Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold164
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: 2248410
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 13 of 15
Found at i:1906346 original size:51 final size:51
Alignment explanation
Indices: 1906291--1906444 Score: 179
Period size: 51 Copynumber: 3.0 Consensus size: 51
1906281 AGAGTATCTT
* *
1906291 TGATTATAAAAAATC-GATATTTTGGAAATAAAACCGGGGTTGAAGTATCCC
1 TGATTATGAAAAATCAG-TGTTTTGGAAATAAAACCGGGGTTGAAGTATCCC
* * *
1906342 TGATTATGAAAAATCAGTGTTTTAGAAATAAAATCAGGGTT-AGAGTATCCC
1 TGATTATGAAAAATCAGTGTTTTGGAAATAAAACCGGGGTTGA-AGTATCCC
* * * *
1906393 CGATTGTGAAAAATCAGTGTTTTGAAAATAAAACCGAGGTTTG-AGTATCCC
1 TGATTATGAAAAATCAGTGTTTTGGAAATAAAACCG-GGGTTGAAGTATCCC
1906444 T
1 T
1906445 TTGGAAATAA
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
50 1 0.01
51 80 0.93
52 5 0.06
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.31
Consensus pattern (51 bp):
TGATTATGAAAAATCAGTGTTTTGGAAATAAAACCGGGGTTGAAGTATCCC
Found at i:1906476 original size:79 final size:78
Alignment explanation
Indices: 1906378--1906611 Score: 283
Period size: 79 Copynumber: 3.0 Consensus size: 78
1906368 AATAAAATCA
1906378 GGGTTAGAGTATCCCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAACCGAGGTTTGAGTATCC
1 GGGTTAGAGTATCCCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAACCG-GGTTTGAGTATCC
** *
1906443 CTTTGGAAATAATG
65 CTTCAGAAATAACG
* * * * * *
1906457 GGGTTGGAATATCCCCGATTGTGAAAAATTAGTATTTT-AGAAATAAAATCGGGGTTGAAGTATC
1 GGGTTAGAGTATCCCCGATTGTGAAAAATCAGTGTTTTGA-AAATAAAACCGGGTTTG-AGTATC
1906521 CCTTCAGAAATAACG
64 CCTTCAGAAATAACG
* * * * *
1906536 GGGTTAGAGTATCCCCAATTATGAAAAATCAATGTTTTGAAAAT-AAACTGGGGTTGGAGTATCC
1 GGGTTAGAGTATCCCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAAC-CGGGTTTGAGTATCC
*
1906600 CCTCAGAAATAA
65 CTTCAGAAATAA
1906612 AAACATAAAT
Statistics
Matches: 130, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
78 27 0.21
79 102 0.78
80 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (78 bp):
GGGTTAGAGTATCCCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAACCGGGTTTGAGTATCCC
TTCAGAAATAACG
Found at i:1906512 original size:181 final size:181
Alignment explanation
Indices: 1906197--1906523 Score: 428
Period size: 181 Copynumber: 1.8 Consensus size: 181
1906187 GGAAATAACG
* * * *
1906197 GGGTTGGAGGATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCC
1 GGGTTAGAGGATCCCCGATTGTGAAAAATAGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCC
* *** * *
1906262 TCTCGAAAATAATGGGGTTAGAGTATCTTTGATTATAAAAAATCGATATTTTGGAAATAAAACCG
66 TCTCGAAAATAATGGGGTTAGAATATCCCCGATTATAAAAAATAGATATTTTAGAAATAAAACCG
1906327 GGGTTGAAGTATCCCTGATTATGAAAAATCAGTGTTTTAGAAATAAAATCA
131 GGGTTGAAGTATCCCTGATTATGAAAAATCAGTGTTTTAGAAATAAAATCA
* *
1906378 GGGTTAGAGTATCCCCGATTGTGAAAAATCAG-TGTTTT-GAAAATAAAACCGAGGTTTGAGTAT
1 GGGTTAGAGGATCCCCGATTGTGAAAAAT-AGATGTTTTAG-AAATAAAACCGAGGTTAGAGTAT
* * * * *
1906441 CC-CTTTGGAAATAATGGGGTTGGAATATCCCCGATTGTGAAAAATTAG-TATTTTAGAAATAAA
64 CCTC-TCGAAAATAATGGGGTTAGAATATCCCCGATTAT-AAAAAATAGATATTTTAGAAATAAA
*
1906504 ATCGGGGTTGAAGTATCCCT
127 ACCGGGGTTGAAGTATCCCT
1906524 TCAGAAATAA
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
180 2 0.02
181 114 0.92
182 8 0.06
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (181 bp):
GGGTTAGAGGATCCCCGATTGTGAAAAATAGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCC
TCTCGAAAATAATGGGGTTAGAATATCCCCGATTATAAAAAATAGATATTTTAGAAATAAAACCG
GGGTTGAAGTATCCCTGATTATGAAAAATCAGTGTTTTAGAAATAAAATCA
Found at i:1909691 original size:61 final size:61
Alignment explanation
Indices: 1909562--1910217 Score: 897
Period size: 61 Copynumber: 10.8 Consensus size: 61
1909552 GCCACTGACT
* * *
1909562 TGTGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTA
1 TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTG
* * * *
1909622 TGTGGGCTTTAAAAAGAGAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCTACCAACTTG
1 TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTG
* * * *
1909683 TGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTA
1 TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTG
* *
1909744 TGTGGGCTTTAAAAGGAAAAGACATCCTACTCTTTGAGGATTGAAAGGTGCCACCAACTTG
1 TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTG
* ** * *
1909805 TGTGGGCTTTAAAAGGAGAAGGTGTCCTACTCTTTGAGGATTAAAAGGTGCCACCAACTTG
1 TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTG
* * * * *
1909866 TGTGGGCTTTAAAAGGAGAAGGCATCTTGCTCTTTGACGACTGAAATGTGCCACCAACTTG
1 TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTG
*
1909927 TGTGGGCTTTAAAAGGAAAAGGCATCTTACTCTTTGAGGACTGAAAGGTGCCACCAACTTG
1 TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTG
* * * * *
1909988 TGTAGGTTTTAAAAGGAAAAGACGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTG
1 TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTG
* * * **
1910049 TGTGGGCTTTAAAAGAAAAAGGCATCCTACTCTTTGAAGACTAAAACTTGCCACCAACTTG
1 TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTG
* ** * ** *
1910110 TGGGGGCTTTAACAAAAAAAAAGTGTCCTACTCTTTGAGGACTAAAAGGT---ACCAACTTG
1 TGTGGGCTTTAA-AAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTG
*
1910169 TGTGGGCTTTAAAAGGAAAAGACATCCTACTCTTTGAGGACTGAAAGGT
1 TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGT
1910218 TAAAAGGTTT
Statistics
Matches: 532, Mismatches: 62, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
58 30 0.06
59 20 0.04
60 39 0.07
61 413 0.78
62 30 0.06
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (61 bp):
TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTG
Found at i:1911204 original size:14 final size:16
Alignment explanation
Indices: 1911185--1911224 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
1911175 AAGCAGGTTC
1911185 TTTTCTTTT-CTC-TT
1 TTTTCTTTTCCTCTTT
1911199 TTTTCTTGTTCCTCTTT
1 TTTTCTT-TTCCTCTTT
1911216 TTTTCTTTT
1 TTTTCTTTT
1911225 GTTTTTGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.30
15 2 0.09
16 5 0.22
17 9 0.39
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTCTTTTCCTCTTT
Found at i:1911237 original size:12 final size:11
Alignment explanation
Indices: 1911215--1911252 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
1911205 TGTTCCTCTT
*
1911215 TTTTTCTTTTG
1 TTTTTGTTTTG
1911226 TTTTTGTCTTTG
1 TTTTTGT-TTTG
1911238 TTTTTGTTTT-
1 TTTTTGTTTTG
1911248 TTTTT
1 TTTTT
1911253 AAAGGATGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 5 0.20
11 9 0.36
12 11 0.44
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.84
Consensus pattern (11 bp):
TTTTTGTTTTG
Found at i:1913441 original size:20 final size:19
Alignment explanation
Indices: 1913416--1913563 Score: 148
Period size: 20 Copynumber: 7.8 Consensus size: 19
1913406 TTTTCACAAT
1913416 TTGTATCGATACATTATTCA
1 TTGTATCGATACATT-TTCA
1913436 TTGTATCGATACATTTTGCA
1 TTGTATCGATACATTTT-CA
*
1913456 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATT-TTCA
*
1913476 TTGAATCGATAC----T--
1 TTGTATCGATACATTTTCA
1913489 TTGTATCGATACATTGCTT-A
1 TTGTATCGATACATT--TTCA
*
1913509 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATT-TTCA
1913529 TTGTATCGATACATTTTACA
1 TTGTATCGATACATTTT-CA
*
1913549 ATGTATCGATACATT
1 TTGTATCGATACATT
1913564 CAGGCATTTT
Statistics
Matches: 110, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
13 11 0.10
15 1 0.01
19 5 0.05
20 92 0.84
21 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (19 bp):
TTGTATCGATACATTTTCA
Found at i:1913493 original size:33 final size:33
Alignment explanation
Indices: 1913456--1913520 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
1913446 ACATTTTGCA
1913456 TTGTATCGATACATTGCTCATTGAATCGATACT
1 TTGTATCGATACATTGCTCATTGAATCGATACT
* *
1913489 TTGTATCGATACATTGCTTATTGTATCGATAC
1 TTGTATCGATACATTGCTCATTGAATCGATAC
1913521 ATTGCTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (33 bp):
TTGTATCGATACATTGCTCATTGAATCGATACT
Found at i:1913516 original size:53 final size:52
Alignment explanation
Indices: 1913436--1913540 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 52
1913426 ACATTATTCA
1913436 TTGTATCGATACATTTTGCATTGTATCGATACATTGCTCATTGAATCGATACT
1 TTGTATCGATACATTTT-CATTGTATCGATACATTGCTCATTGAATCGATACT
*
1913489 TTGTATCGATACATTGCTT-ATTGTATCGATACATTGCTCATTGTATCGATAC
1 TTGTATCGATACATT--TTCATTGTATCGATACATTGCTCATTGAATCGATAC
1913541 ATTTTACAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
53 47 0.96
55 2 0.04
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (52 bp):
TTGTATCGATACATTTTCATTGTATCGATACATTGCTCATTGAATCGATACT
Found at i:1913557 original size:73 final size:73
Alignment explanation
Indices: 1913415--1913560 Score: 199
Period size: 73 Copynumber: 2.0 Consensus size: 73
1913405 ATTTTCACAA
* *
1913415 TTTGTATCGATACATTATTCATTGTATCGATACATTTTGCATTGTATCGATACATTGCTCATTGA
1 TTTGTATCGATACATTATTCATTGTATCGATACATTCTGCATTGTATCGATACATTGCTCAATGA
1913480 ATCGATAC
66 ATCGATAC
* *
1913488 TTTGTATCGATACATTGCTT-ATTGTATCGATACATTGCT-CATTGTATCGATACATT-TTACAA
1 TTTGTATCGATACATT-ATTCATTGTATCGATACATT-CTGCATTGTATCGATACATTGCT-CAA
*
1913550 TGTATCGATAC
63 TGAATCGATAC
1913561 ATTCAGGCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
72 1 0.02
73 61 0.94
74 3 0.05
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (73 bp):
TTTGTATCGATACATTATTCATTGTATCGATACATTCTGCATTGTATCGATACATTGCTCAATGA
ATCGATAC
Found at i:1915744 original size:19 final size:19
Alignment explanation
Indices: 1915720--1915768 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1915710 ATTCAACGAT
*
1915720 TTGTATCGATCCATAAGTG
1 TTGTATCGATACATAAGTG
1915739 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1915758 TTGTATCGATA
1 TTGTATCGATA
1915769 TGTTAGGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1916060 original size:20 final size:20
Alignment explanation
Indices: 1916035--1916089 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1916025 AAAACCCTTA
1916035 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
1916055 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
1916075 AATGTATCGATACAT
1 AAAGTATCGATACAT
1916090 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:1916179 original size:13 final size:13
Alignment explanation
Indices: 1916161--1916186 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1916151 ACACCAAAGT
1916161 ATGTATCGATACA
1 ATGTATCGATACA
1916174 ATGTATCGATACA
1 ATGTATCGATACA
1916187 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:1916184 original size:33 final size:33
Alignment explanation
Indices: 1916142--1916206 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1916132 TAGCCAAACT
* *
1916142 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
1916175 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1916207 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1922383 original size:13 final size:13
Alignment explanation
Indices: 1922365--1922390 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1922355 ACATTTTTCT
1922365 TTGTATCGATACA
1 TTGTATCGATACA
1922378 TTGTATCGATACA
1 TTGTATCGATACA
1922391 GGGGGATTAT
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):
TTGTATCGATACA
Found at i:1922554 original size:20 final size:20
Alignment explanation
Indices: 1922511--1922556 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1922501 AAATCTTTTG
1922511 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1922532 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1922552 CAAAA
1 CAAAA
1922557 CCAGCATCAA
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:1924856 original size:20 final size:20
Alignment explanation
Indices: 1924827--1924881 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1924817 AAAACCCTTA
*
1924827 AAAGTGTCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
1924847 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
1924867 AATGTATCGATACAT
1 AAAGTATCGATACAT
1924882 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:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:1924971 original size:13 final size:13
Alignment explanation
Indices: 1924953--1924978 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1924943 ACACCAAAGT
1924953 ATGTATCGATACA
1 ATGTATCGATACA
1924966 ATGTATCGATACA
1 ATGTATCGATACA
1924979 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:1925870 original size:52 final size:52
Alignment explanation
Indices: 1925826--1925951 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
1925816 CACTAATCTT
* *
1925826 TGTATCGATACATGCAGTCAAATTTTCCCAAATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
* * *
1925878 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACCATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
1925930 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
1925952 ATTTCATATT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
Found at i:1929407 original size:51 final size:50
Alignment explanation
Indices: 1929317--1929495 Score: 200
Period size: 51 Copynumber: 3.5 Consensus size: 50
1929307 AAATTTCTAG
* * * * *
1929317 ATTTTTCAT-CTCGGAGATACTTCAA-TCCCGGTTTCATTTCCAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACA-CA
* * *
1929367 ATTTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCC
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA-CA
* *
1929418 ATTTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTG
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC-A
* *
1929469 ACTTTTCACAATCGGGGATACTCCAAC
1 ATTTTTCATAATCGGGGATACTCCAAC
1929496 CCCATTATTT
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
50 9 0.08
51 100 0.91
52 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.34
Consensus pattern (50 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACA
Found at i:1929529 original size:79 final size:78
Alignment explanation
Indices: 1929432--1929776 Score: 376
Period size: 79 Copynumber: 4.4 Consensus size: 78
1929422 TCCATAATCG
* * *
1929432 GGGATACTCCAACTCCGATTTTATTTCCAAAACACTGACTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACA-TGATTTTTCACAATCGAGGATACTCCAACC
*
1929497 CCATTATTTTC-GA
65 CCATTATTTTCAAA
* * * *
1929510 GGCGACACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTT--C-ATCGGGGATACTCCAAC
1 GG-GATACTCCAACCCCGATTTTATTTCCAAAACAT-GATTTTTCACAATCGAGGATACTCCAAC
**
1929572 CCTGTTATTTTCAAA
64 CCCATTATTTTCAAA
* * * * *
1929587 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCATAGTCGAGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACA-TGATTTTTCACAATCGAGGATACTCCAACC
* * * *
1929652 CCGTTATTTCCGAG
65 CCATTATTTTCAAA
* ** * *
1929666 GGGATACTCCAATCCCGATTTTATTTTGAAATCATCGATTTTTCACAATCGAGGATACTCTAACC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACAT-GATTTTTCACAATCGAGGATACTCCAACC
1929731 CCATTATTTTCAAA
65 CCATTATTTTCAAA
*
1929745 GGGATACTCCAACCCC-ATTATTATCTCCAAAA
1 GGGATACTCCAACCCCGATT-TTATTTCCAAAA
1929777 TATTAAATTT
Statistics
Matches: 223, Mismatches: 35, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
76 64 0.29
77 5 0.02
78 7 0.03
79 147 0.66
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (78 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACATGATTTTTCACAATCGAGGATACTCCAACCC
CATTATTTTCAAA
Found at i:1929766 original size:155 final size:152
Alignment explanation
Indices: 1929432--1929766 Score: 393
Period size: 155 Copynumber: 2.1 Consensus size: 152
1929422 TCCATAATCG
* * *
1929432 GGGATACTCCAACTCCGATTTTATTTCCAAAACACTGACTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAAC-CCCA--TTATTTCCAAAACACTAACTTTTCACAATCGAGGATACTCCAACC
* *
1929497 CCATTATTTTCGAGGCGACACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATCGGGG
63 CCATTATTTCCGAGGCGACACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATCGAGG
**
1929562 ATACTCCAACCCTGTTATTTTCAAA
128 ATACTCCAACCCCATTATTTTCAAA
* * * * * *
1929587 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCATAGTCGAGGATACTCCAACC
1 GGGATACTCCAACCCC---ATTATTTCCAAAACACTAACTTTTCACAATCGAGGATACTCCAACC
* * * * * *
1929652 CCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTATTT-TGAAATCATCGATTTTTCACAATC
63 CCATTATTTCCGAGGCGACACTCCAACCCCGATTTTATTTCT-AAAACATCAATTTTT--C-ATC
*
1929716 GAGGATACTCTAACCCCATTATTTTCAAA
124 GAGGATACTCCAACCCCATTATTTTCAAA
1929745 GGGATACTCCAACCCCATTATT
1 GGGATACTCCAACCCCATTATT
1929767 ATCTCCAAAA
Statistics
Matches: 152, Mismatches: 21, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
154 3 0.02
155 104 0.68
157 1 0.01
158 44 0.29
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (152 bp):
GGGATACTCCAACCCCATTATTTCCAAAACACTAACTTTTCACAATCGAGGATACTCCAACCCCA
TTATTTCCGAGGCGACACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATCGAGGATA
CTCCAACCCCATTATTTTCAAA
Found at i:1936090 original size:55 final size:56
Alignment explanation
Indices: 1935941--1936928 Score: 648
Period size: 61 Copynumber: 17.1 Consensus size: 56
1935931 CGCCTTTTTT
* * * *
1935941 CTTTTTAAAGCCTACACAAGTTGGTGGCACCTTT-AGTCCTCAAAAAGCAGGATGC
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
1935996 CTTTTCTTTTTAAAG-CC-CACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG-
1 CTTTTC-----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
* *
1936054 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGCAAGACGC
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
* * * *
1936110 C-TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCTGGACGT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
*
1936165 C-TTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGC
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGACGC
** *
1936220 CTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGCAGGACGC
1 CTTTTC-----AAAGCCCACACAAGTTGGTGGCA-CCTTTCAGTCCTCAAAGAGCAGGACGC
** * * * *
1936282 C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGTAGGATGA
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
* *
1936337 CTTTT-AAAG-CCACACAACTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACG-
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGC
* * * *
1936391 TTTTTTAAAGCCTACACAAGTTGGTGGCACCTTT-AGTCTTCAAAGATG-AGGACGCC
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGA-GCAGGACG-C
** * * *
1936447 TTTTCTTTTTCAAAGCCCACATGAGTTGGTGGCACCTTCCAATCCTCAAAGAGAAGGACGC
1 ----C-TTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
**
1936508 CTTTTTCATTTTAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGTGGGACGC
1 C-TTTTC-----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
*** * * * * * ****
1936569 ACTTTATTCCCCCTTGTCCTCA-AAG--AGTAGGACACAC-TTCATTTCCT------TCTTTTC-
1 -C-TT-TT---CAAAGCCCACACAAGTTGGT-GG-CAC-CTTTCA-GTCCTCAAAGAGCAGGACG
1936623 C
56 C
* * * **
1936624 CTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTTTAGTCCTCAAAGAGCAAGATAC
1 CTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTTCAGTCCTCAAAGAGCAGGACGC
* *
1936680 CTTTTCCTTTCAAAG-CCACACAAGTTCGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACGC
1 C---T--TTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGC
* * * * *
1936740 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGTA-TTTTCCAGTCCTCAAAAAGCAAGATGC
1 C---T--TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGC
* * * *
1936801 TTTCTCTTTGCAAAGCCCACACAAGATGGTGGCACCTTCCAGTCCTCAAAGAGTAGGATGCC
1 ---CT-TTT-CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG-C
* * * * *
1936863 TTTCTTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGATGC
1 ---C-TTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
1936923 CTTTTC
1 CTTTTC
1936929 CTTTTCTCCT
Statistics
Matches: 763, Mismatches: 96, Indels: 147
0.76 0.10 0.15
Matches are distributed among these distances:
48 5 0.01
49 10 0.01
50 5 0.01
51 2 0.00
52 2 0.00
53 6 0.01
54 48 0.06
55 195 0.26
56 59 0.08
57 8 0.01
58 28 0.04
59 26 0.03
60 50 0.07
61 226 0.30
62 86 0.11
63 5 0.01
64 1 0.00
66 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (56 bp):
CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
Found at i:1936156 original size:110 final size:110
Alignment explanation
Indices: 1935941--1936560 Score: 635
Period size: 110 Copynumber: 5.4 Consensus size: 110
1935931 CGCCTTTTTT
* * * *
1935941 CTTTTTAAAGCCTACACAAGTTGGTGGCACCTTTAGTCCTCAAAAAGCAGGATGCCTTTTCTTTT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTC----
*
1936006 TAAAG-CC-CACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
62 -AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* *
1936054 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGCAAGACGCC-TTTCAAA
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACGCCTTTTCAAA
* *
1936118 GCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCTGGACG
65 GCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
*
1936164 -TCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTTTCT
1 CT-TTTCAAAGCCCACACAAGTTGGTGGCACCTT--TAGTCCTCAAAGAGCAGGACGCCTTTTC-
**
1936227 TTTTAAAGCCCACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGCAGGACG
62 ----AAAGCCCACACAAGTTGGTGGCA-CCTTTTAGTCCTCAAAGAGCAGGACG
* ** * * *
1936281 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGTAGGATGACTTTT-AAA
1 CTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCAAA
* *
1936345 G-CCACACAACTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACG
65 GCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGACG
* * * *
1936391 TTTTTTAAAGCCTACACAAGTTGGTGGCACCTTTAGTCTTCAAAGATG-AGGACGCCTTTTCTTT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGA-GCAGGACG-C----C-TT
** ** * *
1936455 TTCAAAGCCCACATGAGTTGGTGGCACCTTCCAATCCTCAAAGAGAAGGACG
59 TTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
1936507 CCTTTTTCATTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAG
1 -C-TTTTC-----AAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAG
1936561 TGGGACGCAC
Statistics
Matches: 429, Mismatches: 45, Indels: 57
0.81 0.08 0.11
Matches are distributed among these distances:
108 4 0.01
109 29 0.07
110 149 0.35
111 8 0.02
113 36 0.08
114 19 0.04
115 4 0.01
116 45 0.10
117 90 0.21
118 4 0.01
119 2 0.00
122 1 0.00
123 38 0.09
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (110 bp):
CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCAAAG
CCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
Found at i:1936376 original size:227 final size:224
Alignment explanation
Indices: 1935947--1936561 Score: 799
Period size: 227 Copynumber: 2.7 Consensus size: 224
1935937 TTTTCTTTTT
* *
1935947 AAAGCCTACACAAGTTGGTGGCACCTTTAGTCCTCAAAAAGCAGGATGCCTTTTCTTTTTAAAG-
1 AAAGCCTACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGC
*
1936011 CC-CACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGT
66 CCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGT
* * * * *
1936075 TGGTGGCACCTTTCAGTCCTTAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
131 TGGTGGCA-CTTTTAGTCCTCAAAGAGTAAGACGACTTTCAAAGCCCACACAACTTGGTGGCACC
* *
1936140 TTTTAGTCCTTAAAGAGCTGGACGTCTTTC
195 TTTTAGTCCTCAAAGAGCAGGACGTCTTTC
* *
1936170 AAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAA
1 AAAGCCTACACAAGTTGGTGGCACCTT--TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAA
** *
1936234 GCCCACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACA
64 GCCCACACAAGTTGGTGGCA-CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACA
* * * *
1936299 AGTTGGTGGCATTTTTTAGTCCTCAAAGAGTAGGATGACTTTTAAAG-CCACACAACTTGGTGGC
128 AGTTGGTGGCA-CTTTTAGTCCTCAAAGAGTAAGACGACTTTCAAAGCCCACACAACTTGGTGGC
* * *
1936363 ACTTTTCTAGTCCTCAAAGAGCAGGACGTTTTTT
192 ACCTTT-TAGTCCTCAAAGAGCAGGACGTCTTTC
*
1936397 AAAGCCTACACAAGTTGGTGGCACCTTTAGTCTTCAAAGATG-AGGACGCCTTTTCTTTTTCAAA
1 AAAGCCTACACAAGTTGGTGGCACCTTTAGTCCTCAAAGA-GCAGGACGCCTTTTCTTTTT-AAA
** * * *
1936461 GCCCACATGAGTTGGTGGCACCTTCCAATCCTCAAAGAGAAGGACGCCTTTTTCATTTTAAAGCC
64 GCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC--TTTC-----AAAGCC
*
1936526 CACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGT
122 CACACAAGTTGGTGGCACTTTTAGTCCTCAAAGAGT
1936562 GGGACGCACT
Statistics
Matches: 340, Mismatches: 36, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
222 3 0.01
223 22 0.06
224 34 0.10
225 2 0.01
226 87 0.26
227 145 0.43
228 7 0.02
232 17 0.05
233 23 0.07
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (224 bp):
AAAGCCTACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGC
CCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGT
TGGTGGCACTTTTAGTCCTCAAAGAGTAAGACGACTTTCAAAGCCCACACAACTTGGTGGCACCT
TTTAGTCCTCAAAGAGCAGGACGTCTTTC
Found at i:1936474 original size:61 final size:60
Alignment explanation
Indices: 1935913--1936573 Score: 497
Period size: 55 Copynumber: 11.4 Consensus size: 60
1935903 TAGCCCTTCC
* *
1935913 AGTCCTCAAAGA-GCAAGACGCCTTTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGATG-AGGACGCC--TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
1935975 AGTCCTCAAA-AAGCAGGATGCCTTTTCTTTTTAAAG-CC-CACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGATG-AGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1936033 CAGTCCTCAAAGA-GCAGGACG-CTTTTC-----AAAGCCCACACAAGTTGGTGGCACCTTT
1 -AGTCCTCAAAGATG-AGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
1936088 CAGTCCTTAAAGA-GCAAGACGCC-TTTC-----AAAGCCCACACAAGTTGGTGGCACCTTTT
1 -AGTCCTCAAAGATG-AGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC-TTT
* * * *
1936144 AGTCCTTAAAGA-GCTGGACG-----TC-TTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCC
1 AGTCCTCAAAGATG-AGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT--T
**
1936199 AGTCCTCAAAGA-GCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTTTT
1 AGTCCTCAAAGATG-AGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA--CCTTT
**
1936261 AGTCCTCAAAGA-GCAGGACGCC-TTTC-----AAAGCCCACACAAGTTGGTGGCATTTTTT
1 AGTCCTCAAAGATG-AGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
** * *
1936316 AGTCCTCAAAGA-GTAGGA-----TGAC-TTTTAAAG-CCACACAACTTGGTGGCACTTTTCT
1 AGTCCTCAAAGATG-AGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC-CTT-T
*
1936371 AGTCCTCAAAGA-GCAGGACG-----T-TTTTTAAAGCCTACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGATG-AGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* ** *
1936425 AGTCTTCAAAGATGAGGACGCCTTTTCTTTTTCAAAGCCCACATGAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGATGAGGACGCCTTTTCTTTTT-AAAGCCCACACAAGTTGGTGGCACCTT-T
* *
1936487 AATCCTCAAAGA-GAAGGACGCCTTTTTCATTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGATG-AGGACGCC-TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1936548 AGTCCTCAAAGAGTG-GGACGCACTTT
1 AGTCCTCAAAGA-TGAGGACGC-CTTT
1936574 ATTCCCCCTT
Statistics
Matches: 517, Mismatches: 36, Indels: 93
0.80 0.06 0.14
Matches are distributed among these distances:
51 4 0.01
53 6 0.01
54 41 0.08
55 183 0.35
56 44 0.09
58 26 0.05
59 19 0.04
60 22 0.04
61 76 0.15
62 84 0.16
63 10 0.02
64 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (60 bp):
AGTCCTCAAAGATGAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:1936993 original size:45 final size:41
Alignment explanation
Indices: 1936898--1937055 Score: 146
Period size: 45 Copynumber: 3.8 Consensus size: 41
1936888 TGGTGGCACT
* *
1936898 TTTTAGTCCTCAAAGAGTAGGATGC-CTT--TT-CCT-TTTC
1 TTTT-GTCCTCAAAGAGCAGGACGCACTTCATTCCCTCTTTC
1936935 TCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTCCCTTCTTTTCC
1 T--TTTGTCCTCAAAGAGCAGGACGCACTTCATTCCC-TC-TTT-C
* * *
1936981 TTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTTCCTCTTTC
1 -TTTTGTCCTCAAAGAGCAGGACGCACTTCA-TTCCCTCTTTC
* *
1937024 TTTTGTCCTCAAAGAGTAGGACGCATTTCATT
1 TTTTGTCCTCAAAGAGCAGGACGCACTTCATT
1937056 TTTCTTTTTT
Statistics
Matches: 100, Mismatches: 9, Indels: 20
0.78 0.07 0.16
Matches are distributed among these distances:
37 1 0.01
38 18 0.18
39 6 0.06
41 4 0.04
42 28 0.28
43 2 0.02
44 3 0.03
45 32 0.32
46 5 0.05
47 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (41 bp):
TTTTGTCCTCAAAGAGCAGGACGCACTTCATTCCCTCTTTC
Found at i:1937057 original size:42 final size:42
Alignment explanation
Indices: 1936924--1937089 Score: 149
Period size: 43 Copynumber: 3.8 Consensus size: 42
1936914 GTAGGATGCC
*
1936924 TTTTCCT-TTTCTCCTTTGTCCTCAAAGAGCAGGACGCACTTCA
1 TTTTCCTCTTTCT--TTTGTCCTCAAAGAGCAGGACGCATTTCA
* *
1936967 -TTCCCTTCTTTTCCTTTTTGTCCTCAAAGAGCAGGATGCACTTT-A
1 TTTTCC-TC-TTT-C-TTTTGTCCTCAAAGAGCAGGACGCA-TTTCA
*
1937012 TTTTCCTCTTTCTTTTGTCCTCAAAGAGTAGGACGCATTTCA
1 TTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGACGCATTTCA
* * * * * *
1937054 TTTTTCTTTTTTCCTTTATCCTCAAAAAGTAGGACG
1 -TTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGACG
1937090 TACTCTTTTC
Statistics
Matches: 103, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
41 3 0.03
42 28 0.27
43 32 0.31
44 3 0.03
45 29 0.28
46 7 0.07
47 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.42
Consensus pattern (42 bp):
TTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGACGCATTTCA
Found at i:1937070 original size:87 final size:83
Alignment explanation
Indices: 1936896--1937055 Score: 216
Period size: 87 Copynumber: 1.9 Consensus size: 83
1936886 GTTGGTGGCA
*
1936896 CTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACGC
1 CTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTCT-CTTTGTCCTCAAAGAGCAGGACGC
1936961 ACTTCATTCCCTTCTTTTC
65 ACTTCATTCCCTTCTTTTC
*
1936980 CTTTTT-GTCCTCAAAGAGCAGGATGCACTTTATTTTCCTCTTTCT-TTTGTCCTCAAAGAGTAG
1 CTTTTTAGTCCTCAAAGAGCAGGATGC-C----TTTTCCT-TTTCTCTTTGTCCTCAAAGAGCAG
*
1937043 GACGCATTTCATT
60 GACGCACTTCATT
1937056 TTTCTTTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
83 19 0.28
84 7 0.10
87 29 0.43
88 7 0.10
89 5 0.07
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.40
Consensus pattern (83 bp):
CTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTCTCTTTGTCCTCAAAGAGCAGGACGCA
CTTCATTCCCTTCTTTTC
Found at i:1938338 original size:51 final size:51
Alignment explanation
Indices: 1938250--1938426 Score: 214
Period size: 51 Copynumber: 3.5 Consensus size: 51
1938240 ATTTCTAGAT
* * * * * *
1938250 TTTTCAT-CTCGGGGATACTCTAA-TCCCGGTTTCATTTCCAAAACATCAAT
1 TTTTCATAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACACCAAC
* * * *
1938300 TTTTCTTAATCGGGGATCCTCCAACTCCGATTTTATTTCTAAAACACCCAC
1 TTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAAC
* *
1938351 TTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCGAC
1 TTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAAC
*
1938402 TTTTCACAATCGGGGATACTCCAAC
1 TTTTCATAATCGGGGATACTCCAAC
1938427 CCCGTTATTT
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
50 6 0.06
51 101 0.94
52 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (51 bp):
TTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAAC
Found at i:1938605 original size:79 final size:79
Alignment explanation
Indices: 1938362--1938692 Score: 449
Period size: 79 Copynumber: 4.2 Consensus size: 79
1938352 TTCCATAATC
* * * * * *
1938362 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCGACTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1938427 CCCGTTA-TTTCTGA
66 CCCGTTATTTTC-GA
* *
1938441 GGGGACACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTC---ATCGGAGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
1938503 CCCGTTATTTTTGA
66 CCCGTTATTTTCGA
* * *
1938517 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCATTATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1938582 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
*
1938596 GGGGATACTCCAATCCCGATTTTATTTC-AAAATCAT-AGATTTTTCATAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAA-CATCA-ATTTTTCATAATCGGGGATACTCCA
*
1938659 ACCCCGTTATTTTCAA
64 ACCCCGTTATTTTCGA
* *
1938675 AGTGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1938693 TTATTATCTC
Statistics
Matches: 226, Mismatches: 20, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
76 67 0.30
77 3 0.01
78 5 0.02
79 151 0.67
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:1940734 original size:19 final size:19
Alignment explanation
Indices: 1940710--1940774 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
1940700 TAGCCAAACT
1940710 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
1940729 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
1940742 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
1940763 TGTATCGATACA
1 TGTATCGATACA
1940775 TTGTCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:1940746 original size:13 final size:13
Alignment explanation
Indices: 1940728--1940753 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1940718 TACACAAAAT
1940728 ATGTATCGATACA
1 ATGTATCGATACA
1940741 ATGTATCGATACA
1 ATGTATCGATACA
1940754 CAAAAAATAT
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:1940751 original size:32 final size:33
Alignment explanation
Indices: 1940710--1940774 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
1940700 TAGCCAAACT
1940710 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
1940742 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1940775 TTGTCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1943007 original size:21 final size:21
Alignment explanation
Indices: 1942974--1943023 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1942964 TTGCAAGTTG
*
1942974 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1942996 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1943017 AAATAAA
1 AAATAAA
1943024 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:1946993 original size:21 final size:21
Alignment explanation
Indices: 1946969--1947010 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1946959 AGTTCGAACC
1946969 TTCCTCCTTCATTCTATCGAT
1 TTCCTCCTTCATTCTATCGAT
1946990 TTCCTCCTTCATTCTATCGAT
1 TTCCTCCTTCATTCTATCGAT
1947011 ACTTTCATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.33, G:0.05, T:0.48
Consensus pattern (21 bp):
TTCCTCCTTCATTCTATCGAT
Found at i:1947118 original size:20 final size:20
Alignment explanation
Indices: 1947075--1947120 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1947065 AAATCTTTTG
1947075 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1947096 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1947116 CAAAA
1 CAAAA
1947121 CCAGCATCAA
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:1948849 original size:17 final size:17
Alignment explanation
Indices: 1948827--1948861 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1948817 TGCGTGAATT
1948827 ATCTTATTAAGGGGGAG
1 ATCTTATTAAGGGGGAG
1948844 ATCTTATTAAGGGGGAG
1 ATCTTATTAAGGGGGAG
1948861 A
1 A
1948862 ATGTACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.34, T:0.29
Consensus pattern (17 bp):
ATCTTATTAAGGGGGAG
Found at i:1949254 original size:140 final size:140
Alignment explanation
Indices: 1949110--1949381 Score: 519
Period size: 140 Copynumber: 1.9 Consensus size: 140
1949100 TTTTTCTGAG
*
1949110 TTTTGTTATATCAAAAAGGGGGAGATTGTTAGGTTCTTGGTTTTGATATAACAAATGATTGAATA
1 TTTTGTTATATCAAAAAGGGGGAGATTGTTAGGTTCTTGGTTTTGATATAACAAAGGATTGAATA
1949175 AAACC-GAAAATTATTTTGAAAATGCCAAAATTATGTTTTATTCAATTAAGTACTTAATAAATTT
66 AAACCTG-AAATTATTTTGAAAATGCCAAAATTATGTTTTATTCAATTAAGTACTTAATAAATTT
1949239 TGTTAGGTCCT
130 TGTTAGGTCCT
1949250 TTTTGTTATATCAAAAAGGGGGAGATTGTTAGGTTCTTGGTTTTGATATAACAAAGGATTGAATA
1 TTTTGTTATATCAAAAAGGGGGAGATTGTTAGGTTCTTGGTTTTGATATAACAAAGGATTGAATA
1949315 AAACCTGAAATTATTTTGAAAATGCCAAAATTATGTTTTATTCAATTAAGTACTTAATAAATTTT
66 AAACCTGAAATTATTTTGAAAATGCCAAAATTATGTTTTATTCAATTAAGTACTTAATAAATTTT
1949380 GT
131 GT
1949382 ACCAAATGAT
Statistics
Matches: 130, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
140 129 0.99
141 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (140 bp):
TTTTGTTATATCAAAAAGGGGGAGATTGTTAGGTTCTTGGTTTTGATATAACAAAGGATTGAATA
AAACCTGAAATTATTTTGAAAATGCCAAAATTATGTTTTATTCAATTAAGTACTTAATAAATTTT
GTTAGGTCCT
Found at i:1949590 original size:20 final size:21
Alignment explanation
Indices: 1949567--1949621 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
1949557 ACAATTCAAA
**
1949567 GTATCGATACATGTTGCA-AT
1 GTATCGATACATGTAACAGAT
*
1949587 GTATCGATACATGAAACAGAT
1 GTATCGATACATGTAACAGAT
1949608 GTATCGATACATGT
1 GTATCGATACATGT
1949622 CATTGGAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (21 bp):
GTATCGATACATGTAACAGAT
Found at i:1949675 original size:19 final size:19
Alignment explanation
Indices: 1949651--1949715 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
1949641 TAGCCAAACT
1949651 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
1949670 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
1949683 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
1949704 TGTATCGATACA
1 TGTATCGATACA
1949716 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:1949687 original size:13 final size:13
Alignment explanation
Indices: 1949669--1949694 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1949659 TACACAAAAT
1949669 ATGTATCGATACA
1 ATGTATCGATACA
1949682 ATGTATCGATACA
1 ATGTATCGATACA
1949695 CAAAAAATAT
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:1949692 original size:32 final size:33
Alignment explanation
Indices: 1949651--1949715 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
1949641 TAGCCAAACT
1949651 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
1949683 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1949716 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1953786 original size:52 final size:52
Alignment explanation
Indices: 1953716--1953836 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
1953706 GAAAATTTAT
*
1953716 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
1953768 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1953820 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1953837 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1953849 original size:52 final size:52
Alignment explanation
Indices: 1953716--1953856 Score: 187
Period size: 52 Copynumber: 2.7 Consensus size: 52
1953706 GAAAATTTAT
*
1953716 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* *** *
1953768 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
1953820 CTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
1953857 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1953863 original size:13 final size:13
Alignment explanation
Indices: 1953845--1953869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1953835 CAAAGATCGG
1953845 TGTATCGATACAA
1 TGTATCGATACAA
1953858 TGTATCGATACA
1 TGTATCGATACA
1953870 TTTGAGTAAT
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:1953951 original size:13 final size:13
Alignment explanation
Indices: 1953933--1953957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1953923 CAAAAAAATA
1953933 TGTATCGATACAT
1 TGTATCGATACAT
1953946 TGTATCGATACA
1 TGTATCGATACA
1953958 ACATTTTATG
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:1953953 original size:33 final size:33
Alignment explanation
Indices: 1953911--1953977 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1953901 AGTAGCTTAA
1953911 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1953944 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1953977 A
1 A
1953978 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1954878 original size:67 final size:68
Alignment explanation
Indices: 1954756--1954882 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 68
1954746 ATTGGGTTTT
* * *
1954756 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
1954821 AGA
66 AGA
* * *
1954824 AAAG-TGATAAAGATGCCAATATGTTGATTCACA-GCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCA-AGGCCAACAATATTGGACTTAAAGATGA
1954883 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
67 47 0.90
68 5 0.10
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:1955104 original size:49 final size:49
Alignment explanation
Indices: 1954903--1955822 Score: 1227
Period size: 49 Copynumber: 19.3 Consensus size: 49
1954893 GTCAATGTGT
* *
1954903 TGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTACCAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGC
* *
1954955 TGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
1954998 TGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1955046 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
1955095 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * * * *
1955144 TGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGTCAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
1955193 TGAGTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
1955242 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGT
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * * *
1955291 TGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCTAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1955334 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1955383 TGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
1955432 TGATTCAAGGCCAGCTATATTGGGCTT----A--AAGGTGCCAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1955475 TGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
1955524 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGT
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * * *
1955573 TGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCTAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1955616 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCATTATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1955665 TGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
1955714 TGATTCAAGGCCAGCTATATTGGGCTT----A--AAGGTGCCAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1955757 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATTC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1955806 TGATTCAAGGTCAGCTA
1 TGATTCAAGGCCAGCTA
1955823 TATTAGGGTT
Statistics
Matches: 774, Mismatches: 63, Indels: 65
0.86 0.07 0.07
Matches are distributed among these distances:
43 191 0.25
45 4 0.01
47 4 0.01
48 48 0.06
49 502 0.65
52 25 0.03
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
Found at i:1955381 original size:141 final size:141
Alignment explanation
Indices: 1954886--1955826 Score: 1444
Period size: 141 Copynumber: 6.6 Consensus size: 141
1954876 AAGATGAGAA
* * * *
1954886 AAAGGATGTCAATGTGTTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTACCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
1954951 ATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCC
62 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
*
1955010 AGCTACATTGGACTT
127 AGCTATATTGGACTT
1955025 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
1 -AA----AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
* * *
1955090 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGC
61 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGC
1955155 CAGCTATATTGGACTT
126 CAGCTATATTGGACTT
* * * *
1955171 AATGGTGAAGGTGTCAATGTGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCA
1 -A-----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
* *
1955236 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGTTGATTCAAGG
60 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGG
*
1955301 CCAGCGATATTGGACTT
125 CCAGCTATATTGGACTT
*
1955318 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1955383 TGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
*
1955448 ATATTGGGCTT
131 ATATTGGACTT
*
1955459 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
1955524 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGTTGATTCAAGGCCAGCG
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
1955589 ATATTGGACTT
131 ATATTGGACTT
* *
1955600 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCATTATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1955665 TGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
*
1955730 ATATTGGGCTT
131 ATATTGGACTT
*
1955741 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATTC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1955806 TGATTCAAGGTCAGCTATATT
66 TGATTCAAGGCCAGCTATATT
1955827 AGGGTTAGAA
Statistics
Matches: 737, Mismatches: 49, Indels: 29
0.90 0.06 0.04
Matches are distributed among these distances:
140 38 0.05
141 479 0.65
142 1 0.00
143 41 0.06
144 3 0.00
146 45 0.06
147 129 0.18
151 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (141 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
ATATTGGACTT
Found at i:1955875 original size:33 final size:33
Alignment explanation
Indices: 1955833--1955953 Score: 192
Period size: 33 Copynumber: 3.7 Consensus size: 33
1955823 TATTAGGGTT
*
1955833 AGAAGGGTTGCCACTGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1955866 AGAATGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1955898 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1955931 AAGAA-GGTTGCCACCAACTTGTG
1 -AGAAGGGTTGCCACCGACTTGTG
1955954 GACTTAAAAG
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
32 31 0.38
33 47 0.57
34 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:1955976 original size:33 final size:33
Alignment explanation
Indices: 1955939--1956001 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
1955929 AGAAGAAGGT
1955939 TGCCACCAACTTGTGGACTTAAAAGGAAAAGAG
1 TGCCACCAACTTGTGGACTTAAAAGGAAAAGAG
** * * *
1955972 TGCCACGTAGTTGTGGGCTTTAAAGGAAAA
1 TGCCACCAACTTGTGGACTTAAAAGGAAAA
1956002 AAGGGTGCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (33 bp):
TGCCACCAACTTGTGGACTTAAAAGGAAAAGAG
Found at i:1956023 original size:68 final size:62
Alignment explanation
Indices: 1955919--1956555 Score: 451
Period size: 61 Copynumber: 10.2 Consensus size: 62
1955909 CACCGACTTG
* ** * *
1955919 TGTGGGCTTTAGAAGAAGGTTGCCACCAACTTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGT
1 TGTGGGCTTTA-AA-AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGT
* *
1955983 TGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGTCGTGGACTTAAAA-G----G-GTGCCACAG
1 TGTGGGCTTT------AAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGG
1956042 AGT
60 AGT
* * ** *
1956045 TGTGGGC-TT-AAACGGGTGCCACGGAGTTCTGGACTTAGGAGGAAAACGAGTGCCACGAAGT
1 TGTGGGCTTTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA-GAGTGCCACGGAGT
* ** * * ***
1956106 TGTGGGCTTT-AAAAGGGTGCCACGAAGTTGTGGACTT-TGATGAGAAG-GTGCCATTAAGT
1 TGTGGGCTTTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGT
* * * *
1956165 TGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTGCCACGGAGC
1 TGTGGGCTTTAAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGAAAAGAGTGCCACGGAGT
* *
1956226 TGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAG-GTGCCACG
1 TGTGGGCTTT--AAA-AAG--GGTGCCACGGAGTTGTGGAC-TTAAAAGGAA-AAGAGTGCCACG
1956290 GAGT
59 GAGT
* * *
1956294 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACAG
1 TGTGGGCTTTAAAAAG-----GGTGCCACGGAGTTGTGGACTTAAA-AGGAAAAGAGTGCCACGG
1956359 AGT
60 AGT
* * *
1956362 TGTGGGC-TT-AGAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGAAAAGAGTGCCACGGAGT
*
1956423 TGTGGGC-TT-AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAA-G--AAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAGAGTGCCACGGAGT
* * * * *
1956481 CGTGGACTTTAAAAGGGAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAGG--AAG-GTGCCACGG
1 TGTGGGCTTTAAAAAGG-----GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAGAGTGCCACGG
1956543 AGT
60 AGT
* *
1956546 CGTGGACTTT
1 TGTGGGCTTT
1956556 GAGCAGAGAT
Statistics
Matches: 481, Mismatches: 51, Indels: 81
0.78 0.08 0.13
Matches are distributed among these distances:
54 26 0.05
55 1 0.00
58 44 0.09
59 20 0.04
60 12 0.02
61 118 0.25
62 48 0.10
63 4 0.01
64 13 0.03
65 53 0.11
66 10 0.02
67 10 0.02
68 111 0.23
69 10 0.02
70 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.35, T:0.22
Consensus pattern (62 bp):
TGTGGGCTTTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGT
Found at i:1956556 original size:31 final size:31
Alignment explanation
Indices: 1956437--1956649 Score: 191
Period size: 31 Copynumber: 6.7 Consensus size: 31
1956427 GGCTTAAAAG
* * *
1956437 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 GGTGCCACGGAGTCGTGGACTTTGAAAGGAA
*
1956468 GGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAA
1 GGTGCCACGGAGTCGTGGACTTTGAAA-GG--AA
* * *
1956502 AGTGCCACGGAGTTGTGGGCTTTGAAAGGAA
1 GGTGCCACGGAGTCGTGGACTTTGAAAGGAA
*
1956533 GGTGCCACGGAGTCGTGGACTTTG--AGCAGA
1 GGTGCCACGGAGTCGTGGACTTTGAAAGGA-A
* ** *
1956563 GATTGCCATTGAGTCGTGGACTTTG-AAGAAAA
1 G-GTGCCACGGAGTCGTGGACTTTGAAAG-GAA
**
1956595 GGATGCCACTAAGTCGTGGACTTTGAGAA-GAA
1 GG-TGCCACGGAGTCGTGGACTTTGA-AAGGAA
*
1956627 GGTGCCACGGAGTCATGGACTTT
1 GGTGCCACGGAGTCGTGGACTTT
1956650 AAGAAGGTAT
Statistics
Matches: 149, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
29 3 0.02
30 2 0.01
31 85 0.57
32 29 0.19
33 3 0.02
34 27 0.18
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (31 bp):
GGTGCCACGGAGTCGTGGACTTTGAAAGGAA
Found at i:1956655 original size:31 final size:31
Alignment explanation
Indices: 1955919--1956655 Score: 372
Period size: 34 Copynumber: 23.5 Consensus size: 31
1955909 CACCGACTTG
* ** *
1955919 TGTGGGCTTT-AGAAGAAGGTTGCCACCAACT
1 TGTGGACTTTAAGAAGAAGG-TGCCACGGAGT
* *
1955950 TGTGGACTTAAAAGGAA-AAGAGTGCCACGTAGT
1 TGTGGACTT-TAA-GAAGAAG-GTGCCACGGAGT
* *
1955983 TGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGT
1 TGTGGACTTT-AA-G-AAGAA-GGTGCCACGGAGT
* *
1956018 CGTGGAC-TTAA-AAG--GGTGCCACAGAGT
1 TGTGGACTTTAAGAAGAAGGTGCCACGGAGT
* *
1956045 TGTGGGC-TTAA-ACG--GGTGCCACGGAGT
1 TGTGGACTTTAAGAAGAAGGTGCCACGGAGT
* *
1956072 TCTGGAC-TTAGGAGGAA-AACGAGTGCCACGAAGT
1 TGTGGACTTTA--A-GAAGAA-G-GTGCCACGGAGT
* *
1956106 TGTGGGCTTTAA-AAG--GGTGCCACGAAGT
1 TGTGGACTTTAAGAAGAAGGTGCCACGGAGT
* ***
1956134 TGTGGACTTTGATG-AGAAGGTGCCATTAAGT
1 TGTGGACTTT-AAGAAGAAGGTGCCACGGAGT
1956165 TGTGGAC-TTAA-AAG--GGTGCCACGGAGT
1 TGTGGACTTTAAGAAGAAGGTGCCACGGAGT
* * *
1956192 TGTGGGCTTAAACGGGAA-AAGAGTGCCACGGAGC
1 TGTGGACTTTAA---GAAGAAG-GTGCCACGGAGT
*
1956226 TGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGACTTT---AAGAAGAAGGTGCCACGGAGT
*
1956260 TGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGACTTT---AAGAAGAAGGTGCCACGGAGT
* *
1956294 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGACTTT---AAGAAGAAGGTGCCACGGAGT
* * * *
1956328 TGTGGACTTAAAGATGAAAAAAGTGCCACAGAGT
1 TGTGGACTT-TA-A-GAAGAAGGTGCCACGGAGT
*
1956362 TGTGGGC-TT-AGAAG--GGTGCCACGGAGT
1 TGTGGACTTTAAGAAGAAGGTGCCACGGAGT
* * *
1956389 TGTGGACTTAAAGATGAAAAAAGTGCCACGGAGT
1 TGTGGACTT-TA-A-GAAGAAGGTGCCACGGAGT
*
1956423 TGTGGGC-TTAA-AAG--GGTGCCACGGAGT
1 TGTGGACTTTAAGAAGAAGGTGCCACGGAGT
*
1956450 TGTGGGCTTTGAA-AAGAAGGTGCCACGGAGT
1 TGTGGACTTT-AAGAAGAAGGTGCCACGGAGT
* *
1956481 CGTGGACTTTAA-AAGGGAAAAAGTGCCACGGAGT
1 TGTGGACTTTAAGAA--G--AAGGTGCCACGGAGT
* *
1956515 TGTGGGCTTTGAA-AGGAAGGTGCCACGGAGT
1 TGTGGACTTT-AAGAAGAAGGTGCCACGGAGT
* * * * **
1956546 CGTGGACTTTGAGCAG-AGATTGCCATTGAGT
1 TGTGGACTTTAAGAAGAAG-GTGCCACGGAGT
* **
1956577 CGTGGACTTTGAAGAA-AAGGATGCCACTAAGT
1 TGTGGACTTT-AAGAAGAAGG-TGCCACGGAGT
* *
1956609 CGTGGACTTTGAGAAGAAGGTGCCACGGAGT
1 TGTGGACTTTAAGAAGAAGGTGCCACGGAGT
**
1956640 CATGGACTTTAAGAAG
1 TGTGGACTTTAAGAAG
1956656 GTATTTGAAG
Statistics
Matches: 568, Mismatches: 78, Indels: 120
0.74 0.10 0.16
Matches are distributed among these distances:
27 95 0.17
28 27 0.05
29 18 0.03
30 12 0.02
31 121 0.21
32 36 0.06
33 33 0.06
34 196 0.35
35 27 0.05
36 1 0.00
37 2 0.00
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (31 bp):
TGTGGACTTTAAGAAGAAGGTGCCACGGAGT
Found at i:1964918 original size:52 final size:52
Alignment explanation
Indices: 1964848--1964968 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
1964838 GAAAATTTAT
*
1964848 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
1964900 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1964952 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1964969 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1964981 original size:52 final size:52
Alignment explanation
Indices: 1964848--1964988 Score: 187
Period size: 52 Copynumber: 2.7 Consensus size: 52
1964838 GAAAATTTAT
*
1964848 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* *** *
1964900 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
1964952 CTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
1964989 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1964995 original size:13 final size:13
Alignment explanation
Indices: 1964977--1965001 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1964967 CAAAGATCGG
1964977 TGTATCGATACAA
1 TGTATCGATACAA
1964990 TGTATCGATACA
1 TGTATCGATACA
1965002 TTTGAGTAAT
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:1965083 original size:13 final size:13
Alignment explanation
Indices: 1965065--1965089 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1965055 CAAAAAAATA
1965065 TGTATCGATACAT
1 TGTATCGATACAT
1965078 TGTATCGATACA
1 TGTATCGATACA
1965090 ACATTTTATG
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:1965085 original size:33 final size:33
Alignment explanation
Indices: 1965043--1965109 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1965033 AGTAGCTTAA
1965043 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1965076 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1965109 A
1 A
1965110 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1965556 original size:32 final size:32
Alignment explanation
Indices: 1965510--1965604 Score: 113
Period size: 32 Copynumber: 3.0 Consensus size: 32
1965500 CCAAGTGATT
*
1965510 GAGAGGTTCTATCTTAGCCTTGAAAGATAGTG
1 GAGATGTTCTATCTTAGCCTTGAAAGATAGTG
* *
1965542 TAGATGTTCTATCTTAGCCCGTGAAAAGATAG-G
1 GAGATGTTCTATCTTAG-CCTTG-AAAGATAGTG
* *
1965575 GAGGT-TTCTATCTTAGCTTTGAAAGATAGT
1 GAGATGTTCTATCTTAGCCTTGAAAGATAGT
1965605 ATTGTAAGGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
30 8 0.15
31 3 0.06
32 26 0.49
33 8 0.15
34 8 0.15
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (32 bp):
GAGATGTTCTATCTTAGCCTTGAAAGATAGTG
Found at i:1976528 original size:168 final size:168
Alignment explanation
Indices: 1976248--1976583 Score: 557
Period size: 168 Copynumber: 2.0 Consensus size: 168
1976238 TCCAATACCA
*
1976248 TAAGACACATCTCTCCTTAATTCAGCATTTTTTGAGAAACTTTGATCATCAAGTTTTCTATTTGA
1 TAAGACACATCTCTCCTTAATTCAGCATTTGTTGAGAAACTTTGATCATCAAGTTTTCTATTTGA
**
1976313 GCTATAAAGATTGTTTTTCTCGAGTGTTAATCCGATAAAGAAGATTAGGCTCTGATACCAATTGT
66 GCTATAAAGATCATTTTTCTCGAGTGTTAATCCGATAAAGAAGATTAGGCTCTGATACCAATTGT
1976378 AAGCTCTAGGATTGGATGAACCAAGAGGGGGTGAATTG
131 AAGCTCTAGGATTGGATGAACCAAGAGGGGGTGAATTG
* * *
1976416 TAAGACACATTTCTCCTTTATTCAGCATTTGTTGAGAAGCTTTGATCATCAAGTTTTCTATTTGA
1 TAAGACACATCTCTCCTTAATTCAGCATTTGTTGAGAAACTTTGATCATCAAGTTTTCTATTTGA
* * * * *
1976481 GCTATAAAGATCATTTCTT-TCGGGTGTTAATTCGATGAAGGAGATTAGGCTCTGATATCAATTG
66 GCTATAAAGATCATTT-TTCTCGAGTGTTAATCCGATAAAGAAGATTAGGCTCTGATACCAATTG
1976545 TAAGCTCTAGGATTGGATGAACCAAGAGGGGGTGAATTG
130 TAAGCTCTAGGATTGGATGAACCAAGAGGGGGTGAATTG
1976584 GTTCTTTTCT
Statistics
Matches: 156, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
168 154 0.99
169 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.35
Consensus pattern (168 bp):
TAAGACACATCTCTCCTTAATTCAGCATTTGTTGAGAAACTTTGATCATCAAGTTTTCTATTTGA
GCTATAAAGATCATTTTTCTCGAGTGTTAATCCGATAAAGAAGATTAGGCTCTGATACCAATTGT
AAGCTCTAGGATTGGATGAACCAAGAGGGGGTGAATTG
Found at i:1977321 original size:20 final size:20
Alignment explanation
Indices: 1977278--1977331 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
1977268 GATGGGCACA
* * *
1977278 ATGTATCGATACATTTTACT
1 ATGTATCGATACAATGTACC
*
1977298 ATGTATCGATACAATGTCCC
1 ATGTATCGATACAATGTACC
*
1977318 ATGTATTGATACAA
1 ATGTATCGATACAA
1977332 ACAGTGATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1977383 original size:20 final size:20
Alignment explanation
Indices: 1977358--1977395 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1977348 TACTGTCAGT
*
1977358 TTCATGTATCGATGCAATTC
1 TTCATGTATCGATACAATTC
1977378 TTCATGTATCGATACAAT
1 TTCATGTATCGATACAAT
1977396 GTATTGATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (20 bp):
TTCATGTATCGATACAATTC
Found at i:1978640 original size:16 final size:17
Alignment explanation
Indices: 1978621--1978653 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1978611 AAAAGAATTC
1978621 GAGTT-AAAAAAAATAT
1 GAGTTGAAAAAAAATAT
1978637 GAGTTGAAAAAAAATAT
1 GAGTTGAAAAAAAATAT
1978654 AATAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
GAGTTGAAAAAAAATAT
Found at i:1979052 original size:16 final size:16
Alignment explanation
Indices: 1978963--1979058 Score: 70
Period size: 16 Copynumber: 5.9 Consensus size: 16
1978953 AAATTTTTGA
*
1978963 GTCATTTTCAGGTTCTG
1 GTCA-TTTCAGGTTCGG
* * *
1978980 ATCGTTT-AGAGTTCAG
1 GTCATTTCAG-GTTCGG
*
1978996 GTCATTTC-GAGTTTGG
1 GTCATTTCAG-GTTCGG
*
1979012 GTCATTTCAAGTTCGG
1 GTCATTTCAGGTTCGG
* *
1979028 ATTATTTCAGGTTCGG
1 GTCATTTCAGGTTCGG
*
1979044 GTCATTTCAGATTCG
1 GTCATTTCAGGTTCG
1979059 AATCAATCGA
Statistics
Matches: 61, Mismatches: 15, Indels: 7
0.73 0.18 0.08
Matches are distributed among these distances:
15 2 0.03
16 57 0.93
17 2 0.03
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.42
Consensus pattern (16 bp):
GTCATTTCAGGTTCGG
Found at i:1979940 original size:16 final size:16
Alignment explanation
Indices: 1979920--1979994 Score: 53
Period size: 16 Copynumber: 4.6 Consensus size: 16
1979910 GTCATTTTAG
1979920 GTTCAGATCATTTCGA
1 GTTCAGATCATTTCGA
* *
1979936 TTTCA-AGTCATTTTGA
1 GTTCAGA-TCATTTCGA
* *
1979952 GTTCGGATTATTTCGA
1 GTTCAGATCATTTCGA
* * * *
1979968 GTTCGGGTCATTTTTGG
1 GTTCAGATCA-TTTCGA
1979985 GTTCAGATCA
1 GTTCAGATCA
1979995 ATCAATTTCA
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
15 1 0.02
16 30 0.68
17 13 0.30
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.43
Consensus pattern (16 bp):
GTTCAGATCATTTCGA
Found at i:1979965 original size:32 final size:32
Alignment explanation
Indices: 1979904--1979994 Score: 94
Period size: 32 Copynumber: 2.8 Consensus size: 32
1979894 CGGGTTAATT
*
1979904 GTTCATGTCATTTTAGGTTCAGATCATTTCGA
1 GTTCAAGTCATTTTAGGTTCAGATCATTTCGA
* * *
1979936 TTTCAAGTCATTTT-GAGTTCGGATTATTTCGA
1 GTTCAAGTCATTTTAG-GTTCAGATCATTTCGA
** *
1979968 GTTCGGGTCATTTTTGGGTTCAGATCA
1 GTTCAAGTCA-TTTTAGGTTCAGATCA
1979995 ATCAATTTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
31 1 0.02
32 33 0.70
33 12 0.26
34 1 0.02
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (32 bp):
GTTCAAGTCATTTTAGGTTCAGATCATTTCGA
Found at i:1982448 original size:3 final size:3
Alignment explanation
Indices: 1982440--1982480 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1982430 TGACTTTGCT
1982440 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1982481 TTGGTAGAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1986023 original size:39 final size:40
Alignment explanation
Indices: 1985991--1986080 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 40
1985981 TAAATGTTTT
1985991 TTAATTT-TAAACATAAAAATAATAAAATATAAATATTATTAA
1 TTAATTTATAAACA-AAAAA-AATAAAATATAAATATTATT-A
* * * *
1986033 TTATTTTATAAACAAATAAAATAAAATATAAATAATAATA
1 TTAATTTATAAACAAAAAAAATAAAATATAAATATTATTA
1986073 TT-ATTTAT
1 TTAATTTAT
1986081 TATATTATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
39 5 0.12
40 3 0.07
41 18 0.43
42 10 0.24
43 6 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (40 bp):
TTAATTTATAAACAAAAAAAATAAAATATAAATATTATTA
Found at i:1988000 original size:26 final size:25
Alignment explanation
Indices: 1987941--1988000 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 25
1987931 TATATGTAAT
* * *
1987941 TAATAATAATACATATATTTTATTA
1 TAATAATATTATATATATTATATTA
1987966 T-A-AAT-TTATATATATATATATTA
1 TAATAATATTATATATAT-TATATTA
1987989 TAATAATATTAT
1 TAATAATATTAT
1988001 TATGTAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
22 8 0.29
23 10 0.36
24 2 0.07
25 4 0.14
26 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TAATAATATTATATATATTATATTA
Found at i:1988539 original size:16 final size:16
Alignment explanation
Indices: 1988507--1988557 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
1988497 TTTGAATATA
1988507 AAATTT-AAATGAA-TT
1 AAATTTAAAAT-AATTT
*
1988522 AATTTTAAAATAATTT
1 AAATTTAAAATAATTT
1988538 AAATTTAAAATAATTT
1 AAATTTAAAATAATTT
1988554 AAAT
1 AAAT
1988558 AAAAAGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 7 0.22
16 25 0.78
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
AAATTTAAAATAATTT
Found at i:1988567 original size:16 final size:16
Alignment explanation
Indices: 1988528--1988567 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
1988518 AATTAATTTT
*
1988528 AAAATAATTTAAATTT
1 AAAATAATTTAAATTA
1988544 AAAATAATTTAAA-TA
1 AAAATAATTTAAATTA
1988559 AAAAGTAAT
1 AAAA-TAAT
1988568 GGATATCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AAAATAATTTAAATTA
Found at i:1989393 original size:13 final size:13
Alignment explanation
Indices: 1989375--1989399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1989365 GAAGGGTTCT
1989375 CCAAAGCCGAAGC
1 CCAAAGCCGAAGC
1989388 CCAAAGCCGAAG
1 CCAAAGCCGAAG
1989400 ATAATGCTAG
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:0.40, C:0.36, G:0.24, T:0.00
Consensus pattern (13 bp):
CCAAAGCCGAAGC
Found at i:1992538 original size:2 final size:2
Alignment explanation
Indices: 1992531--1992557 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1992521 AAAGTTGTGC
1992531 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1992558 AAGAGGAGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1995748 original size:19 final size:19
Alignment explanation
Indices: 1995701--1995755 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 19
1995691 TACCAGTTTA
1995701 ATGTATCGATACAATTGTGAAT
1 ATGTATCGATACAA---TGAAT
1995723 A--TATCGATACAATGAAT
1 ATGTATCGATACAATGAAT
1995740 ATGTATCGATACAATG
1 ATGTATCGATACAATG
1995756 TATCGATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 6 0.19
19 13 0.42
20 11 0.35
22 1 0.03
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACAATGAAT
Found at i:1995758 original size:13 final size:13
Alignment explanation
Indices: 1995740--1995766 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1995730 TACAATGAAT
1995740 ATGTATCGATACA
1 ATGTATCGATACA
1995753 ATGTATCGATACA
1 ATGTATCGATACA
1995766 A
1 A
1995767 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1995765 original size:32 final size:33
Alignment explanation
Indices: 1995724--1995785 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
1995714 ATTGTGAATA
* *
1995724 TATCGATACAATGAAT-ATGTATCGATACAATG
1 TATCGATACAAAGAATAATGTATCAATACAATG
*
1995756 TATCGATACAAAGCATAATGTATCAATACA
1 TATCGATACAAAGAATAATGTATCAATACA
1995786 TCTAGATGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (33 bp):
TATCGATACAAAGAATAATGTATCAATACAATG
Found at i:1996959 original size:13 final size:13
Alignment explanation
Indices: 1996941--1996968 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1996931 CATTATTCAA
1996941 TGTATCGATACAT
1 TGTATCGATACAT
1996954 TGTATCGATACAT
1 TGTATCGATACAT
1996967 TG
1 TG
1996969 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2001980 original size:13 final size:13
Alignment explanation
Indices: 2001962--2001986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2001952 CATAAAGTGT
2001962 TGTATCGATACAA
1 TGTATCGATACAA
2001975 TGTATCGATACA
1 TGTATCGATACA
2001987 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2001984 original size:33 final size:33
Alignment explanation
Indices: 2001942--2002008 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2001932 TTCAACGATT
2001942 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2001975 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2002008 T
1 T
2002009 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2002067 original size:13 final size:13
Alignment explanation
Indices: 2002049--2002073 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2002039 ATCACTTAAA
2002049 TGTATCGATACAT
1 TGTATCGATACAT
2002062 TGTATCGATACA
1 TGTATCGATACA
2002074 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:2002138 original size:52 final size:52
Alignment explanation
Indices: 2002082--2002210 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2002072 CACTGATCTT
*
2002082 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
2002134 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2002186 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2002211 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:2007631 original size:10 final size:10
Alignment explanation
Indices: 2007618--2007644 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2007608 GAAAAAATTT
2007618 AAAAAAAACA
1 AAAAAAAACA
2007628 AAAAAAAACA
1 AAAAAAAACA
2007638 AAAAAAA
1 AAAAAAA
2007645 CATACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:2008976 original size:33 final size:31
Alignment explanation
Indices: 2008905--2009261 Score: 334
Period size: 33 Copynumber: 11.4 Consensus size: 31
2008895 ATCTCTCTTC
* * * *
2008905 TCAAAGTCCACAACTTAGTGACATCTCTT-T
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
2008935 TCTAAGTCCACGACTTAGTGGCATCCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCAT-CTTTTCT
*
2008967 TCCTAAGTCCACGACTCAGTGGCATCCTTTTTCT
1 T-CAAAGTCCACGACTCAGTGGCAT-C-TTTTCT
* *
2009001 TCAAAGTCCACAACTCAGTGGCATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
2009031 -CTAAGTCCACGACTCAGTGGCGTCTCTTTTCT
1 TCAAAGTCCACGACTCAGTGGC--ATCTTTTCT
* *
2009063 TCAAAGTCCATGACTCAGTGGCATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
2009093 TC-AAGTCCACGACTCAATGGCATCTCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCA--TCTTTTCT
*
2009125 TCAAAGTCCACGACTCAGTGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* * * * *
2009156 CCAAAGTCCATGACTCTGTGGCACCTTTTTATTT
1 TCAAAGTCCACGACTCAGTGGCA--TCTTT-TCT
*
2009190 TCAAAGTCCATGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
2009221 TCAAAGTCCAC-ACTTAGTGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
2009251 TCAAAGTCCAC
1 TCAAAGTCCAC
2009262 CACTTCGTGG
Statistics
Matches: 275, Mismatches: 34, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
29 37 0.13
30 44 0.16
31 64 0.23
32 18 0.07
33 83 0.30
34 29 0.11
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:2009037 original size:62 final size:62
Alignment explanation
Indices: 2008898--2009261 Score: 377
Period size: 62 Copynumber: 5.8 Consensus size: 62
2008888 TCTTCAAATC
* * * * *
2008898 TCTCTTCTCAAAGTCCACAACTTAGTGACATCTCTTTTC-T--AAGTCCACGACTTAGTGGCA
1 TCTCTTC-CTAAGTCCACGACTCAGTGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCA
*
2008958 TCCTTTTCTTCCTAAGTCCACGACTCAGTGGCATC-CTTTTTCTTCAAAGTCCACAACTCAGTGG
1 T-C---TCTTCCTAAGTCCACGACTCAGTGGCATCTC-TTTTCTTCAAAGTCCACGACTCAGTGG
2009022 CA
61 CA
* *
2009024 TCTCTTCCTAAGTCCACGACTCAGTGGCGTCTCTTTTCTTCAAAGTCCATGACTCAGTGGCA
1 TCTCTTCCTAAGTCCACGACTCAGTGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCA
*
2009086 TCTCTT-CTCAAGTCCACGACTCAATGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCAA
1 TCTCTTCCT-AAGTCCACGACTCAGTGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGC-A
* * * * * * *
2009149 TCTCTTCCCAAAGTCCATGACTCTGTGGCACCTTTTTATTTTCAAAGTCCATGACTCAGTGGCA
1 TCTCTT-CCTAAGTCCACGACTCAGTGGCATCTCTTT-TCTTCAAAGTCCACGACTCAGTGGCA
* * *
2009213 TCTTTTCTTCAAAGTCCAC-ACTTAGTGGCAATCTC--TTC-TCAAAGTCCAC
1 TCTCTTC--CTAAGTCCACGACTCAGTGGC-ATCTCTTTTCTTCAAAGTCCAC
2009262 CACTTCGTGG
Statistics
Matches: 259, Mismatches: 28, Indels: 33
0.81 0.09 0.10
Matches are distributed among these distances:
60 1 0.00
61 13 0.05
62 112 0.43
63 35 0.14
64 42 0.16
65 37 0.14
66 19 0.07
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (62 bp):
TCTCTTCCTAAGTCCACGACTCAGTGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCA
Found at i:2009078 original size:95 final size:97
Alignment explanation
Indices: 2008905--2009260 Score: 368
Period size: 95 Copynumber: 3.8 Consensus size: 97
2008895 ATCTCTCTTC
* * * *
2008905 TCAAAGTCCACAACTTAGTGACATCTCTTT-TCTAAGTCCACGACTTAGTGGCATC-CTTTTCTT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTCTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTT
* *
2008968 CCTAAGTCCACGACTCAGTGGCATCCTTTTTCT
66 -CAAAGTCCATGACTCAGTGGCATCCTTTTTCT
* *
2009001 TCAAAGTCCACAACTCAGTGGCATCTC-TTC-CTAAGTCCACGACTCAGTGGCGTCTCTTTTCTT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTCTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTT
*
2009064 CAAAGTCCATGACTCAGTGGCAT-C-TCTTC-
66 CAAAGTCCATGACTCAGTGGCATCCTTTTTCT
* *
2009093 TC-AAGTCCACGACTCAATGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTC--TT
1 TCAAAGTCCACAACTCAGTGGCATCTC-TTTC-TCAAAGTCCACGACTCAGTGGC-ATCTCTTTT
* * *
2009155 C-CCAAAGTCCATGACTCTGTGGCA-CCTTTTTATTT
63 CTTCAAAGTCCATGACTCAGTGGCATCC-TTTT-TCT
** *
2009190 TCAAAGTCCATGACTCAGTGGCATCT-TTTCTTCAAAGTCCAC-ACTTAGTGGCAATCTC--TTC
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTC-TCAAAGTCCACGACTCAGTGGC-ATCTCTTTTC
2009251 -TCAAAGTCCA
64 TTCAAAGTCCA
2009261 CCACTTCGTG
Statistics
Matches: 228, Mismatches: 19, Indels: 27
0.83 0.07 0.10
Matches are distributed among these distances:
91 22 0.10
92 2 0.01
93 29 0.13
94 4 0.02
95 94 0.41
96 54 0.24
97 2 0.01
98 21 0.09
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.33
Consensus pattern (97 bp):
TCAAAGTCCACAACTCAGTGGCATCTCTTTCTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTT
CAAAGTCCATGACTCAGTGGCATCCTTTTTCT
Found at i:2009280 original size:95 final size:97
Alignment explanation
Indices: 2009095--2009280 Score: 261
Period size: 95 Copynumber: 1.9 Consensus size: 97
2009085 ATCTCTTCTC
2009095 AAGTCCACGACTCAATGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCCCAA
1 AAGTCCACGACTCAATGGCA-CTCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCCCAA
** **
2009160 AGTCCATGACTCTGTGGCACCTTTTTATTTTCA
65 AGTCCACCACTCTGTGGCAAATTTTTATTTTCA
* * * *
2009193 AAGTCCATGACTCAGTGGCA-TCTTTTCTTCAAAGTCCAC-ACTTAGTGGCAATCTCTTCTCAAA
1 AAGTCCACGACTCAATGGCACTCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCCCAAA
2009256 GTCCACCACT-TCGTGGCAAATTTTT
66 GTCCACCACTCT-GTGGCAAATTTTT
2009281 CCTTTTAGGT
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
94 1 0.01
95 41 0.52
96 19 0.24
98 18 0.23
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (97 bp):
AAGTCCACGACTCAATGGCACTCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCCCAAA
GTCCACCACTCTGTGGCAAATTTTTATTTTCA
Found at i:2009326 original size:67 final size:64
Alignment explanation
Indices: 2009254--2009699 Score: 383
Period size: 67 Copynumber: 6.9 Consensus size: 64
2009244 TCTCTTCTCA
* * * * *
2009254 AAGTCCACCACTTCGTGGCAAATTTTTCCTTTTAGGTCCACAACTCTGTGGCACCTTGTTCCTTT
1 AAGTCCACAACTCCGTGGC-AA-TTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
2009319 T
64 T
** * *
2009320 AAAGTCCACAACTTTGTAGC-A---CCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTT
1 -AAGTCCACAACTCCGTGGCAATTTTCCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTTCCTTT
2009381 T
64 T
* * * *
2009382 AAGTTCACAACTCCGTGGC-A---CCCTTTTAAG-CCTACACCTCCGTGGCATCTCTTTTTTC-T
1 AAGTCCACAACTCCGTGGCAATTTTCCTTTTAAGTCC-ACAACTCCGTGGCA-C-CTTTTTCCTT
*
2009441 GT
63 TT
* ** * *
2009443 AAGTCTACAACTCTATGGCACCATTTTCTTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
1 AAGTCCACAACTCCGTGGCA--ATTTTCCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTTCCTT
*
2009508 TG
63 TT
* * * * *
2009510 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCAACTACTCTGTGGCACCTTGTTCCTTT
1 AAGTCCACAACTCCGTGGCA--ATTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
*
2009575 CA
64 -T
* * * *
2009577 AAGTCCACAACTCCATGGCACATTTTCTTTTTAAGTCCACAACTCTGTGGCACCCTTTTCCCTTT
1 AAGTCCACAACTCCGTGGCA-ATTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCCTTT
2009642 T
64 T
*
2009643 AAGTCCACAACTCCGTGGCATATTTTTCC-TTTAAGTCCACAACTCCGTGGTACCTTT
1 AAGTCCACAACTCCGTGGCA-A-TTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTT
2009700 AAGTCTAATA
Statistics
Matches: 316, Mismatches: 49, Indels: 30
0.80 0.12 0.08
Matches are distributed among these distances:
60 2 0.01
61 81 0.26
62 20 0.06
64 1 0.00
65 6 0.02
66 88 0.28
67 116 0.37
68 2 0.01
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.36
Consensus pattern (64 bp):
AAGTCCACAACTCCGTGGCAATTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:2009332 original size:34 final size:33
Alignment explanation
Indices: 2009254--2009699 Score: 393
Period size: 34 Copynumber: 13.8 Consensus size: 33
2009244 TCTCTTCTCA
* * **
2009254 AAGTCCACCACTTCGTGGCAAATTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
2009287 AGGTCCACAACTCTGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
** *
2009320 AAAGTCCACAACTTTGTAGCA-C-----CCTTTT
1 -AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
2009348 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCAC-CTTTTTCCTTTT
*
2009382 AAGTTCACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
2009409 AAG-CCTACACCTCCGTGGCATCTCTTTTTTC-TGT
1 AAGTCC-ACAACTCCGTGGCA-C-CTTTTTCCTTTT
* ** * *
2009443 AAGTCTACAACTCTATGGCACCATTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
2009476 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTG
1 AAGTCCACAACTCCGTGGCAC-CTTTTTCCTTTT
*
2009510 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * * * *
2009543 AAGTCAACTACTCTGTGGCACCTTGTTCCTTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTT-T
* * *
2009577 AAGTCCACAACTCCATGGCA-CATTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
2009609 AAGTCCACAACTCTGTGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTT
**
2009643 AAGTCCACAACTCCGTGGCATATTTTTCC-TTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
*
2009675 AAGTCCACAACTCCGTGGTACCTTT
1 AAGTCCACAACTCCGTGGCACCTTT
2009700 AAGTCTAATA
Statistics
Matches: 328, Mismatches: 62, Indels: 47
0.75 0.14 0.11
Matches are distributed among these distances:
26 1 0.00
27 39 0.12
28 6 0.02
29 1 0.00
30 1 0.00
32 49 0.15
33 99 0.30
34 130 0.40
35 2 0.01
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.36
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:2009368 original size:27 final size:27
Alignment explanation
Indices: 2009314--2009428 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 27
2009304 GCACCTTGTT
** *
2009314 CCTTTTAAAGTCCACAACTTTGTAGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
2009342 CCTTTTAAGTCCACAACTCCGTGGCACTC
1 CCTTTTAAGTCCACAACTCCGTGGCA--C
*
2009371 TTTTTCCTTTTAAGTTCACAACTCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
*
2009403 CCTTTTAAG-CCTACACCTCCGTGGCA
1 CCTTTTAAGTCC-ACAACTCCGTGGCA
2009429 TCTCTTTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
26 1 0.01
27 39 0.53
28 6 0.08
29 1 0.01
32 1 0.01
34 25 0.34
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:2009852 original size:91 final size:90
Alignment explanation
Indices: 2009696--2010083 Score: 477
Period size: 91 Copynumber: 4.3 Consensus size: 90
2009686 TCCGTGGTAC
* * *
2009696 CTTTAAGTCTAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGTC
2009761 GCT-ACCTTGAATCAGCACATTGGCA
65 GCTGACCTTGAATCAGCACATTGGCA
* *
2009786 CTTTTAAGTCCTATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACAAATGT
1 C-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGT
* * *
2009851 TGCTGGCCTTGAATCAGCATATTGGCA
64 CGCTGACCTTGAATCAGCACATTGGCA
* * *
2009878 CATTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAGCCCAATGTC
1 C-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTC
* * *
2009943 GCTGGCTTTGAATCAGCACATTAGCA
65 GCTGACCTTGAATCAGCACATTGGCA
* * * * *
2009969 C---AAGCCCAATATTGCTGGCCTTGAATCAGCATGTTGGTACCTTGTCTTTAAGACCAATGTCG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCG
*
2010031 CTGGA-CTTGAATTAGCACATTGGCA
66 CT-GACCTTGAATCAGCACATTGGCA
* *
2010056 C---AAGCCCAATGTCGCTGGCCTTGAATCA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCA
2010084 ACACATTAGC
Statistics
Matches: 267, Mismatches: 28, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
87 100 0.37
88 1 0.00
90 1 0.00
91 102 0.38
92 63 0.24
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (90 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCG
CTGACCTTGAATCAGCACATTGGCA
Found at i:2009860 original size:49 final size:49
Alignment explanation
Indices: 2009696--2010420 Score: 407
Period size: 49 Copynumber: 15.6 Consensus size: 49
2009686 TCCGTGGTAC
* * * *
2009696 CTTTAAGTCTAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
2009745 CTTTAAGACCAATGTTGCT-ACCTTGAATCAGCACATTGGCA-C----T
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
2009788 -TTTAAGTCCTATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* *
2009836 CTTTAAGACAAATGTTGCTGGCCTTGAATCAGCATATTGGCA-C---A-
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
2009880 -TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * * *
2009927 CTTCAAGCCCAATGTCGCTGGCTTTGAATCAGCACATT---AGC---A-
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * * * *
2009969 C---AAGCCCAATATTGCTGGCCTTGAATCAGCATGTTGGTACC-TTGT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
2010014 CTTTAAGACCAATGTCGCTGGACTTGAATTAGCACATTGG---C---A-
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
2010056 C---AAGCCCAATGTCGCTGGCCTTGAAT---CA-A----CA-CATTAG
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * * *
2010093 C-ATGAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * * * **
2010141 CTTGAAGACCGATGTCGTTGGCCTTGAATCAGCACATCGGCACCTCAACCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCT---TTAT
* *
2010193 CTTTAAGTCCAATGTCGCTGGCTTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * *
2010242 -TTTCAA-ATCTAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTCAT
1 CTTT-AAGA-CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * * * * * * *
2010291 CCTTAAGTCCGATATCGTTGGCCTTGAATTATCATATTGGCATCTTTAA
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * ** *
2010340 CATTCCTAAGCCCAATGTCGCTAGCCTTGTCTCAGCACATTGGCA--TTCT-T
1 C-TT--TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-TAT
* * * *
2010390 CTTCAAGTCTAATGTCGCTGGCCATGAATCA
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCA
2010421 ACACATTGTC
Statistics
Matches: 517, Mismatches: 109, Indels: 102
0.71 0.15 0.14
Matches are distributed among these distances:
33 1 0.00
35 1 0.00
36 3 0.01
37 1 0.00
39 75 0.15
42 20 0.04
43 59 0.11
44 2 0.00
45 5 0.01
47 24 0.05
48 89 0.17
49 160 0.31
50 6 0.01
51 1 0.00
52 70 0.14
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (49 bp):
CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
Found at i:2009876 original size:140 final size:141
Alignment explanation
Indices: 2009706--2010297 Score: 424
Period size: 140 Copynumber: 4.3 Consensus size: 141
2009696 CTTTAAGTCT
* * *
2009706 AATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTTGCT-ACCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCTGACCTTG
* * *
2009770 AATCAGCACATTGGCA-C-T-TTTAAGTCCTATATCGCTGGCCTTGAATCAGCATATTGGCACCT
66 AATCAGCACATTGGCACCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCATATT--CACCT
*
2009832 TTATCTTTAAGACA
129 TTATC-TTAAGACC
* * * * *
2009846 AATGTTGCTGGCCTTGAATCAGCATATTGGCA----CA--TTTAAGTCCAATATCGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCTGACCTTG
* * * * * *
2009905 AATCAGCATATTGGCACCTTGTCTTCAAGCCCAATGTCGCTGGCTTTGAATCAGCACATT-AGC-
66 AATCAGCACATTGGCACC--ATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTCACCT
*
2009968 --A-C--AAGCCC
129 TTATCTTAAGACC
* * * *
2009976 AATATTGCTGGCCTTGAATCAGCATGTTGGTACCTT-GTCTTTAAGACCAATGTCGCTGGA-CTT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT-GACCTT
* *
2010039 GAATTAGCACATTGG---CA-C---AAGCCCAATGTCGCTGGCCTTGAAT---CA-A--CA-CAT
65 GAATCAGCACATTGGCACCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTCACCTT
* * * *
2010090 TAGCATGAGCCC
130 TATCTTAAGACC
* * * *
2010102 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTGAAGACCGATGTCGTTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCTGACCTTG
* * *
2010167 AATCAGCACATCGGCACCTCAACCATCTTTAAGTCCAATGTCGCTGGCTTTGAATCAGCATATTG
66 AATCAGCACATTGG-----C-ACCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCATATT-
* *
2010232 GCACCTTTATTTTCAA-ATCT
124 -CACCTTTATCTT-AAGA-CC
* * * *
2010252 AATGTCGCTGGCCTTGAATCAGCACATTGACACCTTCATCCTTAAG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAG
2010298 TCCGATATCG
Statistics
Matches: 352, Mismatches: 54, Indels: 82
0.72 0.11 0.17
Matches are distributed among these distances:
120 1 0.00
121 1 0.00
122 1 0.00
123 3 0.01
124 1 0.00
126 63 0.18
127 33 0.09
129 1 0.00
130 33 0.09
132 1 0.00
133 1 0.00
134 16 0.05
135 52 0.15
136 5 0.01
137 3 0.01
139 1 0.00
140 83 0.24
143 2 0.01
144 1 0.00
148 2 0.01
149 5 0.01
150 43 0.12
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (141 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCTGACCTTG
AATCAGCACATTGGCACCATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCATATTCACCTTT
ATCTTAAGACC
Found at i:2009902 original size:92 final size:90
Alignment explanation
Indices: 2009696--2010083 Score: 493
Period size: 87 Copynumber: 4.3 Consensus size: 90
2009686 TCCGTGGTAC
* * *
2009696 CTTTAAGTCTAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGTC
*
2009761 GCT-ACCTTGAATCAGCACATTGGCA
65 GCTGGCCTTGAATCAGCACATTGGCA
* *
2009786 CTTTTAAGTCCTATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACAAATGT
1 C-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGT
* *
2009851 TGCTGGCCTTGAATCAGCATATTGGCA
64 CGCTGGCCTTGAATCAGCACATTGGCA
* * *
2009878 CATTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAGCCCAATGTC
1 C-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTC
* *
2009943 GCTGGCTTTGAATCAGCACATTAGCA
65 GCTGGCCTTGAATCAGCACATTGGCA
* * * * *
2009969 C---AAGCCCAATATTGCTGGCCTTGAATCAGCATGTTGGTACCTTGTCTTTAAGACCAATGTCG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCG
* *
2010031 CTGGACTTGAATTAGCACATTGGCA
66 CTGGCCTTGAATCAGCACATTGGCA
* *
2010056 C---AAGCCCAATGTCGCTGGCCTTGAATCA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCA
2010084 ACACATTAGC
Statistics
Matches: 268, Mismatches: 28, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
87 102 0.38
90 1 0.00
91 102 0.38
92 63 0.24
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (90 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCA
Found at i:2009986 original size:39 final size:39
Alignment explanation
Indices: 2009930--2010134 Score: 176
Period size: 39 Copynumber: 5.0 Consensus size: 39
2009920 ACCTTGTCTT
*
2009930 CAAGCCCAATGTCGCTGGCTTTGAATCAGCACATTAGCA
1 CAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCA
* * ** *
2009969 CAAGCCCAATATTGCTGGCCTTGAATCAGCATGTTGGTACCTTGTCTT
1 CAAGCCCAATGTCGCTGGCCTTGAATCAGCA-CAT--TA----G-C-A
* * * * *
2010017 TAAGACCAATGTCGCTGGACTTGAATTAGCACATTGGCA
1 CAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCA
*
2010056 CAAGCCCAATGTCGCTGGCCTTGAATCAACACATTAGCA
1 CAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCA
** * * *
2010095 TGAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCA
2010134 C
1 C
2010135 CTTCATCTTG
Statistics
Matches: 128, Mismatches: 29, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
39 94 0.73
40 2 0.02
41 1 0.01
42 2 0.02
45 1 0.01
46 1 0.01
47 2 0.02
48 25 0.20
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCA
Found at i:2010089 original size:126 final size:127
Alignment explanation
Indices: 2009930--2010183 Score: 375
Period size: 126 Copynumber: 2.0 Consensus size: 127
2009920 ACCTTGTCTT
* * *
2009930 CAAGCCCAATGTCGCTGGCTTTGAATCAGCACATTAGCACAAGCCCAATATTGCTGGCCTTGAAT
1 CAAGCCCAATGTCGCTGGCCTTGAATCAACACATTAGCACAAGCCCAATATCGCTGGCCTTGAAT
* * * * * *
2009995 CAGCATGTTGGTACCTT-GTCTTTAAGACCAATGTCGCTGGACTTGAATTAGCACATTGGCA
66 CAGCATATTGGCACCTTCATCTTGAAGACCAATGTCGCTGGACTTGAATCAGCACATCGGCA
**
2010056 CAAGCCCAATGTCGCTGGCCTTGAATCAACACATTAGCATGAGCCCAATATCGCTGGCCTTGAAT
1 CAAGCCCAATGTCGCTGGCCTTGAATCAACACATTAGCACAAGCCCAATATCGCTGGCCTTGAAT
* * *
2010121 CAGCATATTGGCACCTTCATCTTGAAGACCGATGTCGTTGGCCTTGAATCAGCACATCGGCA
66 CAGCATATTGGCACCTTCATCTTGAAGACCAATGTCGCTGGACTTGAATCAGCACATCGGCA
2010183 C
1 C
2010184 CTCAACCATC
Statistics
Matches: 113, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
126 75 0.66
127 38 0.34
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (127 bp):
CAAGCCCAATGTCGCTGGCCTTGAATCAACACATTAGCACAAGCCCAATATCGCTGGCCTTGAAT
CAGCATATTGGCACCTTCATCTTGAAGACCAATGTCGCTGGACTTGAATCAGCACATCGGCA
Found at i:2010286 original size:101 final size:98
Alignment explanation
Indices: 2010100--2010379 Score: 292
Period size: 101 Copynumber: 2.8 Consensus size: 98
2010090 TAGCATGAGC
* * * *
2010100 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTGAAGACCGATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTCAAGACCAATGTCGCTGGCCT
* *
2010165 TGAATCAGCACATCGGCACCTCAACCATCTTTAAGT
66 TGAATCAGCACATCGACACCT---CCATCCTTAAGT
* * * *
2010201 CCAATGTCGCTGGCTTTGAATCAGCATATTGGCACCTTTATTTTCAA-ATCTAATGTCGCTGGCC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTCAAGA-CCAATGTCGCTGGCC
* *
2010265 TTGAATCAGCACATTGACACCTTCATCCTTAAGT
65 TTGAATCAGCACATCGACACCTCCATCCTTAAGT
* * * * * * * *
2010299 CCGATATCGTTGGCCTTGAATTATCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTAG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC-TT-C-AAGACCAATGTCGCTGG
**
2010364 CCTTGTCTCAGCACAT
63 CCTTGAATCAGCACAT
2010380 TGGCATTCTT
Statistics
Matches: 148, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
98 43 0.29
99 2 0.01
100 2 0.01
101 101 0.68
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (98 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTCAAGACCAATGTCGCTGGCCT
TGAATCAGCACATCGACACCTCCATCCTTAAGT
Found at i:2010382 original size:150 final size:148
Alignment explanation
Indices: 2010106--2010428 Score: 375
Period size: 150 Copynumber: 2.2 Consensus size: 148
2010096 GAGCCCAATA
* * *
2010106 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTGAAGACCGATGTCGTTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAGCACATTGACACCTTCATCTTGAAGACCGATATCGTTGGCCTTGAATC
* * * * *
2010171 AGCACATCGGCACCTCAACCATCTTTAAGTCCAATGTCGCTGGCTTTGAATCAGCATATTGGCAC
66 AGCACATCGGCACCTCAACCATCTCTAAGCCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA-
*
2010236 CTT-TATTTTCAAATCTAATG
130 -TTCT-TCTTCAAATCTAATG
*
2010256 TCGCTGGCCTTGAATCAGCACATTGACACCTTCATCCTT-AAGTCCGATATCGTTGGCCTTGAAT
1 TCGCTGGCCTTGAATCAGCACATTGACACCTTCAT-CTTGAAGACCGATATCGTTGGCCTTGAAT
* * * * * * **
2010320 TATCATATTGGCATCTTTAA-CAT-TCCTAAGCCCAATGTCGCTAGCCTTGTCTCAGCACATTGG
65 CAGCACATCGGCA-CCTCAACCATCT-CTAAGCCCAATGTCGCTAGCCTTGAATCAGCACATTGG
*
2010383 CATTCTTCTTCAAGTCTAATG
128 CATTCTTCTTCAAATCTAATG
* *
2010404 TCGCTGGCCATGAATCAACACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
2010429 TCATTCTTCG
Statistics
Matches: 148, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
148 38 0.26
149 2 0.01
150 101 0.68
151 7 0.05
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.32
Consensus pattern (148 bp):
TCGCTGGCCTTGAATCAGCACATTGACACCTTCATCTTGAAGACCGATATCGTTGGCCTTGAATC
AGCACATCGGCACCTCAACCATCTCTAAGCCCAATGTCGCTAGCCTTGAATCAGCACATTGGCAT
TCTTCTTCAAATCTAATG
Found at i:2011282 original size:20 final size:20
Alignment explanation
Indices: 2011257--2011345 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 20
2011247 CTGCCAAGGA
2011257 AATGTATCGATAAATTATTC
1 AATGTATCGATAAATTATTC
**
2011277 AATGTATCGAT---GCATT-
1 AATGTATCGATAAATTATTC
*
2011293 -A--TATCGATACATTATTC
1 AATGTATCGATAAATTATTC
* *
2011310 AATATATCGATACATTATTC
1 AATGTATCGATAAATTATTC
2011330 AATGTATCGATAAATT
1 AATGTATCGATAAATT
2011346 GTATCGATAC
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
13 7 0.12
15 1 0.02
16 3 0.05
17 3 0.05
18 1 0.02
20 41 0.73
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.39
Consensus pattern (20 bp):
AATGTATCGATAAATTATTC
Found at i:2011307 original size:33 final size:33
Alignment explanation
Indices: 2011261--2011327 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
2011251 CAAGGAAATG
* *
2011261 TATCGATAAATTATTCAATGTATCGATGCATTA
1 TATCGATAAATTATTCAATATATCGATACATTA
*
2011294 TATCGATACATTATTCAATATATCGATACATTA
1 TATCGATAAATTATTCAATATATCGATACATTA
2011327 T
1 T
2011328 TCAATGTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (33 bp):
TATCGATAAATTATTCAATATATCGATACATTA
Found at i:2011371 original size:53 final size:53
Alignment explanation
Indices: 2011257--2011378 Score: 165
Period size: 53 Copynumber: 2.3 Consensus size: 53
2011247 CTGCCAAGGA
* **
2011257 AATGTATCGATAAATTATTCAATGTATCGATGCATTATATCGATACATTATTC
1 AATGTATCGATACATTATTCAATGTATCGATAAATTATATCGATACATTATTC
* *
2011310 AATATATCGATACATTATTCAATGTATCGATAAATTGTATCGATACATTGA-TC
1 AATGTATCGATACATTATTCAATGTATCGATAAATTATATCGATACATT-ATTC
**
2011363 TTTGTATCGATACATT
1 AATGTATCGATACATT
2011379 TGAGAATTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 59 0.98
54 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (53 bp):
AATGTATCGATACATTATTCAATGTATCGATAAATTATATCGATACATTATTC
Found at i:2016381 original size:198 final size:198
Alignment explanation
Indices: 2016043--2016410 Score: 718
Period size: 198 Copynumber: 1.9 Consensus size: 198
2016033 CAGATTTTGA
*
2016043 AAGAAAGATTTGTTGGTTTTAAAAACGTTTTTGAAGAAGATTTTGATGTAAAAAGAGTGGTAGAG
1 AAGAAAGATTTGTTGGTTTTAAAAACATTTTTGAAGAAGATTTTGATGTAAAAAGAGTGGTAGAG
2016108 ATGTAAGATTAAAGAAATTCAAGAAAGTTTTGAAGAAATTGAAGGTTGGAATTTTAGGTTTTGAG
66 ATGTAAGATTAAAGAAATTCAAGAAAGTTTTGAAGAAATTGAAGGTTGGAATTTTAGGTTTTGAG
2016173 AAAATTTGAGTGGGTGTATTGATAAAGAATGAAGAATGGGTTGAAGAAAGATTTGAGTGGGTGTA
131 AAAATTTGAGTGGGTGTATTGATAAAGAATGAAGAATGGGTTGAAGAAAGATTTGAGTGGGTGTA
2016238 TTG
196 TTG
2016241 AAGAAAGATTTGTTGGTTTTAAAAACATTTTTGAAGAAGATTTTGATGTAAAAAGAGTGGTAGAG
1 AAGAAAGATTTGTTGGTTTTAAAAACATTTTTGAAGAAGATTTTGATGTAAAAAGAGTGGTAGAG
*
2016306 ATGTAAGATTACAGAAATTCAAGAAAGTTTTGAAGAAATTGAAGGTTGGAATTTTAGGTTTTGAG
66 ATGTAAGATTAAAGAAATTCAAGAAAGTTTTGAAGAAATTGAAGGTTGGAATTTTAGGTTTTGAG
2016371 AAAATTTGAGTGGGTGTATTGATAAAGAATGAAGAATGGG
131 AAAATTTGAGTGGGTGTATTGATAAAGAATGAAGAATGGG
2016411 GGTTCGAACT
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
198 168 1.00
ACGTcount: A:0.39, C:0.01, G:0.27, T:0.33
Consensus pattern (198 bp):
AAGAAAGATTTGTTGGTTTTAAAAACATTTTTGAAGAAGATTTTGATGTAAAAAGAGTGGTAGAG
ATGTAAGATTAAAGAAATTCAAGAAAGTTTTGAAGAAATTGAAGGTTGGAATTTTAGGTTTTGAG
AAAATTTGAGTGGGTGTATTGATAAAGAATGAAGAATGGGTTGAAGAAAGATTTGAGTGGGTGTA
TTG
Found at i:2021045 original size:12 final size:12
Alignment explanation
Indices: 2021028--2021058 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2021018 TGAGTCAACT
2021028 TCATCATTATCA
1 TCATCATTATCA
*
2021040 TCATCATTATCT
1 TCATCATTATCA
2021052 TCATCAT
1 TCATCAT
2021059 CTTTGATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (12 bp):
TCATCATTATCA
Found at i:2025881 original size:20 final size:20
Alignment explanation
Indices: 2025856--2025914 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
2025846 AAAAAAACAG
*
2025856 AATGTATTAATACATTGAAT
1 AATGTATCAATACATTGAAT
*
2025876 AATGTATCAATACATT-CAT
1 AATGTATCAATACATTGAAT
*
2025895 ACATGTATCGATACATTGAA
1 A-ATGTATCAATACATTGAA
2025915 AATATATAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.09
20 29 0.88
21 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (20 bp):
AATGTATCAATACATTGAAT
Found at i:2026767 original size:20 final size:20
Alignment explanation
Indices: 2026743--2026795 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2026733 ACAATTGTGT
*
2026743 ATGTATCGATACAATGAACA
1 ATGTATCGATACAAGGAACA
* * * *
2026763 TTGTATCAATACAAGGCATA
1 ATGTATCGATACAAGGAACA
2026783 ATGTATCGATACA
1 ATGTATCGATACA
2026796 TCTGGGTATG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACAAGGAACA
Found at i:2029661 original size:3 final size:3
Alignment explanation
Indices: 2029655--2029685 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2029645 CTACAACAAC
2029655 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2029686 TATGATCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2029789 original size:14 final size:14
Alignment explanation
Indices: 2029770--2029846 Score: 70
Period size: 14 Copynumber: 5.4 Consensus size: 14
2029760 TTTTGTATTA
2029770 ATAATATTAAATTT
1 ATAATATTAAATTT
2029784 ATAATATTAAATTT
1 ATAATATTAAATTT
*
2029798 ATTAA-A-TATATTTT
1 A-TAATATTA-AATTT
*
2029812 ATAAATATTATATTT
1 AT-AATATTAAATTT
*
2029827 AAAATTATTAAATTT
1 ATAA-TATTAAATTT
2029842 A-AATA
1 ATAATA
2029847 AAATAATAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
13 5 0.10
14 27 0.52
15 18 0.35
16 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATAATATTAAATTT
Found at i:2029800 original size:23 final size:23
Alignment explanation
Indices: 2029774--2029842 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
2029764 GTATTAATAA
2029774 TATTAAATTTATAATATTAAATT
1 TATTAAATTTATAATATTAAATT
* **
2029797 TATTAAATATATTTTA-TAAA--
1 TATTAAATTTATAATATTAAATT
* *
2029817 TATTATATTTAAAATTATTAAATT
1 TATTAAATTTATAA-TATTAAATT
2029841 TA
1 TA
2029843 AATAAAATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
20 9 0.26
21 2 0.06
22 8 0.24
23 13 0.38
24 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTAAATTTATAATATTAAATT
Found at i:2030656 original size:3 final size:3
Alignment explanation
Indices: 2030648--2030684 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2030638 TTATAAATAC
2030648 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2030685 TGTGATCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2030833 original size:20 final size:20
Alignment explanation
Indices: 2030792--2030834 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
2030782 TGATAATACC
*
2030792 ATATTTATTAAATTATTTTT
1 ATATTTATTAAATTATTCTT
2030812 ATATTTATTAAA-TATATCTT
1 ATATTTATTAAATTAT-TCTT
2030832 ATA
1 ATA
2030835 AATATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATTTATTAAATTATTCTT
Found at i:2031916 original size:16 final size:16
Alignment explanation
Indices: 2031895--2031928 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
2031885 ATAAGAAAAG
2031895 AATTAAAATAT-AAATT
1 AATTAAAA-ATCAAATT
2031911 AATTAAAAATCAAATT
1 AATTAAAAATCAAATT
2031927 AA
1 AA
2031929 AGATACATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AATTAAAAATCAAATT
Found at i:2034738 original size:22 final size:25
Alignment explanation
Indices: 2034713--2034771 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 25
2034703 CTATATTATT
2034713 TATATTATTTATTA-A-TATAT-AA
1 TATATTATTTATTATATTATATAAA
* *
2034735 TATATCA-TTATTATATTATTTAAA
1 TATATTATTTATTATATTATATAAA
2034759 TATTATTATTTAT
1 TA-TATTATTTAT
2034772 ATTAAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 6 0.21
22 7 0.24
23 4 0.14
24 4 0.14
25 4 0.14
26 4 0.14
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TATATTATTTATTATATTATATAAA
Found at i:2034767 original size:14 final size:14
Alignment explanation
Indices: 2034748--2034876 Score: 68
Period size: 14 Copynumber: 9.6 Consensus size: 14
2034738 ATCATTATTA
2034748 TATTATTTAAATAT
1 TATTATTTAAATAT
2034762 TATTATTT--ATAT
1 TATTATTTAAATAT
* *
2034774 TA--AATT--ATTT
1 TATTATTTAAATAT
2034784 TA-TATTTAAATATTAT
1 TATTATTT-AA-A-TAT
2034800 TATTATTTAAATAT
1 TATTATTTAAATAT
*
2034814 TATTATTT-TATA-
1 TATTATTTAAATAT
*
2034826 T-TTATATT--ATTT
1 TATTAT-TTAAATAT
2034838 TA-TATTTAAATATTAT
1 TATTATTT-AA-A-TAT
2034854 TATTATTTAAATAT
1 TATTATTTAAATAT
2034868 TATTATTTA
1 TATTATTTA
2034877 TTTTTATTTA
Statistics
Matches: 92, Mismatches: 7, Indels: 32
0.70 0.05 0.24
Matches are distributed among these distances:
10 8 0.09
11 11 0.12
12 13 0.14
13 3 0.03
14 31 0.34
15 4 0.04
16 12 0.13
17 10 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTATTTAAATAT
Found at i:2034774 original size:28 final size:28
Alignment explanation
Indices: 2034704--2034877 Score: 117
Period size: 30 Copynumber: 6.4 Consensus size: 28
2034694 TCTATATTTC
2034704 TATATTATTTATATTAT-TTA-TTAATA
1 TATATTATTTATATTATATTATTTAATA
* *
2034730 TATAATATATCATTATTATATTATTTAA-A
1 TATATTAT-TTA-TATTATATTATTTAATA
*
2034759 TATTATTATTTATATTAAATTATTT--TA
1 TA-TATTATTTATATTATATTATTTAATA
*
2034786 TAT-TTA--AATATTATTATTATTTAA-A
1 TATATTATTTATATTA-TATTATTTAATA
2034811 TATTATTATTTTATATTTATATTATTT--TA
1 TA-TATTA-TTTATA-TTATATTATTTAATA
*
2034840 TAT-TTA--AATATTATTATTATTTAA-A
1 TATATTATTTATATTA-TATTATTTAATA
2034865 TATTATTATTTAT
1 TA-TATTATTTAT
2034878 TTTTATTTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 43
0.68 0.06 0.26
Matches are distributed among these distances:
23 9 0.08
24 18 0.16
25 9 0.08
26 10 0.09
27 14 0.12
28 19 0.17
29 13 0.11
30 20 0.17
31 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (28 bp):
TATATTATTTATATTATATTATTTAATA
Found at i:2034780 original size:17 final size:18
Alignment explanation
Indices: 2034741--2034882 Score: 106
Period size: 16 Copynumber: 7.9 Consensus size: 18
2034731 ATAATATATC
*
2034741 ATTATTATATTAT-TTAAA
1 ATTATTAT-TTATATTTAA
2034759 TATTATTATTTATA-TTAA
1 -ATTATTATTTATATTTAA
2034777 ATTA-T-TTTATATTTAA
1 ATTATTATTTATATTTAA
2034793 A-TATTA-TTATTATTTAAA
1 ATTATTATTTA-TATTT-AA
*
2034811 TATTATTATTTTATATTTAT
1 -ATTATTA-TTTATATTTAA
2034831 ATTA-T-TTTATATTTAA
1 ATTATTATTTATATTTAA
2034847 A-TATTA-TTATTATTTAAA
1 ATTATTATTTA-TATTT-AA
*
2034865 TATTATTATTTATTTTTA
1 -ATTATTATTTATATTTA
2034883 TTTAATTTTA
Statistics
Matches: 102, Mismatches: 4, Indels: 34
0.73 0.03 0.24
Matches are distributed among these distances:
15 10 0.10
16 25 0.25
17 14 0.14
18 12 0.12
19 15 0.15
20 15 0.15
21 8 0.08
22 3 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATTATTTATATTTAA
Found at i:2034801 original size:38 final size:38
Alignment explanation
Indices: 2034759--2034889 Score: 136
Period size: 38 Copynumber: 3.6 Consensus size: 38
2034749 ATTATTTAAA
2034759 TATTATTATTTATATTAAATTATTTTATATTTAAATAT
1 TATTATTATTTATATTAAATTATTTTATATTTAAATAT
2034797 TATTATTATTTAAATATT--ATTATTTTATATTT--ATAT
1 TATTATTATTT--ATATTAAATTATTTTATATTTAAATAT
2034833 TATT-TTA--TAT-TTAAA-TATTATTATTATTTAAATAT
1 TATTATTATTTATATTAAATTATT-TTA-TATTTAAATAT
* *
2034868 TATTATTTATTTTTATTTAATT
1 TATTA-TTATTTATATTAAATT
2034890 TTAATTTAAG
Statistics
Matches: 77, Mismatches: 2, Indels: 25
0.74 0.02 0.24
Matches are distributed among these distances:
30 2 0.03
31 6 0.08
32 4 0.05
33 6 0.08
35 11 0.14
36 8 0.10
37 3 0.04
38 25 0.32
39 2 0.03
40 9 0.12
41 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (38 bp):
TATTATTATTTATATTAAATTATTTTATATTTAAATAT
Found at i:2034804 original size:24 final size:23
Alignment explanation
Indices: 2034777--2034887 Score: 70
Period size: 24 Copynumber: 4.7 Consensus size: 23
2034767 TTTATATTAA
2034777 ATTATTTTATATTTAAATATTATT
1 ATTATTTTATATTTAAATATT-TT
* *
2034801 ATTA-TTTAAATATT-ATTATTTT
1 ATTATTTTATAT-TTAAATATTTT
* *
2034823 A-TATTTATATTATTT-TATATTTA
1 ATTATTT-TA-TATTTAAATATTTT
*
2034846 AATATTATTATTATTTAAATATTATT
1 ATTATT-TTA-TATTTAAATATT-TT
2034872 ATTTATTTT-TATTTAA
1 A-TTATTTTATATTTAA
2034888 TTTTAATTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
21 2 0.03
22 5 0.07
23 21 0.30
24 27 0.39
25 6 0.09
26 4 0.06
27 4 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTATTTTATATTTAAATATTTT
Found at i:2034816 original size:71 final size:72
Alignment explanation
Indices: 2034741--2034879 Score: 189
Period size: 71 Copynumber: 1.9 Consensus size: 72
2034731 ATAATATATC
2034741 ATTATTATATTAT-TTAAATATTATTATT-TATATTAAATTATT-TTA-TATTTAAATATTATTA
1 ATTATTATATTATATT-AATATTATT-TTATAT-TTAAA-TATTATTATTATTTAAATATTATTA
2034802 -TTATTTAAAT
62 TTTATTTAAAT
* *
2034812 ATTATTATTTTATATTTATATTATTTTATATTTAAATATTATTATTATTTAAATATTATTATTTA
1 ATTATTATATTATATTAATATTATTTTATATTTAAATATTATTATTATTTAAATATTATTATTTA
2034877 TTT
66 TTT
2034880 TTATTTAATT
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
69 4 0.07
70 10 0.16
71 39 0.64
72 8 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (72 bp):
ATTATTATATTATATTAATATTATTTTATATTTAAATATTATTATTATTTAAATATTATTATTTA
TTTAAAT
Done.