAAGTCGATGGCA
2203082 TCTCTTTCTA
Statistics
Matches: 167, Mismatches: 34, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
60 31 0.19
61 19 0.11
64 40 0.24
65 77 0.46
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.22
Consensus pattern (65 bp):
CACACAAGTCGATGGCAACCTTTTTCAAAGCCCACACAAGTCGATAGCAACCCTTCTCAAAAGCC
Found at i:2202969 original size:28 final size:29
Alignment explanation
Indices: 2202811--2203039 Score: 127
Period size: 32 Copynumber: 7.2 Consensus size: 29
2202801 TTTCATCCTT
*
2202811 CACACAAGTCGATGGCAACCGTTTTCAAAGCT
1 CACACAAGTCGATGGC--CC-TTTTCAAAGCC
* *
2202843 CACACAAGTCGATAGCAACCCTTCTCAAAAGCC
1 CACACAAGTCGAT-G--GCCCTTTTC-AAAGCC
* * *
2202876 CACAAAAGTCGATAGTAACCTTTTTCAAAGCC
1 CACACAAGTCGAT-G--GCCCTTTTCAAAGCC
* * *
2202908 CACACAAGTCGTTAGCAACCCTTTTTAAAGCC
1 CACACAAGTCGAT-G--GCCCTTTTCAAAGCC
* *
2202940 CACACAAGTCGGTGGCTC-TTTCAAAGCC
1 CACACAAGTCGATGGCCCTTTTCAAAGCC
* *
2202968 CACATAAGTCGATGGCAACCTTTCTCAAAAACC
1 CACACAAGTCGATGGC--CCTTT-TC-AAAGCC
* * *
2203001 TACACAGGTCGGTGGCATCCTGTTTCAAAGCC
1 CACACAAGTCGATGGC--CCT-TTTCAAAGCC
2203033 CACACAA
1 CACACAA
2203040 ATTGGTGGCA
Statistics
Matches: 159, Mismatches: 28, Indels: 20
0.77 0.14 0.10
Matches are distributed among these distances:
28 23 0.14
29 2 0.01
30 1 0.01
31 3 0.02
32 74 0.47
33 53 0.33
34 2 0.01
35 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (29 bp):
CACACAAGTCGATGGCCCTTTTCAAAGCC
Found at i:2203063 original size:125 final size:125
Alignment explanation
Indices: 2202833--2203073 Score: 284
Period size: 125 Copynumber: 1.9 Consensus size: 125
2202823 TGGCAACCGT
* * * *
2202833 TTTCAAAGCTCACACAAGTCGATAGCAACCCTTCTCAAAAGCCCACAAAAGTCGATAGTAACCTT
1 TTTCAAAGCCCACACAAGTCGATAGCAACCCTTCTCAAAAACCCACAAAAGTCGATAGCAACCTG
* * * **
2202898 TTTCAAAGCCCACACAAGTCGTTAGCAACCCTTTTTAAAGCCCACACAAGTCGGTGGCTC
66 TTTCAAAGCCCACACAAATCGGTAGCAACCCTCTCAAAAGCCCACACAAGTCGGTGGCTC
* * * * * * * * *
2202958 TTTCAAAGCCCACATAAGTCGATGGCAACCTTTCTCAAAAACCTACACAGGTCGGTGGCATCCTG
1 TTTCAAAGCCCACACAAGTCGATAGCAACCCTTCTCAAAAACCCACAAAAGTCGATAGCAACCTG
* * * *
2203023 TTTCAAAGCCCACACAAATTGGTGGCAACCCTCTCAAAAGCTCACATAAGT
66 TTTCAAAGCCCACACAAATCGGTAGCAACCCTCTCAAAAGCCCACACAAGT
2203074 TGATGGCATC
Statistics
Matches: 94, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
125 94 1.00
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.22
Consensus pattern (125 bp):
TTTCAAAGCCCACACAAGTCGATAGCAACCCTTCTCAAAAACCCACAAAAGTCGATAGCAACCTG
TTTCAAAGCCCACACAAATCGGTAGCAACCCTCTCAAAAGCCCACACAAGTCGGTGGCTC
Found at i:2203222 original size:52 final size:52
Alignment explanation
Indices: 2203149--2203513 Score: 351
Period size: 53 Copynumber: 7.0 Consensus size: 52
2203139 CATCTCTTTC
* * * * *
2203149 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGTCACTCTTCTCATCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACTCTTATCATCTT
* * *
2203201 TAAGTCCAATATCGCTAGCCTTAAATCAGCATATTGGCACAT-TTGATCATCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCAC-TCTT-ATCATCTT
* * * * *
2203254 TAAGTTCAATATCGTTGGCTTTGAATTAGCATATTGGCACATTTTCTCATCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCAC-TCTTATCATCTT
* * * * *
2203307 TAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCACCCTTTATTATCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACTC-TTATCATCTT
* *
2203360 TAAG-CCTAATATTGTTGGCCTTGAATCAGCATATTGGCAC-CTTTATCATTTT
1 TAAGTCC-AATATCGTTGGCCTTGAATCAGCATATTGGCACTC-TTATCATCTT
* * * * ** * * *
2203412 TAAGCCCAATGTCGTTGGCCTTGAATCAACACATTATCATTCTTCTCATATT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACTCTTATCATCTT
* * *
2203464 TAAGTCCAATA-CTGTTGGCCTTGAATTAGCACATTGGCACTCTTTTCATC
1 TAAGTCCAATATC-GTTGGCCTTGAATCAGCATATTGGCACTCTTATCATC
2203514 CTTATTATCT
Statistics
Matches: 258, Mismatches: 47, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
51 1 0.00
52 126 0.49
53 129 0.50
54 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (52 bp):
TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACTCTTATCATCTT
Found at i:2204234 original size:20 final size:21
Alignment explanation
Indices: 2204208--2204268 Score: 83
Period size: 20 Copynumber: 3.0 Consensus size: 21
2204198 ATATAATAAG
2204208 TGAATGTATCGATACATAGAC
1 TGAATGTATCGATACATAGAC
*
2204229 -GAATGTATCGATACAT-GTC
1 TGAATGTATCGATACATAGAC
2204248 TGAAATGTATCGATACA-AGAC
1 TG-AATGTATCGATACATAGAC
2204269 CATGTCAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 2 0.06
20 17 0.49
21 16 0.46
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (21 bp):
TGAATGTATCGATACATAGAC
Found at i:2204364 original size:31 final size:31
Alignment explanation
Indices: 2204323--2204394 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
2204313 CATTCTTCAT
*
2204323 TGTATCGATACATTCTGGGTTTTGACCTAAA
1 TGTATCGATACATTCTGGGTTTTGACCCAAA
*
2204354 TGTATTGATACATTCTGGGTTTTGACCCAAA
1 TGTATCGATACATTCTGGGTTTTGACCCAAA
2204385 TGTATCGATA
1 TGTATCGATA
2204395 TATTTTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.39
Consensus pattern (31 bp):
TGTATCGATACATTCTGGGTTTTGACCCAAA
Found at i:2204718 original size:21 final size:21
Alignment explanation
Indices: 2204685--2204725 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2204675 CTAAGTAAAA
2204685 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
2204706 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
2204726 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:2204790 original size:20 final size:19
Alignment explanation
Indices: 2204765--2204835 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
2204755 ACCCTGAAAA
2204765 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
2204785 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
2204804 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
2204825 GTATCGATACA
1 GTATCGATACA
2204836 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:2204888 original size:53 final size:53
Alignment explanation
Indices: 2204805--2204941 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
2204795 AAATTGCATA
* *
2204805 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAAGACATTGGCAGTAGCCAAAATT
*
2204859 GTATCGATACACACAATATGTATCGATACAAGTCATTGGCAGTAGCCAAAATT
1 GTATCGATACACACAATATGTATCGATACAAGACATTGGCAGTAGCCAAAATT
*
2204912 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
2204942 TTGGTAGTAG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 65 0.82
54 14 0.18
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAAGACATTGGCAGTAGCCAAAATT
Found at i:2204928 original size:18 final size:19
Alignment explanation
Indices: 2204905--2204941 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2204895 TGGCAGTAGC
2204905 CAAAAT-TGTATCGATACA
1 CAAAATATGTATCGATACA
2204923 CAAAATATGTATCGATACA
1 CAAAATATGTATCGATACA
2204942 TTGGTAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (19 bp):
CAAAATATGTATCGATACA
Found at i:2204984 original size:10 final size:10
Alignment explanation
Indices: 2204965--2205005 Score: 73
Period size: 10 Copynumber: 4.1 Consensus size: 10
2204955 AATCTCATTT
2204965 TCACTGTTCA
1 TCACTGTTCA
*
2204975 TCACTATTCA
1 TCACTGTTCA
2204985 TCACTGTTCA
1 TCACTGTTCA
2204995 TCACTGTTCA
1 TCACTGTTCA
2205005 T
1 T
2205006 GTATCGATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.22, C:0.29, G:0.07, T:0.41
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:2205027 original size:21 final size:22
Alignment explanation
Indices: 2204993--2205048 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
2204983 CATCACTGTT
2204993 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
2205015 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
2205036 CATCACTGTTCAT
1 CATCACTGTTCAT
2205049 AGGTCACTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:2208232 original size:27 final size:26
Alignment explanation
Indices: 2208191--2208241 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
2208181 TATCATTAAT
2208191 GGGGATACTCCAACCCCATCTTTTCGA
1 GGGGATACTCCAACCCCA-CTTTTCGA
* * *
2208218 GGGGATATTCTAACCTCACTTTTC
1 GGGGATACTCCAACCCCACTTTTC
2208242 AACTATAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (26 bp):
GGGGATACTCCAACCCCACTTTTCGA
Found at i:2210325 original size:20 final size:20
Alignment explanation
Indices: 2210302--2210374 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2210292 ACAATTCAAA
2210302 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2210322 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2210343 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2210363 GTATCGATACAT
1 GTATCGATACAT
2210375 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2210346 original size:21 final size:21
Alignment explanation
Indices: 2210320--2210395 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2210310 ACATGTTGCA
2210320 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2210341 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2210361 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
2210382 ATGTATCGATACAT
1 ATGTATCGATACAT
2210396 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2210353 original size:41 final size:41
Alignment explanation
Indices: 2210302--2210395 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2210292 ACAATTCAAA
*
2210302 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2210343 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2210384 GTATCGATACAT
1 GTATCGATACAT
2210396 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2210452 original size:13 final size:13
Alignment explanation
Indices: 2210434--2210459 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2210424 TACAGCAAGT
2210434 ATGTATCGATACA
1 ATGTATCGATACA
2210447 ATGTATCGATACA
1 ATGTATCGATACA
2210460 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2212704 original size:21 final size:21
Alignment explanation
Indices: 2212671--2212715 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2212661 TTGCAAGTTG
*
2212671 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2212693 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2212713 AAA
1 AAA
2212716 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2214538 original size:15 final size:15
Alignment explanation
Indices: 2214518--2214548 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2214508 TAAAAATGTC
*
2214518 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2214533 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2214548 C
1 C
2214549 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2217800 original size:13 final size:13
Alignment explanation
Indices: 2217782--2217807 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2217772 TACACCAAGT
2217782 ATGTATCGATACA
1 ATGTATCGATACA
2217795 ATGTATCGATACA
1 ATGTATCGATACA
2217808 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2217805 original size:32 final size:33
Alignment explanation
Indices: 2217764--2217827 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2217754 TAGCCAAACT
* **
2217764 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2217796 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2217828 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2222222 original size:105 final size:105
Alignment explanation
Indices: 2222040--2222253 Score: 428
Period size: 105 Copynumber: 2.0 Consensus size: 105
2222030 TTTATTAATA
2222040 AAAAGGGGAGATAAAGGGGAGAATGCGTGAATTATCTTATTAAGGGGGAGAATGTACGAATTTGT
1 AAAAGGGGAGATAAAGGGGAGAATGCGTGAATTATCTTATTAAGGGGGAGAATGTACGAATTTGT
2222105 TAAAATTATTTTGATTAAGGGAGAAATAAAAGAAAAATGT
66 TAAAATTATTTTGATTAAGGGAGAAATAAAAGAAAAATGT
2222145 AAAAGGGGAGATAAAGGGGAGAATGCGTGAATTATCTTATTAAGGGGGAGAATGTACGAATTTGT
1 AAAAGGGGAGATAAAGGGGAGAATGCGTGAATTATCTTATTAAGGGGGAGAATGTACGAATTTGT
2222210 TAAAATTATTTTGATTAAGGGAGAAATAAAAGAAAAATGT
66 TAAAATTATTTTGATTAAGGGAGAAATAAAAGAAAAATGT
2222250 AAAA
1 AAAA
2222254 TTTTGATTTT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 109 1.00
ACGTcount: A:0.44, C:0.03, G:0.27, T:0.26
Consensus pattern (105 bp):
AAAAGGGGAGATAAAGGGGAGAATGCGTGAATTATCTTATTAAGGGGGAGAATGTACGAATTTGT
TAAAATTATTTTGATTAAGGGAGAAATAAAAGAAAAATGT
Found at i:2222869 original size:13 final size:13
Alignment explanation
Indices: 2222851--2222876 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2222841 TACACCAAGT
2222851 ATGTATCGATACA
1 ATGTATCGATACA
2222864 ATGTATCGATACA
1 ATGTATCGATACA
2222877 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2222874 original size:32 final size:33
Alignment explanation
Indices: 2222833--2222896 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2222823 TAGCCAAACT
* **
2222833 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2222865 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2222897 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2224015 original size:20 final size:20
Alignment explanation
Indices: 2223992--2224064 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2223982 ACAATTCAAA
2223992 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2224012 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2224033 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2224053 GTATCGATACAT
1 GTATCGATACAT
2224065 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2224036 original size:21 final size:21
Alignment explanation
Indices: 2224010--2224085 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2224000 ACATGTTGCA
2224010 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2224031 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2224051 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
2224072 ATGTATCGATACAT
1 ATGTATCGATACAT
2224086 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2224043 original size:41 final size:41
Alignment explanation
Indices: 2223992--2224085 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2223982 ACAATTCAAA
*
2223992 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2224033 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2224074 GTATCGATACAT
1 GTATCGATACAT
2224086 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2224142 original size:13 final size:13
Alignment explanation
Indices: 2224124--2224149 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2224114 TACAGCAAGT
2224124 ATGTATCGATACA
1 ATGTATCGATACA
2224137 ATGTATCGATACA
1 ATGTATCGATACA
2224150 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2225466 original size:22 final size:22
Alignment explanation
Indices: 2225441--2225486 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
2225431 ACGATCTTAC
*
2225441 ACTTTAGGGTGCCACATTATCT
1 ACTTTAAGGTGCCACATTATCT
2225463 ACTTTAAGGTGCCACATTATCT
1 ACTTTAAGGTGCCACATTATCT
2225485 AC
1 AC
2225487 CTATGCACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (22 bp):
ACTTTAAGGTGCCACATTATCT
Found at i:2226846 original size:21 final size:21
Alignment explanation
Indices: 2226820--2226860 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2226810 CAAAATTTAG
2226820 ATTTCTTTCTTAAGCTTGAAA
1 ATTTCTTTCTTAAGCTTGAAA
*
2226841 ATTTCTTTCTTAGGCTTGAA
1 ATTTCTTTCTTAAGCTTGAA
2226861 TAAGACATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (21 bp):
ATTTCTTTCTTAAGCTTGAAA
Done.