Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 95 of 295
Found at i:28113100 original size:187 final size:189
Alignment explanation
Indices: 28112704--28113100 Score: 518
Period size: 187 Copynumber: 2.1 Consensus size: 189
28112694 ATTGATGTAC
* * * * *
28112704 AAGTATATATATGTGATAGGGCCGAGTGGTCAATGTGATGAATGTGAAAGTATATATATGCGTGA
1 AAGTGTATA-ATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTACATATAT-CGAGA
* * * *
28112769 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGTGATAAGGCCGAATGGCCA
64 TAAGGCCGAATGGCCAATGTGATGAATGTGAACA-GTGCATATATGAGATAAGGCCGAATGGCCA
* *
28112834 ATGTGACGAATGTGAACATGTGTACGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
128 ATGTGACGAATGTGAACATGTATACATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
28112896 ACATGTGTAT-GTGTGATA-GGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATATAT-GAG
1 A-A-GTGTATAATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAA-AGTACATATATCGAG
28112957 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCA
63 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACAGTGCATATATGAGATAAGGCCGAATGGCCA
* * * * *
28113021 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATTGCCAATGTGATGGATGTGG
128 ATGTGACGAATGTGAACA-TGTATACATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
28113083 AAGTGTATAAATGTGATA
1 AAGTGTAT-AATGTGATA
28113101 AGTCCTGAAG
Statistics
Matches: 180, Mismatches: 19, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
185 6 0.03
186 2 0.01
187 86 0.48
189 37 0.21
191 34 0.19
192 9 0.05
193 1 0.01
194 5 0.03
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.27
Consensus pattern (189 bp):
AAGTGTATAATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTACATATATCGAGATA
AGGCCGAATGGCCAATGTGATGAATGTGAACAGTGCATATATGAGATAAGGCCGAATGGCCAATG
TGACGAATGTGAACATGTATACATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:28115597 original size:38 final size:38
Alignment explanation
Indices: 28115533--28115607 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
28115523 AATCCGAGTT
*
28115533 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
28115571 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
28115608 ATTAAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:28115940 original size:40 final size:40
Alignment explanation
Indices: 28115661--28115928 Score: 412
Period size: 40 Copynumber: 6.7 Consensus size: 40
28115651 AGGTCTCGAC
28115661 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
28115700 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
28115740 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
28115780 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
28115820 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
28115860 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * *
28115900 GTTATATCTGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
28115929 ATCATGCTGG
Statistics
Matches: 209, Mismatches: 19, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
39 4 0.02
40 205 0.98
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:28119211 original size:47 final size:47
Alignment explanation
Indices: 28119154--28119504 Score: 465
Period size: 47 Copynumber: 7.4 Consensus size: 47
28119144 ATTGATGTAC
* * *
28119154 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
28119201 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
28119250 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGACGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
28119297 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGACGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
28119344 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
** * *
28119391 ACCTGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
28119438 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
28119485 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
28119505 TCCCGAAGGG
Statistics
Matches: 281, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 240 0.85
49 40 0.14
50 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:28119381 original size:22 final size:22
Alignment explanation
Indices: 28119355--28119476 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
28119345 CATGTGTATG
28119355 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
28119377 TGTGATGAATG-TGAACCT-GCATATA
1 TGTGAT-AAGGCCGAA--TGGC-CA-A
*
28119402 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
28119424 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
28119449 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
28119471 TGTGAT
1 TGTGAT
28119477 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 23 0.33
23 15 0.21
24 15 0.21
25 17 0.24
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:28126215 original size:6 final size:6
Alignment explanation
Indices: 28126197--28126322 Score: 89
Period size: 6 Copynumber: 20.3 Consensus size: 6
28126187 AAGAAACATT
*
28126197 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * * *
28126246 ATCAAA ATCAGA ATCAGT ATCAGGTA AT-AGA ATTAAA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
*
28126295 ATCAGGTA A-CAGA ATCAAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATC-AGA ATCAGA AT
28126323 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
5 8 0.08
6 69 0.73
7 14 0.15
8 4 0.04
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:28126246 original size:31 final size:31
Alignment explanation
Indices: 28126211--28126322 Score: 188
Period size: 31 Copynumber: 3.6 Consensus size: 31
28126201 GAACTAGAAT
*
28126211 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
28126242 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
* *
28126273 TAGAATTAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
28126304 CAGAATCAAAAATCAGAAT
1 CAGAATC-AAAATCAGAAT
28126323 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 64 0.85
32 11 0.15
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:28126715 original size:22 final size:22
Alignment explanation
Indices: 28126687--28126751 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
28126677 GCAAATACGT
*
28126687 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
28126709 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
28126731 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
28126752 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:28127936 original size:27 final size:27
Alignment explanation
Indices: 28127880--28128212 Score: 201
Period size: 27 Copynumber: 12.3 Consensus size: 27
28127870 TTTCATCCTA
* * * * *
28127880 CAAGGGTGTTTTGGTAAATCTACAAGC
1 CAAGGGTATTTTCGTAATTTTACAAAC
**
28127907 CAAGGGTATTTTCGTAATTTTGTAAAC
1 CAAGGGTATTTTCGTAATTTTACAAAC
* * * * *
28127934 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTCGTAA-TTTTACAAA-C
** *
28127963 CAAGGGTA-TTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTTC-GTAATTTTACAAAC
* * *
28127990 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTCGTAATTTTACAAAC
** *
28128017 TGAGGGTA-TTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTC-GTAATTTTACAAAC
*
28128044 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTCGTAATTTTACAAAC
* * * *
28128071 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTCGTAATTTTACAAAC
**
28128098 TGAGGGTA-TTTCAGTAATTTTACAAAC
1 CAAGGGTATTTTC-GTAATTTTACAAAC
* * *
28128125 C-AGAGGTATCTTAGCAATTTTACAAA-
1 CAAG-GGTATTTTCGTAATTTTACAAAC
* * * **
28128151 CTAGGTTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTCGTAATTTTACAAAC
* ** *
28128178 CAAGGGTATTTTGGTAATTTTGTAAAT
1 CAAGGGTATTTTCGTAATTTTACAAAC
28128205 CAAGGGTA
1 CAAGGGTA
28128213 AAACAGTAAT
Statistics
Matches: 242, Mismatches: 51, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
26 27 0.11
27 179 0.74
28 26 0.11
29 10 0.04
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTCGTAATTTTACAAAC
Found at i:28128084 original size:81 final size:81
Alignment explanation
Indices: 28127991--28128171 Score: 292
Period size: 81 Copynumber: 2.2 Consensus size: 81
28127981 TTTGTAAATC
* * *
28127991 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAGAGGTATCTT
* *
28128056 GGTAATTTTACAAACT
66 AGCAATTTTACAAACT
*
28128072 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAACCAGAGGTATCTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAGAGGTATCTT
28128137 AGCAATTTTACAAACT
66 AGCAATTTTACAAACT
*
28128153 A-GGTTATTTTGGTAATTTT
1 AGGGGTATTTTGGTAATTTT
28128172 GTAAACCAAG
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 17 0.18
81 76 0.82
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAGAGGTATCTT
AGCAATTTTACAAACT
Found at i:28128221 original size:27 final size:27
Alignment explanation
Indices: 28128191--28128320 Score: 179
Period size: 27 Copynumber: 4.8 Consensus size: 27
28128181 GGGTATTTTG
*
28128191 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAACA
28128218 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAACA
* * *
28128245 ATAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAACA
* * *
28128272 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACA
* *
28128299 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCAAGGGTA
28128321 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAACA
Found at i:28128333 original size:54 final size:54
Alignment explanation
Indices: 28128200--28128320 Score: 197
Period size: 54 Copynumber: 2.2 Consensus size: 54
28128190 GGTAATTTTG
* *
28128200 TAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAATAATTCTA
* **
28128254 TAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAATAATTCTA
28128308 TAAATCGAGGGTA
1 TAAATCGAGGGTA
28128321 CTTTGGTAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (54 bp):
TAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAATAATTCTA
Found at i:28131758 original size:34 final size:34
Alignment explanation
Indices: 28131711--28131788 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 34
28131701 ACCATCCACT
* *
28131711 ATCATGCTCACAACTTTTATCCTGCCCCAAATGG
1 ATCATGCTAACAACATTTATCCTGCCCCAAATGG
28131745 ATCATGCTAACAACATTTATCCTGCCCCAAATGG
1 ATCATGCTAACAACATTTATCCTGCCCCAAATGG
28131779 ATCATGCTAA
1 ATCATGCTAA
28131789 TTTCACATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (34 bp):
ATCATGCTAACAACATTTATCCTGCCCCAAATGG
Found at i:28137274 original size:19 final size:19
Alignment explanation
Indices: 28137250--28137287 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
28137240 AAAAAAATAG
28137250 AACACATTATGAATTTGTT
1 AACACATTATGAATTTGTT
*
28137269 AACACATTGTGAATTTGTT
1 AACACATTATGAATTTGTT
28137288 CTAACTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (19 bp):
AACACATTATGAATTTGTT
Found at i:28145098 original size:13 final size:12
Alignment explanation
Indices: 28145072--28145096 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28145062 TTATTAAAAC
28145072 TACTTTTATTTT
1 TACTTTTATTTT
28145084 TACTTTTATTTT
1 TACTTTTATTTT
28145096 T
1 T
28145097 TAGCATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TACTTTTATTTT
Found at i:28147048 original size:22 final size:23
Alignment explanation
Indices: 28147023--28147076 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
28147013 ATGTTTTGTA
28147023 TTCTTTA-TT-CTTATGAGATGTT
1 TTCTTTATTTACTTA-GAGATGTT
*
28147045 TTC-TTATTTAGTTAGAGATGTT
1 TTCTTTATTTACTTAGAGATGTT
28147067 TTC-TTATTTA
1 TTCTTTATTTA
28147077 GTTATGAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 3 0.10
22 23 0.79
23 3 0.10
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.59
Consensus pattern (23 bp):
TTCTTTATTTACTTAGAGATGTT
Found at i:28147077 original size:22 final size:22
Alignment explanation
Indices: 28147037--28147080 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
28147027 TTATTCTTAT
28147037 GAGATGTTTTCTTATTTAGTTA
1 GAGATGTTTTCTTATTTAGTTA
28147059 GAGATGTTTTCTTATTTAGTTA
1 GAGATGTTTTCTTATTTAGTTA
28147081 TGAACTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.18, T:0.55
Consensus pattern (22 bp):
GAGATGTTTTCTTATTTAGTTA
Found at i:28148172 original size:390 final size:391
Alignment explanation
Indices: 28147452--28148233 Score: 1096
Period size: 390 Copynumber: 2.0 Consensus size: 391
28147442 TTGAATAGGG
* * * *
28147452 ATAATAACATAACTTCGGGATCTCTATGGAACAAGTTGAATGAATAAATCGTCCGATTCGGAGCC
1 ATAATAACATAACTTAGGGATCTCTACGGAACAAGTTGAATGAATAAATCATCCGATTCAGAGCC
* *
28147517 AGAATAACAAGTAAAGTCTAGGTGGATTTTTCCTTAGGTATTGTCTTAAGTCAATCGATTTTTCC
66 AGAATAACAAGTAAAGTCTAGGTGGATTTTTCCTTACGTATTGTCTTAAGTCAATCGAGTTTTCC
* * * *
28147582 CAAAAGTAATTCCCCAATTATTTTCTCTGTGCGTTCTTAGTTTAGATAATTAGTTAATTAAAACA
131 AAAAAGTAATTCCCAAATTATTTTCTCTATGAGTTCTTAGTTTAGATAATTAGTTAATTAAAACA
* *
28147647 AAACCTCTCTATTCTTAGGCTAGTTAATAAAAAGACAGTTATTACTAGTACTTTTAGTTCCTTTG
196 AAACCTCTCTATTCTTAGGCTAGATAATAAAAAGAAAGTTATTACTAGTACTTTTAGTTCCTTTG
* * *
28147712 GGTTTGACAATCCGGTCTTGCTAAAACTATACTACTGTTCGATAGGTACACTTGCCTACATCACG
261 GGTTCGACAATCCGGTCTTACTAAAACTATACTACTATTCGATAGGTACACTTGCCTACATCACG
* *
28147777 ATAATAGTTAG-TTCAAGAACGAGTAATTATAAATATTTAAAACCTATCATGAA-ATCATGCGAT
326 ATAATAGCTAGTTTCAAGAACGAGTAATTATAAATATTTAAAACCTATCATGAATATCACGC-AT
28147840 CA
390 CA
* * *
28147842 ATAATAATATAACTTAGGGATCTCTACGGAACAAGTTGAATGAATAAATCATTCGATTCAGAGTC
1 ATAATAACATAACTTAGGGATCTCTACGGAACAAGTTGAATGAATAAATCATCCGATTCAGAGCC
* *
28147907 A-AATAACAAGTGAAGTCTAGGTGGATTTTTTCTTACGTATTGTCTTAA-TCAATCGAGTTTTCC
66 AGAATAACAAGTAAAGTCTAGGTGGATTTTTCCTTACGTATTGTCTTAAGTCAATCGAGTTTTCC
* * * *
28147970 AAAAAGTATTTTCCCTAAATT-TCTTT-TCTATGATTTCTTAGTTTAGTTAATTATTTAGA-T-A
131 AAAAAGTA-ATTCCC-AAATTAT-TTTCTCTATGAGTTCTTAGTTTAGATAATTAGTTA-ATTAA
* * *
28148031 AACAAAACCCTTTTTATTTTTTAGGCTAGATAATAAAAAGAAAGTTGA-TACTAGTACTTTTAGT
192 AACAAAA-CCTCTCTA-TTCTTAGGCTAGATAATAAAAAGAAAGTT-ATTACTAGTACTTTTAGT
* * *
28148095 TCCTTTGGGTTCGATAATCCGGTCTTACTAAAGCTATACTACTATTCGATAGGTACACTTGCCTT
254 TCCTTTGGGTTCGACAATCCGGTCTTACTAAAACTATACTACTATTCGATAGGTACACTTGCCTA
** * * *
28148160 CATCGTGATAATAGCTAGTTTCAAGAACGATTCATTATAAATATTTAAAACCTGTCATGAATATC
319 CATCACGATAATAGCTAGTTTCAAGAACGAGTAATTATAAATATTTAAAACCTATCATGAATATC
28148225 ACGCATCA
384 ACGCATCA
28148233 A
1 A
28148234 ATTTTTGGCG
Statistics
Matches: 346, Mismatches: 37, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
388 29 0.08
389 83 0.24
390 183 0.53
391 45 0.13
392 6 0.02
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (391 bp):
ATAATAACATAACTTAGGGATCTCTACGGAACAAGTTGAATGAATAAATCATCCGATTCAGAGCC
AGAATAACAAGTAAAGTCTAGGTGGATTTTTCCTTACGTATTGTCTTAAGTCAATCGAGTTTTCC
AAAAAGTAATTCCCAAATTATTTTCTCTATGAGTTCTTAGTTTAGATAATTAGTTAATTAAAACA
AAACCTCTCTATTCTTAGGCTAGATAATAAAAAGAAAGTTATTACTAGTACTTTTAGTTCCTTTG
GGTTCGACAATCCGGTCTTACTAAAACTATACTACTATTCGATAGGTACACTTGCCTACATCACG
ATAATAGCTAGTTTCAAGAACGAGTAATTATAAATATTTAAAACCTATCATGAATATCACGCATC
A
Found at i:28167739 original size:19 final size:19
Alignment explanation
Indices: 28167703--28167739 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
28167693 AGATTGTTTA
**
28167703 CAATTTTAAAGCCTAAATT
1 CAATTTTAAAGCAGAAATT
28167722 CAATTTTAAAGCAGAAAT
1 CAATTTTAAAGCAGAAAT
28167740 CACTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (19 bp):
CAATTTTAAAGCAGAAATT
Found at i:28177830 original size:43 final size:43
Alignment explanation
Indices: 28177766--28177894 Score: 136
Period size: 46 Copynumber: 2.9 Consensus size: 43
28177756 CTTTTATTCA
* * *
28177766 TTCACCGGTATT-TCGCCTGCTAGGCTCGAGGCCCGATATCAT-
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGA-ATAATG
28177808 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAATG
1 TTCACCGGCATTATAGCCTGCTAGGCTCG--AGGCCCGAATAATG
* * * *
28177853 TCTCACCGGCATAATAGTCTGTTAGGCTCAAAGGCCCGAATA
1 T-TCACCGGCATTATAGCCTGCTAGGCTC-GAGGCCCGAATA
28177895 TAATACCAGC
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
42 11 0.15
43 15 0.20
44 4 0.05
45 20 0.27
46 24 0.32
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGAATAATG
Found at i:28177879 original size:46 final size:44
Alignment explanation
Indices: 28177780--28177894 Score: 146
Period size: 46 Copynumber: 2.6 Consensus size: 44
28177770 CCGGTATTTC
* *
28177780 GCCTGCTAGGCTCG--AGGCCCGATATCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAAGGCCCGA-ATAATTTCACCGGCATAATA
28177823 GCCTGCTAGGCTCGAAAGGCCCGAATAATGTCTCACCGGCATAATA
1 GCCTGCTAGGCTCGAAAGGCCCGAATAAT-T-TCACCGGCATAATA
* *
28177869 GTCTGTTAGGCTC-AAAGGCCCGAATA
1 GCCTGCTAGGCTCGAAAGGCCCGAATA
28177895 TAATACCAGC
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
43 14 0.22
44 4 0.06
45 22 0.34
46 24 0.38
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (44 bp):
GCCTGCTAGGCTCGAAAGGCCCGAATAATTTCACCGGCATAATA
Found at i:28177944 original size:38 final size:38
Alignment explanation
Indices: 28177887--28178047 Score: 268
Period size: 38 Copynumber: 4.2 Consensus size: 38
28177877 GGCTCAAAGG
* * *
28177887 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
28177925 CCCGGATATAATACTAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
28177963 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
28178001 CTCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
28178039 CCCGGATAT
1 CCCGGATAT
28178048 CATATTTCGA
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 114 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:28195630 original size:19 final size:19
Alignment explanation
Indices: 28195594--28195630 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
28195584 AGATTGTTTA
**
28195594 CAATTTTAAAGCCTAAATT
1 CAATTTTAAAGCAGAAATT
28195613 CAATTTTAAAGCAGAAAT
1 CAATTTTAAAGCAGAAAT
28195631 CACTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (19 bp):
CAATTTTAAAGCAGAAATT
Found at i:28205728 original size:43 final size:43
Alignment explanation
Indices: 28205664--28205792 Score: 136
Period size: 46 Copynumber: 2.9 Consensus size: 43
28205654 CTTTTATTCA
* * *
28205664 TTCACCGGTATT-TCGCCTGCTAGGCTCGAGGCCCGATATCAT-
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGA-ATAATG
28205706 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAATG
1 TTCACCGGCATTATAGCCTGCTAGGCTCG--AGGCCCGAATAATG
* * * *
28205751 TCTCACCGGCATAATAGTCTGTTAGGCTCAAAGGCCCGAATA
1 T-TCACCGGCATTATAGCCTGCTAGGCTC-GAGGCCCGAATA
28205793 TAATACCAGC
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
42 11 0.15
43 15 0.20
44 4 0.05
45 20 0.27
46 24 0.32
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGAATAATG
Found at i:28205777 original size:46 final size:44
Alignment explanation
Indices: 28205678--28205792 Score: 146
Period size: 46 Copynumber: 2.6 Consensus size: 44
28205668 CCGGTATTTC
* *
28205678 GCCTGCTAGGCTCG--AGGCCCGATATCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAAGGCCCGA-ATAATTTCACCGGCATAATA
28205721 GCCTGCTAGGCTCGAAAGGCCCGAATAATGTCTCACCGGCATAATA
1 GCCTGCTAGGCTCGAAAGGCCCGAATAAT-T-TCACCGGCATAATA
* *
28205767 GTCTGTTAGGCTC-AAAGGCCCGAATA
1 GCCTGCTAGGCTCGAAAGGCCCGAATA
28205793 TAATACCAGC
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
43 14 0.22
44 4 0.06
45 22 0.34
46 24 0.38
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (44 bp):
GCCTGCTAGGCTCGAAAGGCCCGAATAATTTCACCGGCATAATA
Found at i:28205842 original size:38 final size:38
Alignment explanation
Indices: 28205785--28205945 Score: 268
Period size: 38 Copynumber: 4.2 Consensus size: 38
28205775 GGCTCAAAGG
* * *
28205785 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
28205823 CCCGGATATAATACTAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
28205861 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
28205899 CTCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
28205937 CCCGGATAT
1 CCCGGATAT
28205946 CATATTTCGA
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 114 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:28209954 original size:18 final size:17
Alignment explanation
Indices: 28209914--28209956 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
28209904 CACTTTTTCA
*
28209914 ATCATCCCTCATCCCTC
1 ATCATCCCTCATCACTC
*
28209931 ATTCATCCCTCACTCATTC
1 A-TCATCCCTCA-TCACTC
28209950 ATCATCC
1 ATCATCC
28209957 TCGCCTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 16 0.73
19 5 0.23
ACGTcount: A:0.21, C:0.47, G:0.00, T:0.33
Consensus pattern (17 bp):
ATCATCCCTCATCACTC
Found at i:28215893 original size:30 final size:30
Alignment explanation
Indices: 28215858--28215914 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
28215848 AAGACAAATT
28215858 CCACACAGGCT-GAGCACACGCCCATGTGAG
1 CCACACAGGCTGGA-CACACGCCCATGTGAG
*
28215888 CCACACGGGCTGGACACACGCCCATGT
1 CCACACAGGCTGGACACACGCCCATGT
28215915 TGCAGCCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.25, C:0.39, G:0.26, T:0.11
Consensus pattern (30 bp):
CCACACAGGCTGGACACACGCCCATGTGAG
Found at i:28216657 original size:20 final size:20
Alignment explanation
Indices: 28216632--28216671 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
28216622 AAATTCAGAA
28216632 TAATAAGTGAAGTCTAGGTG
1 TAATAAGTGAAGTCTAGGTG
28216652 TAATAAGTGAAGTCTAGGTG
1 TAATAAGTGAAGTCTAGGTG
28216672 GATTCTATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (20 bp):
TAATAAGTGAAGTCTAGGTG
Found at i:28219579 original size:38 final size:37
Alignment explanation
Indices: 28219527--28219601 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 37
28219517 ATCTCAACAT
28219527 ATACTGGCCGAAGCCTTTTCATATTTCATATTTCATA
1 ATACTGGCCGAAGCCTTTTCATATTTCATATTTCATA
*
28219564 ATACTGGGTCGAAGCCTTTTCATATTTCATATTTCATA
1 ATACT-GGCCGAAGCCTTTTCATATTTCATATTTCATA
28219602 TTTCATATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 5 0.14
38 31 0.86
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (37 bp):
ATACTGGCCGAAGCCTTTTCATATTTCATATTTCATA
Found at i:28219593 original size:7 final size:7
Alignment explanation
Indices: 28219581--28219610 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
28219571 GTCGAAGCCT
28219581 TTTCATA
1 TTTCATA
28219588 TTTCATA
1 TTTCATA
28219595 TTTCATA
1 TTTCATA
28219602 TTTCATA
1 TTTCATA
28219609 TT
1 TT
28219611 ACTGGGTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTCATA
Found at i:28219871 original size:26 final size:25
Alignment explanation
Indices: 28219842--28219926 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 25
28219832 AGAGGCCTTG
28219842 CCTTTTTTAATAACTGGGGCATAAGC
1 CCTTTTTT-ATAACTGGGGCATAAGC
*
28219868 CCTTTTCGGTA-AACTGGGGCATAAGC
1 CCTTTT--TTATAACTGGGGCATAAGC
*
28219894 CCTTTTTCGGTA-AACTAGGGCATAAG-
1 CCTTTTT---TATAACTGGGGCATAAGC
28219920 CCTTTTT
1 CCTTTTT
28219927 GCACTTCATC
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
26 34 0.67
27 16 0.31
28 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (25 bp):
CCTTTTTTATAACTGGGGCATAAGC
Found at i:28219908 original size:27 final size:27
Alignment explanation
Indices: 28219853--28219926 Score: 125
Period size: 26 Copynumber: 2.8 Consensus size: 27
28219843 CTTTTTTAAT
28219853 AACTGGGGCATAAGCCC-TTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTTCGGTA
28219879 AACTGGGGCATAAGCCCTTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTTCGGTA
*
28219906 AACTAGGGCATAAG-CCTTTTT
1 AACTGGGGCATAAGCCCTTTTT
28219927 GCACTTCATC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 24 0.52
27 22 0.48
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (27 bp):
AACTGGGGCATAAGCCCTTTTTCGGTA
Found at i:28220035 original size:20 final size:20
Alignment explanation
Indices: 28219972--28220038 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
28219962 TTATGAATAC
*
28219972 ATCATGTTCATATCATACAT
1 ATCATGTGCATATCATACAT
*
28219992 AACATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
28220012 ATCATGTGCATGTCATATCA-
1 ATCATGTGCATATCATA-CAT
28220032 ATCATGT
1 ATCATGT
28220039 ATATCAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 40 0.95
21 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:28227682 original size:38 final size:37
Alignment explanation
Indices: 28227632--28227706 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 37
28227622 ATCTCAACAT
28227632 ATACTGGCCGAAGCCTTTTCATATTTCATATTTCATA
1 ATACTGGCCGAAGCCTTTTCATATTTCATATTTCATA
28227669 ATACTGGGCCGAAGCCTTTTCATATTTCATATTTCATA
1 ATACT-GGCCGAAGCCTTTTCATATTTCATATTTCATA
28227707 TTTCATATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 5 0.14
38 32 0.86
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (37 bp):
ATACTGGCCGAAGCCTTTTCATATTTCATATTTCATA
Found at i:28227698 original size:7 final size:7
Alignment explanation
Indices: 28227686--28227715 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
28227676 GCCGAAGCCT
28227686 TTTCATA
1 TTTCATA
28227693 TTTCATA
1 TTTCATA
28227700 TTTCATA
1 TTTCATA
28227707 TTTCATA
1 TTTCATA
28227714 TT
1 TT
28227716 ACTGGGCCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTCATA
Found at i:28227989 original size:26 final size:26
Alignment explanation
Indices: 28227959--28228032 Score: 103
Period size: 27 Copynumber: 2.8 Consensus size: 26
28227949 TCTTTTTAAT
*
28227959 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
28227985 AACTGGGGCATAAGCCCTTTTTCAGTA
1 AACTGGGGCATAAGCCC-TTTTCAGTA
* * *
28228012 ACCTAGGGCATAAGCGCTTTT
1 AACTGGGGCATAAGCCCTTTT
28228033 TCACTTCCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 21 0.49
27 22 0.51
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:28228145 original size:20 final size:20
Alignment explanation
Indices: 28228082--28228148 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
28228072 TTATGAATAC
28228082 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
28228102 AACATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
28228122 ATCATGTGCATGTCATATCA-
1 ATCATGTGCATATCATA-CAT
28228142 ATCATGT
1 ATCATGT
28228149 ATATCAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:28232333 original size:29 final size:29
Alignment explanation
Indices: 28232291--28232348 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
28232281 ACCAATGTGA
28232291 AAAATTATTTTTGGGAGGATCATTTTCTT
1 AAAATTATTTTTGGGAGGATCATTTTCTT
28232320 AAAATTATTTTTGGGAGGATCATTTTCTT
1 AAAATTATTTTTGGGAGGATCATTTTCTT
28232349 TTTCGTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (29 bp):
AAAATTATTTTTGGGAGGATCATTTTCTT
Found at i:28234128 original size:86 final size:86
Alignment explanation
Indices: 28233983--28234156 Score: 233
Period size: 86 Copynumber: 2.0 Consensus size: 86
28233973 ACACACAGAC
* * *
28233983 GTGTCCTAGGTCGTGTGAAAACTGAAGCTAAATTCCTAACTTTTAAACAAGTAAAAGAGCTCCAC
1 GTGTCCAAGGCCGTGTGAAAACTGAAGCTAAATTCCTAAATTTTAAACAAGTAAAAGAGCTCCAC
* *
28234048 GGCCGAGGCACATGGCCATGT
66 GGCCGAAGCACATGACCATGT
* * * * *
28234069 GTGTCCAAGGCCGTGTGAAAATTGAAGTTAAATT-TTCAAATTTTAAACAAGTCAGAGAGCTCCA
1 GTGTCCAAGGCCGTGTGAAAACTGAAGCTAAATTCCT-AAATTTTAAACAAGTAAAAGAGCTCCA
*
28234133 CGGGCGAAGCACATGACCATGT
65 CGGCCGAAGCACATGACCATGT
28234155 GT
1 GT
28234157 TCAGACACAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
85 1 0.01
86 75 0.99
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (86 bp):
GTGTCCAAGGCCGTGTGAAAACTGAAGCTAAATTCCTAAATTTTAAACAAGTAAAAGAGCTCCAC
GGCCGAAGCACATGACCATGT
Found at i:28234544 original size:15 final size:15
Alignment explanation
Indices: 28234520--28234553 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
28234510 ATCCTCTCTT
28234520 TTCTTCTCTTTTCTC
1 TTCTTCTCTTTTCTC
*
28234535 TTCTTTTCTTTTCTC
1 TTCTTCTCTTTTCTC
28234550 TTCT
1 TTCT
28234554 CTCCCATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTCTTCTCTTTTCTC
Found at i:28234879 original size:23 final size:22
Alignment explanation
Indices: 28234849--28234891 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
28234839 TTTTCCCTTT
28234849 TCTTTTA-TTCATTTATTATTAC
1 TCTTTTATTTC-TTTATTATTAC
28234871 TCTTATTATTTCTTTATTATT
1 TCTT-TTATTTCTTTATTATT
28234892 TTATTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 12 0.63
24 3 0.16
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (22 bp):
TCTTTTATTTCTTTATTATTAC
Found at i:28236577 original size:6 final size:6
Alignment explanation
Indices: 28236566--28236653 Score: 97
Period size: 6 Copynumber: 14.7 Consensus size: 6
28236556 TTGAGTCCAA
* * * *
28236566 TTATTT TTATTT TTATAT TTATGT TTATGT TTATTT TTATTT TTA-TC
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
* * *
28236613 TTATATT TTATTT TTATTT TGAGTT TTATTT TTCTTT TTAT
1 TTAT-TT TTATTT TTATTT TTATTT TTATTT TTATTT TTAT
28236654 GTCTATTTTG
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
5 4 0.06
6 60 0.87
7 5 0.07
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:28258046 original size:40 final size:40
Alignment explanation
Indices: 28257956--28258179 Score: 285
Period size: 40 Copynumber: 5.6 Consensus size: 40
28257946 TCGAATGATG
* * * *
28257956 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
28257996 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
28258036 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28258075 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28258115 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
28258156 -CCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTT
28258180 CAACTAGTAG
Statistics
Matches: 162, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28258198 original size:80 final size:79
Alignment explanation
Indices: 28257963--28258213 Score: 206
Period size: 79 Copynumber: 3.2 Consensus size: 79
28257953 ATGTCCGGGC
* * * * * * ***
28257963 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCATTTCAACG
* * * *
28258026 AGATACTAATTCTGGGC
64 AGTTACTAAATC-CGGT
* ***
28258043 TAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTCAACGAG
28258107 TTACTAAATCCGGGT
66 TTACTAAATCC-GGT
* * *
28258122 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTCAACTA
1 TAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTCAACGA
*
28258186 G-TAGCTATATCCGGT
65 GTTA-CTAAATCCGGT
* *
28258201 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
28258214 TACGTGATTT
Statistics
Matches: 144, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 74 0.51
80 67 0.47
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTCAACGAG
TTACTAAATCCGGT
Found at i:28258202 original size:119 final size:119
Alignment explanation
Indices: 28257956--28258213 Score: 265
Period size: 119 Copynumber: 2.2 Consensus size: 119
28257946 TCGAATGATG
* *
28257956 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * ***
28258021 GTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGCAACGAGTTACTAAA
* * * **
28258075 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
28258138 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTCAACTAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGCAACGAGTTA-CTAAA
* *
28258195 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
28258214 TACGTGATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.72
120 29 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGCAACGAGTTACTAAA
Found at i:28266273 original size:79 final size:80
Alignment explanation
Indices: 28266140--28266360 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 80
28266130 AATGATGTCT
* * * * * *
28266140 GGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTG
*
28266202 TGCGAGATACTAATTCC
64 TGCGAGATACTAAATCC
*
28266219 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGT
*
28266282 GCGAGTTACTAAATCC
65 GCGAGATACTAAATCC
* * *
28266298 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
28266361 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.53
80 54 0.44
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGATACTAAATCC
Found at i:28266367 original size:80 final size:78
Alignment explanation
Indices: 28266175--28266383 Score: 262
Period size: 80 Copynumber: 2.6 Consensus size: 78
28266165 AAGTGACCAT
* * *
28266175 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGCCCGAAGGCATT
28266239 GGTGCGAGTTACTAA
64 GGTGCGAGTTACTAA
*
28266254 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAG-CCCGAAGGCATT
*
28266319 TGTGCGAGTTACTATA
64 GGTGCGAGTTACTA-A
* ** *
28266335 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAATCCGGGTTAA
28266384 ATTCCAAAGG
Statistics
Matches: 115, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 53 0.46
80 59 0.51
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAATCCGGGTTAAGCCCGAAGGCATTGG
TGCGAGTTACTAA
Found at i:28266374 original size:40 final size:40
Alignment explanation
Indices: 28266140--28266360 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
28266130 AATGATGTCT
* * * *
28266140 GGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * *
28266179 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
28266219 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
28266258 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
28266298 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
28266338 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
28266361 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 41 0.25
40 112 0.69
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:28282428 original size:47 final size:49
Alignment explanation
Indices: 28282321--28282451 Score: 146
Period size: 47 Copynumber: 2.8 Consensus size: 49
28282311 TGGGTAAGGT
**
28282321 GTCGATGCCATGTCCCAGACATGGTCTTACACTAAC-TATCATCTAGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCATCTAGTA
* * * *
28282369 GTCGATG-GATGTCCCAGACAT-GTCATACACTGGCTTA-CGTCTCG-A
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCATCTAGTA
* *
28282414 GGTCGATGCCATGTCCAAGACATGGTCTTTCACTGGCT
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
28282452 CTCATAATGT
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
45 1 0.01
46 22 0.32
47 27 0.39
48 19 0.28
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCATCTAGTA
Found at i:28299557 original size:47 final size:47
Alignment explanation
Indices: 28299488--28299716 Score: 229
Period size: 47 Copynumber: 4.9 Consensus size: 47
28299478 TGGGTAAGGT
*
28299488 GTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCAT-ATCTCAA
1 GTCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* **
28299535 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTTGTA
1 GTCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCATCATC-TCAA
* * * *
28299583 GCCGATGCATGTCCCAGACAT-GTCTTATACTGGCTTA-CTTCTCAA
1 GTCGATGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* * * *
28299628 GGCCGATGCATGTCCCATACAT-GTCTTACACTAGCTC-TCGTCTCAA
1 -GTCGATGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* *
28299674 TTCTTATGTCATGTCCCAGACATGGTCTTACACTGGCTC-TCAT
1 GTC-GATG-CATGTCCCAGACATGGTCTTACACTGGCTCATCAT
28299717 AATGTGGCCG
Statistics
Matches: 153, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
45 3 0.02
46 59 0.39
47 66 0.43
48 25 0.16
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (47 bp):
GTCGATGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
Found at i:28299734 original size:47 final size:46
Alignment explanation
Indices: 28299490--28299758 Score: 164
Period size: 47 Copynumber: 5.8 Consensus size: 46
28299480 GGTAAGGTGT
* *
28299490 CGATGCCATGTCCTAGACATGGTCTTACACTGG--CTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCATAAT-T--AGC
* * **
28299537 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTTGTAGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCATAAT-TAGC
* *
28299585 CGATG-CATGTCCCAGACATGTCTTATACTGGCTTACTTC-TCAA--GGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGC-T-C-TCAT-AATTAGC
* * *
28299631 CGATG-CATGTCCCATACATGTCTTACACTAGCTCTCGTCTCAATT--C
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTCTC--AT-AATTAGC
** * *
28299677 TTATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCATAAT-TAGC
* * *
28299725 CGATG-CATGTCCTAGAAATGTCTTACACTAGCTC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTC
28299759 ACAAACAAAT
Statistics
Matches: 180, Mismatches: 25, Indels: 35
0.75 0.10 0.15
Matches are distributed among these distances:
43 2 0.01
44 1 0.01
45 4 0.02
46 66 0.37
47 71 0.39
48 28 0.16
49 6 0.03
50 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATAATTAGC
Found at i:28299748 original size:140 final size:141
Alignment explanation
Indices: 28299490--28299749 Score: 355
Period size: 140 Copynumber: 1.9 Consensus size: 141
28299480 GGTAAGGTGT
* *
28299490 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGAC
** *
28299555 ATGGTCTTACACTGACTATCATCTTGTAGCCGATGCATGTCCCAGACATGTCTTATACTGGCTTA
66 ATGGTCTTACACTGACTATCATAATGTAGCCGATGCATGTCCCAGAAATGTCTTATACTGGCTTA
28299620 CTTCTCAAGGC
131 CTTCTCAAGGC
* * * * *
28299631 CGATG-CATGTCCCATACAT-GTCTTACACTAGCTC-TCGTCTCAATTCTTATGTCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAAGTC-GATGCCATGTCCCAG
* * * *
28299693 ACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCTAGAAATGTCTTA
64 ACATGGTCTTACACTGACTATCATAATGTAGCCGATGCATGTCCCAGAAATGTCTTA
28299750 CACTAGCTCA
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
138 1 0.01
139 22 0.21
140 75 0.73
141 5 0.05
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (141 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTGACTATCATAATGTAGCCGATGCATGTCCCAGAAATGTCTTATACTGGCTTA
CTTCTCAAGGC
Found at i:28306436 original size:44 final size:44
Alignment explanation
Indices: 28306384--28306541 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 44
28306374 TGTGTTATCC
28306384 TGTAAGACCACGTCTAGGACGTTGGCATCGACTTAT-GTTTTACG
1 TGTAAGACCACGTCTAGGACGTTGGCATCGA-TTATCGTTTTACG
* * *
28306428 TGTAAGACCATGTCTGGGACATTGGCATCG-TTAATCGATTTT--G
1 TGTAAGACCACGTCTAGGACGTTGGCATCGATT-ATCG-TTTTACG
* * *
28306471 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATGT-TCG-ATTACA
1 TGTAAGACCAC-GTCTAGGAC-GTTGGCATCGAT-TATCGTTTTACG
28306514 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACGTTGGCAT
28306542 TGTATTTACT
Statistics
Matches: 95, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 55 0.58
44 30 0.32
45 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (44 bp):
TGTAAGACCACGTCTAGGACGTTGGCATCGATTATCGTTTTACG
Found at i:28308143 original size:27 final size:27
Alignment explanation
Indices: 28308083--28308135 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
28308073 ACGGTCATTT
* *
28308083 TACCCTACAAGGGTATTTCGGTAATCC
1 TACCCTACAGGGGTATTTCAGTAATCC
28308110 TACCCTACAGGGGTATTTCAGTAATC
1 TACCCTACAGGGGTATTTCAGTAATC
28308136 TTGTCCTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCAGTAATCC
Found at i:28308151 original size:27 final size:27
Alignment explanation
Indices: 28308083--28308161 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
28308073 ACGGTCATTT
*
28308083 TACCCTACA-AGGGTATTTCGGTAATCC
1 TACCCTACAGA-GGTATTTCAGTAATCC
* *
28308110 TACCCTACAGGGGTATTTCAGTAATCT
1 TACCCTACAGAGGTATTTCAGTAATCC
** * *
28308137 TGTCCTATAGAGGTATTTCAATAAT
1 TACCCTACAGAGGTATTTCAGTAAT
28308162 TTCACAAGTC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (27 bp):
TACCCTACAGAGGTATTTCAGTAATCC
Found at i:28309110 original size:47 final size:46
Alignment explanation
Indices: 28309008--28309186 Score: 250
Period size: 46 Copynumber: 3.9 Consensus size: 46
28308998 TTATCTTCGA
* * * ** * *
28309008 CATGATGCCATAGTATCTTTCAACTATGGTCTTGCTCGTTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
28309054 CATGTTGCCATGGTATCTTTCAACCATGGACTTATTCATTTCCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT-CCTGT
*
28309101 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* *
28309147 CACGGTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
28309187 GTATGTTTCA
Statistics
Matches: 120, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 76 0.63
47 44 0.37
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
Found at i:28309172 original size:93 final size:93
Alignment explanation
Indices: 28309008--28309186 Score: 261
Period size: 93 Copynumber: 1.9 Consensus size: 93
28308998 TTATCTTCGA
* * * * *
28309008 CATGATGCCATAGTATCTTTCAACTATGGTCTTGCTCGTTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCGATTTCTGTCACGGTGCCATGGTATCTT
28309073 TCAACCATGGACTTATTCATTTCCCTGT
66 TCAACCATGGACTTATTCATTTCCCTGT
* * *
28309101 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-ATTTCATGTCACGGTGCCATGGTATCT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCGATTTC-TGTCACGGTGCCATGGTATCT
*
28309165 TTCAACCATGGTCTTATTCATT
65 TTCAACCATGGACTTATTCATT
28309187 GTATGTTTCA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
92 4 0.05
93 72 0.95
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.41
Consensus pattern (93 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCGATTTCTGTCACGGTGCCATGGTATCTT
TCAACCATGGACTTATTCATTTCCCTGT
Found at i:28309220 original size:28 final size:28
Alignment explanation
Indices: 28309159--28309214 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
28309149 CGGTGCCATG
* *
28309159 GTATCTTTCAACCATGGTCTTATTCATT
1 GTATGTTTCAACCATGGTCTTACTCATT
28309187 GTATGTTTCAACCATGGTCTTACTCATT
1 GTATGTTTCAACCATGGTCTTACTCATT
28309215 TCATGTCACG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (28 bp):
GTATGTTTCAACCATGGTCTTACTCATT
Found at i:28309239 original size:74 final size:74
Alignment explanation
Indices: 28309113--28309254 Score: 257
Period size: 74 Copynumber: 1.9 Consensus size: 74
28309103 TGTTGCCATG
*
28309113 GTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGGTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGGTGCCATGGTATCTTTCAACCATGGTC
28309178 TTATTCATT
66 TTATTCATT
* *
28309187 GTATGTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGGTGCCATGGTATCTTTCAACCATGGTC
28309252 TTA
66 TTA
28309255 CACATTTCAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.41
Consensus pattern (74 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGGTGCCATGGTATCTTTCAACCATGGTC
TTATTCATT
Found at i:28309244 original size:46 final size:46
Alignment explanation
Indices: 28309187--28309402 Score: 371
Period size: 46 Copynumber: 4.7 Consensus size: 46
28309177 CTTATTCATT
* * * *
28309187 GTATGTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
28309233 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
28309279 GTATCTTTCAACCATGGTCTTACACATTTTC-TATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATG
28309325 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
*
28309371 GTATCTTTCAACCATGGTTTTACACATTTCAT
1 GTATCTTTCAACCATGGTCTTACACATTTCAT
28309403 TTCAAAAAGC
Statistics
Matches: 163, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
45 4 0.02
46 155 0.95
47 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
Found at i:28309285 original size:120 final size:121
Alignment explanation
Indices: 28309066--28309300 Score: 373
Period size: 120 Copynumber: 2.0 Consensus size: 121
28309056 TGTTGCCATG
* * *
28309066 GTATCTTTCAACCATGGACTTATTCATTTCCCTGTCATGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGACTTACTCATTTCCATGTCACGTTGCCATGGTATCTTTCAACCATGGT
** *
28309131 CTTATTCATTTCATGTCACGGTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
66 CTTACACATTTCATATCACGGTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
* *
28309187 GTATGTTTCAACCATGGTCTTACTCATTT-CATGTCACGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGACTTACTCATTTCCATGTCACGTTGCCATGGTATCTTTCAACCATGGT
* *
28309251 CTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
66 CTTACACATTTCATATCACGGTGCCATGGTATCTTTCAACCATGGTCTTA
28309301 CACATTTTCT
Statistics
Matches: 104, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
120 78 0.75
121 26 0.25
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (121 bp):
GTATCTTTCAACCATGGACTTACTCATTTCCATGTCACGTTGCCATGGTATCTTTCAACCATGGT
CTTACACATTTCATATCACGGTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
Found at i:28309324 original size:166 final size:167
Alignment explanation
Indices: 28309020--28309346 Score: 480
Period size: 166 Copynumber: 2.0 Consensus size: 167
28309010 TGATGCCATA
* * * *
28309020 GTATCTTTCAACTATGGTCTTGCTCGTTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGAC
1 GTATCTTTCAACCATGGTCTTACTCGATTTCTGTCACGTTGCCATGGTATCTTTCAACCATGGAC
** * * ** *
28309085 TTATTCATTTCCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCAC
66 TTACACATTTCCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
28309150 GGTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
131 GGTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
* *
28309187 GTATGTTTCAACCATGGTCTTACTC-ATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACTCGATTTC-TGTCACGTTGCCATGGTATCTTTCAACCATGGA
28309251 CTTACACATTT-CATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATC
65 CTTACACATTTCCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATC
* *
28309314 ATGTTGCCATGGTATCTTTCAACCATGGTCTTA
129 ACGGTGCCATGGTATCTTTCAACCATGGTCTTA
28309347 CACATTTCAT
Statistics
Matches: 143, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
166 77 0.54
167 66 0.46
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (167 bp):
GTATCTTTCAACCATGGTCTTACTCGATTTCTGTCACGTTGCCATGGTATCTTTCAACCATGGAC
TTACACATTTCCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
GGTGCCATGGTATCTTTCAACCATGGTCTTATTCATT
Found at i:28312089 original size:27 final size:27
Alignment explanation
Indices: 28312047--28312234 Score: 214
Period size: 27 Copynumber: 7.0 Consensus size: 27
28312037 TGGGATATTA
*
28312047 CAGGGTTATTTCGGTAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
*
28312074 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* ** *
28312101 CGGGGGTATTTCAATAATTTTGCAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* * *
28312128 CAAGGGTATTTTGGTAATTTTAAAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
** * **
28312155 CAGGGGTATTTCATTAATTTCACATGT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* *
28312182 CAGGGGTATTTCAGTAATTTTACACAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* *
28312209 CGGGGGTATTTCGATAATTTTACAAA
1 CAGGGGTATTTCGGTAATTTTACAAA
28312235 CTGGGGTCTT
Statistics
Matches: 131, Mismatches: 30, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTCGGTAATTTTACAAAT
Found at i:28312112 original size:54 final size:54
Alignment explanation
Indices: 28312061--28312234 Score: 240
Period size: 54 Copynumber: 3.2 Consensus size: 54
28312051 GTTATTTCGG
28312061 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCGGGGGTATTTCAA
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCGGGGGTATTTCAA
* * * * *
28312115 TAATTTTGCAAATCAAGGGTATTTTGGTAATTTTAAAAATCAGGGGTATTTCAT
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCGGGGGTATTTCAA
* ** ** * *
28312169 TAATTTCACATGTCAGGGGTATTTCAGTAATTTTACACATCGGGGGTATTTCGA
1 TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCGGGGGTATTTCAA
28312223 TAATTTTACAAA
1 TAATTTTACAAA
28312235 CTGGGGTCTT
Statistics
Matches: 100, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 100 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
TAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCGGGGGTATTTCAA
Found at i:28317859 original size:43 final size:43
Alignment explanation
Indices: 28317811--28317999 Score: 301
Period size: 43 Copynumber: 4.4 Consensus size: 43
28317801 ACATATCATT
* *
28317811 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
28317854 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
28317897 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
28317940 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCAAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
28317982 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
28318000 AAGATTTATC
Statistics
Matches: 138, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
41 15 0.11
42 2 0.01
43 121 0.88
ACGTcount: A:0.30, C:0.34, G:0.23, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:28324580 original size:17 final size:17
Alignment explanation
Indices: 28324558--28324591 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
28324548 GATAAGAATA
*
28324558 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
28324575 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
28324592 CATGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:28329299 original size:17 final size:17
Alignment explanation
Indices: 28329277--28329310 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
28329267 TAAGTTGATC
28329277 AATGTGTTACCCTCATA
1 AATGTGTTACCCTCATA
28329294 AATGTGTTACCCTCATA
1 AATGTGTTACCCTCATA
28329311 GAATATCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (17 bp):
AATGTGTTACCCTCATA
Found at i:28335288 original size:44 final size:44
Alignment explanation
Indices: 28335223--28335307 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
28335213 AACATGTGTA
28335223 ACATATATCATGAACTGAGACCACAACTCATGAGTTCAGATGTC
1 ACATATATCATGAACTGAGACCACAACTCATGAGTTCAGATGTC
*
28335267 ACATATATCATGAACTTAGACCACAACTCATGAGTTCAGAT
1 ACATATATCATGAACTGAGACCACAACTCATGAGTTCAGAT
28335308 CACATAGTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (44 bp):
ACATATATCATGAACTGAGACCACAACTCATGAGTTCAGATGTC
Found at i:28335311 original size:20 final size:20
Alignment explanation
Indices: 28335244--28335311 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
28335234 GAACTGAGAC
28335244 CACAACTCATGAGTTCAGATGT
1 CACAACTCATGAGTTCAGA--T
* * *
28335266 CACATATATCATGAACTT-AGAC
1 CACA-A-CTCATG-AGTTCAGAT
28335288 CACAACTCATGAGTTCAGAT
1 CACAACTCATGAGTTCAGAT
28335308 CACA
1 CACA
28335312 TAGTTCCTAG
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
19 3 0.08
20 12 0.33
21 1 0.03
22 8 0.22
23 1 0.03
24 8 0.22
25 3 0.08
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (20 bp):
CACAACTCATGAGTTCAGAT
Found at i:28338750 original size:13 final size:13
Alignment explanation
Indices: 28338732--28338756 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28338722 GTTTAATTAG
28338732 TTAATTAGTTTAC
1 TTAATTAGTTTAC
28338745 TTAATTAGTTTA
1 TTAATTAGTTTA
28338757 ATAAACAACC
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:0.04, G:0.08, T:0.56
Consensus pattern (13 bp):
TTAATTAGTTTAC
Found at i:28344121 original size:6 final size:6
Alignment explanation
Indices: 28344110--28344155 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
28344100 TCCTCCTATC
* * *
28344110 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA -TTTCA ATTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
28344156 TTCTTTTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
5 5 0.14
6 31 0.86
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:28344133 original size:18 final size:17
Alignment explanation
Indices: 28344110--28344155 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
28344100 TCCTCCTATC
*
28344110 TTTTTATTTTTATTTTTA
1 TTTTTATTTTTA-TTTCA
*
28344128 TTTTTATTTTCATTTCA
1 TTTTTATTTTTATTTCA
*
28344145 ATTTTATTTTT
1 TTTTTATTTTT
28344156 TTCTTTTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTATTTCA
Found at i:28347069 original size:13 final size:13
Alignment explanation
Indices: 28347051--28347079 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
28347041 TTTAGTTTAA
28347051 TTAGTTAATTAGT
1 TTAGTTAATTAGT
28347064 TTAGTTAATTAGT
1 TTAGTTAATTAGT
28347077 TTA
1 TTA
28347080 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:28347392 original size:48 final size:48
Alignment explanation
Indices: 28347285--28347646 Score: 311
Period size: 48 Copynumber: 7.6 Consensus size: 48
28347275 CACGCGATCA
* * * ** *
28347285 CCATGTCCCAGACATGGTATTACACTGGCTCACATGTC-A--CCAATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTCAATG
* * **
28347330 CCATGTCCCAGACATGGTCTTACACTAGTTCTCGTCTCAATGTCAATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTCAATG
* *
28347378 CCATGTCCCAGACATGGTCTTACTCTAGCTCTCATAACATTGTCAATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTCAATG
* * * * * * *
28347426 CCATGTTCCAAACATGGTCTTACACTGGCTCTCAAAACATTATCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTCAATG
* * * * * *
28347474 TCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTG-CTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTC-AATG
** * * * *
28347522 CCATGTTTCAAACATGGTCTTACACTGGCTCTCATAACATTGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTCAATG
* * * * ** * *
28347570 CCATATTCCAAACATGGTCTTACACTGGCTCTCATAA-TGTGGACGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAAT-GTCAATG
*
28347618 CCATGTCCCAAACATGGTCTTACACTAGC
1 CCATGTCCCAGACATGGTCTTACACTAGC
28347647 ACACATATCA
Statistics
Matches: 278, Mismatches: 33, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
45 32 0.12
46 1 0.00
47 2 0.01
48 242 0.87
49 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTCAATG
Found at i:28347446 original size:96 final size:95
Alignment explanation
Indices: 28347285--28347646 Score: 395
Period size: 96 Copynumber: 3.8 Consensus size: 95
28347275 CACGCGATCA
* * * * ** * *
28347285 CCATGTCCCAGACATGGTATTACACTGGCTCACATGTCA--CCAATGCCATGTCCCAGACATGGT
1 CCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCAATGCCATGTCCCAAACATGGT
* * ** * *
28347348 CTTACACTAGTTCTCGTCTCAATGTCAATG
66 CTTACACTAGCTCTCATAACATTGTCGATG
* * * * *
28347378 CCATGTCCCAGACATGGTCTTACTCTAGCTCTCATAACATTGTCAATGCCATGTTCCAAACATGG
1 CCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTG-CAATGCCATGTCCCAAACATGG
* * *
28347443 TCTTACACTGGCTCTCAAAACATTATCGATG
65 TCTTACACTAGCTCTCATAACATTGTCGATG
* * **
28347474 TCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCTGATGCCATGTTTCAAACATGG
1 CCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGC-AATGCCATGTCCCAAACATGG
*
28347539 TCTTACACTGGCTCTCATAACATTGTCGATG
65 TCTTACACTAGCTCTCATAACATTGTCGATG
* ** * *
28347570 CCATATTCCAAACATGGTCTTACACTGGCTCTCATAATGTGGACGATGCCATGTCCCAAACATGG
1 CCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTG-CAATGCCATGTCCCAAACATGG
28347635 TCTTACACTAGC
65 TCTTACACTAGC
28347647 ACACATATCA
Statistics
Matches: 229, Mismatches: 35, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
93 33 0.14
95 1 0.00
96 194 0.85
97 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (95 bp):
CCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCAATGCCATGTCCCAAACATGGT
CTTACACTAGCTCTCATAACATTGTCGATG
Found at i:28347542 original size:144 final size:144
Alignment explanation
Indices: 28347327--28347643 Score: 413
Period size: 144 Copynumber: 2.2 Consensus size: 144
28347317 CATGTCACCA
* * * * ** * * *
28347327 ATGCCATGTCCCAGACATGGTCTTACACTAGTTCTCGTCTCAATG-TCAATGCCATGTCCCAGAC
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTGCT-GATGCCATGTCCCAAAC
* *
28347391 ATGGTCTTACTCTAGCTCTCATAACATTGTCAATGCCATGTTCCAAACATGGTCTTACACTGGCT
65 ATGGTCTTACACTAGCTCTCATAACATTGTCAATGCCATATTCCAAACATGGTCTTACACTGGCT
*
28347456 CTCAAAACAT-TATCG
130 CTCAAAACATGGA-CG
* * **
28347471 ATGTCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCTGATGCCATGTTTCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTGCTGATGCCATGTCCCAAACA
* *
28347536 TGGTCTTACACTGGCTCTCATAACATTGTCGATGCCATATTCCAAACATGGTCTTACACTGGCTC
66 TGGTCTTACACTAGCTCTCATAACATTGTCAATGCCATATTCCAAACATGGTCTTACACTGGCTC
* **
28347601 TCATAATGTGGACG
131 TCAAAACATGGACG
28347615 ATGCCATGTCCCAAACATGGTCTTACACT
1 ATGCCATGTCCCAAACATGGTCTTACACT
28347644 AGCACACATA
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
144 146 0.99
145 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (144 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTGCTGATGCCATGTCCCAAACA
TGGTCTTACACTAGCTCTCATAACATTGTCAATGCCATATTCCAAACATGGTCTTACACTGGCTC
TCAAAACATGGACG
Found at i:28355531 original size:20 final size:20
Alignment explanation
Indices: 28355465--28355532 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
28355455 ATCATGAACG
*
28355465 CAGACCACAACTCATGAGTT
1 CAGACCACAAATCATGAGTT
* * **
28355485 CAAATGTCACATATATCATGAACT
1 CAGA--CCACA-A-ATCATGAGTT
28355509 CAGACCACAAATCATGAGTT
1 CAGACCACAAATCATGAGTT
28355529 CAGA
1 CAGA
28355533 TCAAATGGTT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
20 15 0.43
21 1 0.03
22 8 0.23
23 1 0.03
24 10 0.29
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.22
Consensus pattern (20 bp):
CAGACCACAAATCATGAGTT
Found at i:28356245 original size:14 final size:15
Alignment explanation
Indices: 28356221--28356250 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
28356211 TAATATTAAA
28356221 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
28356236 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
28356250 A
1 A
28356251 AGTCAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:28356603 original size:13 final size:13
Alignment explanation
Indices: 28356585--28356623 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
28356575 CTCGGCAGGC
*
28356585 ACACGCCCTTGTG
1 ACACGCCCGTGTG
28356598 ACACGCCCGTGTG
1 ACACGCCCGTGTG
*
28356611 GCACGCCCGTGTG
1 ACACGCCCGTGTG
28356624 CAATTACTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.13, C:0.38, G:0.31, T:0.18
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:28380722 original size:21 final size:22
Alignment explanation
Indices: 28380693--28380741 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
28380683 GCCTAAATTT
*
28380693 TTTTCGCTATTATTTCG-TGTTA
1 TTTT-GCTACTATTTCGATGTTA
*
28380715 TTTTGCTACTATTTTGATGTTA
1 TTTTGCTACTATTTCGATGTTA
28380737 TTTTG
1 TTTTG
28380742 TTGTCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.14, C:0.10, G:0.14, T:0.61
Consensus pattern (22 bp):
TTTTGCTACTATTTCGATGTTA
Found at i:28383147 original size:6 final size:6
Alignment explanation
Indices: 28383117--28383146 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
28383107 TTTAAAGCTA
*
28383117 AAGCAG AAGCAG AAGCAG AAGCAG CAGCAG
1 AAGCAG AAGCAG AAGCAG AAGCAG AAGCAG
28383147 CCTAGCTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.20, G:0.33, T:0.00
Consensus pattern (6 bp):
AAGCAG
Found at i:28383334 original size:3 final size:3
Alignment explanation
Indices: 28383328--28383381 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
28383318 GTACTACTCT
28383328 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
28383376 TTA TTA
1 TTA TTA
28383382 CAGTCTGGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:28390225 original size:18 final size:19
Alignment explanation
Indices: 28390202--28390240 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
28390192 TCATAATATA
28390202 AATTTTGGAGAA-AATTTT
1 AATTTTGGAGAATAATTTT
* *
28390220 AATTTTGTATAATAATTTT
1 AATTTTGGAGAATAATTTT
28390239 AA
1 AA
28390241 AAAAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
AATTTTGGAGAATAATTTT
Found at i:28390429 original size:13 final size:13
Alignment explanation
Indices: 28390413--28390437 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28390403 TGGATAAATA
28390413 ATTAGAAATATTT
1 ATTAGAAATATTT
28390426 ATTAGAAATATT
1 ATTAGAAATATT
28390438 ATAATATTAA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTAGAAATATTT
Found at i:28397484 original size:67 final size:67
Alignment explanation
Indices: 28397341--28397506 Score: 180
Period size: 67 Copynumber: 2.5 Consensus size: 67
28397331 TACCTATGTG
* * *
28397341 ACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGGATCACACATG
1 ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGGGATCACACATG
*
28397405 CG
66 CA
* *
28397407 ACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-T-GTATCACACAT
1 ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTG-TACATCACTTGGGATCACACAT
*
28397468 GTA
65 GCA
*
28397471 ACCTAGCTACTACATAGTATCTCGTAGCTCTCTTGT
1 ACCTAG---CTACAT-TTATCTCGTAGCTCTCTTGT
28397507 ACACATGATG
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
64 17 0.20
65 1 0.01
66 10 0.12
67 39 0.46
68 18 0.21
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (67 bp):
ACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGGGATCACACATG
CA
Found at i:28399971 original size:40 final size:40
Alignment explanation
Indices: 28399927--28400114 Score: 272
Period size: 40 Copynumber: 4.7 Consensus size: 40
28399917 GCTACTTGCT
28399927 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
28399967 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** *
28400007 CAAATGCCTTCAAGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * *
28400047 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
28400086 CAAATGCCTTCAGGACTTAGCTCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
28400115 CATCCGAATA
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 3 0.02
39 31 0.23
40 97 0.73
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:28402641 original size:25 final size:25
Alignment explanation
Indices: 28402603--28402686 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
28402593 TTCATATTCG
28402603 GGAATGCTCATTCGAGCACATA-AACA
1 GGAA-GCTCATTCGAGC-CATATAACA
* *
28402629 GGAAGCTCTTTCGAGCCATATAACG
1 GGAAGCTCATTCGAGCCATATAACA
** *
28402654 GGAAGCTCCA-GGGAGCCAT-TAACG
1 GGAAGCT-CATTCGAGCCATATAACA
28402678 GGAAGCTCA
1 GGAAGCTCA
28402687 CACAAGCATA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
23 2 0.04
24 16 0.31
25 28 0.55
26 5 0.10
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (25 bp):
GGAAGCTCATTCGAGCCATATAACA
Found at i:28402769 original size:26 final size:25
Alignment explanation
Indices: 28402738--28402789 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
28402728 GAAGCTCCGG
28402738 AGAGCCATTAATC-GGAAAGCTCACAA
1 AGAGCC-TTAATCAGGAAA-CTCACAA
*
28402764 AGAGCCTTTATCAGGAAACTCACAA
1 AGAGCCTTAATCAGGAAACTCACAA
28402789 A
1 A
28402790 ATGCCATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.17
Consensus pattern (25 bp):
AGAGCCTTAATCAGGAAACTCACAA
Found at i:28403990 original size:20 final size:20
Alignment explanation
Indices: 28403965--28404005 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
28403955 ATACCGTCGT
28403965 AACATAGACACATGAAATAC
1 AACATAGACACATGAAATAC
28403985 AACATAGACACATGAAATAC
1 AACATAGACACATGAAATAC
28404005 A
1 A
28404006 TTGTGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.20, G:0.10, T:0.15
Consensus pattern (20 bp):
AACATAGACACATGAAATAC
Found at i:28414192 original size:94 final size:95
Alignment explanation
Indices: 28413896--28414258 Score: 337
Period size: 94 Copynumber: 3.8 Consensus size: 95
28413886 GGGTTAAGTT
* * * * *
28413896 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCTTCATCGAGGCCGATGCCATGTTC
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCATC-TCTATGCCGATGCCATGTCC
* * *
28413960 CAAACATGGTCTTACACTAGCTTTCGTGTATAAG
62 CAGACATGGTCTTACACTAGCTATCGTATATAAG
* ** * *
28413994 TGCTGATGCATGTCCCAGACATGTCTAACACTAGCACGAAGCT-TA-GCCGATG-CATGTCCTAG
1 -GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTATGCCGATGCCATGTCCCAG
** * * * *
28414056 ACA-CATCTTACACTGGCTACCATCAT-TGAG
65 ACATGGTCTTACACTAGCTATCGT-ATATAAG
* * * * * * *
28414086 GCCGATGTATGTCCCAGACATGTCATACATTGGCACTCATTTCTATGCTGATGCCATGTCCCAGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTATGCCGATGCCATGTCCCAGA
28414151 CATGGTCTTACACTAGCTATCGTA-ATATA-
66 CATGGTCTTACACTAGCTATCGTATATA-AG
* * * *
28414180 GCTGATGCATGTCCTAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTATGCCGATGCCATGTCCCAGA
28414245 CATGGTCTTACACT
66 CATGGTCTTACACT
28414259 GGCTCTCACA
Statistics
Matches: 209, Mismatches: 47, Indels: 21
0.75 0.17 0.08
Matches are distributed among these distances:
91 32 0.15
92 19 0.09
93 17 0.08
94 89 0.43
95 17 0.08
96 2 0.01
97 12 0.06
98 14 0.07
99 7 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (95 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTATGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTATCGTATATAAG
Found at i:28414233 original size:46 final size:47
Alignment explanation
Indices: 28413899--28414258 Score: 194
Period size: 47 Copynumber: 7.6 Consensus size: 47
28413889 TTAAGTTGCT
* *
28413899 GATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TC-TTCATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC-ACTCGTTCA---ATGCC
* * ** * *
28413948 GATGCCATGTTCCAAACATGGTCTTACACTAGCTTTCGTGTATAAGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGT-T-CAA-TGCC
* **
28413998 GATG-CATGTCCCAGACAT-GTCTAACACTAGCACGAAGCTT--A-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCAC-TCG-TTCAATGCC
* ** * * * *
28414042 GATG-CATGTCCTAGACA-CATCTTACACTGGCTACCATCATT-GAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC-A-C-TCGTTCAATGCC
* * * * * * *
28414089 GATG-TATGTCCCAGACAT-GTCATACATTGGCACTCATTTCTATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACTC-GTTCAATGCC
* *
28414135 GATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCG-TAATATAGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC-ACTCGTTCA-AT-GCC
* *
28414183 GATG-CATGTCCTAGACAT-GTCTTACACTAGCCCTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGT-TCAATGCC
28414229 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
28414259 GGCTCTCACA
Statistics
Matches: 242, Mismatches: 44, Indels: 51
0.72 0.13 0.15
Matches are distributed among these distances:
44 30 0.12
45 6 0.02
46 34 0.14
47 71 0.29
48 43 0.18
49 48 0.20
50 8 0.03
51 1 0.00
52 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGTTCAATGCC
Found at i:28414239 original size:141 final size:136
Alignment explanation
Indices: 28413994--28414266 Score: 311
Period size: 141 Copynumber: 2.0 Consensus size: 136
28413984 CGTGTATAAG
28413994 TGCTGATGCATGTCCCAGACATGTCTAACACTAGCACGAAGCTTAGCCGATGCATGTCCTAGACA
1 TGCTGATGCATGTCCCAGACATGTCTAACACTAGCACGAA-CTTAGCCGATGCATGTCCTAGACA
* * * *
28414059 CATCTTACACTGGCTACCATCATTGAGGCCGATGTATGTCCCAGACAT-GTCATACATTGGCACT
65 CATCTTACACTAGC-ACCATCATTAAGGCCGATGCATGTCCCAGACATGGTCATACACTGGCACT
28414123 CATTTCTA
129 CATTTCTA
* *
28414131 TGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTAA-TATAGCTGATGCATGTCCT
1 TGCTGATG-CATGTCCCAGACAT-GTCTAACACTAGC-A-CG-AACT-TAGCCGATGCATGTCCT
** * * *
28414195 AGACATGTCTTACACTAGC-CC-TCGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
60 AGACACATCTTACACTAGCACCATCAT-T-AAGGCCGATG-CATGTCCCAGACATGGTCATACAC
*
28414258 TGGCTCTCA
122 TGGCACTCA
28414267 CATAACCCAA
Statistics
Matches: 114, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
137 8 0.07
138 17 0.15
139 15 0.13
140 10 0.09
141 47 0.41
142 17 0.15
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (136 bp):
TGCTGATGCATGTCCCAGACATGTCTAACACTAGCACGAACTTAGCCGATGCATGTCCTAGACAC
ATCTTACACTAGCACCATCATTAAGGCCGATGCATGTCCCAGACATGGTCATACACTGGCACTCA
TTTCTA
Found at i:28417156 original size:13 final size:13
Alignment explanation
Indices: 28417138--28417163 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28417128 TCGGCAGGGA
28417138 CACGCCCGTGTGC
1 CACGCCCGTGTGC
28417151 CACGCCCGTGTGC
1 CACGCCCGTGTGC
28417164 GATTACTTCA
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:0.08, C:0.46, G:0.31, T:0.15
Consensus pattern (13 bp):
CACGCCCGTGTGC
Found at i:28436874 original size:13 final size:13
Alignment explanation
Indices: 28436856--28436881 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28436846 GCTCGGTAGG
28436856 GACACGCCCGTGT
1 GACACGCCCGTGT
28436869 GACACGCCCGTGT
1 GACACGCCCGTGT
28436882 TTGATTATTT
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:28438868 original size:12 final size:12
Alignment explanation
Indices: 28438851--28438875 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28438841 AAATCTAATA
28438851 AAAATAAAAAGT
1 AAAATAAAAAGT
28438863 AAAATAAAAAGT
1 AAAATAAAAAGT
28438875 A
1 A
28438876 GTTTTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAGT
Found at i:28438923 original size:38 final size:38
Alignment explanation
Indices: 28438846--28438956 Score: 160
Period size: 38 Copynumber: 3.0 Consensus size: 38
28438836 TTCTAAAATC
* *
28438846 TAATAAAAA-TAAAAA-GTAAAATAA-AAAGT-AGT-TT
1 TAATAAAAATTAAAAACATAAAATAATAAA-TAAATGTT
28438880 TAATAAAAATTAAAAACATAAAATAATAAATAAATGTT
1 TAATAAAAATTAAAAACATAAAATAATAAATAAATGTT
28438918 TAATAAAAATTAAAAACATAAAATAATAAATAAATGTT
1 TAATAAAAATTAAAAACATAAAATAATAAATAAATGTT
28438956 T
1 T
28438957 TTAAACATCT
Statistics
Matches: 70, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
34 9 0.13
35 6 0.09
36 9 0.13
37 5 0.07
38 41 0.59
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (38 bp):
TAATAAAAATTAAAAACATAAAATAATAAATAAATGTT
Found at i:28440524 original size:41 final size:41
Alignment explanation
Indices: 28440478--28440558 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
28440468 ATTAAAAGTA
28440478 AGTAGAATAGAGGTGAAAAGAGTAAACAAATGCTAAGGGAG
1 AGTAGAATAGAGGTGAAAAGAGTAAACAAATGCTAAGGGAG
28440519 AGTAGAATAGAGGTGAAAAGAGTAAACAAATGCTAAGGGA
1 AGTAGAATAGAGGTGAAAAGAGTAAACAAATGCTAAGGGA
28440559 AAGAAATCGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.49, C:0.05, G:0.31, T:0.15
Consensus pattern (41 bp):
AGTAGAATAGAGGTGAAAAGAGTAAACAAATGCTAAGGGAG
Found at i:28454437 original size:24 final size:24
Alignment explanation
Indices: 28454352--28454439 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 24
28454342 ATTTGAGAAT
* * *
28454352 GCTCATTTGAGCACATAAACAGGAA
1 GCTCATATGAGC-CATTAACGGGAA
*
28454377 GCTC-TTTCGAGCCATATAACGGGAA
1 GCTCATAT-GAGCCAT-TAACGGGAA
*
28454402 GCTCCAGA-GAGCCATTAACGGGAA
1 GCT-CATATGAGCCATTAACGGGAA
28454426 GCTCATATGAGCCA
1 GCTCATATGAGCCA
28454440 ATATAGAGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
23 3 0.06
24 24 0.45
25 25 0.47
26 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (24 bp):
GCTCATATGAGCCATTAACGGGAA
Found at i:28454547 original size:26 final size:26
Alignment explanation
Indices: 28454490--28454544 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
28454480 GGAGAGACAT
* * * *
28454490 TAATCGGGAAGCTCACAAGGAGTCTT
1 TAATCGGGAAACTCACAAAGAGCCTG
28454516 TAATCGGGAAACTCACAAAGAGCCATG
1 TAATCGGGAAACTCACAAAGAGCC-TG
28454543 TA
1 TA
28454545 TCGAGACGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
TAATCGGGAAACTCACAAAGAGCCTG
Found at i:28456385 original size:49 final size:49
Alignment explanation
Indices: 28456326--28456499 Score: 179
Period size: 49 Copynumber: 3.6 Consensus size: 49
28456316 TTATTTACGG
* * * * *
28456326 ATCTGATTAGCAACTAACATACCCTGCTAGTGGTCTATCATCTTCGCCA
1 ATCTGGTTAGCAACTAACATGCCCTACAAATGGTCTATCATCTTCGCCA
* * * * * * * *
28456375 ATCTAGTTAGCAACTAACATGCCCTACCAATGGCCCACCTTATTCGCCT
1 ATCTGGTTAGCAACTAACATGCCCTACAAATGGTCTATCATCTTCGCCA
* * *
28456424 ATCTGGTTAGAAACTAACATGCCTTACAAATGGTCTATCA-CATCCGCCA
1 ATCTGGTTAGCAACTAACATGCCCTACAAATGGTCTATCATC-TTCGCCA
*
28456473 AGCTGGTTAGCAACTAACATGCCCTAC
1 ATCTGGTTAGCAACTAACATGCCCTAC
28456500 CAGTGATCCA
Statistics
Matches: 98, Mismatches: 26, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
49 98 1.00
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (49 bp):
ATCTGGTTAGCAACTAACATGCCCTACAAATGGTCTATCATCTTCGCCA
Found at i:28456409 original size:98 final size:98
Alignment explanation
Indices: 28456274--28456501 Score: 269
Period size: 98 Copynumber: 2.3 Consensus size: 98
28456264 AGCACTTACA
* * * * * * * *
28456274 CCAATCTAGTTAGCAATTAACATGACCAACTAGTGGCCCACCTTATTTACGGATCTGATTAGCAA
1 CCAATCTAGTTAGCAACTAACATGCCCTACCAATGGCCCACCTTATTCACCGATCTGATTAGAAA
* * * *
28456339 CTAACATACCCTGCTAGTGGTCTATCATC-TTCG
66 CTAACATACCCTACAAATGGTCTATCA-CATCCG
* * *
28456372 CCAATCTAGTTAGCAACTAACATGCCCTACCAATGGCCCACCTTATTCGCCTATCTGGTTAGAAA
1 CCAATCTAGTTAGCAACTAACATGCCCTACCAATGGCCCACCTTATTCACCGATCTGATTAGAAA
* *
28456437 CTAACATGCCTTACAAATGGTCTATCACATCCG
66 CTAACATACCCTACAAATGGTCTATCACATCCG
* *
28456470 CCAAGCTGGTTAGCAACTAACATGCCCTACCA
1 CCAATCTAGTTAGCAACTAACATGCCCTACCA
28456502 GTGATCCATC
Statistics
Matches: 110, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
97 1 0.01
98 109 0.99
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.27
Consensus pattern (98 bp):
CCAATCTAGTTAGCAACTAACATGCCCTACCAATGGCCCACCTTATTCACCGATCTGATTAGAAA
CTAACATACCCTACAAATGGTCTATCACATCCG
Found at i:28460772 original size:76 final size:76
Alignment explanation
Indices: 28460580--28460804 Score: 252
Period size: 76 Copynumber: 3.0 Consensus size: 76
28460570 AAAGGAGTGA
* * * * * **
28460580 TTGATATCGTCCGTTTATCCGACTAGTGCCGGGCGCGAATCTTCGTCAGTATATCCAACTAAAGC
1 TTGATATCGTCAGTTTATTCGACTAGTGCTGGGCGCAAATCTTCGTTAGTATATCCAACTAGTGC
*
28460645 TAGGTACATAT
66 TAGGCACATAT
* ** *** * * *
28460656 ATGATATCGTTGGTTTATTCGACTAGCATTGGGCGTAAATCTTTGTTGGTATATCCAACTAGTGC
1 TTGATATCGTCAGTTTATTCGACTAGTGCTGGGCGCAAATCTTCGTTAGTATATCCAACTAGTGC
*
28460721 TGGGCACATAT
66 TAGGCACATAT
* * * *
28460732 TTGATATCGTCAGTTTATTCGACTAGTGCTAGGCACAAATCTTCGTTTGTATATCCAATTAGTGC
1 TTGATATCGTCAGTTTATTCGACTAGTGCTGGGCGCAAATCTTCGTTAGTATATCCAACTAGTGC
28460797 TAGGCACA
66 TAGGCACA
28460805 AATCATTGTC
Statistics
Matches: 119, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
76 119 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (76 bp):
TTGATATCGTCAGTTTATTCGACTAGTGCTGGGCGCAAATCTTCGTTAGTATATCCAACTAGTGC
TAGGCACATAT
Found at i:28460823 original size:36 final size:36
Alignment explanation
Indices: 28460692--28460840 Score: 111
Period size: 36 Copynumber: 4.0 Consensus size: 36
28460682 CATTGGGCGT
* * *
28460692 AAATCTTTGTTGGTATATCCAACTAGTGCTGGGCAC
1 AAATCTTCGTCGGTATATCCAACTAGTGCTAGGCAC
* * * * * *
28460728 ATATTTGATATCGTCAGTTTATTCGACTAGTGCTAGGCAC
1 A-A-AT-CT-TCGTCGGTATATCCAACTAGTGCTAGGCAC
** *
28460768 AAATCTTCGTTTGTATATCCAATTAGTGCTAGGCAC
1 AAATCTTCGTCGGTATATCCAACTAGTGCTAGGCAC
* **
28460804 AAATCATT-GTCGGTTTATCCGGCTAGTGCTAGGCAC
1 AAATC-TTCGTCGGTATATCCAACTAGTGCTAGGCAC
28460840 A
1 A
28460841 CATTTGATAT
Statistics
Matches: 85, Mismatches: 23, Indels: 10
0.72 0.19 0.08
Matches are distributed among these distances:
36 53 0.62
37 4 0.05
38 2 0.02
39 2 0.02
40 24 0.28
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (36 bp):
AAATCTTCGTCGGTATATCCAACTAGTGCTAGGCAC
Found at i:28469908 original size:21 final size:21
Alignment explanation
Indices: 28469884--28469947 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
28469874 AATGTGTAAG
28469884 TATGTCTTCAAATTTAAGCTA
1 TATGTCTTCAAATTTAAGCTA
*
28469905 TATG---T-GAATGTGTAAG-T-
1 TATGTCTTCAAAT-T-TAAGCTA
28469922 TATGTCTTCAAATTTAAGCTA
1 TATGTCTTCAAATTTAAGCTA
28469943 TATGT
1 TATGT
28469948 GAATGTGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
17 7 0.21
18 3 0.09
19 8 0.24
20 3 0.09
21 12 0.36
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (21 bp):
TATGTCTTCAAATTTAAGCTA
Found at i:28469932 original size:38 final size:38
Alignment explanation
Indices: 28469874--28469981 Score: 209
Period size: 38 Copynumber: 2.9 Consensus size: 38
28469864 TAAGAATGAA
28469874 AATGTGTAAG-TATGTCTTCAAATTTAAGCTATATGTG
1 AATGTGTAAGTTATGTCTTCAAATTTAAGCTATATGTG
28469911 AATGTGTAAGTTATGTCTTCAAATTTAAGCTATATGTG
1 AATGTGTAAGTTATGTCTTCAAATTTAAGCTATATGTG
28469949 AATGTGTAAGTTATGTCTTCAAATTTAAGCTAT
1 AATGTGTAAGTTATGTCTTCAAATTTAAGCTAT
28469982 GCCTATGAAT
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
37 10 0.14
38 60 0.86
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (38 bp):
AATGTGTAAGTTATGTCTTCAAATTTAAGCTATATGTG
Found at i:28469939 original size:19 final size:19
Alignment explanation
Indices: 28469917--28469982 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
28469907 TGTGAATGTG
*
28469917 TAAGTTATGTCTTCAAATT
1 TAAGCTATGTCTTCAAATT
* * *
28469936 TAAGCTATAT-GT-GAATGT
1 TAAGCTATGTCTTCAAAT-T
*
28469954 GTAAGTTATGTCTTCAAATT
1 -TAAGCTATGTCTTCAAATT
28469974 TAAGCTATG
1 TAAGCTATG
28469983 CCTATGAATA
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
17 3 0.09
18 2 0.06
19 24 0.71
20 2 0.06
21 3 0.09
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (19 bp):
TAAGCTATGTCTTCAAATT
Found at i:28482821 original size:16 final size:16
Alignment explanation
Indices: 28482802--28482832 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28482792 CTTCTTCACT
28482802 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
28482818 TACTTACTTACTTAA
1 TACTCACTTACTTAA
28482833 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:28482838 original size:20 final size:20
Alignment explanation
Indices: 28482799--28482838 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
28482789 AAACTTCTTC
* *
28482799 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
28482819 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
28482839 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:28483214 original size:55 final size:53
Alignment explanation
Indices: 28483034--28483278 Score: 198
Period size: 55 Copynumber: 4.6 Consensus size: 53
28483024 ATTACCATTT
* * * *
28483034 CCATGACTTGTCATGGTCTTACAT-GG-T-A-T-CCTTTTGAAACTTATCATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCATTGCCTTATG-AACTTATCAATG
* * * * * *
28483083 ACATGTCTCGACATGGTCTTACATGGTATCATTGCCTTATGAGCTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCATTGCCTTATGAACTTATCAATG
* *
28483136 CCATGCCTTGGCATGGTCTTACATGGGA-CATTTGCCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCA-TTGCCTTAT-G-AACTTATCAATG
* * * *
28483191 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTTACCAATTA
1 CCATGTCTTGACATGGTCTTACATGGGATCATTGCCTTATG-AA-CTTATCAA-TG
* * * *
28483246 CCATGCCTTGGCATGTTCTTACATGGTATCATT
1 CCATGTCTTGACATGGTCTTACATGGGATCATT
28483279 AAACCCTAAT
Statistics
Matches: 156, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
49 20 0.13
50 1 0.01
51 1 0.01
52 3 0.02
53 44 0.28
54 14 0.09
55 72 0.46
56 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCATTGCCTTATGAACTTATCAATG
Found at i:28483217 original size:108 final size:109
Alignment explanation
Indices: 28483071--28483271 Score: 298
Period size: 108 Copynumber: 1.8 Consensus size: 109
28483061 ATCCTTTTGA
* *
28483071 AACTTATCATTGACATGTCTCGACATGGTCTTACATGGTATCATTGCCTTATG-AGCTCACCAA-
1 AACTTATCAATGACATGTCTCGACATGGTCTTACATGGTATCATTGCCTTA-GAACCTCACCAAT
*
28483134 TGCCATGCCTTGGCATGGTCTTACATGGGACATTTGCCTTATAGT
65 TACCATGCCTTGGCATGGTCTTACATGGGACATTTGCCTTATAGT
* * * *
28483179 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTATCAATGACATGTCTCGACATGGTCTTACATGGTATCATTGCCTTAG-AACCTCACCAAT
*
28483244 TACCATGCCTTGGCATGTTCTTACATGG
65 TACCATGCCTTGGCATGGTCTTACATGG
28483272 TATCATTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 8 0.10
110 26 0.32
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (109 bp):
AACTTATCAATGACATGTCTCGACATGGTCTTACATGGTATCATTGCCTTAGAACCTCACCAATT
ACCATGCCTTGGCATGGTCTTACATGGGACATTTGCCTTATAGT
Found at i:28484148 original size:21 final size:20
Alignment explanation
Indices: 28484113--28484153 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
28484103 TGAATATATA
28484113 TCTGTTTGTTAGAACATTCTG
1 TCTGTTTGTTAGAAC-TTCTG
28484134 TCTGTTTGTGT-GAACTTCTG
1 TCTGTTTGT-TAGAACTTCTG
28484154 GTAATTGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 13 0.68
22 1 0.05
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (20 bp):
TCTGTTTGTTAGAACTTCTG
Found at i:28486146 original size:50 final size:50
Alignment explanation
Indices: 28486084--28486205 Score: 235
Period size: 50 Copynumber: 2.4 Consensus size: 50
28486074 GCCAATGCCA
28486084 TGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTATTCTGATGTCG
1 TGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTATTCTGATGTCG
*
28486134 TGTCCCAAACATGGTCTTACACAAGCTCTAGCATATCTATTCTGATGTCG
1 TGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTATTCTGATGTCG
28486184 TGTCCCAGACATGGTCTTACAC
1 TGTCCCAGACATGGTCTTACAC
28486206 TGACACATCT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (50 bp):
TGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTATTCTGATGTCG
Found at i:28486253 original size:44 final size:45
Alignment explanation
Indices: 28486184--28486390 Score: 161
Period size: 46 Copynumber: 4.5 Consensus size: 45
28486174 TCTGATGTCG
*
28486184 TGTCCCAGACATGGTCTTACACTGAC-ACATCTTGTA-GCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGACTACATCTCG-AGGCCGATGCA
* *
28486229 TGTCCCAGACATGTCTTACACTGACTTACGTCTCGAGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGAC-TACATCTCGAGGCCGATGCA
* * * * * *
28486275 TGTCTCAGACATGTCTTACACTAGCACT-CGTCTCAATGTCGATGCTG
1 TGTCCCAGACATGTCTTACACT-G-ACTACATCTCGAGGCCGATGC-A
* * * * * * *
28486322 TGTCCTAGACATGGTCTTATACTGGCTCTCATAAT-GTGGCCGATACA
1 TGTCCCAGACAT-GTCTTACACTGACT-ACAT-CTCGAGGCCGATGCA
28486369 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
28486391 AGTTCACAAT
Statistics
Matches: 129, Mismatches: 23, Indels: 19
0.75 0.13 0.11
Matches are distributed among these distances:
44 13 0.10
45 13 0.10
46 59 0.46
47 24 0.19
48 19 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGACTACATCTCGAGGCCGATGCA
Found at i:28489386 original size:25 final size:25
Alignment explanation
Indices: 28489358--28489409 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
28489348 TGGGCTATGA
*
28489358 ATTTTACTATTATAAATGATGCTAC
1 ATTTCACTATTATAAATGATGCTAC
28489383 ATTTCACTATTATAAATGATGCTAC
1 ATTTCACTATTATAAATGATGCTAC
28489408 AT
1 AT
28489410 ATTGCATAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (25 bp):
ATTTCACTATTATAAATGATGCTAC
Found at i:28507215 original size:22 final size:23
Alignment explanation
Indices: 28507168--28507222 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 23
28507158 TTTATTATTT
* *
28507168 TTATATG-ATTTTTTTAATAATT
1 TTATATGTATTTTTATAATAATC
28507190 TTATATGTATTTTTATAA-AATC
1 TTATATGTATTTTTATAATAATC
28507212 -T-TATGTATTTT
1 TTATATGTATTTT
28507223 AATTAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 10 0.33
21 1 0.03
22 10 0.33
23 9 0.30
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (23 bp):
TTATATGTATTTTTATAATAATC
Found at i:28507624 original size:29 final size:29
Alignment explanation
Indices: 28507582--28507640 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
28507572 ATTATAAAAG
28507582 TATAAAAAATTGGTAAAACACAACTACCT
1 TATAAAAAATTGGTAAAACACAACTACCT
28507611 TATAAAAAATTGGTAAAACACAACTACCT
1 TATAAAAAATTGGTAAAACACAACTACCT
28507640 T
1 T
28507641 GAAGTTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.25
Consensus pattern (29 bp):
TATAAAAAATTGGTAAAACACAACTACCT
Found at i:28513933 original size:35 final size:35
Alignment explanation
Indices: 28513894--28514005 Score: 88
Period size: 35 Copynumber: 3.1 Consensus size: 35
28513884 TTTAGATGAA
28513894 AGATTTGGGACCAGCAAAGAAGATACTTGGTATGG
1 AGATTTGGGACCAGCAAAGAAGATACTTGGTATGG
* * * * *
28513929 AGATTCTCAGAGA-TAGAAAAGCAAG-TAAATT-GT-TGAA
1 AGATT-T--GGGACCAGCAAAG-AAGAT-ACTTGGTATG-G
*
28513966 AGATTTAGGACCAGCAAAGAAGATACTTGGTATGG
1 AGATTTGGGACCAGCAAAGAAGATACTTGGTATGG
28514001 AGATT
1 AGATT
28514006 CTTAGAGATA
Statistics
Matches: 56, Mismatches: 11, Indels: 20
0.64 0.13 0.23
Matches are distributed among these distances:
34 8 0.14
35 19 0.34
36 6 0.11
37 14 0.25
38 9 0.16
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (35 bp):
AGATTTGGGACCAGCAAAGAAGATACTTGGTATGG
Found at i:28513968 original size:72 final size:72
Alignment explanation
Indices: 28513890--28514033 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
28513880 GAATTTTAGA
*
28513890 TGAAAGATTTGGGACCAGCAAAGAAGATACTTGGTATGGAGATTCTCAGAGATAGAAAAGCAAGT
1 TGAAAGATTTAGGACCAGCAAAGAAGATACTTGGTATGGAGATTCTCAGAGATAGAAAAGCAAGT
28513955 AAATTGT
66 AAATTGT
*
28513962 TGAAAGATTTAGGACCAGCAAAGAAGATACTTGGTATGGAGATTCTTAGAGATAGAAAAGCAAGT
1 TGAAAGATTTAGGACCAGCAAAGAAGATACTTGGTATGGAGATTCTCAGAGATAGAAAAGCAAGT
28514027 AAATTGT
66 AAATTGT
28514034 ACCTAAGTCA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (72 bp):
TGAAAGATTTAGGACCAGCAAAGAAGATACTTGGTATGGAGATTCTCAGAGATAGAAAAGCAAGT
AAATTGT
Found at i:28516021 original size:15 final size:17
Alignment explanation
Indices: 28515987--28516025 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
28515977 CCTAATAAAA
28515987 TAAA-TAAATAATTAAT
1 TAAATTAAATAATTAAT
28516003 TAAATTAAA-AATT-AT
1 TAAATTAAATAATTAAT
28516018 TAAATTAA
1 TAAATTAA
28516026 TAGAATGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.45
16 8 0.36
17 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTAAATAATTAAT
Done.