Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7304151
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 31
Found at i:1810192 original size:20 final size:19
Alignment explanation
Indices: 1810163--1810205 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
1810153 AAACAATTCA
1810163 TGGGGGAATCGGTACCCCC
1 TGGGGGAATCGGTACCCCC
* *
1810182 TGGGAGGAATCGGTTCCCTC
1 TGGG-GGAATCGGTACCCCC
1810202 TGGG
1 TGGG
1810206 CAATCTGGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.14, C:0.26, G:0.40, T:0.21
Consensus pattern (19 bp):
TGGGGGAATCGGTACCCCC
Found at i:1817183 original size:17 final size:16
Alignment explanation
Indices: 1817152--1817190 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
1817142 TTTTTGTTTG
1817152 TTCTTTCAACTTC-TT
1 TTCTTTCAACTTCTTT
1817167 TTCTTTGCAATCTTCTTT
1 TTCTTT-CAA-CTTCTTT
1817185 TTCTTT
1 TTCTTT
1817191 TTCTTTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.29
16 3 0.14
17 4 0.19
18 8 0.38
ACGTcount: A:0.10, C:0.23, G:0.03, T:0.64
Consensus pattern (16 bp):
TTCTTTCAACTTCTTT
Found at i:1818668 original size:4 final size:4
Alignment explanation
Indices: 1818659--1818688 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
1818649 TGAGCTAAGA
1818659 AATG AATG AATG AATG AATG AATG AATG AA
1 AATG AATG AATG AATG AATG AATG AATG AA
1818689 CATACTGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (4 bp):
AATG
Found at i:1822487 original size:20 final size:20
Alignment explanation
Indices: 1822462--1822508 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
1822452 TGTTCAAGTT
*
1822462 ATGAAACTTTAGATGCTTGA
1 ATGAAACTTGAGATGCTTGA
*
1822482 ATGAAACTTGAGATGTTTGA
1 ATGAAACTTGAGATGCTTGA
1822502 ATGAAAC
1 ATGAAAC
1822509 AAAATTTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGAAACTTGAGATGCTTGA
Found at i:1823004 original size:59 final size:59
Alignment explanation
Indices: 1822937--1823056 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
1822927 TTGAAAAGCT
*
1822937 TAAAAATATTATTAGAGATGATAGTTTACAATCAAGAAATAAATGGAATAAATTAAGAA
1 TAAAAATATTATTAGAGATGATAGGTTACAATCAAGAAATAAATGGAATAAATTAAGAA
*
1822996 TAAAAATATTATTAGAGATGATAGGTTACAATCAATAAATAAATGGAATAAATTAAGAA
1 TAAAAATATTATTAGAGATGATAGGTTACAATCAAGAAATAAATGGAATAAATTAAGAA
1823055 TA
1 TA
1823057 TTAATTAGTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.29
Consensus pattern (59 bp):
TAAAAATATTATTAGAGATGATAGGTTACAATCAAGAAATAAATGGAATAAATTAAGAA
Found at i:1824658 original size:41 final size:41
Alignment explanation
Indices: 1824601--1824683 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
1824591 AAGTTTTGAT
1824601 TAATTTTTATCCGATTCAATTATTAGTCGATTGACCATGTC
1 TAATTTTTATCCGATTCAATTATTAGTCGATTGACCATGTC
1824642 TAATTTTTATCCGATTCAATTATTAGTCGATTGACCATGTC
1 TAATTTTTATCCGATTCAATTATTAGTCGATTGACCATGTC
1824683 T
1 T
1824684 TCTACGAGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.45
Consensus pattern (41 bp):
TAATTTTTATCCGATTCAATTATTAGTCGATTGACCATGTC
Found at i:1830032 original size:21 final size:22
Alignment explanation
Indices: 1829990--1830042 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
1829980 AACTCCACAA
1829990 TCTGAAATAAAAGGGGGAAAAT
1 TCTGAAATAAAAGGGGGAAAAT
1830012 TCTGAAATAAAAGGGGG-AAAT
1 TCTGAAATAAAAGGGGGAAAAT
*
1830033 TCAGAAATAA
1 TCTGAAATAA
1830043 CAACATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.51, C:0.06, G:0.25, T:0.19
Consensus pattern (22 bp):
TCTGAAATAAAAGGGGGAAAAT
Found at i:1833092 original size:24 final size:24
Alignment explanation
Indices: 1833058--1833104 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1833048 AGCATCAGGT
1833058 AAATTCAAAATCCCTAACTCCTTC
1 AAATTCAAAATCCCTAACTCCTTC
*
1833082 AAATTCGAAATCCCTAACTCCTT
1 AAATTCAAAATCCCTAACTCCTT
1833105 TCTCAATTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (24 bp):
AAATTCAAAATCCCTAACTCCTTC
Found at i:1841609 original size:32 final size:31
Alignment explanation
Indices: 1841519--1841643 Score: 101
Period size: 32 Copynumber: 3.8 Consensus size: 31
1841509 TTAATTTGCG
*
1841519 CAATAAAATAAAATGTTAGTAA-GTTAGTAT-ATT
1 CAATAAAATAAAA-GTTAG-AATGTTAG-ATGA-A
** *
1841552 CAATAAAAATAAAAAGCCAGTATGTTAGCATGAA
1 CAAT-AAAAT-AAAAGTTAGAATGTTAG-ATGAA
*
1841586 CAATAAAATAAAAGTTAGAATGTTAGTTCGAA
1 CAATAAAATAAAAGTTAGAATGTTAGAT-GAA
* *
1841618 CGATAAAATAAAAGTTAGAATATTAG
1 CAATAAAATAAAAGTTAGAATGTTAG
1841644 TAAGTTAGAA
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
31 1 0.01
32 41 0.54
33 10 0.13
34 19 0.25
35 5 0.07
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.28
Consensus pattern (31 bp):
CAATAAAATAAAAGTTAGAATGTTAGATGAA
Found at i:1841644 original size:32 final size:32
Alignment explanation
Indices: 1841583--1841644 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
1841573 ATGTTAGCAT
*
1841583 GAACAATAAAATAAAAGTTAGAATGTTAGTTC
1 GAACAATAAAATAAAAGTTAGAATATTAGTTC
*
1841615 GAACGATAAAATAAAAGTTAGAATATTAGT
1 GAACAATAAAATAAAAGTTAGAATATTAGT
1841645 AAGTTAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.52, C:0.05, G:0.16, T:0.27
Consensus pattern (32 bp):
GAACAATAAAATAAAAGTTAGAATATTAGTTC
Found at i:1841756 original size:4 final size:4
Alignment explanation
Indices: 1841747--1841779 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
1841737 TAAGAGAAAC
1841747 AATA AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA A
1841780 TGATTAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:1842850 original size:30 final size:30
Alignment explanation
Indices: 1842814--1842874 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
1842804 AAGTGATAGT
1842814 TGGTGTCCTAAACGTGCAGTATAATTTACA
1 TGGTGTCCTAAACGTGCAGTATAATTTACA
1842844 TGGTGTCCTAAACGTGCAGTATAATTTACA
1 TGGTGTCCTAAACGTGCAGTATAATTTACA
1842874 T
1 T
1842875 ACTATTGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (30 bp):
TGGTGTCCTAAACGTGCAGTATAATTTACA
Found at i:1843876 original size:29 final size:29
Alignment explanation
Indices: 1843843--1843933 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
1843833 ATAATATAAT
1843843 ATTTTATTATTGATGATTTGATATATTAA
1 ATTTTATTATTGATGATTTGATATATTAA
** *
1843872 ATTTTGGGT-TT-A--ATTTTATATCAATTAA
1 ATTTT-ATTATTGATGATTTGATAT--ATTAA
* * *
1843900 ATTTTATTATTGTTGATTTGACATATTAG
1 ATTTTATTATTGATGATTTGATATATTAA
1843929 ATTTT
1 ATTTT
1843934 GGGTTTAATT
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
26 8 0.17
27 1 0.02
28 13 0.28
29 16 0.35
30 1 0.02
31 7 0.15
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (29 bp):
ATTTTATTATTGATGATTTGATATATTAA
Found at i:1843907 original size:57 final size:55
Alignment explanation
Indices: 1843843--1843955 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 55
1843833 ATAATATAAT
*
1843843 ATTTTATTATTGATGATTTGATATATTAAATTTTGGGTTTAATTTTATATCAATTAA
1 ATTTTATTATTGATGATTTGACATATTAAATTTTGGGTTTAATTTTATA--AATTAA
* *
1843900 ATTTTATTATTGTTGATTTGACATATTAGATTTTGGGTTTAATTTTATAAATTAA
1 ATTTTATTATTGATGATTTGACATATTAAATTTTGGGTTTAATTTTATAAATTAA
1843955 A
1 A
1843956 ATTTGGTTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
55 7 0.13
57 46 0.87
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.54
Consensus pattern (55 bp):
ATTTTATTATTGATGATTTGACATATTAAATTTTGGGTTTAATTTTATAAATTAA
Found at i:1849891 original size:29 final size:29
Alignment explanation
Indices: 1849858--1849955 Score: 108
Period size: 29 Copynumber: 3.3 Consensus size: 29
1849848 TTTAAGTATC
*
1849858 TAAAGTGTTTTTTAGTCAAAATA-ATCACA
1 TAAAGTATTTTTTAGTCAAAATAGAT-ACA
* *
1849887 TAAAGTTATTTTTTGGGTCAAAATAGATACC
1 TAAAG-TATTTTTT-AGTCAAAATAGATACA
* * *
1849918 TAAAGTATTTTTTAATCAAAATAGGTACC
1 TAAAGTATTTTTTAGTCAAAATAGATACA
1849947 TAAAGTATT
1 TAAAGTATT
1849956 CAATTTTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
29 27 0.45
30 15 0.25
31 16 0.27
32 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (29 bp):
TAAAGTATTTTTTAGTCAAAATAGATACA
Found at i:1850075 original size:28 final size:26
Alignment explanation
Indices: 1850039--1850094 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
1850029 GATTTTTTTG
*
1850039 AATAGTTTAGGTA-TGTATTTTAGCATAA
1 AATACTTTAGGTACT-TATTTT-G-ATAA
1850067 AATACTTTAGGTACTTATTTTGATAA
1 AATACTTTAGGTACTTATTTTGATAA
1850093 AA
1 AA
1850095 AAAGAGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 6 0.23
27 1 0.04
28 18 0.69
29 1 0.04
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (26 bp):
AATACTTTAGGTACTTATTTTGATAA
Found at i:1854305 original size:20 final size:18
Alignment explanation
Indices: 1854275--1854319 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1854265 AAATTTCATT
*
1854275 TTTATTTAAATTATAAATA
1 TTTAATTAAATTA-AAATA
*
1854294 TTTCAATTAAATTAAATTA
1 TTT-AATTAAATTAAAATA
1854313 TTTAATT
1 TTTAATT
1854320 TGTATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 4 0.17
19 10 0.43
20 9 0.39
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAATTAAATTAAAATA
Found at i:1854844 original size:23 final size:24
Alignment explanation
Indices: 1854799--1854844 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
1854789 AATCTAACTA
*
1854799 ACCCCTTCCCCTCTTCCTATAAAT
1 ACCCCTTCCCCTCTTCATATAAAT
* *
1854823 ACCCC-TCCCTTCTTCATTTAAA
1 ACCCCTTCCCCTCTTCATATAAA
1854845 CACAAACCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.22, C:0.43, G:0.00, T:0.35
Consensus pattern (24 bp):
ACCCCTTCCCCTCTTCATATAAAT
Found at i:1855119 original size:16 final size:16
Alignment explanation
Indices: 1855100--1855160 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 16
1855090 TTAATTATTG
1855100 TTAATATTTTATTTAT
1 TTAATATTTTATTTAT
*
1855116 TTAATTTTTTTAGTATTAGT
1 TTAA-TATTTTA-T-TTA-T
1855136 TT-ATATTTTAATTTAT
1 TTAATATTTT-ATTTAT
*
1855152 ATAATATTT
1 TTAATATTT
1855161 ATTAAATTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
16 6 0.17
17 15 0.42
18 7 0.19
19 5 0.14
20 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TTAATATTTTATTTAT
Found at i:1855170 original size:36 final size:35
Alignment explanation
Indices: 1855103--1855170 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
1855093 ATTATTGTTA
* * *
1855103 ATATTTTATTTATTTAATTTTTTTAGTATTAGTTT
1 ATATTTTATTTATATAATTTTATTAGAATTAGTTT
1855138 ATATTTTAATTTATATAATATTTATTA-AATTAG
1 ATATTTT-ATTTATATAAT-TTTATTAGAATTAG
1855171 GAGAGAGACC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 7 0.25
36 15 0.54
37 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (35 bp):
ATATTTTATTTATATAATTTTATTAGAATTAGTTT
Found at i:1861640 original size:59 final size:59
Alignment explanation
Indices: 1861534--1861650 Score: 153
Period size: 59 Copynumber: 2.0 Consensus size: 59
1861524 AACAGGCTGT
** * * *
1861534 ATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACAACCTTATGTGTG
1 ATATTCGGGAATACACTAAAGGATACCTAGTACAGATGATGGACACAACCTTATGTGTG
* ** *
1861593 ATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGATGGACACAACCTTATGTGT
1 ATATTCGGGAATACACTAAAGGATACCTAGTACAGATGATGGACACAACCTTATGTGT
1861651 CATACTCGAG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (59 bp):
ATATTCGGGAATACACTAAAGGATACCTAGTACAGATGATGGACACAACCTTATGTGTG
Found at i:1865819 original size:59 final size:59
Alignment explanation
Indices: 1865737--1865916 Score: 231
Period size: 59 Copynumber: 3.1 Consensus size: 59
1865727 CAGCAGACTG
* * * * *
1865737 CATATTCGAGATTGCACTTAAGTATAACTAGTGCATATGGTGGGTACGACCTTATGTGT
1 CATACTCGGGATTGCACTAAAGTATAACTAGTGCATATGGTGGGAAAGACCTTATGTGT
* *
1865796 CATACTCGGGATTGCACTAAAGTAT---TAGTGTATATGGTGGGCAAGACCTTATGTGT
1 CATACTCGGGATTGCACTAAAGTATAACTAGTGCATATGGTGGGAAAGACCTTATGTGT
* * * * *
1865852 CATATTCGGGACTGCATTAAAGTATAACTAGTGCATATGGTAGGAATGACCTTATGTGT
1 CATACTCGGGATTGCACTAAAGTATAACTAGTGCATATGGTGGGAAAGACCTTATGTGT
1865911 CATACT
1 CATACT
1865917 TGGGTTACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
56 50 0.48
59 54 0.52
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (59 bp):
CATACTCGGGATTGCACTAAAGTATAACTAGTGCATATGGTGGGAAAGACCTTATGTGT
Found at i:1866423 original size:16 final size:16
Alignment explanation
Indices: 1866376--1866432 Score: 89
Period size: 16 Copynumber: 3.6 Consensus size: 16
1866366 TCTACAATTT
*
1866376 CTTAATATAGTTAGTT
1 CTTAATATAGTTAGTA
1866392 CTTAATATAGTTAGTA
1 CTTAATATAGTTAGTA
1866408 CTTAATATAGTTAGTA
1 CTTAATATAGTTAGTA
1866424 -TTAAATATA
1 CTT-AATATA
1866433 ATTACTAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
15 2 0.05
16 37 0.95
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.46
Consensus pattern (16 bp):
CTTAATATAGTTAGTA
Found at i:1866742 original size:60 final size:59
Alignment explanation
Indices: 1866672--1866838 Score: 169
Period size: 60 Copynumber: 2.8 Consensus size: 59
1866662 TCTATGACTC
* * * *
1866672 TCATTTTAAATTGATCCCTAAACTTTTAAAAATTTCAATTTCATCCTTAAACTACAA-CT
1 TCATTCTAAATT-ATCCCTAAACTTTTGAATATTTCAATTTCATCCTCAAACTACAATCT
* * * *
1866731 ATCATTCTAAATTAAT-CCTCAAACATTTGAATATTTCATTTTCAACC-CCAACTACAATCT
1 -TCATTCTAAATT-ATCCCT-AAACTTTTGAATATTTCAATTTCATCCTCAAACTACAATCT
* *
1866791 TCATTCTAAATTAGTCCCCAAACTTTTTGAATATTTCAATTTTATCCT
1 TCATTCTAAATTA-TCCCTAAAC-TTTTGAATATTTCAATTTCATCCT
1866839 AAATTATACG
Statistics
Matches: 87, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
58 1 0.01
59 28 0.32
60 58 0.67
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (59 bp):
TCATTCTAAATTATCCCTAAACTTTTGAATATTTCAATTTCATCCTCAAACTACAATCT
Found at i:1867238 original size:17 final size:18
Alignment explanation
Indices: 1867213--1867250 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
1867203 AAAATAAATT
1867213 ATAAATAAA-ATATAAAA
1 ATAAATAAATATATAAAA
*
1867230 ATAATTAAATTATATAAAA
1 ATAAATAAA-TATATAAAA
1867249 AT
1 AT
1867251 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAAATATATAAAA
Found at i:1871932 original size:77 final size:79
Alignment explanation
Indices: 1871845--1871994 Score: 209
Period size: 77 Copynumber: 1.9 Consensus size: 79
1871835 AATTAATAAA
*
1871845 TAAAATATTATTTAATTAATT-CAAATTAAATAT-ACATT-AAAGACTTATAATCTAAATTACAA
1 TAAAAAATTATTTAATT-ATTCCAAATTAAATATCA-ATTAAAAGACTTATAATCTAAATTACAA
1871907 TC-TTTAATGTTTATT
64 TCTTTTAATGTTTATT
* * * *
1871922 TAAAAAATTATTTAATTATTCCAAATTATATATCAATTAAAAGAGTTGTAATCTAAATTACATTC
1 TAAAAAATTATTTAATTATTCCAAATTAAATATCAATTAAAAGACTTATAATCTAAATTACAATC
1871987 TTTTAATG
66 TTTTAATG
1871995 CTTACTTACC
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
76 3 0.05
77 30 0.47
78 24 0.38
79 7 0.11
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (79 bp):
TAAAAAATTATTTAATTATTCCAAATTAAATATCAATTAAAAGACTTATAATCTAAATTACAATC
TTTTAATGTTTATT
Found at i:1876678 original size:50 final size:50
Alignment explanation
Indices: 1876595--1876951 Score: 360
Period size: 50 Copynumber: 7.1 Consensus size: 50
1876585 TAAGAGAAGG
* * *
1876595 AGTAACGTTATCCTTAACCTGACTTTCTCGTTTAGAGGAGTCAATCTTTC
1 AGTAATGTTACCCTCAACCTGACTTTCTCGTTTAGAGGAGTCAATCTTTC
** * * * *
1876645 -GATAATGTTATTCTCAACCTAACCTTCTTGTTTAGACGAGTCAATCTTTC
1 AG-TAATGTTACCCTCAACCTGACTTTCTCGTTTAGAGGAGTCAATCTTTC
* * *
1876695 AGTAATGTTGCCCTCAACGTGACTTTCTCATTTAGAGGAGTCAATCTTTC
1 AGTAATGTTACCCTCAACCTGACTTTCTCGTTTAGAGGAGTCAATCTTTC
* *
1876745 AGTAATGTTACCCTCAACCTGATTTTCTCGTTTAGAGGAGTCAATCTTTT
1 AGTAATGTTACCCTCAACCTGACTTTCTCGTTTAGAGGAGTCAATCTTTC
* * * * * *
1876795 GGTAATGTTACCTTCAACTTTACTTTCTCATTTAGAGGAGTCAATCTTTT
1 AGTAATGTTACCCTCAACCTGACTTTCTCGTTTAGAGGAGTCAATCTTTC
* * * ** *
1876845 AGTAATGTTACCCTCAACTTGAATTTTTTCACTTAGAGAAGT-ATATCTTT-
1 AGTAATGTTACCCTCAACCTG-ACTTTCTCGTTTAGAGGAGTCA-ATCTTTC
* * * * * * *
1876895 ATGTAATGTTAGCCTTAACTTGAATTTCTCATTTAGAGGATTCAATCATTC
1 A-GTAATGTTACCCTCAACCTGACTTTCTCGTTTAGAGGAGTCAATCTTTC
1876946 AGTAAT
1 AGTAAT
1876952 TTCATCCTCA
Statistics
Matches: 258, Mismatches: 42, Indels: 14
0.82 0.13 0.04
Matches are distributed among these distances:
49 1 0.00
50 214 0.83
51 43 0.17
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (50 bp):
AGTAATGTTACCCTCAACCTGACTTTCTCGTTTAGAGGAGTCAATCTTTC
Found at i:1877915 original size:41 final size:41
Alignment explanation
Indices: 1877869--1877954 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
1877859 CTTCTTCCAA
1877869 GATTTGAT-TTACCCTAAAAAGAAGTGGAACAAATCTACCTC
1 GATTTGATATT-CCCTAAAAAGAAGTGGAACAAATCTACCTC
* ** * * *
1877910 GATTTGATATTCCCTGAAGTGTAGTGGAGCAAATCTACTTC
1 GATTTGATATTCCCTAAAAAGAAGTGGAACAAATCTACCTC
1877951 GATT
1 GATT
1877955 CAATTTTTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 36 0.95
42 2 0.05
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (41 bp):
GATTTGATATTCCCTAAAAAGAAGTGGAACAAATCTACCTC
Found at i:1877967 original size:41 final size:41
Alignment explanation
Indices: 1877891--1877969 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
1877881 CCTAAAAAGA
**
1877891 AGTGGAACAAATCTACCTCGATTTGATATTCCCTGAAGTGT
1 AGTGGAACAAATCTACCTCGATTCAATATTCCCTGAAGTGT
* * * *
1877932 AGTGGAGCAAATCTACTTCGATTCAATTTTTCCTGAAG
1 AGTGGAACAAATCTACCTCGATTCAATATTCCCTGAAG
1877970 AGGAGTGAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (41 bp):
AGTGGAACAAATCTACCTCGATTCAATATTCCCTGAAGTGT
Found at i:1878173 original size:132 final size:131
Alignment explanation
Indices: 1877932--1878203 Score: 296
Period size: 132 Copynumber: 2.1 Consensus size: 131
1877922 CCTGAAGTGT
* * * * * *
1877932 AGTGGAGCAAATCTACTTCGATTCAATTTTTCCTGAAGAGGAGTGAAGTTAATCAAAGTTTTTAT
1 AGTGGAGCAAATCTACCTCGATTCAATCTTCCCTGAAGAGGAGTAAAGTGAATCAAAGTTTTTAG
* * ** * ** * *
1877997 ATCTGATCTTCCCTAAATAGTAGTGGAACATATCACTTCTTCCATGATTTGATCTTCAATGCAAA
66 ATCTAATCTTCCCTAAAGAGTAGCAGAACAGATCACCACGTCCAT-ATTAGATCTTCAATGCAAA
1878062 GC
130 GC
* * * *
1878064 AGTGGTGCAAATTTACCTCGATTCAATCTTCCCTGAAGAGTAGTAAAGTGAATTAAAGATTTTTA
1 AGTGGAGCAAATCTACCTCGATTCAATCTTCCCTGAAGAGGAGTAAAGTGAATCAAAG-TTTTTA
* * **
1878129 GATCTAATTTTCCCTAAAGAGTAGCAGAGCAGATC-CCACGTCCATATTAGATCTTCCTTG-AAG
65 GATCTAATCTTCCCTAAAGAGTAGCAGAACAGATCACCACGTCCATATTAGATCTTCAATGCAA-
1878192 AGC
129 AGC
1878195 AGTGGAGCA
1 AGTGGAGCA
1878204 GATCAAAACT
Statistics
Matches: 114, Mismatches: 24, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
130 2 0.02
131 23 0.20
132 56 0.49
133 33 0.29
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (131 bp):
AGTGGAGCAAATCTACCTCGATTCAATCTTCCCTGAAGAGGAGTAAAGTGAATCAAAGTTTTTAG
ATCTAATCTTCCCTAAAGAGTAGCAGAACAGATCACCACGTCCATATTAGATCTTCAATGCAAAG
C
Found at i:1883202 original size:47 final size:47
Alignment explanation
Indices: 1883128--1883481 Score: 525
Period size: 47 Copynumber: 7.6 Consensus size: 47
1883118 ATTATCATAA
*
1883128 CATCCTTTCATGCA-TTTTAGTTATGGCATCCTTTCATGCCTTAATG
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
*
1883174 CACCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
* *
1883221 CATCCGTTCATGCATTTTTAGTTATGGAATCATTTCATG-CTGTAATG
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCT-TAATG
* * *
1883268 CATACGTTCATGAATTTTTAGTTATTGCATCCTTTCATGCCTTAATG
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
** *
1883315 CATCCGTTCATGCATTTTTAGTTATAACATCCTTTTATGCCTTAATG
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
*
1883362 TA-CTCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
1 CATC-CGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
* *
1883409 CATCCGTTCATGCATTTTTAGTTATGGAATCCTTTCATGCCTTAGTG
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
** *
1883456 CATATGTTCATGCATCTTTAGTTATG
1 CATCCGTTCATGCATTTTTAGTTATG
1883482 AATTCGATTT
Statistics
Matches: 278, Mismatches: 25, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
46 15 0.05
47 260 0.94
48 3 0.01
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (47 bp):
CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
Found at i:1883399 original size:27 final size:27
Alignment explanation
Indices: 1883368--1883448 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 27
1883358 AATGTACTCG
1883368 TTCATGCATTTTTAGTTATGGCATCCT
1 TTCATGCATTTTTAGTTATGGCATCCT
* *
1883395 TTCATGC---CTTA---AT-GCATCCG
1 TTCATGCATTTTTAGTTATGGCATCCT
*
1883415 TTCATGCATTTTTAGTTATGGAATCCT
1 TTCATGCATTTTTAGTTATGGCATCCT
1883442 TTCATGC
1 TTCATGC
1883449 CTTAGTGCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
20 13 0.31
21 2 0.05
23 3 0.07
24 3 0.07
26 2 0.05
27 19 0.45
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (27 bp):
TTCATGCATTTTTAGTTATGGCATCCT
Found at i:1887787 original size:24 final size:24
Alignment explanation
Indices: 1887753--1887808 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
1887743 TCTAAAAATT
1887753 CTCTAACCGTGGGAATATCATTTA
1 CTCTAACCGTGGGAATATCATTTA
*
1887777 CTCTAATCGTGGGAATATCATTTA
1 CTCTAACCGTGGGAATATCATTTA
1887801 CTCTAACC
1 CTCTAACC
1887809 TCAAAATTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (24 bp):
CTCTAACCGTGGGAATATCATTTA
Found at i:1890020 original size:47 final size:47
Alignment explanation
Indices: 1889938--1890376 Score: 674
Period size: 47 Copynumber: 9.4 Consensus size: 47
1889928 ATTATCATAA
*
1889938 CATCCTTTCATGCA-TTTTAGTTATGGCATCCTTTCATGCCTTAATG
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
** *
1889984 CATCCGTTCATGCATTTTTAGTTATGGTC-TTTTTTCATGCGTTAATG
1 CATCCGTTCATGCATTTTTAGTTATGG-CATCCTTTCATGCCTTAATG
* *
1890031 CTTCCGTTCATGCATTTTTAG-T-TGTCATCCTTTCATGCCTTAATG
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
* *
1890076 CATCCGTTCATGCATTTTTAGTCATGGCATCCTTTGATGCCTTAATG
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
* *
1890123 CATCTGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCATTAATG
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
1890170 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
*
1890217 CATCCGTTCATGTATTTTTAGTTATGGCAT-CTTTCATGCCTTAATG
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
*
1890263 CATCCATTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
* * *
1890310 CATCCGTTCATGTATTTTTAGTCAT-GCTATCATTTCATGCCTTAATG
1 CATCCGTTCATGCATTTTTAGTTATGGC-ATCCTTTCATGCCTTAATG
*
1890357 CATCCATTCATGCATTTTTA
1 CATCCGTTCATGCATTTTTA
1890377 TTGTTAGGGT
Statistics
Matches: 358, Mismatches: 28, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
44 1 0.00
45 37 0.10
46 60 0.17
47 259 0.72
48 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (47 bp):
CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATG
Found at i:1890085 original size:20 final size:20
Alignment explanation
Indices: 1890056--1890228 Score: 67
Period size: 20 Copynumber: 7.6 Consensus size: 20
1890046 TTTTAGTTGT
*
1890056 CATCCTTTCATGCCTTAATG
1 CATCCGTTCATGCCTTAATG
*
1890076 CATCCGTTCATGCATTTTTAGTCATGG
1 CATCCGTTCATGC---CTTA---AT-G
* *
1890103 CATCCTTTGATGCCTTAATG
1 CATCCGTTCATGCCTTAATG
* *
1890123 CATCTGTTCATGCATTTTTAGTTATGG
1 CATCCGTTCATGC---CTTA---AT-G
* *
1890150 CATCCTTTCATGCATTAATG
1 CATCCGTTCATGCCTTAATG
*
1890170 CATCCGTTCATGCATTTTTAGTTATGG
1 CATCCGTTCATGC---CTTA---AT-G
*
1890197 CATCCTTTCATGCCTTAATG
1 CATCCGTTCATGCCTTAATG
1890217 CATCCGTTCATG
1 CATCCGTTCATG
1890229 TATTTTTAGT
Statistics
Matches: 115, Mismatches: 17, Indels: 42
0.66 0.10 0.24
Matches are distributed among these distances:
20 48 0.42
21 6 0.05
23 9 0.08
24 9 0.08
26 6 0.05
27 37 0.32
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.42
Consensus pattern (20 bp):
CATCCGTTCATGCCTTAATG
Found at i:1890274 original size:20 final size:20
Alignment explanation
Indices: 1890249--1890321 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 20
1890239 TATGGCATCT
1890249 TTCATGCCTTAATGCATCCA
1 TTCATGCCTTAATGCATCCA
* *
1890269 TTCATGCATTTTTAGTTATGGCATCCT
1 TTCATGC---CTTA---AT-GCATCCA
*
1890296 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATCCA
1890316 TTCATG
1 TTCATG
1890322 TATTTTTAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
20 19 0.45
21 2 0.05
23 3 0.07
24 3 0.07
26 2 0.05
27 13 0.31
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.41
Consensus pattern (20 bp):
TTCATGCCTTAATGCATCCA
Found at i:1890302 original size:140 final size:141
Alignment explanation
Indices: 1889938--1890376 Score: 674
Period size: 140 Copynumber: 3.1 Consensus size: 141
1889928 ATTATCATAA
*
1889938 CATCCTTTCATGCA-TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTT
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTT
** * * *
1890002 TAGTTATGGTC-TTTTTTCATGCGTTAATGCTTCCGTTCATGCATTTTTAG-T-TGTCATCCTTT
66 TAGTTATGG-CATCCTTTCATGCATTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTT
1890064 CATGCCTTAATG
130 CATGCCTTAATG
* * *
1890076 CATCCGTTCATGCATTTTTAGTCATGGCATCCTTTGATGCCTTAATGCATCTGTTCATGCATTTT
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTT
1890141 TAGTTATGGCATCCTTTCATGCATTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTC
66 TAGTTATGGCATCCTTTCATGCATTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTC
1890206 ATGCCTTAATG
131 ATGCCTTAATG
* *
1890217 CATCCGTTCATGTATTTTTAGTTATGGCAT-CTTTCATGCCTTAATGCATCCATTCATGCATTTT
1 CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTT
* * * *
1890281 TAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGTATTTTTAGTCAT-GCTATCATTT
66 TAGTTATGGCATCCTTTCATGCATTAATGCATCCGTTCATGCATTTTTAGTTATGGC-ATCCTTT
1890345 CATGCCTTAATG
130 CATGCCTTAATG
*
1890357 CATCCATTCATGCATTTTTA
1 CATCCGTTCATGCATTTTTA
1890377 TTGTTAGGGT
Statistics
Matches: 276, Mismatches: 20, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
138 14 0.05
139 93 0.34
140 119 0.43
141 50 0.18
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (141 bp):
CATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTT
TAGTTATGGCATCCTTTCATGCATTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTC
ATGCCTTAATG
Found at i:1891122 original size:50 final size:51
Alignment explanation
Indices: 1891059--1891243 Score: 190
Period size: 51 Copynumber: 3.7 Consensus size: 51
1891049 AGATTCAAGA
** **
1891059 TTGAGGATAACA-TTACTGAAATTTTGACTCCTCTCCATGAGAAAGTTAGG
1 TTGAGGATAACATTTACTGAAAGATTGACTCCTCTAAATGAGAAAGTTAGG
* * *
1891109 TTGAGGGTGACATTTATTGAAAGATTGACTCCTCTAAATGAGAAAGTTAGG
1 TTGAGGATAACATTTACTGAAAGATTGACTCCTCTAAATGAGAAAGTTAGG
* *
1891160 TT-AAGACTAACA-TTACCT-AAAGATTGACT--T-TAAACGAGAAAGTTAGG
1 TTGAGGA-TAACATTTA-CTGAAAGATTGACTCCTCTAAATGAGAAAGTTAGG
*
1891207 TTGAGGATAACA-TTACCT-AAATATTGACTCCTCTAAA
1 TTGAGGATAACATTTA-CTGAAAGATTGACTCCTCTAAA
1891244 CTAGCCTTGA
Statistics
Matches: 114, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
47 39 0.34
48 4 0.04
49 1 0.01
50 30 0.26
51 40 0.35
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (51 bp):
TTGAGGATAACATTTACTGAAAGATTGACTCCTCTAAATGAGAAAGTTAGG
Found at i:1901623 original size:20 final size:20
Alignment explanation
Indices: 1901598--1901640 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1901588 TCTAAGAGCC
* *
1901598 CATTTAGGATCATTTAGATG
1 CATTTAGGAGCATATAGATG
*
1901618 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
1901638 CAT
1 CAT
1901641 GAGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:1901909 original size:27 final size:27
Alignment explanation
Indices: 1901871--1901924 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
1901861 TATTTTCACA
*
1901871 GATCTCTGATCATGACTGAGAAATCCG
1 GATCTCTGATCATGACCGAGAAATCCG
1901898 GATCTCTGATCATGACCGAGAAATCCG
1 GATCTCTGATCATGACCGAGAAATCCG
1901925 CCTGGATCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (27 bp):
GATCTCTGATCATGACCGAGAAATCCG
Found at i:1909608 original size:14 final size:14
Alignment explanation
Indices: 1909586--1909620 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1909576 CCCACTTTGT
1909586 AAAAA-AAAAGAAA
1 AAAAAGAAAAGAAA
1909599 AAAAAGAAAAGAAA
1 AAAAAGAAAAGAAA
*
1909613 AAAGAGAA
1 AAAAAGAA
1909621 TGAAGTTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAGAAA
Found at i:1910239 original size:20 final size:20
Alignment explanation
Indices: 1910214--1910255 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1910204 CTAAGAGCCT
* *
1910214 ATTTAGGATCATTTAGATGC
1 ATTTAGGAGCATATAGATGC
*
1910234 ATTTAGGAGCATATAGTTGC
1 ATTTAGGAGCATATAGATGC
1910254 AT
1 AT
1910256 GAGGTGGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTTAGGAGCATATAGATGC
Found at i:1916649 original size:54 final size:54
Alignment explanation
Indices: 1916590--1917008 Score: 601
Period size: 54 Copynumber: 7.8 Consensus size: 54
1916580 TACCAAATGG
* *
1916590 CACTATGTGTGCAACCCACATAATTCATCATATGTTGATGAACAACTGTTTCGA
1 CACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGTTTCGA
* *
1916644 CACTATGTGTGCAACCCACTA-AATTCACCATATGTTGATGAACAACCGTTTTGA
1 CACTATGTGTGCAACCCAC-AGAATTCATCATATGTTGATGAACAACCGTTTCGA
*
1916698 CACTATGTGTGCAACCCAC-GAAATTTATCATATGTTGATGAACAACCGTTT-GA
1 CACTATGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACAACCGTTTCGA
*
1916751 CACTATGTGTGCAACCCACAGAATTTATCATATGTTGATGAACAACCGTTTCGA
1 CACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGTTTCGA
* * * *
1916805 CACTATGTGTGCAACCCACATAATTCATCATATATTGATAAACAACCGTTTCGG
1 CACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGTTTCGA
* * * *
1916859 CACTATGTGTGCAACCCCCAAAATTCATCATATGTTGATGAACAACTGTTTCGG
1 CACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGTTTCGA
* * * * *
1916913 CACTATGTGTGCAACCCATAGAATTCATCATATGTTAATGAACAACTGTTTTGG
1 CACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGTTTCGA
* * *
1916967 CACTATGTGTGCAACCCACAGAATTCATAATAAGTTTATGAA
1 CACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAA
1917009 TTTCCGTAAG
Statistics
Matches: 336, Mismatches: 24, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
53 51 0.15
54 284 0.85
55 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (54 bp):
CACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGTTTCGA
Found at i:1916855 original size:161 final size:162
Alignment explanation
Indices: 1916590--1916994 Score: 625
Period size: 161 Copynumber: 2.5 Consensus size: 162
1916580 TACCAAATGG
*
1916590 CACTATGTGTGCAACCCACATAATTCATCATATGTTGATGAACAACTGTTTCGACACTATGTGTG
1 CACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACTGTTTCGACACTATGTGTG
* * * * *
1916655 CAACCCAC-TAAATTCACCATATGTTGATGAACAACCGTTTTGACACTATGTGTGCAACCCACGA
66 CAACCCACAT-AATTCATCATATATTGATAAACAACCGTTTCGACACTATGTGTGCAACCCACAA
*
1916719 AATTTATCATATGTTGATGAACAACCGTTT-GA
130 AATTCATCATATGTTGATGAACAACCGTTTCGA
* *
1916751 CACTATGTGTGCAACCCACAGAATTTATCATATGTTGATGAACAACCGTTTCGACACTATGTGTG
1 CACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACTGTTTCGACACTATGTGTG
* *
1916816 CAACCCACATAATTCATCATATATTGATAAACAACCGTTTCGGCACTATGTGTGCAACCCCCAAA
66 CAACCCACATAATTCATCATATATTGATAAACAACCGTTTCGACACTATGTGTGCAACCCACAAA
* *
1916881 ATTCATCATATGTTGATGAACAACTGTTTCGG
131 ATTCATCATATGTTGATGAACAACCGTTTCGA
* * * *
1916913 CACTATGTGTGCAACCCATAGAATTCATCATATGTTAATGAACAACTGTTTTGGCACTATGTGTG
1 CACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACTGTTTCGACACTATGTGTG
*
1916978 CAACCCACAGAATTCAT
66 CAACCCACATAATTCAT
1916995 AATAAGTTTA
Statistics
Matches: 222, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
161 145 0.65
162 77 0.35
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (162 bp):
CACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACTGTTTCGACACTATGTGTG
CAACCCACATAATTCATCATATATTGATAAACAACCGTTTCGACACTATGTGTGCAACCCACAAA
ATTCATCATATGTTGATGAACAACCGTTTCGA
Found at i:1917142 original size:54 final size:54
Alignment explanation
Indices: 1916587--1917143 Score: 249
Period size: 54 Copynumber: 10.3 Consensus size: 54
1916577 GATTACCAAA
* * * *** *
1916587 TGGCACTATGTGTGCAACCCAC-ATAATTCATCATATGTTGATGAACAACTGT-T
1 TGGCACTATGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAATTTCCGTAT
* * ** * * *** *
1916640 TCGACACTATGTGTGCAACCCACTAAATTCACCATATGTTGATGAACAACCGTTT
1 T-GGCACTATGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATTTCCGTAT
* * * * * ***
1916695 TGACACTATGTGTGCAACCCACGAAATTTATCATATGTTGATGAACAACCGT-T
1 TGGCACTATGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATTTCCGTAT
* * * * * ***
1916748 TGACACTATGTGTGCAACCCAC-AGAATTTATCATATGTTGATGAACAACCGT-T
1 TGGCACTATGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAATTTCCGTAT
* * * * ***
1916801 TCGACACTATGTGTGCAACCCAC-ATAATTCATCATATA-TTGATAAACAACCGT-T
1 T-GGCACTATGTGTGCAACCCACGA-AATTCATAATA-AGTTTATGAATTTCCGTAT
* * * * * *** *
1916855 TCGGCACTATGTGTGCAACCCCCAAAATTCATCATATGTTGATGAACAACTGT-T
1 T-GGCACTATGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATTTCCGTAT
* * * * *** * *
1916909 TCGGCACTATGTGTGCAACCCA-TAGAATTCATCATATGTTAATGAACAACTGTTT
1 T-GGCACTATGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAATTTCCGTAT
*
1916964 TGGCACTATGTGTGCAACCCAC-AGAATTCATAATAAGTTTATGAATTTCCGTAA
1 TGGCACTATGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAATTTCCGTAT
* * * * * * *
1917018 GGGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGCTAATGAATTTCCGTAT
1 TGGCACTATGTGTGC-AACCCACGAAATTCATAATAAGTTTATGAATTTCCGTAT
* * * * * *
1917073 T-ACTAGTAGGCGTGCAACCCGCGTAAATT-ATAATAAGTTTATGAATTACCGTAT
1 TGGC-ACTATGTGTGCAACCCACG-AAATTCATAATAAGTTTATGAATTTCCGTAT
*
1917127 TGGCACTAAGTGTGCAA
1 TGGCACTATGTGTGCAA
1917144 ACAATAGAGT
Statistics
Matches: 436, Mismatches: 52, Indels: 31
0.84 0.10 0.06
Matches are distributed among these distances:
52 1 0.00
53 55 0.13
54 329 0.75
55 50 0.11
56 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (54 bp):
TGGCACTATGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATTTCCGTAT
Found at i:1917422 original size:46 final size:46
Alignment explanation
Indices: 1917371--1917458 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
1917361 TGAAGAATAT
*
1917371 TGCATAATTGGCATGAAAGGATGCCATAAATAAAAATACATAACTG
1 TGCATAATTGGCATGAAAGGATGCCACAAATAAAAATACATAACTG
* * * *
1917417 TGCATAATTGGCATGAAATGATGTCACAAATGACAATACATA
1 TGCATAATTGGCATGAAAGGATGCCACAAATAAAAATACATA
1917459 GTTGTATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (46 bp):
TGCATAATTGGCATGAAAGGATGCCACAAATAAAAATACATAACTG
Found at i:1921777 original size:19 final size:19
Alignment explanation
Indices: 1921753--1921790 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1921743 AAAGTATAAA
1921753 TGTTAGGAAATATACTAAC
1 TGTTAGGAAATATACTAAC
1921772 TGTTAGGAAATATACTAAC
1 TGTTAGGAAATATACTAAC
1921791 AATTGATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (19 bp):
TGTTAGGAAATATACTAAC
Found at i:1923711 original size:173 final size:174
Alignment explanation
Indices: 1923497--1923842 Score: 525
Period size: 174 Copynumber: 2.0 Consensus size: 174
1923487 GATGACTATC
* * * *
1923497 TACAATATACAACTTTGTTTCCAGTAATAAATTGCACTTTTAGTGTC-AG-ACAGATGCATAGGC
1 TACAATATACAACTTTGTTGCCAGTAATAAATTGCACTTTTAGTG-CAAGAAAAAATGCATACGC
* * *
1923560 ATTGTTGATAACTCAATAAAAAGGCTATATTTAGGGCCTCTTCACTTAAGTTATTGGCTATATTA
65 ATTGTTCATAACTCAATAAAAAGGCTACATTTAGGGCCTCTTCACTTAAGTTATTGGATATATTA
* *
1923625 AAGCACATATAGGTTCATATAGATGCATTTAGGAGCATGTAATTG
130 AAGAACATATAGGTTCATATAGATACATTTAGGAGCATGTAATTG
* *
1923670 TACAATATACAACTTTGTTGCCAGTAATAAATTGTACTTTTAGTGCAAGAAAAAATGCATACGTA
1 TACAATATACAACTTTGTTGCCAGTAATAAATTGCACTTTTAGTGCAAGAAAAAATGCATACGCA
** * * *
1923735 TTGTTCATAACTCTGTAAAAAGGCTACATTTAGGGGCTTTTCACTTAAGTTATTGGATATCTTAA
66 TTGTTCATAACTCAATAAAAAGGCTACATTTAGGGCCTCTTCACTTAAGTTATTGGATATATTAA
1923800 AGAACATATAGGTTCATATAGATACATTTAGGAGCATGTAATT
131 AGAACATATAGGTTCATATAGATACATTTAGGAGCATGTAATT
1923843 TCATTTGGTG
Statistics
Matches: 155, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
172 1 0.01
173 45 0.29
174 109 0.70
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (174 bp):
TACAATATACAACTTTGTTGCCAGTAATAAATTGCACTTTTAGTGCAAGAAAAAATGCATACGCA
TTGTTCATAACTCAATAAAAAGGCTACATTTAGGGCCTCTTCACTTAAGTTATTGGATATATTAA
AGAACATATAGGTTCATATAGATACATTTAGGAGCATGTAATTG
Found at i:1934240 original size:14 final size:15
Alignment explanation
Indices: 1934221--1934251 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1934211 CACTTTGCAC
1934221 TTCTTTTTGTT-TTT
1 TTCTTTTTGTTGTTT
1934235 TTCTTTTTGTTGTTT
1 TTCTTTTTGTTGTTT
1934250 TT
1 TT
1934252 ACACGTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (15 bp):
TTCTTTTTGTTGTTT
Found at i:1934927 original size:68 final size:68
Alignment explanation
Indices: 1934818--1934953 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
1934808 TTCGGCCAGC
1934818 CCTTGTACTTTCCTAATATGACATGATTTTTAATGAAAAAACAAGACTTTAATGAAAATACATGC
1 CCTTGTACTTTCCTAATATGACATGATTTTTAATGAAAAAACAAGACTTTAATGAAAATACATGC
1934883 TCT
66 TCT
1934886 CCTTGTACTTTCCTAATATGACATGATTTTTAATGAAAAAACAAGACTTTAATGAAAATACATGC
1 CCTTGTACTTTCCTAATATGACATGATTTTTAATGAAAAAACAAGACTTTAATGAAAATACATGC
1934951 TCT
66 TCT
1934954 TAGCCGAATG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (68 bp):
CCTTGTACTTTCCTAATATGACATGATTTTTAATGAAAAAACAAGACTTTAATGAAAATACATGC
TCT
Found at i:1942258 original size:14 final size:15
Alignment explanation
Indices: 1942239--1942269 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1942229 CACTTTGCAC
1942239 TTCTTTTTGTT-TTT
1 TTCTTTTTGTTGTTT
1942253 TTCTTTTTGTTGTTT
1 TTCTTTTTGTTGTTT
1942268 TT
1 TT
1942270 ACACGTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (15 bp):
TTCTTTTTGTTGTTT
Found at i:1950392 original size:20 final size:19
Alignment explanation
Indices: 1950348--1950394 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
1950338 ACATGTGTCA
*
1950348 TTTATTTTATTTTATTATT
1 TTTAATTTATTTTATTATT
1950367 TATTAATTTATTTTTAGTTA-T
1 T-TTAATTTA-TTTTA-TTATT
1950388 TTTAATT
1 TTTAATT
1950395 ATGTTCCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 13 0.54
21 7 0.29
22 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTAATTTATTTTATTATT
Found at i:1952604 original size:23 final size:23
Alignment explanation
Indices: 1952578--1952624 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1952568 GTCCTGAATA
* *
1952578 ACCACATAGTATTGTCCCAAAGG
1 ACCACATAGAAATGTCCCAAAGG
*
1952601 ACCACATAGAAATGTCCCGAAGG
1 ACCACATAGAAATGTCCCAAAGG
1952624 A
1 A
1952625 TCATGTAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (23 bp):
ACCACATAGAAATGTCCCAAAGG
Found at i:1952655 original size:23 final size:23
Alignment explanation
Indices: 1952592--1952657 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
1952582 CATAGTATTG
* * *
1952592 TCCCAAAGGACCACATAGAAATG
1 TCCCGAAGGACCACGTAGAAATA
* * *
1952615 TCCCGAAGGATCATGTAGAATTA
1 TCCCGAAGGACCACGTAGAAATA
*
1952638 TCCCGAAGGACCGCGTAGAA
1 TCCCGAAGGACCACGTAGAA
1952658 CCCTCGACTC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (23 bp):
TCCCGAAGGACCACGTAGAAATA
Found at i:1952826 original size:16 final size:18
Alignment explanation
Indices: 1952807--1952847 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
1952797 CTCATGTAAT
1952807 CACATAG-AT-CATTTAA
1 CACATAGTATACATTTAA
1952823 CACATAGTATGACATTTAA
1 CACATAGTAT-ACATTTAA
1952842 CACATA
1 CACATA
1952848 AGTCATGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 2 0.09
19 13 0.59
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (18 bp):
CACATAGTATACATTTAA
Found at i:1959567 original size:23 final size:23
Alignment explanation
Indices: 1959490--1959569 Score: 90
Period size: 23 Copynumber: 3.5 Consensus size: 23
1959480 AATAAAAAAC
* * * *
1959490 TCCCTAAGGACCATATAGTATTG
1 TCCCGAAGGACCACATAGAATTA
* *
1959513 TCCCCAAGAACCACATAGAA-TA
1 TCCCGAAGGACCACATAGAATTA
1959535 TCCCGAAGGACCACATAGAATTA
1 TCCCGAAGGACCACATAGAATTA
*
1959558 TTCCGAAGGACC
1 TCCCGAAGGACC
1959570 GCGTAGAACC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
22 19 0.40
23 29 0.60
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (23 bp):
TCCCGAAGGACCACATAGAATTA
Found at i:1960374 original size:19 final size:20
Alignment explanation
Indices: 1960345--1960392 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 20
1960335 TTAACTTATG
*
1960345 GTATCGATATTGTTCTTCTA
1 GTATCGATATTGTTCTTCCA
1960365 GTAT-GATATTGTTCTTCCA
1 GTATCGATATTGTTCTTCCA
1960384 GTATCGATA
1 GTATCGATA
1960393 CCCCAAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.46
Consensus pattern (20 bp):
GTATCGATATTGTTCTTCCA
Found at i:1974659 original size:6 final size:6
Alignment explanation
Indices: 1974648--1974673 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1974638 TACACAAAAC
1974648 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
1974674 GGAAAGGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:2005907 original size:46 final size:46
Alignment explanation
Indices: 2005829--2005918 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
2005819 TATATACCGC
* *
2005829 TATATATTTTCATTTGTGGCATCCTTCCATGCCAATTATGCACTGT
1 TATACATTTTCATTTATGGCATCCTTCCATGCCAATTATGCACTGT
**
2005875 TATACATTTTCATTTATGGCATCCTTTGATGCCAATTATGCACT
1 TATACATTTTCATTTATGGCATCCTTCCATGCCAATTATGCACT
2005919 ATTCTTCATC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.43
Consensus pattern (46 bp):
TATACATTTTCATTTATGGCATCCTTCCATGCCAATTATGCACTGT
Found at i:2006348 original size:54 final size:54
Alignment explanation
Indices: 2006290--2006642 Score: 447
Period size: 54 Copynumber: 6.6 Consensus size: 54
2006280 TAAACTTATT
*
2006290 ATGAATTCCGTGGGTTGCACACATAGTACTGAAACGGTTATTCATCAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTACCGAAACGGTTATTCATCAACATATG
* * * * *
2006344 ATGAATTCCGTGGGTTGCACACATAGTGCCAAAATGGTAATTCATCAACATAAG
1 ATGAATTCCGTGGGTTGCACACATAGTACCGAAACGGTTATTCATCAACATATG
* * * * *
2006398 ATGAATTCCTTGGGTTGCACACATAGTGCCAAAAAGGTTGTTCATCAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTACCGAAACGGTTATTCATCAACATATG
** * * * * *
2006452 ATGAATTATGTGGGTTACACACATAGTACCGAAACGGTTTTTGATTAATATATG
1 ATGAATTCCGTGGGTTGCACACATAGTACCGAAACGGTTATTCATCAACATATG
* **
2006506 ATGAATTTCGTGGGTTGCACACATAGTGTCGAAACGGTTATTCATCAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTACCGAAACGGTTATTCATCAACATATG
* * * * *
2006560 ATGAATTACGTGGGGTGTACACATAGTGCCG-AACGGTTGTTCATCAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTACCGAAACGGTTATTCATCAACATATG
* *
2006613 ATGAATTCCTTGGGTTTCACACATAGTACC
1 ATGAATTCCGTGGGTTGCACACATAGTACC
2006643 ATTTGGTAAT
Statistics
Matches: 257, Mismatches: 42, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
53 45 0.18
54 212 0.82
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (54 bp):
ATGAATTCCGTGGGTTGCACACATAGTACCGAAACGGTTATTCATCAACATATG
Found at i:2006467 original size:162 final size:161
Alignment explanation
Indices: 2006290--2006642 Score: 492
Period size: 162 Copynumber: 2.2 Consensus size: 161
2006280 TAAACTTATT
* * *
2006290 ATGAATTCCGTGGGTTGCACACATAGTACTGAAACGGTTATTCATCAACATATGATGAATTCCGT
1 ATGAATTCTGTGGGTTACACACATAGTACCGAAACGGTTATTCATCAACATATGATGAATTCCGT
* * * *
2006355 GGGTTGCACACATAGTGCCAAAATGGTAATTCATCAACATAAGATGAATTCCTTGGGTTGCACAC
66 GGGTTGCACACATAGTGCCAAAACGGTAATTCATCAACATAAGATGAATTACGTGGGGTGCACAC
2006420 ATAGTGCCAAAAAGGTTGTTCATCAACATATG
131 ATAGTGCC-AAAAGGTTGTTCATCAACATATG
* * * * * *
2006452 ATGAATTATGTGGGTTACACACATAGTACCGAAACGGTTTTTGATTAATATATGATGAATTTCGT
1 ATGAATTCTGTGGGTTACACACATAGTACCGAAACGGTTATTCATCAACATATGATGAATTCCGT
* * * * *
2006517 GGGTTGCACACATAGTGTCGAAACGGTTATTCATCAACATATGATGAATTACGTGGGGTGTACAC
66 GGGTTGCACACATAGTGCCAAAACGGTAATTCATCAACATAAGATGAATTACGTGGGGTGCACAC
* *
2006582 ATAGTGCCGAACGGTTGTTCATCAACATATG
131 ATAGTGCCAAAAGGTTGTTCATCAACATATG
*
2006613 ATGAATTCCT-TGGGTTTCACACATAGTACC
1 ATGAATT-CTGTGGGTTACACACATAGTACC
2006643 ATTTGGTAAT
Statistics
Matches: 168, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
161 47 0.28
162 121 0.72
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (161 bp):
ATGAATTCTGTGGGTTACACACATAGTACCGAAACGGTTATTCATCAACATATGATGAATTCCGT
GGGTTGCACACATAGTGCCAAAACGGTAATTCATCAACATAAGATGAATTACGTGGGGTGCACAC
ATAGTGCCAAAAGGTTGTTCATCAACATATG
Found at i:2013535 original size:121 final size:121
Alignment explanation
Indices: 2013295--2013538 Score: 463
Period size: 121 Copynumber: 2.0 Consensus size: 121
2013285 AACAACCCCT
2013295 ATTCTAACACCTACGATCCTGTATGGCGTCAGCATACAAATTTCTCTTGGGGAAATCAAGGAACC
1 ATTCTAACACCTACGATCCTGTATGGCGTCAGCATACAAATTTCTCTTGGGGAAATCAAGGAACC
2013360 AGCAATGCTAGTCAGTCCTCTAGGCAACAGAATTTTAATGACTCCCAAGGTTTCAA
66 AGCAATGCTAGTCAGTCCTCTAGGCAACAGAATTTTAATGACTCCCAAGGTTTCAA
*
2013416 ATTCTAACACCTACGATCCTGTATGGCGTCAGCATCCAAATTTCTCTTGGGGAAATCAAGGAACC
1 ATTCTAACACCTACGATCCTGTATGGCGTCAGCATACAAATTTCTCTTGGGGAAATCAAGGAACC
2013481 AGCAATGCTAGTCAGTCCTCTAGGC-ACAGAATTTTAATGACTCCCAAGGTTTTCAA
66 AGCAATGCTAGTCAGTCCTCTAGGCAACAGAATTTTAATGACTCCCAAGG-TTTCAA
2013537 AT
1 AT
2013539 GAATATGTCA
Statistics
Matches: 121, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
120 24 0.20
121 97 0.80
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (121 bp):
ATTCTAACACCTACGATCCTGTATGGCGTCAGCATACAAATTTCTCTTGGGGAAATCAAGGAACC
AGCAATGCTAGTCAGTCCTCTAGGCAACAGAATTTTAATGACTCCCAAGGTTTCAA
Found at i:2020680 original size:181 final size:174
Alignment explanation
Indices: 2020276--2020683 Score: 391
Period size: 176 Copynumber: 2.3 Consensus size: 174
2020266 AAATTAAAGA
* * *
2020276 CATATAGTGACAAATTTTGTAACTAAAAGTTTTAGTAACTATGACAGAAAAAATTGGCAAAACAA
1 CATATAGTGACAAATTTTGTAACTATAAG-TTTAGTAATTATTACA-AAAAAATTGGCAAAACAA
* * * * *
2020341 ATAATGAGATTTAGATTTTTTGTGACAAATTTTGTTTTAATATATTTATTATAGTGACAAAACTT
64 ATAATGAGATTAAGATTTTTTGTAAAAAATTTTGTTTTAATATATTTATTATAGTGAAAAAAATT
*
2020406 ATAGTCACAAATGATTATCTCCAATTTTTTCGTACAAAAACAAAAT
129 ATAGTCACAAATGATTATCTCCAATTTTTTCGCACAAAAACAAAAT
* ** * * * * *
2020452 CATATATTGACATGTTTTGTAACTATAAGCTATAGTTATTGTTACAAAAAAAGTTGTCACAACAA
1 CATATAGTGACAAATTTTGTAACTATAAG-TTTAGTAATTATTACAAAAAAA-TTGGCAAAACAA
*
2020517 ATAATGAGATTCAAG-TTTTTTGTAAAAAACAGTTTTTGTTGTT-ATATGTTTTAATTATAGT-A
64 ATAATGAGATT-AAGATTTTTTGT-AAAAA-A--TTTTGTT-TTAATAT-ATTT-ATTATAGTGA
* * **
2020579 AAAAAATATATTGTTACAAA-GATT-TCCCTCCATATTGTTTT-GCAC-CCAA-AAAAT
121 AAAAAAT-TATAGTCACAAATGATTAT--CTCCA-ATT-TTTTCGCACAAAAACAAAAT
*
2020633 CATATAGTGACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAA
1 CATATAGTGACAAATTTTGTAACTATAAGT-TTAGTAATTATTACAAAAAA
2020684 CCATGTTATT
Statistics
Matches: 187, Mismatches: 30, Indels: 25
0.77 0.12 0.10
Matches are distributed among these distances:
175 6 0.03
176 65 0.35
177 5 0.03
178 1 0.01
180 13 0.07
181 62 0.33
182 25 0.13
183 6 0.03
184 4 0.02
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (174 bp):
CATATAGTGACAAATTTTGTAACTATAAGTTTAGTAATTATTACAAAAAAATTGGCAAAACAAAT
AATGAGATTAAGATTTTTTGTAAAAAATTTTGTTTTAATATATTTATTATAGTGAAAAAAATTAT
AGTCACAAATGATTATCTCCAATTTTTTCGCACAAAAACAAAAT
Found at i:2027313 original size:21 final size:20
Alignment explanation
Indices: 2027287--2027329 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
2027277 AGTAAAAAGC
*
2027287 TATGAAAATATATAGCTAATA
1 TATGAAAACATATA-CTAATA
*
2027308 TATGAACACATATACTAATA
1 TATGAAAACATATACTAATA
2027328 TA
1 TA
2027330 CAAGCAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (20 bp):
TATGAAAACATATACTAATA
Found at i:2028968 original size:21 final size:21
Alignment explanation
Indices: 2028942--2029001 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
2028932 ATTTATCGTG
*
2028942 ATTGCGGCCGTCACGGGTGCT
1 ATTGCGGCCGTCGCGGGTGCT
* * **
2028963 ATTGCGACTGTCGCGGACGCT
1 ATTGCGGCCGTCGCGGGTGCT
*
2028984 ATTACGGCCGTCGCGGGT
1 ATTGCGGCCGTCGCGGGT
2029002 AACTCGGACG
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.12, C:0.28, G:0.37, T:0.23
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGGTGCT
Found at i:2030664 original size:32 final size:32
Alignment explanation
Indices: 2030623--2030686 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
2030613 ATTGGGCCAA
2030623 TCCAATACATGTCTTCCTATATTAATCAGGGC
1 TCCAATACATGTCTTCCTATATTAATCAGGGC
2030655 TCCAATACATGTCTTCCTATATTAATCAGGGC
1 TCCAATACATGTCTTCCTATATTAATCAGGGC
2030687 CGCTGCAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (32 bp):
TCCAATACATGTCTTCCTATATTAATCAGGGC
Found at i:2031857 original size:139 final size:144
Alignment explanation
Indices: 2031599--2031886 Score: 424
Period size: 139 Copynumber: 2.0 Consensus size: 144
2031589 AGGATGGGCC
* *
2031599 GATGATTTGAAAGCATCTGGAGAAGATGATGAAGATTAGAATTGGAAAAACACTCATCAGTCATC
1 GATGATATGAAAGCATCTGGAGAAGATGATGAAGATTAGAATCGGAAAAACAC-CATCA-TCATC
* *
2031664 CCAATAACTATTACAAAGGGATCTATCAAGACGAGCATGAGTTAGACCATGAGTCGACGTAAAAG
64 CCAATAACTATTACAAAGGGATCTATCAAGACGAGCATGAGTTAGACCACGAGTCCACGTAAAAG
2031729 CATGGCCATGGAAACT
129 CATGGCCATGGAAACT
* *
2031745 GATGATATGAACGCATCTGGAGAAGATGATGAAGATTAGAATCGG-GAAA-A-CA-C-TCATCCC
1 GATGATATGAAAGCATCTGGAGAAGATGATGAAGATTAGAATCGGAAAAACACCATCATCATCCC
* * * *
2031805 AATAACTATTATAAAGGGATCTATCAAGATGAGCATGAGTTAGGCCACGAGTCCACGTAAAAGTA
66 AATAACTATTACAAAGGGATCTATCAAGACGAGCATGAGTTAGACCACGAGTCCACGTAAAAGCA
*
2031870 TGGCCATGGAAGCT
131 TGGCCATGGAAACT
2031884 GAT
1 GAT
2031887 ATCTCTGAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
139 82 0.63
141 1 0.01
142 2 0.02
144 1 0.01
145 3 0.02
146 42 0.32
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (144 bp):
GATGATATGAAAGCATCTGGAGAAGATGATGAAGATTAGAATCGGAAAAACACCATCATCATCCC
AATAACTATTACAAAGGGATCTATCAAGACGAGCATGAGTTAGACCACGAGTCCACGTAAAAGCA
TGGCCATGGAAACT
Found at i:2040693 original size:12 final size:11
Alignment explanation
Indices: 2040657--2040695 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2040647 ATGTCTATAA
*
2040657 TTATAGTTAAT
1 TTATATTTAAT
*
2040668 ATATATTTAAT
1 TTATATTTAAT
2040679 TTATATTTAAAT
1 TTATATTT-AAT
2040691 TTATA
1 TTATA
2040696 ATCCTGAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 16 0.67
12 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (11 bp):
TTATATTTAAT
Found at i:2046092 original size:23 final size:23
Alignment explanation
Indices: 2046066--2046112 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2046056 TTCTTCTCTT
*
2046066 GAAAAAAATATTTTTTCACCTTA
1 GAAAAAAATATTTTTCCACCTTA
* * *
2046089 GAAAATATTATTTTTCCTCCTTA
1 GAAAAAAATATTTTTCCACCTTA
2046112 G
1 G
2046113 TTTTCAGGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (23 bp):
GAAAAAAATATTTTTCCACCTTA
Found at i:2046350 original size:16 final size:17
Alignment explanation
Indices: 2046316--2046348 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
2046306 ATAAAAAGAG
2046316 TATTTTATCTTTATTTT
1 TATTTTATCTTTATTTT
2046333 TATTTT-TC-TTATTTT
1 TATTTTATCTTTATTTT
2046348 T
1 T
2046349 TAAAGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (17 bp):
TATTTTATCTTTATTTT
Found at i:2046667 original size:21 final size:20
Alignment explanation
Indices: 2046641--2046683 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
2046631 AGTAAAAAAG
*
2046641 TATGAAAATATATATCTAATA
1 TATGAAAACATATA-CTAATA
*
2046662 TATGAACACATATACTAATA
1 TATGAAAACATATACTAATA
2046682 TA
1 TA
2046684 CAAGCAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (20 bp):
TATGAAAACATATACTAATA
Found at i:2053604 original size:55 final size:55
Alignment explanation
Indices: 2053537--2053644 Score: 135
Period size: 55 Copynumber: 2.0 Consensus size: 55
2053527 TTGAATTAAC
* * * * * *
2053537 GATTGAGCACCTCTATGCATCAATCGAGAGTTGACACTTCTGTGTAGCTAAAACT
1 GATTGAACACCTCTATGCATCAATCAAAAATTGACACCTCTGTGCAGCTAAAACT
* * *
2053592 GATTGAACACCTCTGTGCCTCAATCAAAAATTGACACCTCTGTGCAGTTAAAA
1 GATTGAACACCTCTATGCATCAATCAAAAATTGACACCTCTGTGCAGCTAAAA
2053645 ATGACTGAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (55 bp):
GATTGAACACCTCTATGCATCAATCAAAAATTGACACCTCTGTGCAGCTAAAACT
Found at i:2053659 original size:55 final size:55
Alignment explanation
Indices: 2053540--2053662 Score: 131
Period size: 55 Copynumber: 2.2 Consensus size: 55
2053530 AATTAACGAT
* * * * * * * * *
2053540 TGAGCACCTCTATGCATCAATCGAGAGTTGACACTTCTGTGTAGCTAAAACTGAT
1 TGAGAACCTCTGTGCATCAATCAAAAATTGACACCTCTGTGCAGCTAAAAATGAC
* *
2053595 TGA-ACACCTCTGTGCCTCAATCAAAAATTGACACCTCTGTGCAGTTAAAAATGAC
1 TGAGA-ACCTCTGTGCATCAATCAAAAATTGACACCTCTGTGCAGCTAAAAATGAC
2053650 TGAGAACCTCTGT
1 TGAGAACCTCTGT
2053663 ATTTCAGTCT
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
55 54 0.98
56 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (55 bp):
TGAGAACCTCTGTGCATCAATCAAAAATTGACACCTCTGTGCAGCTAAAAATGAC
Found at i:2053813 original size:109 final size:108
Alignment explanation
Indices: 2053591--2053840 Score: 263
Period size: 109 Copynumber: 2.3 Consensus size: 108
2053581 TAGCTAAAAC
* *
2053591 TGATTGAACACCTCTGTGCCTCAATCAAAAATTGACACCTCTGTGCAGTTAAAAATGACTGAGAA
1 TGATTGAACACCTCTGTGCTTCAATCTAAAATTGACACCTCTGT-CAGTTAAAAATGACTGAGAA
* * * **
2053656 CCTCTGTATTTCAGTCTAAAATCTGGCACCTCTGTGTTTTTAAT
65 CCTCTGTACTTCAATATAAAATCTGGCACCTCTGTGCATTTAAT
** * * * ** * *
2053700 TGATTGAACACCTCTGTGCTTCAATCTAGGATCTGGCACCTCTGT-TGTTTAGGATGATTGAGCA
1 TGATTGAACACCTCTGTGCTTCAATCTAAAAT-TGACACCTCTGTCAGTTAAAAATGACTGAGAA
*
2053764 CCTCTGTGCTTCAATATAAAATCTGGCACCTCTGTGCATTTAGGA-
65 CCTCTGTACTTCAATATAAAATCTGGCACCTCTGTGCATTTA--AT
* *
2053809 TGATTGAGCACCTTTGTG-TTGCAATCTAAAAT
1 TGATTGAACACCTCTGTGCTT-CAATCTAAAAT
2053841 CAAGTACCTC
Statistics
Matches: 116, Mismatches: 21, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
108 51 0.44
109 53 0.46
110 12 0.10
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (108 bp):
TGATTGAACACCTCTGTGCTTCAATCTAAAATTGACACCTCTGTCAGTTAAAAATGACTGAGAAC
CTCTGTACTTCAATATAAAATCTGGCACCTCTGTGCATTTAAT
Found at i:2053839 original size:55 final size:55
Alignment explanation
Indices: 2053591--2053841 Score: 253
Period size: 54 Copynumber: 4.6 Consensus size: 55
2053581 TAGCTAAAAC
* * * * * **
2053591 TGATTGAACACCTCTGTGCCTCAATCAAAAAT-TGACACCTCTGTGCAGTTAAAAA
1 TGATTGAGCACCTCTGTGCTTCAATCTAAAATCTGGCACCTCTGTGCA-TTTAGGA
* * ** * **
2053646 TGACTGAGAACCTCTGTATTTCAGTCTAAAATCTGGCACCTCTGTGTTTTTA--A
1 TGATTGAGCACCTCTGTGCTTCAATCTAAAATCTGGCACCTCTGTGCATTTAGGA
* **
2053699 TTGATTGAACACCTCTGTGCTTCAATCTAGGATCTGGCACCTCTGTTG--TTTAGGA
1 -TGATTGAGCACCTCTGTGCTTCAATCTAAAATCTGGCACCTCTG-TGCATTTAGGA
*
2053754 TGATTGAGCACCTCTGTGCTTCAATATAAAATCTGGCACCTCTGTGCATTTAGGA
1 TGATTGAGCACCTCTGTGCTTCAATCTAAAATCTGGCACCTCTGTGCATTTAGGA
*
2053809 TGATTGAGCACCTTTGTG-TTGCAATCTAAAATC
1 TGATTGAGCACCTCTGTGCTT-CAATCTAAAATC
2053842 AAGTACCTCC
Statistics
Matches: 162, Mismatches: 26, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
53 7 0.04
54 78 0.48
55 65 0.40
56 12 0.07
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (55 bp):
TGATTGAGCACCTCTGTGCTTCAATCTAAAATCTGGCACCTCTGTGCATTTAGGA
Found at i:2056124 original size:19 final size:20
Alignment explanation
Indices: 2056081--2056126 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
2056071 GACTATGCTA
*
2056081 GAAATTAATGTTAGAGTGTT
1 GAAATTAATGTTAGAATGTT
*
2056101 GAAATTGATGTTAGAATG-T
1 GAAATTAATGTTAGAATGTT
2056120 GAAATTA
1 GAAATTA
2056127 GGCCATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (20 bp):
GAAATTAATGTTAGAATGTT
Found at i:2057548 original size:24 final size:24
Alignment explanation
Indices: 2057484--2057548 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
2057474 GTTCCTTTGT
* * *
2057484 TGCACTCTTATATTAGTGCATTTA
1 TGCACTCCTATATTAGTGCAATCA
*
2057508 TGCACT-CTAGTAATAGTGCAATCA
1 TGCACTCCTA-TATTAGTGCAATCA
*
2057532 TGTACTCCTATATTAGT
1 TGCACTCCTATATTAGT
2057549 ACCTATGTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 2 0.06
24 28 0.85
25 3 0.09
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (24 bp):
TGCACTCCTATATTAGTGCAATCA
Found at i:2057559 original size:24 final size:24
Alignment explanation
Indices: 2057532--2057610 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
2057522 AGTGCAATCA
*
2057532 TGTACTCCTATATTAGTACCTATG
1 TGTACTCCTGTATTAGTACCTATG
* * *
2057556 TGTACTTCTGTA-TAGGTTCATATG
1 TGTACTCCTGTATTA-GTACCTATG
* *
2057580 TGCACTCCTGTATTAGTACCTTTG
1 TGTACTCCTGTATTAGTACCTATG
*
2057604 GGTACTC
1 TGTACTC
2057611 TTGTTGTTGA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
23 2 0.05
24 38 0.90
25 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (24 bp):
TGTACTCCTGTATTAGTACCTATG
Found at i:2066337 original size:2 final size:2
Alignment explanation
Indices: 2066330--2066375 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2066320 TTACACGTTC
2066330 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2066372 AT AT
1 AT AT
2066376 TATGATATTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2067847 original size:3 final size:3
Alignment explanation
Indices: 2067834--2067930 Score: 69
Period size: 3 Copynumber: 31.7 Consensus size: 3
2067824 TTCTTATATT
* *
2067834 TAA TTA TAA TAA TAG TAA TGAA CCTAA -AA TAA TAA -ATA TAA TTAA
1 TAA TAA TAA TAA TAA TAA T-AA --TAA TAA TAA TAA TA-A TAA -TAA
*
2067879 TAA TTAA TAA TTAA TAA -AA TAA TAA TAA TAA TAA TAA TAA -AT TAA
1 TAA -TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2067924 T-A TAA TA
1 TAA TAA TA
2067931 TAAAAATTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 24
0.72 0.06 0.23
Matches are distributed among these distances:
2 8 0.11
3 53 0.70
4 12 0.16
5 2 0.03
6 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2067887 original size:23 final size:21
Alignment explanation
Indices: 2067868--2067930 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 21
2067858 TAAAATAATA
2067868 AATATAATTAATAATTAATAATT
1 AATATAATTAATAA-TAATAA-T
*
2067891 AATA-AAATAATAATAATAAT
1 AATATAATTAATAATAATAAT
2067911 AATAATAAATTAAT-ATAATA
1 AAT-AT-AATTAATAATAATA
2067931 TAAAAATTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 4 0.11
21 7 0.20
22 14 0.40
23 10 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATATAATTAATAATAATAAT
Found at i:2067922 original size:31 final size:32
Alignment explanation
Indices: 2067871--2067938 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
2067861 AATAATAAAT
2067871 ATAATTAATAATTAATAATTAATAAAATAATA
1 ATAATTAATAATTAATAATTAATAAAATAATA
*
2067903 ATAA-TAATAA-TAATAAATTAATATAAT-ATA
1 ATAATTAATAATTAAT-AATTAATAAAATAATA
*
2067933 AAAATT
1 ATAATT
2067939 TGAGATAGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 10 0.31
31 18 0.56
32 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (32 bp):
ATAATTAATAATTAATAATTAATAAAATAATA
Found at i:2067934 original size:38 final size:35
Alignment explanation
Indices: 2067858--2067935 Score: 88
Period size: 35 Copynumber: 2.1 Consensus size: 35
2067848 GTAATGAACC
*
2067858 TAAAATAATAAATATAATTAATAATTAATAATTAA
1 TAAAATAATAAATATAATTAATAATTAATAAATAA
2067893 TAAAATAAT-AATAATAATAATAATAAATTAATATAAT-A
1 TAAAATAATAAAT-ATAAT--TAAT-AATTAATA-AATAA
2067931 TAAAA
1 TAAAA
2067936 ATTTGAGATA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
34 3 0.08
35 14 0.38
37 4 0.11
38 14 0.38
39 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (35 bp):
TAAAATAATAAATATAATTAATAATTAATAAATAA
Found at i:2068091 original size:35 final size:35
Alignment explanation
Indices: 2068052--2068120 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
2068042 AAATCATATG
2068052 GTAAGTCATTTTCCAAAAAATACAAAGAAAATTTA
1 GTAAGTCATTTTCCAAAAAATACAAAGAAAATTTA
* * *
2068087 GTAAGTCATTTTTCAAAAAATGCAAATAAAATTT
1 GTAAGTCATTTTCCAAAAAATACAAAGAAAATTT
2068121 TGTTAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.32
Consensus pattern (35 bp):
GTAAGTCATTTTCCAAAAAATACAAAGAAAATTTA
Found at i:2069128 original size:21 final size:22
Alignment explanation
Indices: 2069086--2069128 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
2069076 AAAGACGAAG
2069086 GAAGAAAAAAAAAAGCAAGAGAGT
1 GAAGAAAAAAAAAAG--AGAGAGT
*
2069110 GAAGAAAATAAAAAG-GAGA
1 GAAGAAAAAAAAAAGAGAGA
2069129 TGGAGCATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
24 14 0.78
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.05
Consensus pattern (22 bp):
GAAGAAAAAAAAAAGAGAGAGT
Found at i:2069869 original size:12 final size:12
Alignment explanation
Indices: 2069842--2069883 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
2069832 TCGATTTAAG
*
2069842 AATTAAAG-TCC
1 AATTAAAGATAC
2069853 AATTAAAGATAC
1 AATTAAAGATAC
2069865 AATTAAAGATAC
1 AATTAAAGATAC
*
2069877 ATTTAAA
1 AATTAAA
2069884 TTTAACAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
11 8 0.29
12 20 0.71
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.29
Consensus pattern (12 bp):
AATTAAAGATAC
Found at i:2070247 original size:14 final size:14
Alignment explanation
Indices: 2070228--2070255 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2070218 AACAGAAAAA
2070228 TAGGTGGTTTATTT
1 TAGGTGGTTTATTT
2070242 TAGGTGGTTTATTT
1 TAGGTGGTTTATTT
2070256 AAAGAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.29, T:0.57
Consensus pattern (14 bp):
TAGGTGGTTTATTT
Found at i:2076554 original size:45 final size:45
Alignment explanation
Indices: 2076464--2076622 Score: 223
Period size: 45 Copynumber: 3.6 Consensus size: 45
2076454 AACATGAAAC
* **
2076464 TAAGCTTATGAGCTTATGGAAT-AATGACAAGTATATTGGTAAAA
1 TAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAA
* * *
2076508 TAAGCTTACGAGATTATGGAGTAAATGGTAATTATATTGGTAAAA
1 TAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAA
*
2076553 TAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAGAA
1 TAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAA
*
2076598 TAAGTTTACGAGCTTATAGG-ATAAA
1 TAAGCTTACGAGCTTAT-GGAATAAA
2076623 CGATAAGAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
44 19 0.19
45 81 0.79
46 2 0.02
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (45 bp):
TAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAA
Found at i:2079358 original size:82 final size:82
Alignment explanation
Indices: 2079269--2079428 Score: 259
Period size: 82 Copynumber: 2.0 Consensus size: 82
2079259 GATATCTGTT
* *
2079269 TAATATTTTAAATTTAAAAGATATTATTTTCTATTTAAATTTATATATTAAAAGA-TTTTCAATT
1 TAATATTTTAAATTTAAAAGATATTATTATCTATTTAAATTTAGATATTAAAAGAGTTTT-AATT
2079333 GAAGTAAAACTCTCATAA
65 GAAGTAAAACTCTCATAA
*
2079351 TAATATTTTAAATTTAAAAGATATTATTATCTGTTTAAATTTAGATATTAAAAGAGTTTTAATTG
1 TAATATTTTAAATTTAAAAGATATTATTATCTATTTAAATTTAGATATTAAAAGAGTTTTAATTG
* *
2079416 GAGTTAAACTCTC
66 AAGTAAAACTCTC
2079429 TCGAAATTCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
82 68 0.94
83 4 0.06
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (82 bp):
TAATATTTTAAATTTAAAAGATATTATTATCTATTTAAATTTAGATATTAAAAGAGTTTTAATTG
AAGTAAAACTCTCATAA
Found at i:2082424 original size:19 final size:19
Alignment explanation
Indices: 2082401--2082446 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
2082391 TTTTGTGTAC
*
2082401 CGATGCACAGATAATGTAT
1 CGATGCACAGATAATGCAT
*
2082420 TGATGCACAGATAATGCAT
1 CGATGCACAGATAATGCAT
2082439 CGATGCAC
1 CGATGCAC
2082447 TCTGGCTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (19 bp):
CGATGCACAGATAATGCAT
Found at i:2082507 original size:83 final size:83
Alignment explanation
Indices: 2082349--2082510 Score: 186
Period size: 83 Copynumber: 1.9 Consensus size: 83
2082339 ATACACAGCC
* * *
2082349 ATGCATCGATGCACTCCTGATTTTATTAAAACATCGAAAGCATTTTGTGTACCGATGCACAGATA
1 ATGCATCGATGCACTCCTGATCTTATTAAAACATCGAAAGCAATTAGTGTACCGATGCACA-ATA
*
2082414 ATGTATTGATGCACAGATA
65 ATGTACTGATGCACAGATA
* * * * *
2082433 ATGCATCGATGCACT-CTGGCTCTT-TTGAAACATCGAATGTAATTAGTGTACCGATGCAC-CTC
1 ATGCATCGATGCACTCCT-GATCTTATTAAAACATCGAAAGCAATTAGTGTACCGATGCACAAT-
2082495 AAGTGTACTGATGCAC
64 AA-TGTACTGATGCAC
2082511 TAGGTCTTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
81 1 0.02
82 2 0.03
83 44 0.67
84 19 0.29
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (83 bp):
ATGCATCGATGCACTCCTGATCTTATTAAAACATCGAAAGCAATTAGTGTACCGATGCACAATAA
TGTACTGATGCACAGATA
Found at i:2089506 original size:14 final size:13
Alignment explanation
Indices: 2089482--2089532 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
2089472 AACAAAAATG
*
2089482 TAATA-ATAATAT
1 TAATATATAATAA
2089494 TAATGATATAATAA
1 TAAT-ATATAATAA
2089508 TAATATATAATTAA
1 TAATATATAA-TAA
*
2089522 T-ATTTATAATA
1 TAATATATAATA
2089533 TTTTTTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 6 0.18
13 14 0.41
14 14 0.41
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
TAATATATAATAA
Found at i:2089522 original size:17 final size:20
Alignment explanation
Indices: 2089482--2089524 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
2089472 AACAAAAATG
*
2089482 TAATAATAATATTAATGATA
1 TAATAATAATATTAATAATA
2089502 TAATAATAATATATAATTAATA
1 TAATAATAATAT-TAA-TAATA
2089524 T
1 T
2089525 TTATAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 3 0.15
22 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TAATAATAATATTAATAATA
Found at i:2089863 original size:135 final size:135
Alignment explanation
Indices: 2089670--2089995 Score: 494
Period size: 135 Copynumber: 2.4 Consensus size: 135
2089660 GACCAAGTTA
* * *
2089670 TTCTCATTATGAACTTCTTCT-T-TCTTATGGACAAGTTATTCTCATTATGAACTCTTCACAAAA
1 TTCTCATTATGAACTTCTTCTCTCTCGT-TGGATAAGTTCTTCTCATTATGAACTCTTCACAAAA
2089733 AATGTTGATCCCTCAAGCGAGGCATCACTGATTCGAAATGTCATGAATCGAGTGATAGGTCAAAC
65 AATGTTGATCCCTCAAGCGAGGCATCACTGATTCGAAATGTCATGAATCGAGTGATAGGTCAAAC
2089798 AAGCTC
130 AAGCTC
* **
2089804 TTCTCATTATGAACTTCTTCTCTCTCGTTGGATGAGTTCTTCTCATTATGAACTCTTCACTGAAA
1 TTCTCATTATGAACTTCTTCTCTCTCGTTGGATAAGTTCTTCTCATTATGAACTCTTCACAAAAA
* * * * *
2089869 ATGTTGATTCCTCAAGCGAGGCGTGACTGATTCGAAATGTCATGAATCGAGTGATAGTTCGAACA
66 ATGTTGATCCCTCAAGCGAGGCATCACTGATTCGAAATGTCATGAATCGAGTGATAGGTCAAACA
2089934 AGCTC
131 AGCTC
* * *
2089939 TTCTCATTATAAACTTCTTCTCCCTCTGTCGGATAAGTTCTTCTCATTATGAACTCT
1 TTCTCATTATGAACTTCTTCTCTCTC-GTTGGATAAGTTCTTCTCATTATGAACTCT
2089996 CCACTGGAAA
Statistics
Matches: 174, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
134 21 0.12
135 122 0.70
136 31 0.18
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (135 bp):
TTCTCATTATGAACTTCTTCTCTCTCGTTGGATAAGTTCTTCTCATTATGAACTCTTCACAAAAA
ATGTTGATCCCTCAAGCGAGGCATCACTGATTCGAAATGTCATGAATCGAGTGATAGGTCAAACA
AGCTC
Found at i:2090143 original size:15 final size:16
Alignment explanation
Indices: 2090118--2090151 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2090108 CAAGCGAGGC
*
2090118 GTCACTGATTCGAAAT
1 GTCACTGATTCAAAAT
2090134 GTCA-TGATTCAAAAT
1 GTCACTGATTCAAAAT
2090149 GTC
1 GTC
2090152 GAACAAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (16 bp):
GTCACTGATTCAAAAT
Found at i:2090199 original size:17 final size:17
Alignment explanation
Indices: 2090156--2090191 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2090146 AATGTCGAAC
2090156 AAGCTCTTCTCATTATG
1 AAGCTCTTCTCATTATG
2090173 AAGCTCTTCTCATTATG
1 AAGCTCTTCTCATTATG
2090190 AA
1 AA
2090192 CTTCTTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (17 bp):
AAGCTCTTCTCATTATG
Found at i:2090703 original size:74 final size:73
Alignment explanation
Indices: 2090620--2090774 Score: 229
Period size: 74 Copynumber: 2.1 Consensus size: 73
2090610 CAAGGGAGAC
* *
2090620 TGTCTCAAGCAAGAAGAAGTAGGTTTAAAGAAAAACCATCTCAAGGGAGATAAAACTTTGTTTCA
1 TGTCTCAAGCAAGAAGAAGTAGATTTAAAGAAAAACCATCTCAAGGGAGACAAAACTTTGTTTCA
2090685 AGAGAAAAT
66 AGAG-AAAT
* * * * * *
2090694 TGTCTCAAGCGAGACGAAGTTGATTTTAAGAAAAACCATTTTAAGGGAGACAAAACTTTGTTTCA
1 TGTCTCAAGCAAGAAGAAGTAGATTTAAAGAAAAACCATCTCAAGGGAGACAAAACTTTGTTTCA
2090759 AGAGAAAT
66 AGAGAAAT
2090767 TGTCTCAA
1 TGTCTCAA
2090775 AAACTTGTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 12 0.16
74 61 0.84
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (73 bp):
TGTCTCAAGCAAGAAGAAGTAGATTTAAAGAAAAACCATCTCAAGGGAGACAAAACTTTGTTTCA
AGAGAAAT
Found at i:2090774 original size:15 final size:15
Alignment explanation
Indices: 2090751--2090793 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
2090741 AGACAAAACT
2090751 TTGTTTCAAGAGAAA
1 TTGTTTCAAGAGAAA
* *
2090766 TTGTCTCAA-A-AAC
1 TTGTTTCAAGAGAAA
2090779 TTGTTTCAAGAGAAA
1 TTGTTTCAAGAGAAA
2090794 CTGACTCAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
13 10 0.45
14 2 0.09
15 10 0.45
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (15 bp):
TTGTTTCAAGAGAAA
Found at i:2090801 original size:28 final size:29
Alignment explanation
Indices: 2090745--2090801 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
2090735 TAAGGGAGAC
* *
2090745 AAAACTTTGTTTCAAGAGAAATTGTCTCA
1 AAAACTTTGTTTCAAGAGAAACTGACTCA
2090774 AAAAC-TTGTTTCAAGAGAAACTGACTCA
1 AAAACTTTGTTTCAAGAGAAACTGACTCA
2090802 GGGGAGACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (29 bp):
AAAACTTTGTTTCAAGAGAAACTGACTCA
Found at i:2090820 original size:36 final size:36
Alignment explanation
Indices: 2090774--2091043 Score: 214
Period size: 36 Copynumber: 7.8 Consensus size: 36
2090764 AATTGTCTCA
* * *
2090774 AAAACTTGTTTCAAGAGAAACTGACTCAGGGGAGAC
1 AAAATTTGTTTCAAGAGAAACTGTCTCAAGGGAGAC
*
2090810 AAAATTTGTTTCAAGGGAAAC-GTTCTC-----A-A-
1 AAAATTTGTTTCAAGAGAAACTG-TCTCAAGGGAGAC
** *
2090839 AATTTTATGTTTCAAGAGAAACTATCTCAAGGGAGAC
1 AAAATT-TGTTTCAAGAGAAACTGTCTCAAGGGAGAC
* * *
2090876 AAAATTTGTTTCAAGGGAAAATGTCTCAAGAGAGAC
1 AAAATTTGTTTCAAGAGAAACTGTCTCAAGGGAGAC
* * *
2090912 AAAATTTGTTTCAAGGGAAACAT-TTTTAA---AG--
1 AAAATTTGTTTCAAGAGAAAC-TGTCTCAAGGGAGAC
* *
2090943 ---TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAT
1 AAAATT-TGTTTCAAGAGAAACTGTCTCAAGGGAGAC
*
2090977 AAAATTTTGTTTCAAGAGAAATTGTCTCAAGGGAGAC
1 AAAA-TTTGTTTCAAGAGAAACTGTCTCAAGGGAGAC
* *
2091014 AAAATTTGTTTCAAGGGAAACTATCTCAAG
1 AAAATTTGTTTCAAGAGAAACTGTCTCAAG
2091044 CAAGATAAAA
Statistics
Matches: 186, Mismatches: 26, Indels: 44
0.73 0.10 0.17
Matches are distributed among these distances:
28 3 0.02
29 22 0.12
30 19 0.10
31 1 0.01
32 2 0.01
33 2 0.01
35 2 0.01
36 96 0.52
37 37 0.20
38 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (36 bp):
AAAATTTGTTTCAAGAGAAACTGTCTCAAGGGAGAC
Found at i:2090837 original size:64 final size:66
Alignment explanation
Indices: 2090736--2090904 Score: 229
Period size: 66 Copynumber: 2.6 Consensus size: 66
2090726 AAACCATTTT
* *
2090736 AAGGGAGACAAAACTTTGTTTCAAGAGAAATTGTCTCAAAA-ACT-TGTTTCAAGAGAAACTGA-
1 AAGGGAGACAAAA-TTTGTTTCAAGGGAAAGTGTCTCAAAATACTATGTTTCAAGAGAAACT-AT
2090798 CTC
64 CTC
* **
2090801 AGGGGAGACAAAATTTGTTTCAAGGGAAACGT-TCTCAAAATTTTATGTTTCAAGAGAAACTATC
1 AAGGGAGACAAAATTTGTTTCAAGGGAAA-GTGTCTCAAAATACTATGTTTCAAGAGAAACTATC
2090865 TC
65 TC
*
2090867 AAGGGAGACAAAATTTGTTTCAAGGGAAAATGTCTCAA
1 AAGGGAGACAAAATTTGTTTCAAGGGAAAGTGTCTCAA
2090905 GAGAGACAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
64 23 0.25
65 16 0.17
66 53 0.58
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (66 bp):
AAGGGAGACAAAATTTGTTTCAAGGGAAAGTGTCTCAAAATACTATGTTTCAAGAGAAACTATCT
C
Found at i:2090889 original size:102 final size:101
Alignment explanation
Indices: 2090774--2091042 Score: 387
Period size: 102 Copynumber: 2.6 Consensus size: 101
2090764 AATTGTCTCA
* * * *
2090774 AAAACTTGTTTCAAGAGAAACTGACTCAGGGGAGACAAAATTTGTTTCAAGGGAAACGTTCTCAA
1 AAAATTTGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC-TTCTCAA
*
2090839 AATTTTATGTTTCAAGAGAAACTATCTCAAGGGAGAC
65 AAGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGAC
* * **
2090876 AAAATTTGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATT-TTTA
1 AAAATTTGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC-TTCTCAA
* *
2090940 AAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAT
65 AAGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGAC
*
2090977 AAAATTTTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCA
1 AAAA-TTTGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACT-TCTCA
2091042 A
64 A
2091043 GCAAGATAAA
Statistics
Matches: 147, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
101 41 0.28
102 104 0.71
103 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (101 bp):
AAAATTTGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTTCTCAAA
AGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGAC
Found at i:2090891 original size:21 final size:21
Alignment explanation
Indices: 2090865--2090929 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
2090855 AGAAACTATC
2090865 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
*
2090886 TCAA-GG-G--AAAA--TGTC
1 TCAAGGGAGACAAAATTTGTT
*
2090901 TCAAGAGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
2090922 TCAAGGGA
1 TCAAGGGA
2090930 AACATTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 5 0.15
19 5 0.15
20 2 0.06
21 14 0.41
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.25
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:2090997 original size:37 final size:37
Alignment explanation
Indices: 2090938--2091054 Score: 155
Period size: 37 Copynumber: 3.2 Consensus size: 37
2090928 GAAACATTTT
*
2090938 TAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
1 TAAAATTT-TGTTTCAAGAGAAACTGTCTCAAGGGAGA
*
2090976 TAAAATTTTGTTTCAAGAGAAATTGTCTCAAGGGAGA
1 TAAAATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGA
* * * **
2091013 CAAAA-TTTGTTTCAAGGGAAACTATCTCAAGCAAGA
1 TAAAATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGA
2091049 TAAAAT
1 TAAAAT
2091055 CTCCTGTTTC
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
36 30 0.43
37 32 0.46
38 7 0.10
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (37 bp):
TAAAATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGA
Found at i:2091091 original size:40 final size:40
Alignment explanation
Indices: 2091046--2091365 Score: 487
Period size: 40 Copynumber: 8.0 Consensus size: 40
2091036 ATCTCAAGCA
* * * *
2091046 AGATAAAATCTCCTGTTTCGAGGAAAACCAATCTTGAGCG
1 AGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTG
* *
2091086 AGATAAAATCTTCTTTTTCAAGGAAAAACAATCTTGAATG
1 AGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTG
* *
2091126 AGATAAAATTTATCTGTTTCAAGGAAAAAAAATCTTGAGTG
1 AGATAAAATCT-TCTGTTTCAAGGAAAAACAATCTTGAGTG
* *
2091167 AGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAATG
1 AGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTG
*
2091207 AGATAAAATCTTATGTTTCAAGGAAAAACAATCTTGAGTG
1 AGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTG
* * *
2091247 AGATAAAATCTTTTGTTTCAAGGAAAAACAATATTGAATG
1 AGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTG
* *
2091287 AAATAAAATCTTATGTTTCAAGGAAAAACAATCTTGAGTG
1 AGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTG
2091327 AGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 AGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
2091366 CAAATGAAAT
Statistics
Matches: 254, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 218 0.86
41 36 0.14
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (40 bp):
AGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTG
Found at i:2100432 original size:23 final size:23
Alignment explanation
Indices: 2100406--2100462 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
2100396 CTACAATTAT
2100406 TTAAAAACAAAGGCTTTATTTGA
1 TTAAAAACAAAGGCTTTATTTGA
2100429 TTAAAAACAAAGGCTTTATTTGA
1 TTAAAAACAAAGGCTTTATTTGA
*
2100452 TCAAAAACAAA
1 TTAAAAACAAA
2100463 CTGCCTTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (23 bp):
TTAAAAACAAAGGCTTTATTTGA
Found at i:2102385 original size:17 final size:18
Alignment explanation
Indices: 2102365--2102418 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
2102355 CAAAAATGTA
*
2102365 ATAATAATATA-AATTAT
1 ATAATAATATATAATAAT
2102382 ATAATAATA-ATAATAAT
1 ATAATAATATATAATAAT
*
2102399 ATAATTAATAT-TTATAAT
1 ATAA-TAATATATAATAAT
2102417 AT
1 AT
2102419 TTTTTAATCC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 1 0.03
17 18 0.56
18 13 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAATAATATATAATAAT
Found at i:2102409 original size:9 final size:8
Alignment explanation
Indices: 2102365--2102409 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 8
2102355 CAAAAATGTA
2102365 ATAATAAT
1 ATAATAAT
*
2102373 ATAAATTAT
1 AT-AATAAT
2102382 ATAATAAT
1 ATAATAAT
2102390 AATAATAAT
1 -ATAATAAT
2102399 ATAATTAAT
1 ATAA-TAAT
2102408 AT
1 AT
2102410 TTATAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 11 0.34
9 21 0.66
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATAAT
Found at i:2104072 original size:23 final size:23
Alignment explanation
Indices: 2104046--2104116 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
2104036 GAAAGTGTAC
*
2104046 CGATGCATTCCTTGAATATGCAT
1 CGATGCATTCCTTGAATGTGCAT
* * * * *
2104069 CGATACATT--ATGAAGGTACAC
1 CGATGCATTCCTTGAATGTGCAT
2104090 CGATGCATTCCTTGAATGTGCAT
1 CGATGCATTCCTTGAATGTGCAT
2104113 CGAT
1 CGAT
2104117 ACACTATGCA
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
21 15 0.43
23 20 0.57
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (23 bp):
CGATGCATTCCTTGAATGTGCAT
Found at i:2104092 original size:44 final size:44
Alignment explanation
Indices: 2104020--2104124 Score: 165
Period size: 44 Copynumber: 2.4 Consensus size: 44
2104010 TTGTGTACTG
**
2104020 TGCATCGATACACTATGAAAGTGTACCGATGCATTCCTTGAATA
1 TGCATCGATACACTATGAAAGTACACCGATGCATTCCTTGAATA
* * *
2104064 TGCATCGATACATTATGAAGGTACACCGATGCATTCCTTGAATG
1 TGCATCGATACACTATGAAAGTACACCGATGCATTCCTTGAATA
2104108 TGCATCGATACACTATG
1 TGCATCGATACACTATG
2104125 CAGTGTACCA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTACACCGATGCATTCCTTGAATA
Found at i:2106147 original size:25 final size:27
Alignment explanation
Indices: 2106084--2106147 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 27
2106074 TTGGCTTTGT
2106084 TTGTTTGGATTTTGAATATTTAATTTGGA
1 TTGTTTGG-TTTTGAATA-TTAATTTGGA
*
2106113 TTGTTT-GTTTTGAATA-TATTTTGGA
1 TTGTTTGGTTTTGAATATTAATTTGGA
2106138 -TGTTTGGTTT
1 TTGTTTGGTTT
2106148 GTTTGAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 5 0.15
25 12 0.36
27 9 0.27
28 1 0.03
29 6 0.18
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (27 bp):
TTGTTTGGTTTTGAATATTAATTTGGA
Found at i:2106454 original size:13 final size:13
Alignment explanation
Indices: 2106425--2106457 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2106415 GGGGAGTAAT
*
2106425 TTTTCAAAATTGA
1 TTTTCAAAAATGA
2106438 -TTTCAAAAATGA
1 TTTTCAAAAATGA
2106450 TTTTCAAA
1 TTTTCAAA
2106458 GAAAATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (13 bp):
TTTTCAAAAATGA
Found at i:2108154 original size:171 final size:174
Alignment explanation
Indices: 2107869--2108214 Score: 671
Period size: 171 Copynumber: 2.0 Consensus size: 174
2107859 TAAAAATAGG
2107869 TACTAAAATTGTGGATTGTATTTTCATTTGCTATATAGAACATAAAAATGTGTATCGATTTCTTG
1 TACTAAAATTGTGGATTGTATTTTCATTTGCTATATAGAACATAAAAATGTGTATCGATTTCTTG
2107934 TGTATGAATAAAAAAATCCTGAGATTCACAAGGACATGATAATGG-AAAAAAGAA-GCATCATTA
66 TGTATGAATAAAAAAATCCTGAGATTCACAAGGACATGATAATGGAAAAAAAGAATGCATCATTA
2107997 TTTGAAAATATTTTCCTTATAAATCT-AGGAGGTTAATCAAAGT
131 TTTGAAAATATTTTCCTTATAAATCTAAGGAGGTTAATCAAAGT
2108040 TACTAAAATTGTGGATTGTATTTTCATTTGCTATATAGAACATAAAAATGTGTATCGATTTCTTG
1 TACTAAAATTGTGGATTGTATTTTCATTTGCTATATAGAACATAAAAATGTGTATCGATTTCTTG
2108105 TGTATGAATAAAAAAATCCTGAGATTCACAAGGACATGATAATGGAAAAAAAGAATGCATCATTA
66 TGTATGAATAAAAAAATCCTGAGATTCACAAGGACATGATAATGGAAAAAAAGAATGCATCATTA
2108170 TTTGAAAATATTTTCCTTATAAATCTAAGGAGGTTAATCAAAGT
131 TTTGAAAATATTTTCCTTATAAATCTAAGGAGGTTAATCAAAGT
2108214 T
1 T
2108215 TAAAACAAAC
Statistics
Matches: 172, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
171 110 0.64
172 9 0.05
173 35 0.20
174 18 0.10
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.35
Consensus pattern (174 bp):
TACTAAAATTGTGGATTGTATTTTCATTTGCTATATAGAACATAAAAATGTGTATCGATTTCTTG
TGTATGAATAAAAAAATCCTGAGATTCACAAGGACATGATAATGGAAAAAAAGAATGCATCATTA
TTTGAAAATATTTTCCTTATAAATCTAAGGAGGTTAATCAAAGT
Found at i:2111227 original size:21 final size:21
Alignment explanation
Indices: 2111203--2111243 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
2111193 ATTTCAGTTA
2111203 AAAATAAAAGATAAAACATTT
1 AAAATAAAAGATAAAACATTT
2111224 AAAATAAAAGATAAAACATT
1 AAAATAAAAGATAAAACATT
2111244 CACAGTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (21 bp):
AAAATAAAAGATAAAACATTT
Found at i:2112227 original size:18 final size:17
Alignment explanation
Indices: 2112174--2112235 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 17
2112164 TTTGTTAATA
*
2112174 TATTATATTTATATTTAT
1 TATTACATTT-TATTTAT
2112192 TATTAACAAATTATTATTTAT
1 TATT-AC--ATT-TTATTTAT
2112213 TATTACATTTGTATTTAT
1 TATTACATTT-TATTTAT
2112231 TATTA
1 TATTA
2112236 TATTAATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 1 0.03
18 19 0.50
19 1 0.03
20 2 0.05
21 14 0.37
22 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTACATTTTATTTAT
Found at i:2115118 original size:7 final size:7
Alignment explanation
Indices: 2115090--2115196 Score: 57
Period size: 7 Copynumber: 15.6 Consensus size: 7
2115080 AAACAAAAAC
2115090 AATAT-T
1 AATATAT
2115096 AATAATAT
1 AAT-ATAT
2115104 AA-ACTAT
1 AATA-TAT
2115111 AATATAT
1 AATATAT
*
2115118 AATACAT
1 AATATAT
** *
2115125 TCTATGT
1 AATATAT
2115132 -ATA-AT
1 AATATAT
2115137 -ATAATAT
1 AAT-ATAT
2115144 AATATAT
1 AATATAT
*
2115151 AATGCTAT
1 AAT-ATAT
*
2115159 ATTATAT
1 AATATAT
2115166 -ATACTAT
1 AATA-TAT
2115173 AA-ATAT
1 AATATAT
2115179 AATATAT
1 AATATAT
*
2115186 TATATAT
1 AATATAT
2115193 AATA
1 AATA
2115197 AAAACTATAT
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
5 3 0.04
6 14 0.18
7 48 0.62
8 12 0.16
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (7 bp):
AATATAT
Found at i:2117536 original size:25 final size:25
Alignment explanation
Indices: 2117502--2117551 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
2117492 ATCGATACCA
*
2117502 CCCCATGGGTATTGATACCAACCCT
1 CCCCATGGGTATCGATACCAACCCT
2117527 CCCCATGGGTATCGATACCAACCCT
1 CCCCATGGGTATCGATACCAACCCT
2117552 GTATTATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.38, G:0.16, T:0.22
Consensus pattern (25 bp):
CCCCATGGGTATCGATACCAACCCT
Found at i:2129449 original size:200 final size:198
Alignment explanation
Indices: 2129040--2129887 Score: 659
Period size: 200 Copynumber: 4.2 Consensus size: 198
2129030 TATCACCCGA
* * * *
2129040 TCAAAATTCAAACCGAGGTCTTTAAGCCAATAAGAAGACATAAGTTGATTGCGATTTGGTAACAA
1 TCAAAATTCAAACCAAGGTCTTTAAGCCAAGAAGAAGACATAGGTTGATTGCGATTTGGCAACAA
* * * * * *
2129105 GGAACCACTTCCTAGTCAAATTTCAACATAGCTTAAGGCGAAGAGCTATTTGTCGACCAAAGCTT
66 GGAACAACTTCCTAGTAAAATTTCAACATAGCTTAAGGCGAAAAGATATCTATCGACCAAAGCTT
** * * * *
2129170 TCAAGTTTGTTTTCACTCAGCTCGAGAGCACATCGACTGCATGGTAGCAGCGATGAACTACCTCC
131 TCAAGTTTAATTCCACTCAGCTCGAGAGCACATCAACCGCATGGTAGCAGCAATGAACTACCTCC
2129235 TAG
196 TAG
* *
2129238 TCAAAATTCAAACCAAGGTCTTTAAGCTAAGAAGAAGACATAGGTTGATTGTGATTTGGCAACAA
1 TCAAAATTCAAACCAAGGTCTTTAAGCCAAGAAGAAGACATAGGTTGATTGCGATTTGGCAACAA
* * * * *
2129303 TGTACTAATTTCC-AGTAAAATTTCAACATAGTTTAAGGCGAGAAAAGATATCTATCGATCAAAG
66 GGAAC-AACTTCCTAGTAAAATTTCAACATAGCTTAAGGC--GAAAAGATATCTATCGACCAAAG
* *
2129367 CTTTCAAGTTTAATTCCGCTCAGCTGGAGAGCACATCAACCGCATGGTAGCAGCAATGAACTACC
128 CTTTCAAGTTTAATTCCACTCAGCTCGAGAGCACATCAACCGCATGGTAGCAGCAATGAACTACC
*
2129432 TTCTAG
193 TCCTAG
* * * * * *
2129438 TTAAAATTCAAAACCAAGGTCTTTAAGCCAAGAAGAACACCTAGGTTGACTGCGATTTGGAAATA
1 TCAAAATTC-AAACCAAGGTCTTTAAGCCAAGAAGAAGACATAGGTTGATTGCGATTTGGCAACA
* * * * * ***
2129503 AGAAACCACTT-TTCAGTCAAATTTTGACATA-ATTTAAGATAAAATTTAAGATAAAAAGAGCTA
65 AGGAACAACTTCCT-AGT-AAAATTT--CA-ACA--T-AG------CTTAAGGCGAAAAGA--TA
* * * * ** * * * * * *
2129566 TTTGTCGAGCAAAGCTTTCTAGTTCGATTCCACTCATCTCGATAGCACACCGATCACATGGTAGC
114 TCTATCGACCAAAGCTTTCAAGTTTAATTCCACTCAGCTCGAGAGCACATCAACCGCATGGTAGC
* * *
2129631 AGTGAA-GAATTACCTTCC-GG
179 AG-CAATGAACTACC-TCCTAG
* * * * *
2129651 TCAAAATTCAAACCAAGGTCTTTAAGCCAAGAAGAAAACCTAGGTTGAATACGATTTGACAACAA
1 TCAAAATTCAAACCAAGGTCTTTAAGCCAAGAAGAAGACATAGGTTGATTGCGATTTGGCAACAA
* * * * * *
2129716 GGAACCATTTCCTAGTTAGATTTCGACATAGCTTAAGGC-AAGAAGAGCTATCTGTCGACCAAAG
66 GGAACAACTTCCTAGTAAAATTTCAACATAGCTTAAGGCGAA-AAGA--TATCTATCGACCAAAG
** * * * * * * * *
2129780 CTTTTGAGTTTGATTCTACTCAGTTTGAGGGCGCAT-AGACTGCATGGTAGCAACAATGAACTA-
128 CTTTCAAGTTTAATTCCACTCAGCTCGAGAGCACATCA-ACCGCATGGTAGCAGCAATGAACTAC
** *
2129843 CTTTTCGG
192 CTCCT-AG
* * *
2129851 TCAAAATTCAAACCAAGGCCTTTAAGTCTAGAAGAAG
1 TCAAAATTCAAACCAAGGTCTTTAAGCCAAGAAGAAG
2129888 GCTCAATATC
Statistics
Matches: 515, Mismatches: 105, Indels: 58
0.76 0.15 0.09
Matches are distributed among these distances:
198 87 0.17
199 10 0.02
200 192 0.37
201 54 0.10
202 6 0.01
204 3 0.01
205 1 0.00
206 3 0.01
207 3 0.01
208 1 0.00
209 2 0.00
211 10 0.02
212 61 0.12
213 78 0.15
214 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (198 bp):
TCAAAATTCAAACCAAGGTCTTTAAGCCAAGAAGAAGACATAGGTTGATTGCGATTTGGCAACAA
GGAACAACTTCCTAGTAAAATTTCAACATAGCTTAAGGCGAAAAGATATCTATCGACCAAAGCTT
TCAAGTTTAATTCCACTCAGCTCGAGAGCACATCAACCGCATGGTAGCAGCAATGAACTACCTCC
TAG
Found at i:2129550 original size:12 final size:12
Alignment explanation
Indices: 2129533--2129558 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2129523 ATTTTGACAT
2129533 AATTTAAGATAA
1 AATTTAAGATAA
2129545 AATTTAAGATAA
1 AATTTAAGATAA
2129557 AA
1 AA
2129559 AGAGCTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATTTAAGATAA
Found at i:2130559 original size:16 final size:15
Alignment explanation
Indices: 2130531--2130582 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
2130521 TAGTATTTAT
2130531 TATATTTATTATTAA
1 TATATTTATTATTAA
*
2130546 TATATTTATCTATTAT
1 TATATTTAT-TATTAA
* *
2130562 TATTTTTATAATTAA
1 TATATTTATTATTAA
2130577 TTATAT
1 -TATAT
2130583 ATGGATTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 13 0.43
16 17 0.57
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATTTATTATTAA
Done.