Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 5 of 253
Found at i:1412346 original size:15 final size:16
Alignment explanation
Indices: 1412326--1412355 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1412316 AAATATAAAC
1412326 ATACAATT-AAAAGAA
1 ATACAATTCAAAAGAA
1412341 ATACAATTCAAAAGA
1 ATACAATTCAAAAGA
1412356 TAATTTAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (16 bp):
ATACAATTCAAAAGAA
Found at i:1414480 original size:47 final size:47
Alignment explanation
Indices: 1414416--1414526 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
1414406 GACCTTGAGT
*
1414416 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * * *
1414463 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCTGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
1414510 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
1414527 CTTATCACGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:1418128 original size:20 final size:20
Alignment explanation
Indices: 1418096--1418133 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1418086 TGTTTCACAT
1418096 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
1418116 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
1418134 ACTTAATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:1423080 original size:32 final size:32
Alignment explanation
Indices: 1423034--1423094 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
1423024 AATAAGTTAT
1423034 GTATAATAATATAAT-ATGAATAAAATAAGGAA
1 GTATAATAATATAATAAT-AATAAAATAAGGAA
*
1423066 GTATAA-AATAATAATAATAATATAATAAG
1 GTATAATAAT-ATAATAATAATAAAATAAG
1423095 TATTTTGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 3 0.12
32 21 0.81
33 2 0.08
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.30
Consensus pattern (32 bp):
GTATAATAATATAATAATAATAAAATAAGGAA
Found at i:1423163 original size:14 final size:15
Alignment explanation
Indices: 1423140--1423273 Score: 64
Period size: 14 Copynumber: 8.9 Consensus size: 15
1423130 AAAAAAGGAT
*
1423140 ATATACATAATAA-A
1 ATATATATAATAAGA
1423154 ATATATATAA-AAGA
1 ATATATATAATAAGA
1423168 ATATATA-AGA-AA-A
1 ATATATATA-ATAAGA
* *
1423181 ATAAATATTATAAGGA
1 ATATATATAATAA-GA
*
1423197 ATGTTATATAATAAGA
1 AT-ATATATAATAAGA
*
1423213 TATAGTATGTAATAA-A
1 -ATA-TATATAATAAGA
* * *
1423229 ATATAAATAATTATA
1 ATATATATAATAAGA
* * *
1423244 ATGAAATATAATATGGT
1 AT-ATATATAATA-AGA
1423261 ATATATATAATAA
1 ATATATATAATAA
1423274 TAGTAATAAT
Statistics
Matches: 89, Mismatches: 19, Indels: 23
0.68 0.15 0.18
Matches are distributed among these distances:
13 11 0.12
14 29 0.33
15 6 0.07
16 22 0.25
17 21 0.24
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (15 bp):
ATATATATAATAAGA
Found at i:1423637 original size:22 final size:21
Alignment explanation
Indices: 1423612--1423657 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
1423602 CATTAAAGCT
1423612 AAATTAAAAA-ATAAATAAAATG
1 AAATTAAAAATAT-AA-AAAATG
1423634 AAATTAAAAATATAAAAAATG
1 AAATTAAAAATATAAAAAATG
1423655 AAA
1 AAA
1423658 GAGGACCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.39
22 12 0.52
23 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (21 bp):
AAATTAAAAATATAAAAAATG
Found at i:1423642 original size:21 final size:22
Alignment explanation
Indices: 1423612--1423657 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
1423602 CATTAAAGCT
1423612 AAATTAAAAAATA-AATAAAATG
1 AAATTAAAAAATATAA-AAAATG
1423634 AAATT-AAAAATATAAAAAATG
1 AAATTAAAAAATATAAAAAATG
1423655 AAA
1 AAA
1423658 GAGGACCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (22 bp):
AAATTAAAAAATATAAAAAATG
Found at i:1430809 original size:8 final size:8
Alignment explanation
Indices: 1430798--1430825 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1430788 ATTAGGCCAT
1430798 TCCCACAA
1 TCCCACAA
1430806 TCCCACAA
1 TCCCACAA
1430814 TCCCACAA
1 TCCCACAA
1430822 TCCC
1 TCCC
1430826 CTTGTTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.32, C:0.54, G:0.00, T:0.14
Consensus pattern (8 bp):
TCCCACAA
Found at i:1432916 original size:20 final size:21
Alignment explanation
Indices: 1432889--1432929 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1432879 TTCTAATATA
1432889 ATTTTTTTGTAA-TTTTAAAAT
1 ATTTTTTTG-AATTTTTAAAAT
1432910 ATTTTTTTGAATTTTTAAAA
1 ATTTTTTTGAATTTTTAAAA
1432930 ATTAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
ATTTTTTTGAATTTTTAAAAT
Found at i:1433044 original size:34 final size:34
Alignment explanation
Indices: 1433001--1433069 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
1432991 AACAAAAGTT
*
1433001 AACGAACATTAATTTTTCCATTTATGTTAGAGTG
1 AACGAACATTAACTTTTCCATTTATGTTAGAGTG
1433035 AACGAACATTAACTTTTCCATTTATGTTAGAGTG
1 AACGAACATTAACTTTTCCATTTATGTTAGAGTG
1433069 A
1 A
1433070 TTTGACAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.39
Consensus pattern (34 bp):
AACGAACATTAACTTTTCCATTTATGTTAGAGTG
Found at i:1436161 original size:20 final size:22
Alignment explanation
Indices: 1436136--1436178 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
1436126 TATTAATTTA
*
1436136 ATTT-AATTTTTTTAAAA-AAT
1 ATTTAAATTTTTATAAAATAAT
1436156 ATTTAAATTTTTATAAAATAAT
1 ATTTAAATTTTTATAAAATAAT
1436178 A
1 A
1436179 AATACTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTAAATTTTTATAAAATAAT
Found at i:1436180 original size:18 final size:19
Alignment explanation
Indices: 1436144--1436181 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1436134 TAATTTAATT
*
1436144 TTTTTAAAAAATATTTAAA
1 TTTTTAAAAAATATATAAA
*
1436163 TTTTTATAAAATA-ATAAA
1 TTTTTAAAAAATATATAAA
1436181 T
1 T
1436182 ACTAATACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTTTAAAAAATATATAAA
Found at i:1437625 original size:15 final size:15
Alignment explanation
Indices: 1437602--1437641 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1437592 TCAGAATCTG
*
1437602 AGAAAAAAAAAGAAAA
1 AGAAAAAAAAA-TAAA
*
1437618 AGAAAAAAAAATACA
1 AGAAAAAAAAATAAA
1437633 AGAAAAAAA
1 AGAAAAAAA
1437642 TTCAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.03
Consensus pattern (15 bp):
AGAAAAAAAAATAAA
Found at i:1451458 original size:62 final size:62
Alignment explanation
Indices: 1451342--1451460 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
1451332 GTATCATGAT
* * *
1451342 AAAACACATATTGATGGTTTAAGTACCACATTAAACATTTTCGAAATACATGTACCATAATA
1 AAAACACATATTGATAGTTCAAGTACCACATTAAACATTTTCGAAACACATGTACCATAATA
* * *
1451404 AAAACACATATTGATAGTTCAAGTACCACATTATATATTTTC-AAAGCACTTGTACCA
1 AAAACACATATTGATAGTTCAAGTACCACATTAAACATTTTCGAAA-CACATGTACCA
1451461 CTAGACATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
61 3 0.06
62 47 0.94
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (62 bp):
AAAACACATATTGATAGTTCAAGTACCACATTAAACATTTTCGAAACACATGTACCATAATA
Found at i:1452179 original size:61 final size:61
Alignment explanation
Indices: 1452057--1452172 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 61
1452047 TTTTTTTTCC
* ** * *
1452057 TAGAATTAGAACTAAATTGATAGTTTTTATAAATATTGAGGGCTAAATTTATTGAAGTTTT
1 TAGAATTAGAACTAAAATGATAAATTTTATAAACATTCAGGGCTAAATTTATTGAAGTTTT
* * *
1452118 TAGAATTTGAACTAAAATGATAAATTTTGTAAACATTCAGGGCTAAATTTGTTGA
1 TAGAATTAGAACTAAAATGATAAATTTTATAAACATTCAGGGCTAAATTTATTGA
1452173 TTTTTTTTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.40
Consensus pattern (61 bp):
TAGAATTAGAACTAAAATGATAAATTTTATAAACATTCAGGGCTAAATTTATTGAAGTTTT
Found at i:1453227 original size:29 final size:31
Alignment explanation
Indices: 1453137--1453227 Score: 98
Period size: 29 Copynumber: 3.0 Consensus size: 31
1453127 AACTCATAAA
* *
1453137 TTGGTACCTAAACTATACTCTTTTTTCCCATG
1 TTGGTACCTAAACT-TACTTTTTTTTCCCAAG
* * * *
1453169 TTGGCATCTAAACTTA-TTTTTTGTCACAAG
1 TTGGTACCTAAACTTACTTTTTTTTCCCAAG
1453199 -TGGTACCTAAAC-TACTTTTTTTTCCCAAG
1 TTGGTACCTAAACTTACTTTTTTTTCCCAAG
1453228 CTACTACCTC
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
28 2 0.04
29 22 0.46
30 10 0.21
31 2 0.04
32 12 0.25
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (31 bp):
TTGGTACCTAAACTTACTTTTTTTTCCCAAG
Found at i:1453386 original size:29 final size:29
Alignment explanation
Indices: 1453289--1453386 Score: 76
Period size: 29 Copynumber: 3.3 Consensus size: 29
1453279 AACCCATAAA
* **
1453289 TTGGTACCTAGACTATGTCATTTTTC-CCATT
1 TTGGTACCTAAACTAT-T--TTTTTCTCCAAG
*
1453320 TTGGTACCTAAA-TATTTTTTTGGTCACAAG
1 TTGGTACCTAAACTATTTTTTT-CTC-CAAG
* *
1453350 -TAGAACCTAAACTATTTTTTTCTCCAAG
1 TTGGTACCTAAACTATTTTTTTCTCCAAG
1453378 TTGGTACCT
1 TTGGTACCT
1453387 CTGTTGTTAG
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
27 5 0.09
28 4 0.08
29 19 0.36
30 14 0.26
31 11 0.21
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.43
Consensus pattern (29 bp):
TTGGTACCTAAACTATTTTTTTCTCCAAG
Found at i:1454260 original size:31 final size:31
Alignment explanation
Indices: 1454219--1454278 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1454209 TTTAAACGGT
* *
1454219 ATAAAGACTTAGAATGAGCCAATTGAAAAAC
1 ATAAAAACTTAGAATGACCCAATTGAAAAAC
1454250 ATAAAAACTTAGAATGACCCAATTGAAAA
1 ATAAAAACTTAGAATGACCCAATTGAAAA
1454279 TTATGGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (31 bp):
ATAAAAACTTAGAATGACCCAATTGAAAAAC
Found at i:1460638 original size:39 final size:39
Alignment explanation
Indices: 1460555--1460641 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 39
1460545 AAGATGCCCT
* * *
1460555 CTAATACATATGTATGTGTTTGTGTGTATATATATATGTA
1 CTAA-ACATATGTATGTGTTTGTGTGCATACATATATGAA
1460595 -TAAACAGTATGTATGTG-TT-TGTGCATACATATATGAAA
1 CTAAACA-TATGTATGTGTTTGTGTGCATACATATATG-AA
1460633 CTAAACATA
1 CTAAACATA
1460642 AACTTACATC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
37 14 0.34
38 8 0.20
39 19 0.46
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (39 bp):
CTAAACATATGTATGTGTTTGTGTGCATACATATATGAA
Found at i:1461672 original size:477 final size:478
Alignment explanation
Indices: 1460758--1461878 Score: 1583
Period size: 477 Copynumber: 2.3 Consensus size: 478
1460748 TATAGGGAAT
* *
1460758 CATGGCAGGAGATGATAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATAACAAACCAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
*
1460823 TACTAAATCATGATGAAAATCCGGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAATC
66 TACTAAATCACGATGAAAATCCGGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAATC
* * * * * *
1460888 AACAAGGTTCATTCAAGTTCGGAGTATACAACCATGGCAGGAGATGATAATCAAACAAAAGTTAA
131 GATAAGGTTCATTCAAGTTCAGAGTAAACAACCATGGCAGGAGATGACAATCAAACAAAAGTGAA
** *
1460953 CTTCCCTAATCTCTAGATGACAAACCAAACTATACTAAATCGCGATGAAAATCCAGGAATATCTG
196 CTTCCCTAATCTCTAGATGACAAACCAAACTATACTAAATCAAGATGAAAATACAGGAATATCTG
* * * * *
1461018 AAGATCACCGTTCTCCCATCCAGACCACTAAGGTTCATTCAAGTTCAGAGTAAACAACAATGGCA
261 -AGATCAACGATCACCAATCCAAACCACTAAGGTTCATTCAAGTTCAGAGTAAACAACAATGGCA
*
1461083 AGAGATAACAATCAAACAAAAGTGAACTTCCTAGTCTCTAGAAGACAAACGAAGCTACACTAAAT
325 AGAGATAACAATCAAACAAAAGTGAACTTCCTAGTCTCTAGAAGACAAACCAAGCTACACTAAAT
* * * *
1461148 CACGATGAGAAATCAGGAATATCTGTTTCCAAGGATCACTGATCTCCTATCCAAATTGA-AAGGT
390 CACGATGAGAAATCAGGAATATCTGTTTCCAAGGAACACTAATCTCCTATCAAAATCGATAAGGT
1461212 TCATTCAAGCTT-AGAGTAAACAAC
455 TCATTCAA-CTTCAGAGTAAACAAC
* * *
1461236 CATGGCAGGATATGACAATCAAACAAAAGTGAATTTCCCTAGCCTCTAGATGACAAACCAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
*
1461301 TACTAAATCACGAT-AAAATCCGGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCAAAATC
66 TACTAAATCACGATGAAAATCCGGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAATC
* *
1461365 GATAAGGTTTATTCAAGTTCAGTGTAAACAACCATGGCAGGAGATGACAATCAAACAAAAGTGAA
131 GATAAGGTTCATTCAAGTTCAGAGTAAACAACCATGGCAGGAGATGACAATCAAACAAAAGTGAA
** * * * **
1461430 CTTCCCTGGTCTCTAGATGATAAACCAAGCTATACTAACTCAAGATGAAAATATGGGAATAT-TG
196 CTTCCCTAATCTCTAGATGACAAACCAAACTATACTAAATCAAGATGAAAATACAGGAATATCTG
* * * *
1461494 -GTTTCTAAGGATCACCAATCCAAATCGA-TAAGGTTCATTCAAGTTCAGAGTAAACAACCATGG
261 AG-ATC-AACGATCACCAATCCAAA-CCACTAAGGTTCATTCAAGTTCAGAGTAAACAACAATGG
* * * * * *
1461557 CAGGAGATCACAATCAAACAAAAGTGGACTTCCTTAGTCTCTAGATGATAAACCAAGCTATACTA
323 CAAGAGATAACAATCAAACAAAAGTGAACTTCC-TAGTCTCTAGAAGACAAACCAAGCTACACTA
*
1461622 AATCACGATGA-AAATCCAGGAATAT-TGGTTTCCGAGGAACACTAATCTCCTATCAAAATCGAT
387 AATCACGATGAGAAAT-CAGGAATATCT-GTTTCCAAGGAACACTAATCTCCTATCAAAATCGAT
*
1461685 AAGGTTCATTCAACTTCAGAGTAAACGAC
450 AAGGTTCATTCAACTTCAGAGTAAACAAC
* * * * *
1461714 AATGGGAGGAGATGACAATCAAACAAAAGTGAACTTCCTTAGTCTCGAGATGAAAAACCAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* * * * * *
1461779 TACTAAATCACGATGAAAATCCGAGAACATCGGTTTCCGAGGAACACCGATCTCCTAACCAAATA
66 TACTAAATCACGATGAAAATCCGGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAATC
*
1461844 GATAAGGTTCATTCCAGTTCAGAGTAAACAACCAT
131 GATAAGGTTCATTCAAGTTCAGAGTAAACAACCAT
1461879 AGCACAAAAA
Statistics
Matches: 569, Mismatches: 65, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
474 1 0.00
475 2 0.00
476 83 0.15
477 240 0.42
478 168 0.30
479 75 0.13
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (478 bp):
CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
TACTAAATCACGATGAAAATCCGGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAATC
GATAAGGTTCATTCAAGTTCAGAGTAAACAACCATGGCAGGAGATGACAATCAAACAAAAGTGAA
CTTCCCTAATCTCTAGATGACAAACCAAACTATACTAAATCAAGATGAAAATACAGGAATATCTG
AGATCAACGATCACCAATCCAAACCACTAAGGTTCATTCAAGTTCAGAGTAAACAACAATGGCAA
GAGATAACAATCAAACAAAAGTGAACTTCCTAGTCTCTAGAAGACAAACCAAGCTACACTAAATC
ACGATGAGAAATCAGGAATATCTGTTTCCAAGGAACACTAATCTCCTATCAAAATCGATAAGGTT
CATTCAACTTCAGAGTAAACAAC
Found at i:1461744 original size:162 final size:162
Alignment explanation
Indices: 1460758--1461878 Score: 1454
Period size: 162 Copynumber: 7.0 Consensus size: 162
1460748 TATAGGGAAT
* *
1460758 CATGGCAGGAGATGATAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATAACAAACCAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* *
1460823 TACTAAATCATGATGAAAATCCGGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAATC
66 TACTAAATCACGATGAAAATCCAGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAATC
* * * *
1460888 AACAAGGTTCATTCAAGTTCGGAGTATACAAC
131 GATAAGGTTCATTCAAGTTCAGAGTAAACAAC
* * * *
1460920 CATGGCAGGAGATGATAATCAAACAAAAGTTAACTTCCCTAATCTCTAGATGACAAACCAAACTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* * ** * *
1460985 TACTAAATCGCGATGAAAATCCAGGAATATC----T--GAAGATCACCGTTCTCCCATCCAGA-C
66 TACTAAATCACGATGAAAATCCAGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAATC
*
1461043 CACTAAGGTTCATTCAAGTTCAGAGTAAACAAC
131 GA-TAAGGTTCATTCAAGTTCAGAGTAAACAAC
* * * * *
1461076 AATGGCAAGAGATAACAATCAAACAAAAGTGAACTT-CCTAGTCTCTAGAAGACAAACGAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* * * **
1461140 CACTAAATCACGATGAGAAAT-CAGGAATATCTGTTTCCAAGGATCACTGATCTCCTATCCAAAT
66 TACTAAATCACGATGA-AAATCCAGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAAT
*
1461204 TGA-AAGGTTCATTCAAGCTT-AGAGTAAACAAC
130 CGATAAGGTTCATTCAAG-TTCAGAGTAAACAAC
* * *
1461236 CATGGCAGGATATGACAATCAAACAAAAGTGAATTTCCCTAGCCTCTAGATGACAAACCAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* *
1461301 TACTAAATCACGAT-AAAATCCGGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCAAAATC
66 TACTAAATCACGATGAAAATCCAGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAATC
* *
1461365 GATAAGGTTTATTCAAGTTCAGTGTAAACAAC
131 GATAAGGTTCATTCAAGTTCAGAGTAAACAAC
* *
1461397 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTGGTCTCTAGATGATAAACCAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* * *** * **
1461462 TACTAACTCAAGATGAAAATATGGGAATATTGGTTTCTAAGGATCACC-A------ATCCAAATC
66 TACTAAATCACGATGAAAATCCAGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAATC
1461520 GATAAGGTTCATTCAAGTTCAGAGTAAACAAC
131 GATAAGGTTCATTCAAGTTCAGAGTAAACAAC
* * * *
1461552 CATGGCAGGAGATCACAATCAAACAAAAGTGGACTTCCTTAGTCTCTAGATGATAAACCAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* * * *
1461617 TACTAAATCACGATGAAAATCCAGGAATATTGGTTTCCGAGGAACACTAATCTCCTATCAAAATC
66 TACTAAATCACGATGAAAATCCAGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAATC
* *
1461682 GATAAGGTTCATTCAACTTCAGAGTAAACGAC
131 GATAAGGTTCATTCAAGTTCAGAGTAAACAAC
* * * * *
1461714 AATGGGAGGAGATGACAATCAAACAAAAGTGAACTTCCTTAGTCTCGAGATGAAAAACCAAGCTA
1 CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
* * * *
1461779 TACTAAATCACGATGAAAATCC-GAGAACATCGGTTTCCGAGGAACACCGATCTCCTAACCAAAT
66 TACTAAATCACGATGAAAATCCAG-GAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAAT
* *
1461843 AGATAAGGTTCATTCCAGTTCAGAGTAAACAAC
130 CGATAAGGTTCATTCAAGTTCAGAGTAAACAAC
1461876 CAT
1 CAT
1461879 AGCACAAAAA
Statistics
Matches: 835, Mismatches: 101, Indels: 46
0.85 0.10 0.05
Matches are distributed among these distances:
155 188 0.23
156 83 0.10
158 1 0.00
159 5 0.01
160 99 0.12
161 157 0.19
162 302 0.36
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (162 bp):
CATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGACAAACCAAGCTA
TACTAAATCACGATGAAAATCCAGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAATC
GATAAGGTTCATTCAAGTTCAGAGTAAACAAC
Found at i:1461781 original size:317 final size:314
Alignment explanation
Indices: 1460759--1461798 Score: 1294
Period size: 317 Copynumber: 3.3 Consensus size: 314
1460749 ATAGGGAATC
*
1460759 ATGGCAGGAGATGATAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGAT-AACAAACCAAGCTA
1 ATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGAA-AAACCAAGCTA
* * * *
1460823 TACTAAATCATGATGAAAATCCGGGAATATCGGTTTCCGAGGATCACCAATCTCCTATCCAAATC
65 TACTAAATCACGATGAAAAT-AGGGAATATTGGTTTCCAAGGATCACC-A------ATCCAAATC
* * * * *
1460888 AACAAGGTTCATTCAAGTTCGGAGTATACAACCATGGCAGGAGATGATAATCAAACAAAAGTTAA
122 GA-AAGGTTCATTCAAGTTCAGAGTAAACAACCATGGCAGGAGATGACAATCAAACAAAAGTGAA
* * *
1460953 CTTCCCTAATCTCTAGATGACAAACCAAACTATACTAAATCGCGATGAAAATCCAGGAATA----
186 CTTCCCTAGTCTCTAGATGACAAACCAAGCTATACTAAATCACGATGAAAATCCAGGAATATGGT
* * ** * * * *
1461014 -TCTGAAGATCACCGTTCTCCCATCCAGA-CCACTAAGGTTCATTCAAGTTCAGAGTAAACAACA
251 TTCCGAGGATCACCAATCTCCTATCAAAATCGA-TAAGGTTCATTCAAGTTCAGAGTAAACAACA
* * * * * *
1461077 ATGGCAAGAGATAACAATCAAACAAAAGTGAACTT-CCTAGTCTCTAGAAGACAAACGAAGCTAC
1 ATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGAAAAACCAAGCTAT
*
1461141 ACTAAATCACGATGAGAAATCA-GGAATATCT-GTTTCCAAGGATCACTGATCTCCTATCCAAAT
66 ACTAAATCACGATGA-AAAT-AGGGAATAT-TGGTTTCCAAGGAT--C--A---CCAATCCAAAT
* *
1461204 TGAAAGGTTCATTCAAGCTT-AGAGTAAACAACCATGGCAGGATATGACAATCAAACAAAAGTGA
121 CGAAAGGTTCATTCAAG-TTCAGAGTAAACAACCATGGCAGGAGATGACAATCAAACAAAAGTGA
* * *
1461268 ATTTCCCTAGCCTCTAGATGACAAACCAAGCTATACTAAATCACGAT-AAAATCCGGGAATATCG
185 ACTTCCCTAGTCTCTAGATGACAAACCAAGCTATACTAAATCACGATGAAAATCCAGGAATAT-G
* *
1461332 GTTTCCGAGGATCACCAATCTCCTATCAAAATCGATAAGGTTTATTCAAGTTCAGTGTAAACAAC
249 GTTTCCGAGGATCACCAATCTCCTATCAAAATCGATAAGGTTCATTCAAGTTCAGAGTAAACAAC
*
1461397 C
314 A
* *
1461398 ATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTGGTCTCTAGATGATAAACCAAGCTAT
1 ATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGAAAAACCAAGCTAT
* * *
1461463 ACTAACTCAAGATGAAAATATGGGAATATTGGTTTCTAAGGATCACCAATCCAAATCGATAAGGT
66 ACTAAATCACGATGAAAATA-GGGAATATTGGTTTCCAAGGATCACCAATCCAAATCGA-AAGGT
* * *
1461528 TCATTCAAGTTCAGAGTAAACAACCATGGCAGGAGATCACAATCAAACAAAAGTGGACTTCCTTA
129 TCATTCAAGTTCAGAGTAAACAACCATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTA
*
1461593 GTCTCTAGATGATAAACCAAGCTATACTAAATCACGATGAAAATCCAGGAATATTGGTTTCCGAG
194 GTCTCTAGATGACAAACCAAGCTATACTAAATCACGATGAAAATCCAGGAATA-TGGTTTCCGAG
* * * *
1461658 GAACACTAATCTCCTATCAAAATCGATAAGGTTCATTCAACTTCAGAGTAAACGACA
258 GATCACCAATCTCCTATCAAAATCGATAAGGTTCATTCAAGTTCAGAGTAAACAACA
* * *
1461715 ATGGGAGGAGATGACAATCAAACAAAAGTGAACTTCCTTAGTCTCGAGATGAAAAACCAAGCTAT
1 ATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGAAAAACCAAGCTAT
1461780 ACTAAATCACGATGAAAAT
66 ACTAAATCACGATGAAAAT
1461799 CCGAGAACAT
Statistics
Matches: 626, Mismatches: 70, Indels: 53
0.84 0.09 0.07
Matches are distributed among these distances:
315 27 0.04
316 193 0.31
317 216 0.35
318 40 0.06
319 1 0.00
320 2 0.00
321 88 0.14
322 57 0.09
324 2 0.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (314 bp):
ATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGTCTCTAGATGAAAAACCAAGCTAT
ACTAAATCACGATGAAAATAGGGAATATTGGTTTCCAAGGATCACCAATCCAAATCGAAAGGTTC
ATTCAAGTTCAGAGTAAACAACCATGGCAGGAGATGACAATCAAACAAAAGTGAACTTCCCTAGT
CTCTAGATGACAAACCAAGCTATACTAAATCACGATGAAAATCCAGGAATATGGTTTCCGAGGAT
CACCAATCTCCTATCAAAATCGATAAGGTTCATTCAAGTTCAGAGTAAACAACA
Found at i:1466911 original size:18 final size:19
Alignment explanation
Indices: 1466884--1466925 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
1466874 GTAATTGAAG
1466884 TTTTTGTTTTT-A-TTATT
1 TTTTTGTTTTTAATTTATT
1466901 TTTTATGTTTTTAATTTATT
1 TTTT-TGTTTTTAATTTATT
1466921 TTTTT
1 TTTTT
1466926 TAATAGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.18
18 7 0.32
19 2 0.09
20 9 0.41
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (19 bp):
TTTTTGTTTTTAATTTATT
Found at i:1473683 original size:29 final size:29
Alignment explanation
Indices: 1473651--1473720 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
1473641 GCAATGTCAG
1473651 AACAGAATAGCACTGAAGTGC-TTAATCAA
1 AACAGAATAGCACTGAAGTGCATTAA-CAA
* *
1473680 AACAGAGT-GACATTGAAGTGCATTAACAA
1 AACAGAATAG-CACTGAAGTGCATTAACAA
*
1473709 AACA-AAGAGCAC
1 AACAGAATAGCAC
1473721 GTTTAAATGC
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
28 4 0.12
29 25 0.76
30 4 0.12
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (29 bp):
AACAGAATAGCACTGAAGTGCATTAACAA
Found at i:1474866 original size:32 final size:32
Alignment explanation
Indices: 1474825--1474888 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1474815 AGGGAACATA
1474825 TTCTCTCTCCTTAATCTCTCGACACAATTAAC
1 TTCTCTCTCCTTAATCTCTCGACACAATTAAC
1474857 TTCTCTCTCCTTAATCTCTCGACACAATTAAC
1 TTCTCTCTCCTTAATCTCTCGACACAATTAAC
1474889 CTTGTGTGAA
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:0.25, C:0.34, G:0.03, T:0.38
Consensus pattern (32 bp):
TTCTCTCTCCTTAATCTCTCGACACAATTAAC
Found at i:1475963 original size:63 final size:63
Alignment explanation
Indices: 1475885--1476003 Score: 229
Period size: 63 Copynumber: 1.9 Consensus size: 63
1475875 AGCTGACTGG
1475885 GGAGGATTGTAAGGAGTCTCAGAACCTTGATAGGATGATGGATAGTGAGACGGGGCCGATTGT
1 GGAGGATTGTAAGGAGTCTCAGAACCTTGATAGGATGATGGATAGTGAGACGGGGCCGATTGT
*
1475948 GGAGGATTGTAAGGAGTCTCGGAACCTTGATAGGATGATGGATAGTGAGACGGGGC
1 GGAGGATTGTAAGGAGTCTCAGAACCTTGATAGGATGATGGATAGTGAGACGGGGC
1476004 TGTAGGTAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.27, C:0.11, G:0.39, T:0.23
Consensus pattern (63 bp):
GGAGGATTGTAAGGAGTCTCAGAACCTTGATAGGATGATGGATAGTGAGACGGGGCCGATTGT
Found at i:1477532 original size:22 final size:22
Alignment explanation
Indices: 1477504--1477556 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
1477494 CTTAAAGTTC
*
1477504 CCTAAACTATGA-CCCTGAGATT
1 CCTAAACTATGAGCCC-AAGATT
*
1477526 CCTAAACTATGAGCCCAAGTTT
1 CCTAAACTATGAGCCCAAGATT
1477548 CCTAAACTA
1 CCTAAACTA
1477557 CAAGCCTCGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.26
Consensus pattern (22 bp):
CCTAAACTATGAGCCCAAGATT
Found at i:1479310 original size:7 final size:7
Alignment explanation
Indices: 1479298--1479330 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
1479288 TGCCATTGCC
1479298 TTCTTTT
1 TTCTTTT
1479305 TTCTTTT
1 TTCTTTT
1479312 TTCTTTT
1 TTCTTTT
*
1479319 TTTTTTT
1 TTCTTTT
1479326 TTCTT
1 TTCTT
1479331 AAACCTGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTCTTTT
Found at i:1480431 original size:22 final size:22
Alignment explanation
Indices: 1480391--1480432 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1480381 TAGAAAAAAT
**
1480391 AAAAATATATATATCAAATTTA
1 AAAAATATATATAAAAAATTTA
1480413 AAAAATATATATAAAAAATT
1 AAAAATATATATAAAAAATT
1480433 CATAAAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAATATATATAAAAAATTTA
Found at i:1493589 original size:16 final size:16
Alignment explanation
Indices: 1493564--1493598 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1493554 GTTTAAATTC
*
1493564 TTTGAGTCATTACAAG
1 TTTGAATCATTACAAG
*
1493580 TTTGAATCATTCCAAG
1 TTTGAATCATTACAAG
1493596 TTT
1 TTT
1493599 AATGTATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (16 bp):
TTTGAATCATTACAAG
Found at i:1493646 original size:16 final size:16
Alignment explanation
Indices: 1493627--1493679 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
1493617 GTCATTACAG
*
1493627 GTCATTTCGAGTTTGA
1 GTCATTTTGAGTTTGA
* *
1493643 GTCATTTTAAG-TAGA
1 GTCATTTTGAGTTTGA
1493658 -TCATTTTGAGTTTGA
1 GTCATTTTGAGTTTGA
*
1493673 ATCATTT
1 GTCATTT
1493680 ATAAATAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 9 0.30
15 6 0.20
16 15 0.50
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.47
Consensus pattern (16 bp):
GTCATTTTGAGTTTGA
Found at i:1505069 original size:22 final size:22
Alignment explanation
Indices: 1505031--1505073 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
1505021 ATAATTATTA
1505031 AATTTATACATCAAAATTTGTCT
1 AATTTATACAT-AAAATTTGTCT
1505054 AATTTAATACAT-AAATTTGT
1 AATTT-ATACATAAAATTTGT
1505074 TTTATTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 5 0.26
24 6 0.32
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (22 bp):
AATTTATACATAAAATTTGTCT
Found at i:1507150 original size:50 final size:50
Alignment explanation
Indices: 1507025--1507273 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
1507015 GATAATAACA
* ** * *
1507025 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCAT-CTCGG
* * * *
1507076 TGCCCATGCCATGTCCCAGGCATGGTCTTATAAGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
1507126 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
1507176 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
*
1507231 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1507274 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:1507204 original size:100 final size:104
Alignment explanation
Indices: 1507024--1507273 Score: 339
Period size: 100 Copynumber: 2.4 Consensus size: 104
1507014 TGATAATAAC
**
1507024 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* * *
1507089 TCCCAGGCATGGTCTTATAAGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAAGGGACCTCTCAATCTTAAGG
* *
1507126 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
*
1507189 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAAGGGACCTCTCA--ATCTTAAGG
* *
1507231 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1507274 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 48 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAAGGGACCTCTCAATCTTAAGG
Found at i:1507389 original size:13 final size:13
Alignment explanation
Indices: 1507368--1507399 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1507358 GCTTGGATCA
*
1507368 TCATCAAATAAAT
1 TCATAAAATAAAT
1507381 TCATAAAATAAAT
1 TCATAAAATAAAT
1507394 TCATAA
1 TCATAA
1507400 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1519376 original size:20 final size:21
Alignment explanation
Indices: 1519345--1519383 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1519335 AGGCCTGCCC
1519345 ATATTATATTTTAAAATTTTT
1 ATATTATATTTTAAAATTTTT
*
1519366 ATATT-TATTTTAATATTT
1 ATATTATATTTTAAAATTT
1519384 ACATTAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATATTATATTTTAAAATTTTT
Found at i:1521695 original size:22 final size:22
Alignment explanation
Indices: 1521670--1521716 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1521660 GCCTTATGTA
*
1521670 GTGCTAATCAGTCTATTTGAGT
1 GTGCTAATCAGTCTATTTAAGT
1521692 GTGCTAATCAGTCTATTTAAGT
1 GTGCTAATCAGTCTATTTAAGT
1521714 GTG
1 GTG
1521717 TAGGATGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (22 bp):
GTGCTAATCAGTCTATTTAAGT
Found at i:1526272 original size:47 final size:45
Alignment explanation
Indices: 1526156--1526324 Score: 179
Period size: 44 Copynumber: 3.7 Consensus size: 45
1526146 GGATGGTTGA
*
1526156 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGAAT
*
1526202 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG-AA-T
* *
1526245 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGAT--GAAT
*
1526295 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1526325 GCTTATGGGC
Statistics
Matches: 106, Mismatches: 6, Indels: 22
0.79 0.04 0.16
Matches are distributed among these distances:
41 4 0.04
42 2 0.02
43 3 0.03
44 29 0.27
45 1 0.01
46 28 0.26
47 29 0.27
48 4 0.04
50 3 0.03
51 2 0.02
52 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGAAT
Found at i:1526323 original size:46 final size:45
Alignment explanation
Indices: 1526160--1526332 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
1526150 GGTTGAGCAT
* *
1526160 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGC
* * *
1526204 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAC---GC
1526249 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACGC
* *
1526297 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1526333 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 2 0.02
44 28 0.26
45 1 0.01
46 34 0.31
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGC
Found at i:1536913 original size:30 final size:30
Alignment explanation
Indices: 1536869--1536941 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
1536859 CTCGCTAACT
* *
1536869 GAACTTTAA-AAAAAACTT-AATA-ATTAA
1 GAACTTAAATAAAAAAATTGAATAGATTAA
*
1536896 GAGACTTAAATAAAAAAATTGAATAGTTTAA
1 GA-ACTTAAATAAAAAAATTGAATAGATTAA
*
1536927 TAACTTAAATAAAAA
1 GAACTTAAATAAAAA
1536942 TTTTTAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 2 0.05
28 6 0.16
29 8 0.21
30 17 0.45
31 5 0.13
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (30 bp):
GAACTTAAATAAAAAAATTGAATAGATTAA
Found at i:1536947 original size:22 final size:21
Alignment explanation
Indices: 1536922--1536974 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
1536912 AATTGAATAG
1536922 TTTAATAACTTAAATAAAAATT
1 TTTAATAACTTAAATAAAAA-T
* *
1536944 TTTAAATAA-TTAAATGACAAT
1 TTT-AATAACTTAAATAAAAAT
1536965 TTT-ATAACTT
1 TTTAATAACTT
1536975 TTTAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 4 0.15
20 2 0.07
21 4 0.15
22 12 0.44
23 5 0.19
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (21 bp):
TTTAATAACTTAAATAAAAAT
Found at i:1537348 original size:3 final size:3
Alignment explanation
Indices: 1537340--1537365 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1537330 GCTTTTTTGT
1537340 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1537366 TATGTGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1538568 original size:127 final size:126
Alignment explanation
Indices: 1538342--1538611 Score: 348
Period size: 127 Copynumber: 2.1 Consensus size: 126
1538332 GGCCAAACAT
*
1538342 GAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCATCAATTTTGATGACAGCGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGCGGAAGCTTTTTTCATCAATTTTGATGACAGCGCATC
** * ** *
1538407 CTGCTTGAAGTGTTTTTGACACTATTTTTTCAGAACTGTCTTCTTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCATTTTTGACACTATCTTTTCAGAACCATCTTC-TCAAAATTAATTTTTCAG
* * * *
1538469 GAACTACTGTAGAAAAAGAGTGTCTATGCCGG-AGCTTTTTTCAGT-AATTTT-ACTGACAGTGC
1 GAACTACTGTAGAAAAAGAGCGTCCACG-CGGAAGCTTTTTTCA-TCAATTTTGA-TGACAGCGC
* *
1538531 ATCCTGCTTGAAGCATTTTTGACATTATCTTTTCAGAACCATCTTCTCAAAATTAATTTTTCTG
63 ATCCTGCTTGAAGCATTTTTGACACTATCTTTTCAGAACCATCTTCTCAAAATTAATTTTTCAG
* *
1538595 AAACTACTGTAAAAAAA
1 GAACTACTGTAGAAAAA
1538612 AATAAAATCC
Statistics
Matches: 125, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
126 32 0.26
127 90 0.72
128 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGCGGAAGCTTTTTTCATCAATTTTGATGACAGCGCATC
CTGCTTGAAGCATTTTTGACACTATCTTTTCAGAACCATCTTCTCAAAATTAATTTTTCAG
Found at i:1538730 original size:34 final size:35
Alignment explanation
Indices: 1538682--1538747 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
1538672 TTTTAAAAAA
*
1538682 TAAACCCTAATTTAATTAA-TTTTCTTAAAACCCT
1 TAAAACCTAATTTAATTAATTTTTCTTAAAACCCT
*
1538716 TAAAACCTAATTTAATTAATTTTTTTTAAAAC
1 TAAAACCTAATTTAATTAATTTTTCTTAAAAC
1538748 AAAAACTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (35 bp):
TAAAACCTAATTTAATTAATTTTTCTTAAAACCCT
Found at i:1541720 original size:31 final size:32
Alignment explanation
Indices: 1541672--1541734 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 32
1541662 ATAATTTAAA
* *
1541672 TAAATAAAATTTTTTTAAATAGTTTAATAATT
1 TAAATAAAATTTTTTTAAATAATTCAATAATT
1541704 TAAATAAAA-TTTTTTAAATAATTCAATAATT
1 TAAATAAAATTTTTTTAAATAATTCAATAATT
1541735 ATTTTTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 20 0.69
32 9 0.31
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (32 bp):
TAAATAAAATTTTTTTAAATAATTCAATAATT
Found at i:1543229 original size:31 final size:30
Alignment explanation
Indices: 1543188--1543246 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
1543178 TATTTTATTA
1543188 TTAATTTGTTATTATTTTAAAGGCATTTTG
1 TTAATTTGTTATTATTTTAAAGGCATTTTG
* *
1543218 TTAATTTTGTTATTATTTTAGAGGTATTT
1 TTAA-TTTGTTATTATTTTAAAGGCATTT
1543247 GCTTGTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (30 bp):
TTAATTTGTTATTATTTTAAAGGCATTTTG
Found at i:1547148 original size:9 final size:9
Alignment explanation
Indices: 1547126--1547379 Score: 257
Period size: 9 Copynumber: 28.3 Consensus size: 9
1547116 CATAATTAAA
1547126 TTACA-AAC
1 TTACATAAC
*
1547134 TTACATAAT
1 TTACATAAC
*
1547143 TTACATAAT
1 TTACATAAC
1547152 TTACATAAC
1 TTACATAAC
*
1547161 ATACATAAC
1 TTACATAAC
*
1547170 TTA-ACAAC
1 TTACATAAC
1547178 TTACATAA-
1 TTACATAAC
1547186 TTCACATAAC
1 TT-ACATAAC
* *
1547196 TTATATAAT
1 TTACATAAC
1547205 TTACATAAC
1 TTACATAAC
*
1547214 TCACATAAC
1 TTACATAAC
*
1547223 ATACATAAC
1 TTACATAAC
*
1547232 TTA-ACAAC
1 TTACATAAC
*
1547240 TTATATAAC
1 TTACATAAC
*
1547249 TCACATAAC
1 TTACATAAC
*
1547258 TTACATAAT
1 TTACATAAC
1547267 TTACATAAC
1 TTACATAAC
*
1547276 TCACATAAC
1 TTACATAAC
*
1547285 ATACATAAC
1 TTACATAAC
*
1547294 TTA-ACAAC
1 TTACATAAC
1547302 TTACATAAC
1 TTACATAAC
1547311 TTACATAAC
1 TTACATAAC
*
1547320 TTACATAAT
1 TTACATAAC
*
1547329 TTACATAAG
1 TTACATAAC
*
1547338 TCACATAAC
1 TTACATAAC
*
1547347 ATACATAACAAC
1 TTACAT---AAC
*
1547359 TCACATAAC
1 TTACATAAC
1547368 TTACATAAC
1 TTACATAAC
1547377 TTA
1 TTA
1547380 ACTAATACAT
Statistics
Matches: 201, Mismatches: 36, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
8 28 0.14
9 164 0.82
10 2 0.01
12 7 0.03
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.31
Consensus pattern (9 bp):
TTACATAAC
Found at i:1547179 original size:44 final size:44
Alignment explanation
Indices: 1547131--1547336 Score: 205
Period size: 44 Copynumber: 4.9 Consensus size: 44
1547121 TTAAATTACA
* *
1547131 AACTTACATAATTTACATAATTTACATAACATACATAACTTAAC
1 AACTTACATAATTTACATAACTTACATAACTTACATAACTTAAC
* * *
1547175 AACTTACATAATTCACATAACTTATATAATTTACATAAC-T---
1 AACTTACATAATTTACATAACTTACATAACTTACATAACTTAAC
** * * * *
1547215 --C--ACATAACATACATAACTTA-ACAACTTATATAACTCACAT
1 AACTTACATAATTTACATAACTTACATAACTTACATAACTTA-AC
* *
1547255 AACTTACATAATTTACATAACTCACATAACATACATAACTTAAC
1 AACTTACATAATTTACATAACTTACATAACTTACATAACTTAAC
* *
1547299 AACTTACATAACTTACATAACTTACATAATTTACATAA
1 AACTTACATAATTTACATAACTTACATAACTTACATAA
1547337 GTCACATAAC
Statistics
Matches: 128, Mismatches: 24, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
35 11 0.09
36 16 0.12
38 1 0.01
42 1 0.01
43 1 0.01
44 85 0.66
45 13 0.10
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (44 bp):
AACTTACATAATTTACATAACTTACATAACTTACATAACTTAAC
Found at i:1547204 original size:62 final size:61
Alignment explanation
Indices: 1547124--1547355 Score: 376
Period size: 62 Copynumber: 3.8 Consensus size: 61
1547114 TACATAATTA
* *
1547124 AATTACA-AACTTACATAATTTACATAATTTACATAACATACATAACTTAACAACTTACAT
1 AATTACATAACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACAT
* *
1547184 AATTCACATAACTTATATAATTTACATAACTCACATAACATACATAACTTAACAACTTATAT
1 AATT-ACATAACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACAT
*
1547246 AACTCACATAACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACAT
1 AA-TTACATAACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACAT
*
1547308 AACTTACATAACTTACATAATTTACATAAGTCACATAACATACATAAC
1 AA-TTACATAACTTACATAATTTACATAACTCACATAACATACATAAC
1547356 AACTCACATA
Statistics
Matches: 160, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
60 4 0.03
61 3 0.02
62 152 0.95
63 1 0.01
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.31
Consensus pattern (61 bp):
AATTACATAACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACAT
Found at i:1547382 original size:124 final size:121
Alignment explanation
Indices: 1547131--1547382 Score: 355
Period size: 124 Copynumber: 2.0 Consensus size: 121
1547121 TTAAATTACA
* *
1547131 AACTTACATAATTTACATAATTTACATAACATACATAACTTAACAACTTACATAATTCACATAAC
1 AACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACATAATTCACATAAC
* * *
1547196 TTATATAATTTACATAACTCACATAACATACATAACTTAACAACTTATATAACTCACAT
66 TTACATAATTTACATAACTCACATAACATACATAACTCAACAACTTACATAACT---AT
1547255 AACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACATAACTT-ACATAA
1 AACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACATAA-TTCACATAA
* *
1547319 CTTACATAATTTACATAAGTCACATAACATACATAACAACTCACATAACTTACATAACT-T
65 CTTACATAATTTACATAACTCACATAACATACAT---AACTCA-ACAACTTACATAACTAT
1547379 AACT
1 AACT
1547383 AATACATGTA
Statistics
Matches: 116, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
124 96 0.83
125 2 0.02
127 5 0.04
128 13 0.11
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.31
Consensus pattern (121 bp):
AACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACATAATTCACATAAC
TTACATAATTTACATAACTCACATAACATACATAACTCAACAACTTACATAACTAT
Found at i:1550008 original size:19 final size:19
Alignment explanation
Indices: 1549981--1550019 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1549971 TTTGAGTTAT
1549981 ACTTCATTTATTAATTTAC
1 ACTTCATTTATTAATTTAC
*
1550000 ACTTTATTTATTAATTTAC
1 ACTTCATTTATTAATTTAC
1550019 A
1 A
1550020 TCATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (19 bp):
ACTTCATTTATTAATTTAC
Found at i:1550030 original size:19 final size:19
Alignment explanation
Indices: 1549989--1550030 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1549979 ATACTTCATT
* *
1549989 TATTAATTTACACTTTATT
1 TATTAATTTACACTATATA
1550008 TATTAATTTACA-TCATATA
1 TATTAATTTACACT-ATATA
1550027 TATT
1 TATT
1550031 TCGTTGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTAATTTACACTATATA
Found at i:1550221 original size:43 final size:43
Alignment explanation
Indices: 1550165--1550285 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 43
1550155 TTTGTAAAAA
** * * *
1550165 TTAACGGAATTTGTAGAAAAAGCACCGCTAAAGGTCATAA-CTT
1 TTAACGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCATAATC-T
* * * *
1550208 TTAACGGCGTTTGTGGATAAAGCGCCGTTAAAAGTCGTGATCT
1 TTAACGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCATAATCT
*
1550251 TTATCGGCGTTTGTGGATAAAA-CGCCGCTAAAAGT
1 TTAACGGCGTTTGTGGA-AAAAGCGCCGCTAAAAGT
1550286 TTTGTGGATA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 60 0.94
44 4 0.06
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (43 bp):
TTAACGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCATAATCT
Found at i:1550294 original size:26 final size:26
Alignment explanation
Indices: 1550260--1550312 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
1550250 TTTATCGGCG
1550260 TTTGTGGATAAAACGCCGCTAAAAGT
1 TTTGTGGATAAAACGCCGCTAAAAGT
* *
1550286 TTTGTGGATAAAGCGTCGCTAAAAGT
1 TTTGTGGATAAAACGCCGCTAAAAGT
1550312 T
1 T
1550313 GTGATCTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (26 bp):
TTTGTGGATAAAACGCCGCTAAAAGT
Found at i:1550330 original size:69 final size:69
Alignment explanation
Indices: 1550217--1550352 Score: 186
Period size: 69 Copynumber: 2.0 Consensus size: 69
1550207 TTTAACGGCG
* * * *
1550217 TTTGTGGATAAAGCGCCGTTAAAAGTCGTGATCTTTATCGGCGTTTGT-GGATAAAA-CGCCGCT
1 TTTGTGGATAAAGCGCCGCTAAAAGTCGTGATCTTTAGCAGCGTTT-TCAGA-AAAAGCGCCGCT
1550280 AAAAGT
64 AAAAGT
* *
1550286 TTTGTGGATAAAGCGTCGCTAAAAGTTGTGATCTTTAGCAGCGTTTTCAGAAAAAGCGCCGCTAA
1 TTTGTGGATAAAGCGCCGCTAAAAGTCGTGATCTTTAGCAGCGTTTTCAGAAAAAGCGCCGCTAA
1550351 AA
66 AA
1550353 ATCATGATGT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
68 5 0.08
69 54 0.92
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (69 bp):
TTTGTGGATAAAGCGCCGCTAAAAGTCGTGATCTTTAGCAGCGTTTTCAGAAAAAGCGCCGCTAA
AAGT
Found at i:1550349 original size:43 final size:43
Alignment explanation
Indices: 1550295--1550376 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
1550285 TTTTGTGGAT
* * ** *
1550295 AAAGCGTCGCTAAAAGTTGTGATCTTTAGCAGCGTTTTCAGAA
1 AAAGCGCCGCTAAAAATCATGATCTTTAACAGCGTTTTCAGAA
*
1550338 AAAGCGCCGCTAAAAATCATGATGTTTAACAGCGTTTTC
1 AAAGCGCCGCTAAAAATCATGATCTTTAACAGCGTTTTC
1550377 CTGGCCACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (43 bp):
AAAGCGCCGCTAAAAATCATGATCTTTAACAGCGTTTTCAGAA
Found at i:1551443 original size:18 final size:19
Alignment explanation
Indices: 1551411--1551446 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1551401 TTTCCTTTCC
*
1551411 TTTTGTTTTTCTTCTTTTT
1 TTTTGTTTGTCTTCTTTTT
1551430 TTTTGTTTGT-TTCTTTT
1 TTTTGTTTGTCTTCTTTT
1551447 CCTTTGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.83
Consensus pattern (19 bp):
TTTTGTTTGTCTTCTTTTT
Found at i:1554846 original size:15 final size:15
Alignment explanation
Indices: 1554809--1554876 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 15
1554799 CATTTATGTC
* *
1554809 AAAATTGAAAT-TTT
1 AAAATTAAAATATAT
1554823 AAAATTTAAAATATAT
1 AAAA-TTAAAATATAT
1554839 AAAATTAAAA-ATAAT
1 AAAATTAAAATAT-AT
* * *
1554854 CAAATTAAAGTACAT
1 AAAATTAAAATATAT
1554869 -AAATTAAA
1 AAAATTAAA
1554877 TCCACAACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
14 14 0.31
15 24 0.53
16 7 0.16
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (15 bp):
AAAATTAAAATATAT
Found at i:1557042 original size:19 final size:19
Alignment explanation
Indices: 1557010--1557088 Score: 52
Period size: 19 Copynumber: 3.9 Consensus size: 19
1557000 GCAACATTTG
* * *
1557010 TTTTTCTCTCTCCCCAAGA
1 TTTTTCCCTTTCCCCAAAA
*
1557029 TTTTTCCCTTTCCCTGGCATATA
1 TTTTTCCCTTTCCC---CA-AAA
*
1557052 TTTCTTTCCTTT-CCCAAAA
1 TTT-TTCCCTTTCCCCAAAA
1557071 GTTTTTCCCTTTCCCCAA
1 -TTTTTCCCTTTCCCCAA
1557089 CTCCCCAACC
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 21 0.45
20 10 0.21
22 2 0.04
23 7 0.15
24 7 0.15
ACGTcount: A:0.15, C:0.34, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTTTCCCTTTCCCCAAAA
Found at i:1560730 original size:16 final size:15
Alignment explanation
Indices: 1560709--1560747 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1560699 TTAAACTCTA
1560709 TATTTTATGTATTATT
1 TATTTTAT-TATTATT
*
1560725 TATTTTTATTTTTATT
1 TA-TTTTATTATTATT
1560741 TATTTTA
1 TATTTTA
1560748 CGATCTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 10 0.48
17 6 0.29
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TATTTTATTATTATT
Found at i:1562033 original size:3 final size:3
Alignment explanation
Indices: 1562025--1562064 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1562015 AAATGATTAC
1562025 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1562065 AATCAACCCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1563684 original size:3 final size:3
Alignment explanation
Indices: 1563670--1563712 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
1563660 ATGTAGCAAA
*
1563670 AAG AAC AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1563713 CAAATTTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1563828 original size:26 final size:26
Alignment explanation
Indices: 1563778--1563826 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
1563768 AAAATATAAT
*
1563778 TAAATGACTATTTTATAACTATTTTA
1 TAAATAACTATTTTATAACTATTTTA
1563804 TAAATAACTATTTTA-AA-TATTTT
1 TAAATAACTATTTTATAACTATTTT
1563827 TTTATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 2 0.09
26 14 0.64
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (26 bp):
TAAATAACTATTTTATAACTATTTTA
Found at i:1564048 original size:21 final size:21
Alignment explanation
Indices: 1564005--1564048 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1563995 TAACAAAATA
* **
1564005 TAAAAAATAGAAATTATTTTG
1 TAAAAAATAGAAAATATAGTG
*
1564026 TAAAAAATATAAAATATAGTG
1 TAAAAAATAGAAAATATAGTG
1564047 TA
1 TA
1564049 GCCTTTAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (21 bp):
TAAAAAATAGAAAATATAGTG
Found at i:1564593 original size:24 final size:23
Alignment explanation
Indices: 1564561--1564608 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
1564551 ATAATGATGT
* *
1564561 TTTTCTTTTTCTTTTTCTTTATA
1 TTTTCTTTTACTATTTCTTTATA
*
1564584 TTTTCATTTTAGTATTTCTTTATA
1 TTTTC-TTTTACTATTTCTTTATA
1564608 T
1 T
1564609 ATTAAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTCTTTTACTATTTCTTTATA
Found at i:1565975 original size:31 final size:31
Alignment explanation
Indices: 1565916--1565975 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
1565906 ATGACTTAAA
* *
1565916 TAAATAAAAGTTTTTAAATAATTTAATGATT
1 TAAATAAAAGTTTTTAAATAACTCAATGATT
1565947 TAAATGAAAA-TTTTTAAATAACTCAATGA
1 TAAAT-AAAAGTTTTTAAATAACTCAATGA
1565976 ATATTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (31 bp):
TAAATAAAAGTTTTTAAATAACTCAATGATT
Found at i:1570767 original size:18 final size:18
Alignment explanation
Indices: 1570744--1570778 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1570734 AAATTAGACA
1570744 AAAAAAAACAAACAAAAC
1 AAAAAAAACAAACAAAAC
* *
1570762 AAAAAAACCAATCAAAA
1 AAAAAAAACAAACAAAA
1570779 TTACAGCCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.17, G:0.00, T:0.03
Consensus pattern (18 bp):
AAAAAAAACAAACAAAAC
Found at i:1572254 original size:27 final size:27
Alignment explanation
Indices: 1572188--1572255 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 27
1572178 CTCAAAAGAT
* *
1572188 AATTTTTATAATATTAGAAAATATTAAC
1 AATTTTT-TAAAAATAGAAAATATTAAC
** * * *
1572216 AAAATATAAAAAATAGAAATTATTAAC
1 AATTTTTTAAAAATAGAAAATATTAAC
1572243 AATTTTTTAAAAA
1 AATTTTTTAAAAA
1572256 AAATTACATT
Statistics
Matches: 29, Mismatches: 11, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (27 bp):
AATTTTTTAAAAATAGAAAATATTAAC
Found at i:1576648 original size:48 final size:48
Alignment explanation
Indices: 1576590--1576783 Score: 196
Period size: 48 Copynumber: 4.0 Consensus size: 48
1576580 ATAGGATCAA
* * * *
1576590 ATGTCGATGCCATGTCCCAGAGATGGTCTTATACGGGATCTTATCTCG
1 ATGTCGACGCCATGTCCCAGACATGGTCTTATACGAGATCGTATCTCG
* * * * * *
1576638 ATGTCAATGCCATATCCCATATATGGTCTTATACGAGATCGTA-CGTTG
1 ATGTCGACGCCATGTCCCAGACATGGTCTTATACGAGATCGTATC-TCG
* * * *
1576686 ATG-CTGACGCCATGTCCCAAACATGGTCTTACACGAGATCGTATATCA
1 ATGTC-GACGCCATGTCCCAGACATGGTCTTATACGAGATCGTATCTCG
* *
1576734 ATGCCGACGCCATGTCCCAGACATGGTCTTATACGGGATCGCTAT-TCG
1 ATGTCGACGCCATGTCCCAGACATGGTCTTATACGAGATCG-TATCTCG
1576782 AT
1 AT
1576784 ACCGATGATG
Statistics
Matches: 121, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 2 0.02
48 115 0.95
49 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (48 bp):
ATGTCGACGCCATGTCCCAGACATGGTCTTATACGAGATCGTATCTCG
Found at i:1576715 original size:96 final size:96
Alignment explanation
Indices: 1576598--1576774 Score: 228
Period size: 96 Copynumber: 1.8 Consensus size: 96
1576588 AAATGTCGAT
* * * * * * * * * * *
1576598 GCCATGTCCCAGAGATGGTCTTATACGGGATCTTATCTCGATGTCAATGCCATATCCCATATATG
1 GCCATGTCCCAAACATGGTCTTACACGAGATCGTATATCAATGCCAACGCCATATCCCAGACATG
1576663 GTCTTATACGAGATCGTACGTTGATGCTGAC
66 GTCTTATACGAGATCGTACGTTGATGCTGAC
* *
1576694 GCCATGTCCCAAACATGGTCTTACACGAGATCGTATATCAATGCCGACGCCATGTCCCAGACATG
1 GCCATGTCCCAAACATGGTCTTACACGAGATCGTATATCAATGCCAACGCCATATCCCAGACATG
*
1576759 GTCTTATACGGGATCG
66 GTCTTATACGAGATCG
1576775 CTATTCGATA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 67 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (96 bp):
GCCATGTCCCAAACATGGTCTTACACGAGATCGTATATCAATGCCAACGCCATATCCCAGACATG
GTCTTATACGAGATCGTACGTTGATGCTGAC
Found at i:1586663 original size:204 final size:205
Alignment explanation
Indices: 1586297--1586949 Score: 1094
Period size: 204 Copynumber: 3.2 Consensus size: 205
1586287 TGATTTGGCT
* *
1586297 TGATTTGGTATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGGGAA
1 TGATTTGGTATCTC-GTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAG
1586362 CAGATACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAAGATCCAAGATGATTTGGCAT
65 CAGATACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAAGATCCAAGATGATTTGGCAT
*
1586427 CCTTGTGCTTACAAGGAACAAATTGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAG
130 CCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAG
1586492 CAAATCTAAGA
195 CAAATCTAAGA
1586503 TGATTTGGTATCTC-TATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGC
1 TGATTTGGTATCTCGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGC
*
1586567 AGATACATAGCAGATCTCACCTTCAGATGATTTCACTAAAGCAAGATCCAAGATGATTTGGCATC
66 AGATACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAAGATCCAAGATGATTTGGCATC
*
1586632 CTTGTGCTTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGC
131 CTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGC
1586697 AAATCTAAGA
196 AAATCTAAGA
* * *
1586707 TGATTTGGTATCTC-TATTGTCAGAGAACAAATCAAAGTCTGGTATCTCCACTTCGATGGAGAGC
1 TGATTTGGTATCTCGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGC
* * * * *
1586771 AGATACATAGTAGATCTCACATTCAGATAATTTCACTGAAGCAAGATCCAAGATGGTTTGGTATC
66 AGATACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAAGATCCAAGATGATTTGGCATC
* ** * *
1586836 CTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGTTTTTGCGTGCTTACGCTAAAGC
131 CTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGC
1586901 AAATCTAAGA
196 AAATCTAAGA
* *
1586911 TGATTTGGCATCTCTGTATTCTCAGAGAACAAATCGAAG
1 TGATTTGGTATCTC-GTATTGTCAGAGAACAAATCGAAG
1586950 AAGCAGATTT
Statistics
Matches: 422, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
204 387 0.92
206 35 0.08
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (205 bp):
TGATTTGGTATCTCGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGC
AGATACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAAGATCCAAGATGATTTGGCATC
CTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGC
AAATCTAAGA
Found at i:1588624 original size:20 final size:19
Alignment explanation
Indices: 1588588--1588629 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
1588578 AATATATGTA
1588588 TTATATTTTATATTATTTAC
1 TTATATTTTATATTA-TTAC
1588608 TTATATTTTAT-TATATTAC
1 TTATATTTTATAT-TATTAC
1588627 TTA
1 TTA
1588630 ATATCTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATTTTATATTATTAC
Found at i:1588644 original size:23 final size:18
Alignment explanation
Indices: 1588588--1588629 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
1588578 AATATATGTA
1588588 TTATATTTTATATTATTTAC
1 TTATA-TTT-TATTATTTAC
1588608 TTATATTTTATTATATTAC
1 TTATATTTTATTAT-TTAC
1588627 TTA
1 TTA
1588630 ATATCTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATTTTATTATTTAC
Found at i:1588790 original size:38 final size:38
Alignment explanation
Indices: 1588748--1588856 Score: 91
Period size: 38 Copynumber: 2.8 Consensus size: 38
1588738 TTAACCATAT
1588748 ATTATT-TCATATT-ATTATTATTTATTATATATTTTAAA
1 ATTATTATCATATTAATTATTATTTA-TATAT-TTTTAAA
* * *
1588786 ATTATTATTATTTTACATTATTATTTATATATTTTT-AC
1 ATTATTATCATATTA-ATTATTATTTATATATTTTTAAA
* * *
1588824 TTGTATTAT-ATCTTTATTAATTATTTATATATT
1 AT-TATTATCATATTAATT-ATTATTTATATATT
1588857 ATACATATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
37 3 0.05
38 26 0.43
39 15 0.25
40 5 0.08
41 11 0.18
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (38 bp):
ATTATTATCATATTAATTATTATTTATATATTTTTAAA
Found at i:1588807 original size:16 final size:17
Alignment explanation
Indices: 1588769--1588810 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
1588759 TTATTATTAT
1588769 TTATTATATATTTTAAAA
1 TTATTAT-TATTTTAAAA
*
1588787 TTATTATTATTTT-ACA
1 TTATTATTATTTTAAAA
1588803 TTATTATT
1 TTATTATT
1588811 TATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 6 0.26
18 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTATTATTTTAAAA
Found at i:1588808 original size:57 final size:59
Alignment explanation
Indices: 1588746--1588900 Score: 151
Period size: 57 Copynumber: 2.6 Consensus size: 59
1588736 TATTAACCAT
*
1588746 ATATTATTTCATATTATTATTATTTATTATATATTTTA-AAATTA-TTAT-TATTTTAC
1 ATATTATTTCATATTATTATTATTTATTATATATTTTATAAATTATTTATATATTATAC
* * *
1588802 ATTATTATTT-ATA-TATTTTTACTTGTATTATAT-CTTTATTAATTATTTATATATTATAC
1 A-TATTATTTCATATTATTATTA-TT-TATTATATATTTTATAAATTATTTATATATTATAC
*
1588861 ATATATACTTTCATATTATATATTATAATTATTTTATATT
1 ATAT-TA-TTTCATATTAT-TATTAT--TTATTATATATT
1588901 ATGTCATTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
55 7 0.09
56 10 0.13
57 21 0.27
58 7 0.09
59 10 0.13
60 3 0.04
61 3 0.04
62 4 0.05
63 11 0.14
64 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.60
Consensus pattern (59 bp):
ATATTATTTCATATTATTATTATTTATTATATATTTTATAAATTATTTATATATTATAC
Found at i:1588834 original size:19 final size:19
Alignment explanation
Indices: 1588805--1588856 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
1588795 ATTTTACATT
1588805 ATTATTTATATATTT-TTA
1 ATTATTTATATATTTATTA
* * *
1588823 CTTGTATTATATCTTTATTA
1 ATTAT-TTATATATTTATTA
1588843 ATTATTTATATATT
1 ATTATTTATATATT
1588857 ATACATATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 3 0.12
19 17 0.65
20 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTATTTATATATTTATTA
Found at i:1588926 original size:23 final size:23
Alignment explanation
Indices: 1588900--1588946 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1588890 TATTTTATAT
1588900 TATGTCATTTT-TTTATACTATTA
1 TATGTCATTTTATTTATAC-ATTA
**
1588923 TATGTTTTTTTATTTATACATTA
1 TATGTCATTTTATTTATACATTA
1588946 T
1 T
1588947 TATCATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (23 bp):
TATGTCATTTTATTTATACATTA
Found at i:1593256 original size:4 final size:4
Alignment explanation
Indices: 1593249--1593279 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
1593239 CCACCACCCA
1593249 CCCT CCCT CCCT CCCT CCCT CCCT CCCT CCC
1 CCCT CCCT CCCT CCCT CCCT CCCT CCCT CCC
1593280 CAATTGTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.77, G:0.00, T:0.23
Consensus pattern (4 bp):
CCCT
Found at i:1593577 original size:10 final size:11
Alignment explanation
Indices: 1593552--1593583 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
1593542 TTTTTTTGTT
1593552 ATTATTTATAA
1 ATTATTTATAA
1593563 ATTATTTAT-A
1 ATTATTTATAA
1593573 ATTATTT-TAA
1 ATTATTTATAA
1593583 A
1 A
1593584 ATTAAATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 1 0.05
10 10 0.50
11 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATTTATAA
Found at i:1593819 original size:15 final size:16
Alignment explanation
Indices: 1593792--1593823 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1593782 GTTATTTTTT
1593792 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
1593808 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
1593823 T
1 T
1593824 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:1595967 original size:33 final size:33
Alignment explanation
Indices: 1595887--1595988 Score: 111
Period size: 33 Copynumber: 3.1 Consensus size: 33
1595877 CAGCACTCAG
* * *
1595887 CTCCTTCTGGCCCGTATCCACCACCGTATTC-A
1 CTCCTCCTGGCCCGTATCCACCACCATACTCTA
*
1595919 CTCCTCCAGAG-CCGTATCCACCACCATACTCTA
1 CTCCTCCTG-GCCCGTATCCACCACCATACTCTA
* *
1595952 CTCC-CACTGGCCCGTATCCACCGCCATTCTCTA
1 CTCCTC-CTGGCCCGTATCCACCACCATACTCTA
1595985 CTCC
1 CTCC
1595989 GCCCGGCTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
32 27 0.46
33 32 0.54
ACGTcount: A:0.18, C:0.47, G:0.11, T:0.25
Consensus pattern (33 bp):
CTCCTCCTGGCCCGTATCCACCACCATACTCTA
Found at i:1601330 original size:25 final size:26
Alignment explanation
Indices: 1601296--1601347 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
1601286 AGTTGTAAAT
1601296 TAGAAAAATCTCACTAGA-AATTTTC
1 TAGAAAAATCTCACTAGAGAATTTTC
* * *
1601321 TAGAATAATCTCCCTTGAGAATTTTC
1 TAGAAAAATCTCACTAGAGAATTTTC
1601347 T
1 T
1601348 CTCTACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (26 bp):
TAGAAAAATCTCACTAGAGAATTTTC
Found at i:1603628 original size:19 final size:19
Alignment explanation
Indices: 1603604--1603640 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1603594 GCATCATAAC
1603604 TTTCTTTCCTTTTATTTTT
1 TTTCTTTCCTTTTATTTTT
* *
1603623 TTTCTTTCTTTTTCTTTT
1 TTTCTTTCCTTTTATTTT
1603641 CATGTTGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTCTTTCCTTTTATTTTT
Found at i:1604335 original size:28 final size:28
Alignment explanation
Indices: 1604295--1604350 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
1604285 TCAGGACAGG
1604295 GTACAAGGCATTACCGGACTTAAACACA
1 GTACAAGGCATTACCGGACTTAAACACA
1604323 GTACAAGGCATTACCGGACTTAAACACA
1 GTACAAGGCATTACCGGACTTAAACACA
1604351 CTTAAACATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (28 bp):
GTACAAGGCATTACCGGACTTAAACACA
Found at i:1605728 original size:48 final size:48
Alignment explanation
Indices: 1605651--1605789 Score: 161
Period size: 48 Copynumber: 2.9 Consensus size: 48
1605641 GGATCTCCTC
* ** *
1605651 TCGATGTCGATGCTATATCTTAGATATGGTCTTATACGAGATCGTACA
1 TCGATGTCGATGCCATATCCCAGACATGGTCTTATACGAGATCGTACA
* * *
1605699 TCGATGTCGATGCCATATCCCAAACATGGTCTTACACGAGATCGTATA
1 TCGATGTCGATGCCATATCCCAGACATGGTCTTATACGAGATCGTACA
* ** * * *
1605747 TCGATGCCGATGCCAGGTTCCAGACATGGTTTTATACGGGATC
1 TCGATGTCGATGCCATATCCCAGACATGGTCTTATACGAGATC
1605790 ACTATTCAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (48 bp):
TCGATGTCGATGCCATATCCCAGACATGGTCTTATACGAGATCGTACA
Found at i:1605862 original size:102 final size:102
Alignment explanation
Indices: 1605706--1605889 Score: 228
Period size: 102 Copynumber: 1.8 Consensus size: 102
1605696 ACATCGATGT
* ** *
1605706 CGATGCCATATCCCAAACATGGTCTTACACGAGATCGTATATCGATGCCGATGCCAGGTTCCAGA
1 CGATGCCATATCCCAAACATGGTCTTACACGAGATCGTATATCGATGCCAATGCCAAATCCCAGA
*
1605771 CATGGTTTTATACGGGATCACTATTCAATACCGATAC
66 CATGGTATTATACGGGATCACTATTCAATACCGATAC
* * * * * *
1605808 CGATGTCATATCCTAGATATGGTCTTACACGGGATCTTA-ACTCTG-TGCCAATGCCAAATCCCA
1 CGATGCCATATCCCAAACATGGTCTTACACGAGATCGTATA-TC-GATGCCAATGCCAAATCCCA
*
1605871 GATATGGTATTATACGGGA
64 GACATGGTATTATACGGGA
1605890 CCTTCTCAGT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
101 1 0.01
102 66 0.97
103 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (102 bp):
CGATGCCATATCCCAAACATGGTCTTACACGAGATCGTATATCGATGCCAATGCCAAATCCCAGA
CATGGTATTATACGGGATCACTATTCAATACCGATAC
Found at i:1610351 original size:24 final size:23
Alignment explanation
Indices: 1610306--1610354 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
1610296 ATAATGAAGC
1610306 TTTTCATTTTCATTTTCTTTATA
1 TTTTCATTTTCATTTTCTTTATA
1610329 TTTTCATTTT-AGTATTTCTTTATA
1 TTTTCATTTTCA-T-TTTCTTTATA
1610353 TT
1 TT
1610355 AAAAAATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 1 0.04
23 11 0.46
24 12 0.50
ACGTcount: A:0.18, C:0.10, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTTCATTTTCATTTTCTTTATA
Found at i:1615217 original size:60 final size:60
Alignment explanation
Indices: 1615143--1615268 Score: 198
Period size: 60 Copynumber: 2.1 Consensus size: 60
1615133 ATTTATAAAT
* *
1615143 TGTTTATAATTATTTTAAAATTAAATTGTTAGTAATTTAGGACTATATTATAAATTTTTG
1 TGTTTATAATTATTTTAAAATTAAATTATTAGTAATTTAGGACTATATTATAAATTGTTG
* * * *
1615203 TGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTG
1 TGTTTATAATTATTTTAAAATTAAATTATTAGTAATTTAGGACTATATTATAAATTGTTG
1615263 TGTTTA
1 TGTTTA
1615269 GTTTAGTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.53
Consensus pattern (60 bp):
TGTTTATAATTATTTTAAAATTAAATTATTAGTAATTTAGGACTATATTATAAATTGTTG
Found at i:1615465 original size:16 final size:18
Alignment explanation
Indices: 1615429--1615465 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1615419 TAGTGTTTTG
*
1615429 TATTTTGTTATAGTTATT
1 TATTTTGTTATAGTAATT
1615447 TATTTTGTTA-A-TAATT
1 TATTTTGTTATAGTAATT
1615463 TAT
1 TAT
1615466 GGGATTAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TATTTTGTTATAGTAATT
Found at i:1615553 original size:103 final size:103
Alignment explanation
Indices: 1615446--1615660 Score: 278
Period size: 103 Copynumber: 2.1 Consensus size: 103
1615436 TTATAGTTAT
1615446 TTATTTTGTTAATAATTTATGGGATTAGG-T-TACAAAT-TGTTAGTGTTTAGTGGTTTAGGGTA
1 TTATTTTGTTAATAATTTAT--GATTAGGTTATACAAATCT-TTAGTGTTTAGTGGTTTAGGGTA
*
1615508 TTACAG-TTTTTTAGTAATGTA-TTTAAAAAAAAAATTTATAG
63 TTA-AGATTTTTTAGAAATGTATTTTAAAAAAAAAA-TTATAG
* * *
1615549 TTATTTTCTTAATAATTTATGATTAGGTTATATAAATCTTTAGTGTTTAGTGGTTTAGTGTATTA
1 TTATTTTGTTAATAATTTATGATTAGGTTATACAAATCTTTAGTGTTTAGTGGTTTAGGGTATTA
* ***
1615614 TGATTTTTTAGAAATGTATTTTTTTAAAAAAATTATAG
66 AGATTTTTTAGAAATGTATTTTAAAAAAAAAATTATAG
1615652 TTATTTTGT
1 TTATTTTGT
1615661 GTTAGTGTTT
Statistics
Matches: 98, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
101 7 0.07
102 2 0.02
103 78 0.80
104 11 0.11
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.51
Consensus pattern (103 bp):
TTATTTTGTTAATAATTTATGATTAGGTTATACAAATCTTTAGTGTTTAGTGGTTTAGGGTATTA
AGATTTTTTAGAAATGTATTTTAAAAAAAAAATTATAG
Found at i:1615723 original size:15 final size:16
Alignment explanation
Indices: 1615696--1615727 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1615686 GTTATTTTTT
1615696 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
1615712 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
1615727 T
1 T
1615728 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:1616030 original size:23 final size:22
Alignment explanation
Indices: 1615985--1616030 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
1615975 GTTTCTAAAA
* * *
1615985 TTTTGAAATAATTTATTATATT
1 TTTTGAAATAATTAAATAAATT
1616007 TTTTGAAATAAATTAAATAAATT
1 TTTTGAAAT-AATTAAATAAATT
1616030 T
1 T
1616031 ATTTTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
TTTTGAAATAATTAAATAAATT
Found at i:1620673 original size:20 final size:19
Alignment explanation
Indices: 1620644--1620686 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1620634 CAAATAACTC
1620644 TAATTATTTAATTCAAAATT
1 TAATTATTT-ATTCAAAATT
* * *
1620664 TAATTTTTTATTGAAATTT
1 TAATTATTTATTCAAAATT
1620683 TAAT
1 TAAT
1620687 CGATTCAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TAATTATTTATTCAAAATT
Found at i:1621426 original size:3 final size:3
Alignment explanation
Indices: 1621418--1621442 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1621408 GGTATGTAGC
1621418 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
1621443 CAAATTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1633007 original size:21 final size:21
Alignment explanation
Indices: 1632983--1633025 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1632973 TTTTTTGTTA
*
1632983 AATATATTATTATTT-TGAATT
1 AATACATT-TTATTTGTGAATT
*
1633004 AATACATTTTTTTTGTGAATT
1 AATACATTTTATTTGTGAATT
1633025 A
1 A
1633026 CAATAATAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (21 bp):
AATACATTTTATTTGTGAATT
Found at i:1635034 original size:3 final size:3
Alignment explanation
Indices: 1635026--1635054 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1635016 CTTTGTTTTC
1635026 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1635055 CTCCTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:1636233 original size:13 final size:13
Alignment explanation
Indices: 1636215--1636239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1636205 CAGCCAAGCG
1636215 GAAAAAAGAAAAC
1 GAAAAAAGAAAAC
1636228 GAAAAAAGAAAA
1 GAAAAAAGAAAA
1636240 ATCAATAGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (13 bp):
GAAAAAAGAAAAC
Found at i:1638259 original size:30 final size:31
Alignment explanation
Indices: 1638209--1638269 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
1638199 ATACATCATA
1638209 GCAAGAATGAATGAAAAGCTTCCACCCCTAT
1 GCAAGAATGAATGAAAAGCTTCCACCCCTAT
*
1638240 GCAAGAATGAATG-AAAGCTTTCACCCCTAT
1 GCAAGAATGAATGAAAAGCTTCCACCCCTAT
1638270 TTATAGAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (31 bp):
GCAAGAATGAATGAAAAGCTTCCACCCCTAT
Found at i:1640772 original size:15 final size:15
Alignment explanation
Indices: 1640738--1640776 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1640728 GAAAAGCTAT
* *
1640738 AATAATAATAGTAAT
1 AATAATAAAAGTAAA
*
1640753 TATAATAAAAGTAAA
1 AATAATAAAAGTAAA
1640768 AATAATAAA
1 AATAATAAA
1640777 TATAGCAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AATAATAAAAGTAAA
Found at i:1641115 original size:3 final size:3
Alignment explanation
Indices: 1641107--1641279 Score: 74
Period size: 3 Copynumber: 57.0 Consensus size: 3
1641097 ATTAACAATG
* * * * *
1641107 ATA ATA ATA ATA GTA ATA ATA TTA A-A ATA CAAA AAA AGA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * *
1641152 A-A AT- ATA ATA AAA ATA ATA A-A GTA ATTA AAA ATA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA AT-A ATA
* * * * *
1641196 TTT A-A AT- ATA TATA CAT- ATA CATA GGTA ATA AAA AT- ATA CACGA
1 ATA ATA ATA ATA -ATA -ATA ATA -ATA -ATA ATA ATA ATA ATA -A-TA
*
1641240 CTA TATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1641280 TTGAAATACG
Statistics
Matches: 127, Mismatches: 27, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
2 14 0.11
3 91 0.72
4 21 0.17
5 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1641150 original size:138 final size:137
Alignment explanation
Indices: 1641008--1641535 Score: 421
Period size: 138 Copynumber: 3.7 Consensus size: 137
1640998 AGGGAAGTGT
* ** *
1641008 ATAATATAATAATAATATTAAAATATGGTAATTAAAAATACTATTATATAAATACATATATATAT
1 ATAATAAAATAATAATATTAAAATAAAGTAATTAAAAATAATATTATATAAATA-ATATATATAT
* * * * *
1641073 ATATATAAGAAAAATATTCACTATAT-TAACAATGATAATAATAATAGTAATAATATTAAAATAC
65 ATATATAATAAAAATATACACTATATATAATAATAATAATAATAATAATAATAATATTAAAATAC
1641137 AAAAAAAGA
130 AAAAAAA-A
** *
1641146 ATAATAAAAT-ATAATAAAAATAATAAAGTAATTAAAAATAATAATAAATATTTAAATATATATA
1 ATAATAAAATAATAATATTAA-AATAAAGTAATTAAAAATAAT-AT---TATATAAATA-ATATA
* *
1641210 CATATACATAGGTAATAAAAATATACACGACTATATAATAATAATAATAATAATAATAATAATAA
60 TATATATATA--TAATAAAAATAT--AC-AC--TAT-AT-ATAATAATAATAATAATAATAATAA
* * *
1641275 TAATATTGAAATACGAAAAAAC
116 TAATATTAAAATACAAAAAAAA
* * * * * * * * *
1641297 A-AATACAATAAAAATATTGAAATAAAGTAATAAAAAAATAAGACTATGTACA-AATATATATAC
1 ATAATAAAATAATAATATTAAAATAAAGTAAT-TAAAAATAATATTATATAAATAATATATATAT
* *
1641360 ATATATAATAAAACGTATACACTATTATATAATAATAATAATAATAACAATAATAATATTAAAAT
65 ATATATAATAAAA-ATATACACTA-TATATAATAATAATAATAATAATAATAATAATATTAAAAT
*
1641425 ACAAAAAGCAA
128 ACAAAAA-AAA
* * *** *
1641436 GT-AT--AATAA-AATATTTAAAA-AAAGTAATAAAAAATAAGGCTATATAAAT-ATATATACAT
1 ATAATAAAATAATAATA-TTAAAATAAAGTAATTAAAAATAATATTATATAAATAATATATATAT
*
1641495 ATACATACATAAAAAAATATACACTA-ATATATATAATAATA
65 ATATATA-AT--AAAAATATACACTATATATA-ATAATAATA
1641536 TTGCAATGCA
Statistics
Matches: 317, Mismatches: 46, Indels: 56
0.76 0.11 0.13
Matches are distributed among these distances:
135 36 0.11
136 23 0.07
137 27 0.09
138 72 0.23
139 9 0.03
140 1 0.00
141 2 0.01
142 24 0.08
143 8 0.03
144 14 0.04
145 12 0.04
146 2 0.01
147 8 0.03
149 3 0.01
150 21 0.07
151 15 0.05
152 40 0.13
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.30
Consensus pattern (137 bp):
ATAATAAAATAATAATATTAAAATAAAGTAATTAAAAATAATATTATATAAATAATATATATATA
TATATAATAAAAATATACACTATATATAATAATAATAATAATAATAATAATAATATTAAAATACA
AAAAAAA
Found at i:1641396 original size:3 final size:3
Alignment explanation
Indices: 1641388--1641417 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
1641378 ACACTATTAT
*
1641388 ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1641418 TTAAAATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1641531 original size:115 final size:115
Alignment explanation
Indices: 1641409--1641723 Score: 474
Period size: 115 Copynumber: 2.7 Consensus size: 115
1641399 AATAATAACA
** * *
1641409 ATAATAATATTAAAATAC-AAAAAGCAAGTATAATAAAATATTTAAAA-AAAGTAATAAAAAATA
1 ATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATA-TTAAAATAAAGTAATAAAAAA-A
1641472 AGGCTA-TATAAATATATATACATATACATACATAAAAAAATATACACTAATATAT
64 A--CTACTAT--ATATATATACATATACATACATAAAAAAATATACACTAATATAT
*
1641527 ATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAAAAAACAC
1 ATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAAAAAAAAC
* * *
1641592 TACTATATATATATACATATACATATATAAAAATATATATACTAATATAT
66 TACTATATATATATACATATACATACATAAAAAAATATACACTAATATAT
*
1641642 ATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAAAAAACAC
1 ATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAAAAAAAAC
1641707 TACTATATATATATACA
66 TACTATATATATATACA
1641724 CGTATATAAC
Statistics
Matches: 186, Mismatches: 8, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
115 123 0.66
116 3 0.02
117 3 0.02
118 22 0.12
119 35 0.19
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.29
Consensus pattern (115 bp):
ATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAAAAAAAAC
TACTATATATATATACATATACATACATAAAAAAATATACACTAATATAT
Found at i:1641627 original size:22 final size:24
Alignment explanation
Indices: 1641595--1641651 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 24
1641585 AAAACACTAC
1641595 TATAT-AT-ATATACATA-TACATA
1 TATATAATAATATACATACTA-ATA
*
1641617 TATA-AA-AATATATATACTAATA
1 TATATAATAATATACATACTAATA
1641639 TATATAATAATAT
1 TATATAATAATAT
1641652 TGCAATGCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
22 20 0.69
23 4 0.14
24 5 0.17
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (24 bp):
TATATAATAATATACATACTAATA
Found at i:1641629 original size:12 final size:12
Alignment explanation
Indices: 1641598--1641651 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
1641588 ACACTACTAT
1641598 ATATATATACATA
1 ATATATATA-ATA
* *
1641611 TACATATATAAAA
1 -ATATATATAATA
*
1641624 ATATATATACTA
1 ATATATATAATA
1641636 ATATATATAATA
1 ATATATATAATA
1641648 ATAT
1 ATAT
1641652 TGCAATGCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 24 0.71
13 2 0.06
14 8 0.24
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATATATAATA
Found at i:1641641 original size:14 final size:13
Alignment explanation
Indices: 1641595--1641651 Score: 62
Period size: 14 Copynumber: 4.2 Consensus size: 13
1641585 AAAACACTAC
1641595 TATATATATATACA
1 TATATATATATA-A
*
1641609 TATACATATATAAA
1 TATATATATAT-AA
*
1641623 AATATATATACTAA
1 TATATATATA-TAA
1641637 TATATATA-ATAA
1 TATATATATATAA
1641649 TAT
1 TAT
1641652 TGCAATGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
12 6 0.16
13 1 0.03
14 28 0.76
15 2 0.05
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATATATATAA
Found at i:1641793 original size:115 final size:110
Alignment explanation
Indices: 1641486--1641766 Score: 326
Period size: 115 Copynumber: 2.5 Consensus size: 110
1641476 TATATAAATA
* * * *
1641486 TATATACATATACATACATA-A-AAAAAT--ATACACTAATATATATAATAATATTGCAATGCAA
1 TATATATATATACA-ACATATATAAAAATACATATACTAACATATATAATAATA-TACAATGCAA
*
1641547 AAAAGCAAATATAATAAAATATTAAAATAAAGTAATAAAAAACACTAC
64 AAAAG-AAATAAAATAAAATATTAAAATAAAGTAATAAAAAACACTAC
* * *
1641595 TATATATATATACATATACATATATAAAAATATATATACTAATATATATAATAATATTGCAATGC
1 TATATATATATAC--A-ACATATATAAAAATACATATACTAACATATATAATAATA-TACAATGC
*
1641660 AAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAAAAAACACTAC
62 AAAAAAG-AAATAAAATAAAATATTAAAATAAAGTAATAAAAAACACTAC
*
1641710 TATATATATATAC-ACGTATATAACAAATACA-A-ACTAACATATAATAATAATA-ACAAT
1 TATATATATATACAACATATATAA-AAATACATATACTAACATAT-ATAATAATATACAAT
1641767 ACGTTTTATA
Statistics
Matches: 158, Mismatches: 6, Indels: 16
0.88 0.03 0.09
Matches are distributed among these distances:
109 16 0.10
110 9 0.06
111 26 0.16
112 7 0.04
113 6 0.04
115 94 0.59
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (110 bp):
TATATATATATACAACATATATAAAAATACATATACTAACATATATAATAATATACAATGCAAAA
AAGAAATAAAATAAAATATTAAAATAAAGTAATAAAAAACACTAC
Found at i:1642517 original size:19 final size:18
Alignment explanation
Indices: 1642478--1642520 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
1642468 GTTTTTTTTT
*
1642478 AAAAAATGATATATAATG
1 AAAAAATGATACATAATG
1642496 AAAATAATGATACA-AATCG
1 AAAA-AATGATACATAAT-G
1642515 AAAAAA
1 AAAAAA
1642521 AGAAAGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.65, C:0.05, G:0.09, T:0.21
Consensus pattern (18 bp):
AAAAAATGATACATAATG
Found at i:1643425 original size:16 final size:17
Alignment explanation
Indices: 1643390--1643434 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
1643380 AATAAAAAAA
1643390 ATATATTTATATAATTATT
1 ATATATTTA-ATAATT-TT
*
1643409 TTAATATTTAATAATTTT
1 AT-ATATTTAATAATTTT
1643427 ATATATTT
1 ATATATTT
1643435 TTTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 6 0.26
18 3 0.13
19 7 0.30
20 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATATTTAATAATTTT
Found at i:1645118 original size:21 final size:22
Alignment explanation
Indices: 1645091--1645147 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
1645081 ATATATTAAA
1645091 TTATTATTATTATTTATTATAG
1 TTATTATTATTATTTATTATAG
* *
1645113 TT-TTA-TATTTAATTATTATTG
1 TTATTATTA-TTATTTATTATAG
*
1645134 TTATTGTTATTATT
1 TTATTATTATTATT
1645148 ATTTAAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 2 0.07
21 16 0.57
22 8 0.29
23 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTATTATTATTATTTATTATAG
Found at i:1645784 original size:23 final size:21
Alignment explanation
Indices: 1645737--1645777 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
1645727 TTTGGTTAAA
1645737 AATTGAATAGAAATGAAGTATG
1 AATTGAATAGAAA-GAAGTATG
1645759 AATTGAGATAGAAA-AAGTA
1 AATTGA-ATAGAAAGAAGTA
1645778 AGTGAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTGAATAGAAAGAAGTATG
Found at i:1646120 original size:15 final size:15
Alignment explanation
Indices: 1646100--1646156 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
1646090 CGATGGATTT
1646100 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
1646115 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
1646130 ATTGAATTTATATTG
1 ATTGAATTTATATTG
1646145 ATTGAA-TTATAT
1 ATTGAATTTATAT
1646157 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:1653436 original size:43 final size:43
Alignment explanation
Indices: 1653389--1653479 Score: 182
Period size: 43 Copynumber: 2.1 Consensus size: 43
1653379 CCTACTTGTC
1653389 AAGTTCAAAAATGAAAAATTATATTATCCCTAAATTAAAGCTA
1 AAGTTCAAAAATGAAAAATTATATTATCCCTAAATTAAAGCTA
1653432 AAGTTCAAAAATGAAAAATTATATTATCCCTAAATTAAAGCTA
1 AAGTTCAAAAATGAAAAATTATATTATCCCTAAATTAAAGCTA
1653475 AAGTT
1 AAGTT
1653480 TGTTTTCCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.31
Consensus pattern (43 bp):
AAGTTCAAAAATGAAAAATTATATTATCCCTAAATTAAAGCTA
Found at i:1656539 original size:3 final size:3
Alignment explanation
Indices: 1656531--1656558 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1656521 TCCAGTACTA
1656531 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1656559 GAAAAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1657559 original size:17 final size:18
Alignment explanation
Indices: 1657539--1657574 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
1657529 TGAATCATAC
1657539 TAAG-ATTTTTTTTATAT
1 TAAGAATTTTTTTTATAT
1657556 TAAGATATTTTTTTTATAT
1 TAAGA-ATTTTTTTTATAT
1657575 CATATGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
19 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (18 bp):
TAAGAATTTTTTTTATAT
Found at i:1660059 original size:28 final size:28
Alignment explanation
Indices: 1660027--1660083 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
1660017 AATAAAAAAG
1660027 ATAAAATTTTAAAATACAGTAAACTTAA
1 ATAAAATTTTAAAATACAGTAAACTTAA
1660055 ATAAAATTTTAAAATACAGTAAACTTAA
1 ATAAAATTTTAAAATACAGTAAACTTAA
1660083 A
1 A
1660084 AGGTTAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.32
Consensus pattern (28 bp):
ATAAAATTTTAAAATACAGTAAACTTAA
Found at i:1670513 original size:39 final size:39
Alignment explanation
Indices: 1670455--1670623 Score: 239
Period size: 39 Copynumber: 4.3 Consensus size: 39
1670445 ATGGAATACC
* * *
1670455 GATTATACTAAATGTTTGCTCAAACAAGCATTATCCATT
1 GATTATACTGAATGCTTGCTCAAACGAGCATTATCCATT
*
1670494 GATTATACTGAATGCTTGCTCAAACGAGCATTATCCACT
1 GATTATACTGAATGCTTGCTCAAACGAGCATTATCCATT
* * * *
1670533 GATTATATTGAATGCTTGCTCAAATGAGTATTGTCCATT
1 GATTATACTGAATGCTTGCTCAAACGAGCATTATCCATT
* * *
1670572 GGTTATGCTGAATGCTTGCTCAAACTAGCATTATCCATT
1 GATTATACTGAATGCTTGCTCAAACGAGCATTATCCATT
1670611 GATTATACTGAAT
1 GATTATACTGAAT
1670624 AAGATTTTAT
Statistics
Matches: 112, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (39 bp):
GATTATACTGAATGCTTGCTCAAACGAGCATTATCCATT
Found at i:1671389 original size:16 final size:17
Alignment explanation
Indices: 1671360--1671397 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
1671350 AATTTAATAA
1671360 AATTTGTGTTAATTGTG
1 AATTTGTGTTAATTGTG
1671377 AATTTGT-TTAATTGTG
1 AATTTGTGTTAATTGTG
*
1671393 CATTT
1 AATTT
1671398 AAAATGTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.55
Consensus pattern (17 bp):
AATTTGTGTTAATTGTG
Found at i:1671779 original size:22 final size:23
Alignment explanation
Indices: 1671754--1671796 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1671744 TAATGCAAAT
*
1671754 TTATTTT-AGCAGTTACAAACCA
1 TTATTTTCAACAGTTACAAACCA
1671776 TTATTTTCAACAGTTACAAAC
1 TTATTTTCAACAGTTACAAAC
1671797 TGTTTTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (23 bp):
TTATTTTCAACAGTTACAAACCA
Done.