Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold162
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: 1959167
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.30
Warning! 205334 characters in sequence are not A, C, G, or T
File 10 of 12
Found at i:1472900 original size:25 final size:24
Alignment explanation
Indices: 1472847--1472902 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
1472837 TCTTATTTTT
* *
1472847 ATTTTTCCTTTTTTATTCTTTATTA
1 ATTTTTCATTTTTTATTC-TTATAA
1472872 ATTTTTCATTATTTTATTC-TATAA
1 ATTTTTCATT-TTTTATTCTTATAA
1472896 CATTTTT
1 -ATTTTT
1472903 ATTCAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 4 0.15
25 15 0.56
26 8 0.30
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (24 bp):
ATTTTTCATTTTTTATTCTTATAA
Found at i:1473454 original size:11 final size:11
Alignment explanation
Indices: 1473438--1473473 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1473428 CCATCTAACC
1473438 TTCTCTCCTTT
1 TTCTCTCCTTT
*
1473449 TTCTCTCTTTT
1 TTCTCTCCTTT
*
1473460 TTTTCTCCTTT
1 TTCTCTCCTTT
1473471 TTC
1 TTC
1473474 ACTACTATTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (11 bp):
TTCTCTCCTTT
Found at i:1475877 original size:17 final size:18
Alignment explanation
Indices: 1475843--1475880 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1475833 TTTGCCCTTC
1475843 CTTTTTCCTTCTTTTTTT
1 CTTTTTCCTTCTTTTTTT
1475861 CTTTTT-CTT-TTTATTTT
1 CTTTTTCCTTCTTT-TTTT
1475878 CTT
1 CTT
1475881 GTATTTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 10 0.53
18 6 0.32
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (18 bp):
CTTTTTCCTTCTTTTTTT
Found at i:1477189 original size:17 final size:18
Alignment explanation
Indices: 1477169--1477202 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1477159 GAAAAAGTTA
1477169 TGAAAAAATAA-AAAAAT
1 TGAAAAAATAATAAAAAT
1477186 TGAAAAAATAATAAAAA
1 TGAAAAAATAATAAAAA
1477203 CAACGCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (18 bp):
TGAAAAAATAATAAAAAT
Found at i:1481633 original size:13 final size:13
Alignment explanation
Indices: 1481615--1481640 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1481605 TACACCAAGT
1481615 ATGTATCGATACA
1 ATGTATCGATACA
1481628 ATGTATCGATACA
1 ATGTATCGATACA
1481641 CAAAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1483895 original size:21 final size:21
Alignment explanation
Indices: 1483862--1483911 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1483852 TTGCAAGTTG
*
1483862 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1483884 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1483905 AAATAAA
1 AAATAAA
1483912 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1485729 original size:15 final size:15
Alignment explanation
Indices: 1485709--1485739 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1485699 TAAAAATGTC
*
1485709 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1485724 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1485739 C
1 C
1485740 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1487987 original size:20 final size:20
Alignment explanation
Indices: 1487949--1487988 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
1487939 TTTTGTAAAA
1487949 TACTTGTTTTTCACTTCAAAT
1 TACTTGTTTTTCAC-TCAAAT
1487970 TACTTCGTTTTTCA-TCAAA
1 TACTT-GTTTTTCACTCAAA
1487989 ACCAGCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (20 bp):
TACTTGTTTTTCACTCAAAT
Found at i:1490307 original size:19 final size:19
Alignment explanation
Indices: 1490285--1490347 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
1490275 TAGCCAAACT
1490285 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
1490304 TGTATCGAT--A-C-A--A
1 TGTATCGATACACCAAGTA
1490317 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
1490336 TGTATCGATACA
1 TGTATCGATACA
1490348 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 2 0.05
17 2 0.05
19 22 0.58
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACCAAGTA
Found at i:1490321 original size:13 final size:13
Alignment explanation
Indices: 1490303--1490360 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
1490293 TACACCAAGT
1490303 ATGTATCGATACA
1 ATGTATCGATACA
1490316 ATGTATCGATACACCAA
1 ATGTATCGAT--A-C-A
1490333 GTATGTATCGATACA
1 --ATGTATCGATACA
1490348 ATGTATCGATACA
1 ATGTATCGATACA
1490361 CAAAAAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
15 2 0.05
16 2 0.05
17 2 0.05
19 10 0.26
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1490326 original size:32 final size:32
Alignment explanation
Indices: 1490285--1490361 Score: 154
Period size: 32 Copynumber: 2.4 Consensus size: 32
1490275 TAGCCAAACT
1490285 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAGTATGTATCGATACAA
1490317 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAGTATGTATCGATACAA
1490349 TGTATCGATACAC
1 TGTATCGATACAC
1490362 AAAAAAAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACCAAGTATGTATCGATACAA
Found at i:1491271 original size:21 final size:21
Alignment explanation
Indices: 1491245--1491284 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1491235 GTTACAAGCA
*
1491245 ATGTATCGATACATTGTATTG
1 ATGTATCGATACAATGTATTG
1491266 ATGTATCGATACAATGTAT
1 ATGTATCGATACAATGTAT
1491285 CGATACATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACAATGTATTG
Found at i:1491282 original size:13 final size:13
Alignment explanation
Indices: 1491266--1491296 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1491256 CATTGTATTG
1491266 ATGTATCGATACA
1 ATGTATCGATACA
1491279 ATGTATCGATACA
1 ATGTATCGATACA
*
1491292 TTGTA
1 ATGTA
1491297 CCATGTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1491385 original size:19 final size:19
Alignment explanation
Indices: 1491341--1491396 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1491331 CTGCCAATTT
**
1491341 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1491361 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1491380 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1491397 TATGATACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1576697 original size:20 final size:19
Alignment explanation
Indices: 1576642--1576697 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
1576632 AAAACCCTTA
*
1576642 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
1576662 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
1576682 AATGTATCGATACATG
1 AAAGTATCGATACATG
1576698 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:1576785 original size:13 final size:13
Alignment explanation
Indices: 1576767--1576792 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1576757 TACACAAAGT
1576767 ATGTATCGATACA
1 ATGTATCGATACA
1576780 ATGTATCGATACA
1 ATGTATCGATACA
1576793 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1576790 original size:32 final size:33
Alignment explanation
Indices: 1576749--1576812 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1576739 TAGCCAAACT
**
1576749 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1576781 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1576813 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1580889 original size:15 final size:15
Alignment explanation
Indices: 1580869--1580900 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1580859 ATAAAAGTGT
*
1580869 TCAAAATGAGGAAGC
1 TCAAAATGAAGAAGC
1580884 TCAAAATGAAGAAGC
1 TCAAAATGAAGAAGC
1580899 TC
1 TC
1580901 CAAACGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (15 bp):
TCAAAATGAAGAAGC
Found at i:1582998 original size:13 final size:13
Alignment explanation
Indices: 1582980--1583018 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1582970 ACATTTTTCT
1582980 TTGTATCGATACA
1 TTGTATCGATACA
1582993 TTGTATCGATACA
1 TTGTATCGATACA
*
1583006 CTGTATCGATACA
1 TTGTATCGATACA
1583019 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1583173 original size:20 final size:20
Alignment explanation
Indices: 1583130--1583175 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1583120 AAATCTTTTG
1583130 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1583151 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1583171 CAAAA
1 CAAAA
1583176 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1584671 original size:23 final size:21
Alignment explanation
Indices: 1584629--1584672 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
1584619 GTTTAAAGTT
**
1584629 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
1584650 TTTGCATTGTACTTTGAATTTTA
1 TTTGC-TTG-ACTTTGAATTTTA
1584673 ATCTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:1585597 original size:13 final size:13
Alignment explanation
Indices: 1585579--1585604 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1585569 TACACAAAGT
1585579 ATGTATCGATACA
1 ATGTATCGATACA
1585592 ATGTATCGATACA
1 ATGTATCGATACA
1585605 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1585602 original size:32 final size:33
Alignment explanation
Indices: 1585561--1585624 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1585551 TAGCCAAACT
**
1585561 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1585593 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1585625 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1591301 original size:20 final size:20
Alignment explanation
Indices: 1591276--1591369 Score: 145
Period size: 20 Copynumber: 4.7 Consensus size: 20
1591266 TTTACCCAGA
1591276 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTGTTCAT
*
1591296 TGTATCGATACATTGTTGAT
1 TGTATCGATACATTGTTCAT
*
1591316 TGTATCGATACATTGTTAAT
1 TGTATCGATACATTGTTCAT
*
1591336 TGTATCGATACATT-TTGCAA
1 TGTATCGATACATTGTT-CAT
1591356 TGTATCGATACATT
1 TGTATCGATACATT
1591370 AAGGCATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
19 2 0.03
20 67 0.97
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTGTTCAT
Found at i:1593803 original size:79 final size:79
Alignment explanation
Indices: 1593705--1594070 Score: 436
Period size: 79 Copynumber: 4.6 Consensus size: 79
1593695 TCATTCATGT
* * * **
1593705 TTTTATTTTCCAAAACACCAATTTTTTACAATCGAGGATACCCCAACCCCGTTATTTCTGAGGGG
1 TTTTATTTT-CAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGG
*
1593770 ATACTCCAA-CTCCGG
65 ATACTCCAACCT-CGA
* * * * *
1593785 TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAATCCTGTTATTTTCAAGGGAA
1 TTTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
*
1593850 TACTCCAACC-CTGG
66 TACTCCAACCTC-GA
* * *
1593864 TTTTA-TTTCAAAAACACCAATTTTTTACAATCGGGGATACTCCAA-CCCATTATTTCCGAGGGG
1 TTTTATTTTC-AAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGG
* *
1593927 ATACTTCAACCTTGA
65 ATACTCCAACCTCGA
* * **
1593942 TTTTATTTTCAAAACTCCAATTTTTCATAATCAAGGATACTCCAACCCCGTTATTTCCAAGGGGA
1 TTTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
1594007 TACTCCAACCTCGA
66 TACTCCAACCTCGA
* * *
1594021 TTTTA-TTTCTAAAACATCAATTTTCCACAATTGGGGATACTCCAACCCCG
1 TTTTATTTTC-AAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCG
1594071 GTTTTATTTC
Statistics
Matches: 243, Mismatches: 36, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
78 68 0.28
79 165 0.68
80 10 0.04
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (79 bp):
TTTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
TACTCCAACCTCGA
Found at i:1594003 original size:157 final size:157
Alignment explanation
Indices: 1593705--1594068 Score: 489
Period size: 157 Copynumber: 2.3 Consensus size: 157
1593695 TCATTCATGT
* * * * *
1593705 TTTTATTTTCCAAAACACCAATTTTTTACAATCGAGGATACCCCAACCCCGTTATTTCTGAGGGG
1 TTTTA-TTTCAAAAACACCAATTTTTTACAATCGGGGATACTCCAA-CCCATTATTTCCGAGGGG
* ** * *
1593770 ATACTCCAACTCCGGTTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAATCCTG
64 ATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTTCATAATCAAGGATACTCCAACCCCG
* *
1593835 TTATTTTCAAGGGAATACTCCAACC-CTGG
129 TTATTTCCAAGGGAATACTCCAACCTC-GA
1593864 TTTTATTTCAAAAACACCAATTTTTTACAATCGGGGATACTCCAACCCATTATTTCCGAGGGGAT
1 TTTTATTTCAAAAACACCAATTTTTTACAATCGGGGATACTCCAACCCATTATTTCCGAGGGGAT
* * *
1593929 ACTTCAAC-CTTGATTTTATTTTCAAAACTCCAATTTTTCATAATCAAGGATACTCCAACCCCGT
66 ACTCCAACTC-CGATTTTATTTTCAAAACACCAATTTTTCATAATCAAGGATACTCCAACCCCGT
*
1593993 TATTTCCAAGGGGATACTCCAACCTCGA
130 TATTTCCAAGGGAATACTCCAACCTCGA
* * ** *
1594021 TTTTATTTCTAAAACATCAATTTTCCACAATTGGGGATACTCCAACCC
1 TTTTATTTCAAAAACACCAATTTTTTACAATCGGGGATACTCCAACCC
1594069 CGGTTTTATT
Statistics
Matches: 182, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
156 1 0.01
157 138 0.76
158 38 0.21
159 5 0.03
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (157 bp):
TTTTATTTCAAAAACACCAATTTTTTACAATCGGGGATACTCCAACCCATTATTTCCGAGGGGAT
ACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTTCATAATCAAGGATACTCCAACCCCGTT
ATTTCCAAGGGAATACTCCAACCTCGA
Found at i:1594060 original size:51 final size:51
Alignment explanation
Indices: 1594002--1594169 Score: 223
Period size: 51 Copynumber: 3.3 Consensus size: 51
1593992 TTATTTCCAA
*
1594002 GGGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTCCACAATT
1 GGGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTCCACAATC
* *
1594053 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATC
1 GGGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTCCACAATC
* * * *
1594104 GGGGATACTCTAA-CTCTAATTTTATTT-TCAAAACATCGATTTTCCACCATC
1 GGGGATACTCCAACCTC-GATTTTATTTCT-AAAACATCAATTTTCCACAATC
* *
1594155 GAGGATACTCTAACC
1 GGGGATACTCCAACC
1594170 CTGTTATTTC
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
50 3 0.03
51 100 0.96
52 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTCCACAATC
Found at i:1594189 original size:130 final size:130
Alignment explanation
Indices: 1594055--1594309 Score: 402
Period size: 130 Copynumber: 2.0 Consensus size: 130
1594045 CCACAATTGG
* *
1594055 GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCTAACTC
1 GGATACTCCAACCACGATTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCTAACTC
* * * * * *
1594120 TAATTTTATTTTCAAAACATCGATTTTCCACCATCGAGGATACTCTAACCCTGTTATTTCCAAGA
66 CAATTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTCCAAGA
* *
1594185 GGATACTCCAACCACGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAACTC
1 GGATACTCCAACCACGATTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCTAACTC
* *
1594250 CGATTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTC
66 CAATTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTC
1594310 ATCGGGGATA
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
130 113 1.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (130 bp):
GGATACTCCAACCACGATTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCTAACTC
CAATTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTCCAAGA
Found at i:1594240 original size:181 final size:181
Alignment explanation
Indices: 1593941--1594294 Score: 530
Period size: 181 Copynumber: 2.0 Consensus size: 181
1593931 TTCAACCTTG
* * *
1593941 ATTTTATTTTCAAAACTCCAATTTTTCATAATCAAGGATACTCCAACCCCGTTATTTCCAAGGGG
1 ATTTTATTTTCAAAACTCCAATTTTCCACAATCAAGGATACTCCAACCCCGTTATTTCCAAGAGG
* *
1594006 ATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTCCACAATTGGGGATACTCCAACCCCG
66 ATACTCCAACCACGATTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCCG
* * *
1594071 GTTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCTAACTCTA
131 ATTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCTAACTCTA
* * * * *
1594122 ATTTTATTTTCAAAACAT-CGATTTTCCACCATCGAGGATACTCTAACCCTGTTATTTCCAAGAG
1 ATTTTATTTTCAAAAC-TCCAATTTTCCACAATCAAGGATACTCCAACCCCGTTATTTCCAAGAG
* * * *
1594186 GATACTCCAACCACGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAACTCC
65 GATACTCCAACCACGATTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCC
*
1594251 GATTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATACTC
130 GATTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTC
1594295 CAACCCCGTT
Statistics
Matches: 154, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
181 153 0.99
182 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (181 bp):
ATTTTATTTTCAAAACTCCAATTTTCCACAATCAAGGATACTCCAACCCCGTTATTTCCAAGAGG
ATACTCCAACCACGATTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCCG
ATTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCTAACTCTA
Found at i:1594254 original size:51 final size:51
Alignment explanation
Indices: 1594183--1594299 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
1594173 TTATTTCCAA
* *
1594183 GAGGATACTCCAACCACGATTTTATTTCTAAAACATCAATTTTTCATAATC
1 GAGGATACTCCAACCACGATTTTATTTCCAAAACATCAATTTTTCACAATC
* *
1594234 GGGGATACTCTAACTC-CGATTTTATTTCCAAAACATCAATTTTTCACAATC
1 GAGGATACTCCAAC-CACGATTTTATTTCCAAAACATCAATTTTTCACAATC
1594285 GAGGATACTCCAACC
1 GAGGATACTCCAACC
1594300 CCGTTATTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
50 1 0.02
51 57 0.97
52 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.32
Consensus pattern (51 bp):
GAGGATACTCCAACCACGATTTTATTTCCAAAACATCAATTTTTCACAATC
Found at i:1594356 original size:28 final size:28
Alignment explanation
Indices: 1594282--1594337 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
1594272 ATTTTTCACA
* *
1594282 ATCGAGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAGCCCCGTTATTTC
1594310 ATCGGGGATACTCCAGCCCCGTTATTTC
1 ATCGGGGATACTCCAGCCCCGTTATTTC
1594338 TGAAGGGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.29
Consensus pattern (28 bp):
ATCGGGGATACTCCAGCCCCGTTATTTC
Found at i:1600792 original size:122 final size:120
Alignment explanation
Indices: 1600501--1600923 Score: 570
Period size: 122 Copynumber: 3.5 Consensus size: 120
1600491 CTTTTAGACC
* * * * * *
1600501 TTTAGTCCTCAAAGAACAAGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGTACCCTTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA-CCTTT
* ** * *
1600566 AGTCCTCAAAAAGCAGGACGTTTTTTCTCTTTTCAAAGCCCAAACGAGTTGGTGGCACCCT
64 AGTCCTCAAAGAGCAGGAC-CCTTTT-TCTTTT-AAAGCCCACATGAGTTGGTGGCA-CCT
*
1600627 TTTAGTCCTCAAAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TA
*
1600692 GTCCTCAAAGAGTAGGACCCTTTTTCTTTTAAAGCCCACATGAGTTGGTGGCACCT
65 GTCCTCAAAGAGCAGGACCCTTTTTCTTTTAAAGCCCACATGAGTTGGTGGCACCT
* *
1600748 TTTAGTCCTTAAAGAGCAGGACGTCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACCTTTA
1 TTTAGTCCTCAAAGAGCAGGACG-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTA
*
1600813 GTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCT
65 GTCCTCAAAGAGCAGGA-CCCTTTTT-CTTTTAAAGCCCACATGAGTTGGTGGCACCT
1600871 TTTAGTCCTCAAAGAGCAGGACGCC----CC--TTAAAGCCCACACAAGTTGGTGGCAC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1600924 TTCCCAGTCC
Statistics
Matches: 273, Mismatches: 20, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
116 25 0.09
118 2 0.01
121 42 0.15
122 68 0.25
123 59 0.22
124 8 0.03
125 39 0.14
126 30 0.11
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (120 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAG
TCCTCAAAGAGCAGGACCCTTTTTCTTTTAAAGCCCACATGAGTTGGTGGCACCT
Found at i:1600810 original size:62 final size:61
Alignment explanation
Indices: 1600501--1600923 Score: 538
Period size: 62 Copynumber: 7.0 Consensus size: 61
1600491 CTTTTAGACC
* * * * * *
1600501 TTTAGTCCTCAAAGAACAAGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGTACCC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACGAGTTGGTGGCACCT
* ** *
1600563 TTTAGTCCTCAAAAAGCAGGACGTTTTTTCTCTTTTCAAAGCCCAAACGAGTTGGTGGCACCCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTC-CTTTT-AAAGCCCACACGAGTTGGTGGCA-CCT
* *
1600627 TTTAGTCCTCAAAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * *
1600688 TCTAGTCCTCAAAGAGTAGGAC-CCTTTTTCTTTTAAAGCCCACATGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * *
1600748 TTTAGTCCTTAAAGAGCAGGACGTCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACC-
1 TTTAGTCCTCAAAGAGCAGGACG-CCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCT
* *
1600809 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCT
*
1600871 TTTAGTCCTCAAAGAGCAGGACGCC----CC--TTAAAGCCCACACAAGTTGGTGGCAC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCAC
1600924 TTCCCAGTCC
Statistics
Matches: 322, Mismatches: 33, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
55 24 0.07
57 2 0.01
60 56 0.17
61 75 0.23
62 103 0.32
63 32 0.10
64 30 0.09
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (61 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCT
Found at i:1600933 original size:55 final size:55
Alignment explanation
Indices: 1600843--1600946 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 55
1600833 CTTTTTCCTT
** **
1600843 TTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCCC
1 TTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCCC
* *
1600898 TTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTTAAAGAGTAGGA
1 TTAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGCAGGA
1600947 TGCTCTCCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 3 0.07
55 39 0.93
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (55 bp):
TTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCCC
Found at i:1601034 original size:94 final size:94
Alignment explanation
Indices: 1600871--1601043 Score: 276
Period size: 94 Copynumber: 1.8 Consensus size: 94
1600861 GGTGGCACCT
*
1600871 TTTAGTCCTCAAAGAGCAGGACGCCCCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTT
1 TTTAGTCCTCAAAGAGCAGGACGCCCCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
*
1600936 AAAGAGTAGGATGCTCTCCCCTTTCGCCC
66 AAAGAGCAGGATGCTCTCCCCTTTCGCCC
* * * *
1600965 TTTAGTCCTCAAAGAGCAGGACG-TCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
1 TTTAGTCCTCAAAGAGCAGGACGCCCCTT-AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCT
1601029 CAAAGAGCAGGATGC
65 CAAAGAGCAGGATGC
1601044 CCCTTAAAGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 3 0.04
94 69 0.96
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (94 bp):
TTTAGTCCTCAAAGAGCAGGACGCCCCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
AAAGAGCAGGATGCTCTCCCCTTTCGCCC
Found at i:1601053 original size:55 final size:55
Alignment explanation
Indices: 1600968--1601273 Score: 239
Period size: 55 Copynumber: 5.3 Consensus size: 55
1600958 TTCGCCCTTT
* * *
1600968 AGTCCTCAAAGAGCAGGACG-TCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGATGCCCCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
1601023 AGTCCTCAAAGAGCAGGATGCCCCTTAAAGCCCACACGAGTTGGTGGCACCTTTT--
1 AGTCCTCAAAGAGCAGGATGCCCCTTAAAGCCCACACAAGTTGGTGGCA--TTTTCC
* ** * *
1601078 AGTCCTCAAAGAGCAAGACAT-CTTTTTCTTTTTAAAGCCCACACGATTTGGTGGCACCTTTT--
1 AGTCCTCAAAGAGC-AG-GATGC-----C-CCTTAAAGCCCACACAAGTTGGTGGCA--TTTTCC
* *
1601140 AGTCCTCAAAGAGCAGGACGCCCCTTAAAGCCCACACAAGTTGGTGGCATTTCCC
1 AGTCCTCAAAGAGCAGGATGCCCCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
1601195 AGTCCTCAAAGAGTAGGATGCCTTCTCCTTTTAAAGCCCATACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCAGGATG-C--C-CC--TTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
1601255 TAGTCCTTAAAGAACAGGA
1 -AGTCCTCAAAGAGCAGGA
1601274 CGCTCTCTCC
Statistics
Matches: 207, Mismatches: 23, Indels: 36
0.78 0.09 0.14
Matches are distributed among these distances:
53 3 0.01
55 96 0.46
56 8 0.04
57 6 0.03
58 1 0.00
59 2 0.01
60 4 0.02
61 43 0.21
62 44 0.21
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGATGCCCCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:1601199 original size:117 final size:114
Alignment explanation
Indices: 1600989--1601276 Score: 339
Period size: 117 Copynumber: 2.5 Consensus size: 114
1600979 AGCAGGACGT
* *
1600989 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCCCCTTAAAG
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTT--AGTCCTCAAAGAGCAGGACGCCCCTTAAAG
* * * *
1601053 CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACAT-CTTTTTC
64 CCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAG-AAG-CATGCCTTCTC
* * *
1601106 TTTTTAAAGCCCACACGATTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCCCTTAAAGC
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAGTCCTCAAAGAGCAGGACGCCCCTTAAAGC
* *
1601171 CCACACAAGTTGGTGGCA-TTTCCCAGTCCTCAAAGAGTAGGATGCCTTCTC
65 CCACACAAGTTGGTGGCACTTT--CAGTCCTCAAAGAGAAGCATGCCTTCTC
* * * *
1601222 CTTTTAAAGCCCATACAAGTTGGTGGCACTTCCTAGTCCTTAAAGAACAGGACGC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTT-TTAGTCCTCAAAGAGCAGGACGC
1601277 TCTCTCCTTT
Statistics
Matches: 147, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
115 8 0.05
116 51 0.35
117 84 0.57
119 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (114 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTAGTCCTCAAAGAGCAGGACGCCCCTTAAAGCC
CACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGAAGCATGCCTTCTC
Found at i:1601262 original size:327 final size:320
Alignment explanation
Indices: 1600656--1601603 Score: 1224
Period size: 327 Copynumber: 2.9 Consensus size: 320
1600646 GACGCCTTTT
* ** * *
1600656 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGA-CCCTTTTTCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAGCCC-----C--
* * *
1600720 TTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAGGACGTCCTTTTCCTTTTA
59 TTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCCTTTTA
* *
1600785 AAGCCCACACAAGTTGGTGGTACCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTAAAGC
124 AAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCC----TCC-TTTAAAGC
* *
1600850 CCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCCC-TTAAAGCCCACACAAG
184 CCACATGAGTTGGTGGCA-CTTTTAGTCCTCAAAGAGTAGGATGCCCCTTTAAAGCCCACACAAG
* *
1600914 TTGGTGGCACTTCCCAGTCCTTAAAGAGTAGGATGCTCTCCCCTTTCGCCCTTTAGTCCTCAAAG
248 TTGGTGGCACTT-CCAGTCCTTAAAGAGCAGGATGCTCTCCCCTTTCGCCCTTTACTCCTCAAAG
1600979 AGCAGGACG
312 AGCAGGACG
*
1600988 TCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCCCTTAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA-GCCCCTTAAAG
* * *
1601053 CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACATCTTTTTCTTTTTAAAGCCC
65 CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCCTTTTAAAGCCC
* * **
1601118 ACACGATTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCC-CC-TTAAAGCCCACACAAGT
130 ACACAAGTTGGTGGCACC-TTTAGTCCTCAAAGAGCAGGACGCCTCCTTTAAAGCCCACATGAGT
* *
1601181 TGGTGGCA-TTTCCCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTTAAAGCCCATACAAGTTGG
194 TGGTGGCACTTT--TAGTCCTCAAAGAGTAGGATG-C--C-CC-TTTAAAGCCCACACAAGTTGG
* * * *
1601245 TGGCACTTCCTAGTCCTTAAAGAACAGGACGCTCTCTCCTTTCGCCCTTTACTCCTCAAAGAGTA
252 TGGCACTTCC-AGTCCTTAAAGAGCAGGATGCTCTCCCCTTTCGCCCTTTACTCCTCAAAGAGCA
1601310 GGACG
316 GGACG
* *
1601315 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCCTTTAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA-GCCCCTTAAAG
* * *
1601380 CCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGATGTCTTTTTCCTTTTAAAGCCC
65 CCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCCTTTTAAAGCCC
* * *
1601445 ACACAAGTTGGTGGCACCTTCATTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACATG
130 ACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCC---TCC-TTTAAAGCCCACATG
*
1601510 AGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATG-CCCTTCAAAGCCCACACAAGTTGGTGG
191 AGTTGGTGGCA-CTTTTAGTCCTCAAAGAGTAGGATGCCCCTTTAAAGCCCACACAAGTTGGTGG
* *
1601574 CATTTTCCAGTCCTCAAAGAGCAGGATGCT
255 CA-CTTCCAGTCCTTAAAGAGCAGGATGCT
1601604 TTCTCTTTGC
Statistics
Matches: 543, Mismatches: 52, Indels: 48
0.84 0.08 0.07
Matches are distributed among these distances:
319 3 0.01
321 41 0.08
322 1 0.00
323 2 0.00
324 1 0.00
325 2 0.00
326 67 0.12
327 302 0.56
328 25 0.05
329 1 0.00
330 2 0.00
332 90 0.17
334 6 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (320 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAGCCCCTTAAAGC
CCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCCTTTTAAAGCCCA
CACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTCCTTTAAAGCCCACATGAGTTG
GTGGCACTTTTAGTCCTCAAAGAGTAGGATGCCCCTTTAAAGCCCACACAAGTTGGTGGCACTTC
CAGTCCTTAAAGAGCAGGATGCTCTCCCCTTTCGCCCTTTACTCCTCAAAGAGCAGGACG
Found at i:1601527 original size:122 final size:118
Alignment explanation
Indices: 1601315--1601735 Score: 509
Period size: 122 Copynumber: 3.5 Consensus size: 118
1601305 GAGTAGGACG
*
1601315 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGC---CC-TTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACGCTTTCCTTTT
*
1601376 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGATGTCTTTTT
65 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG-C-TTTT
* * * *
1601432 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCATTCCTCAAAGAGTAGGACGCCTTTTCCTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACG-C-TTTCCTTT
** *
1601497 TAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGC----
64 TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTT
* *
1601548 CC-TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACGCTTTC-CTTT
* * *
1601612 GCAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
64 -TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG-CTTTT
* * * *
1601669 CTTTTCAAAGCCCACACGAGTTGGTGGCACTATTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACT-TTCAGTCCTCAAAGAGCAGGACG-C-TTTCCTT
1601734 TT
63 TT
1601736 CTCCTTTGTC
Statistics
Matches: 258, Mismatches: 28, Indels: 31
0.81 0.09 0.10
Matches are distributed among these distances:
114 4 0.02
115 32 0.12
116 85 0.33
117 30 0.12
121 4 0.02
122 92 0.36
123 7 0.03
124 4 0.02
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (118 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCTTTCCTTTTA
AAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTT
Found at i:1601535 original size:61 final size:60
Alignment explanation
Indices: 1601292--1601735 Score: 462
Period size: 61 Copynumber: 7.6 Consensus size: 60
1601282 CCTTTCGCCC
* * *
1601292 TTTACTCCTCAAAGAGTAGGACGCCTTT-C----AAAGCCCACACAAGTTGGTGGCA-TT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
1601346 TTTCAGTCCTCAAAGAGCAGGACG-C---CC-TTTAAAGCCCACACAAGTTGGTGGCACCT
1 TTT-AGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * *
1601402 TTTAGTCTTCAAAGAGCAGGATGTCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-
1 TTTAGTCCTCAAAGAGCAGGACG-C-CTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * **
1601463 TTCATTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * *
1601524 TTTAGTCCTCAAAGAGTAGGATG-C---CC-TTCAAAGCCCACACAAGTTGGTGGCA--T
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * *
1601577 TTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCTTTGCAAAGCCCATACAAGTTGGTGGCACCT
1 TTT--AGTCCTCAAAGAGCAGGACGCCTTTC-CTTT-TAAAGCCCACACAAGTTGGTGGCACCT
* *
1601640 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA-CT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCT
*
1601700 ATTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTT
1 -TTTAGTCCTCAAAGAGCAGGACGCC-TTTCCTTTT
1601736 CTCCTTTGTC
Statistics
Matches: 332, Mismatches: 29, Indels: 50
0.81 0.07 0.12
Matches are distributed among these distances:
52 1 0.00
53 4 0.01
54 4 0.01
55 102 0.31
56 6 0.02
58 1 0.00
59 1 0.00
60 38 0.11
61 131 0.39
62 40 0.12
63 4 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
Found at i:1601593 original size:177 final size:174
Alignment explanation
Indices: 1601297--1601725 Score: 586
Period size: 177 Copynumber: 2.5 Consensus size: 174
1601287 CGCCCTTTAC
* *
1601297 TCCTCAAAGAGTAGGACGCC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTC
1 TCCTCAAAGAGTAGGACGCCTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACTTTT-AGTCCTC
* *
1601357 AAAGAGCAGGACGCCCTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGG
65 AAAGAGCAGGACGCCCTTCAAAGCCCACACAAGTTGGTGGCA-CTTTTAGTCCTCAAAGAGCAGG
* * *
1601422 ATGTCTTTTTCCTTT-TAAAGCCCACACAAGTTGGTGGCACC-TTCAT
129 ATG-CTTTCT-CTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
*
1601468 TCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCT
1 TCCTCAAAGAGTAGGACGCCTTTT-CTTTTAAAGCCCACACGAGTTGGTGGCA-CTTTTAGTCCT
* *
1601533 CAAAGAGTAGGATGCCCTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCA
64 CAAAGAGCAGGACGCCCTTCAAAGCCCACACAAGTTGGTGGCACTTTT--AGTCCTCAAAGAGCA
* *
1601597 GGATGCTTTCTCTTTGCAAAGCCCATACAAGTTGGTGGCACCTTTTAG
127 GGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
*
1601645 TCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTATTTAGTCCT
1 TCCTCAAAGAGTAGGACGCCTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACT-TTTAGTCCT
*
1601710 CAAAGAGCAAGACGCC
64 CAAAGAGCAGGACGCC
1601726 TTTTCCTTTT
Statistics
Matches: 228, Mismatches: 17, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
171 20 0.09
172 3 0.01
173 1 0.00
175 8 0.04
176 36 0.16
177 156 0.68
178 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (174 bp):
TCCTCAAAGAGTAGGACGCCTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACTTTTAGTCCTCA
AAGAGCAGGACGCCCTTCAAAGCCCACACAAGTTGGTGGCACTTTTAGTCCTCAAAGAGCAGGAT
GCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
Found at i:1601795 original size:45 final size:43
Alignment explanation
Indices: 1601731--1601847 Score: 139
Period size: 45 Copynumber: 2.7 Consensus size: 43
1601721 ACGCCTTTTC
1601731 CTTTTCTCC-TTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTT
1 CTTTTC-CCTTTTGTCCTCAAAGAGCAGGACACACTTCATT--CTT
* * * * *
1601776 CTTTTCCCTTTTGTCCTCAAAAAGCAGGACGCATTTTATTTTT
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTCTT
*
1601819 CTTTT-TCTTTTGTCCTCAAAGAGCAGGAC
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGAC
1601848 GCATTTCGTT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 22 0.34
43 7 0.11
44 2 0.03
45 33 0.52
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (43 bp):
CTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTCTT
Found at i:1601844 original size:42 final size:43
Alignment explanation
Indices: 1601726--1601997 Score: 188
Period size: 42 Copynumber: 6.6 Consensus size: 43
1601716 GCAAGACGCC
* *
1601726 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCA
1 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACGCATTTCA
* *
1601769 TTCCCTT-CTTTTC-CCTTTTGTCCTCAAAAAGCAGGACGCATTTTA
1 TT---TTCCTTTTCTCC-TTTGTCCTCAAAGAGCAGGACGCATTTCA
* * *
1601814 TTTTTCTTTT-TCTTTTGTCCTCAAAGAGCAGGACGCATTTCG
1 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACGCATTTCA
* *
1601856 TTTTCCTTTTTTCCTTTGTCCTCGAAA-AGCAAGACG----T-A
1 TTTTCCTTTTCTCCTTTGTCCTC-AAAGAGCAGGACGCATTTCA
* * *
1601894 CTTT--TTTTC-ACTTTGTCCTC-AAGAAGCAGGACGC-TTTCC
1 TTTTCCTTTTCTCCTTTGTCCTCAAAG-AGCAGGACGCATTTCA
* *
1601933 TTTT-C-TTTCTTCCTTTGTCCTCAAGGAGCAAGAC-CTATTTCA
1 TTTTCCTTTTC-TCCTTTGTCCTCAAAGAGCAGGACGC-ATTTCA
* *
1601975 TTCT-CTTGTCT--TTTGTCCTCAAA
1 TTTTCCTTTTCTCCTTTGTCCTCAAA
1601998 AAGTGGGACA
Statistics
Matches: 183, Mismatches: 25, Indels: 45
0.72 0.10 0.18
Matches are distributed among these distances:
33 2 0.01
35 18 0.10
36 4 0.02
38 4 0.02
39 8 0.04
40 12 0.07
41 17 0.09
42 48 0.26
43 30 0.16
44 5 0.03
45 33 0.18
46 2 0.01
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (43 bp):
TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACGCATTTCA
Found at i:1601847 original size:87 final size:86
Alignment explanation
Indices: 1601726--1601891 Score: 219
Period size: 87 Copynumber: 1.9 Consensus size: 86
1601716 GCAAGACGCC
1601726 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTC-ATTCCCTTCTTTTCCCTTTTGT
1 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCGATTCCCTT-TTTT-CC-TTTGT
*
1601790 CCTCAAAAAGCAGGACGCATTTTA
63 CCTCAAAAAGCAAGACGCATTTTA
* * * * * *
1601814 TTTTTCTTTT-TCTTTTGTCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTTTCCTTTGTCCT
1 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCGATTCCCTTTTTTCCTTTGTCCT
*
1601878 CGAAAAGCAAGACG
66 CAAAAAGCAAGACG
1601892 TACTTTTTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
85 20 0.29
86 2 0.03
87 32 0.46
88 15 0.22
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.41
Consensus pattern (86 bp):
TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCGATTCCCTTTTTTCCTTTGTCCT
CAAAAAGCAAGACGCATTTTA
Found at i:1601937 original size:35 final size:33
Alignment explanation
Indices: 1601862--1601930 Score: 88
Period size: 35 Copynumber: 2.1 Consensus size: 33
1601852 TTCGTTTTCC
1601862 TTTTTTCCTTTGTCCTCGAAAAGCAAGACGTACT
1 TTTTTTCCTTTGTCCTCGAAAAGCAAGACG-ACT
*
1601896 TTTTTTCACTTTGTCCTC-AAGAAGCAGGACG-CT
1 TTTTTTC-CTTTGTCCTCGAA-AAGCAAGACGACT
1601929 TT
1 TT
1601931 CCTTTTCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
33 4 0.12
34 9 0.28
35 19 0.59
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (33 bp):
TTTTTTCCTTTGTCCTCGAAAAGCAAGACGACT
Found at i:1602666 original size:20 final size:20
Alignment explanation
Indices: 1602634--1602687 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1602624 TTTACCCAAA
*
1602634 TGTATCGATACATTATTCAT
1 TGTATCAATACATTATTCAT
* *
1602654 TGTTTCAATACATTATTGAT
1 TGTATCAATACATTATTCAT
*
1602674 TGTATCGATACATT
1 TGTATCAATACATT
1602688 CTGGGTTTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (20 bp):
TGTATCAATACATTATTCAT
Found at i:1605189 original size:79 final size:78
Alignment explanation
Indices: 1605087--1605450 Score: 475
Period size: 78 Copynumber: 4.6 Consensus size: 78
1605077 TCATTCATGT
* *
1605087 TTTTATTTTCCAAAACATTAATTTTTTACAATCGGGGATACTCCAACCCCATTATTTCCAAGAGG
1 TTTTATTTT-CAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCCAAGAGG
1605152 ATACTCCAACCCTGG
65 ATACTCCAA-CCTGG
* * * *
1605167 CTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTCCAAGGGGA
1 TTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCCAAGAGGA
*
1605232 TACTCCAACCCTAG
66 TACTCCAA-CCTGG
* * * *
1605246 TTTTA-TTTCTAAAACATCAATTTTTTACAATCGGGGATACT-CTACCCCGTTATTTCCGAGAGG
1 TTTTATTTTC-AAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCCAAGAGG
1605309 ATACTCCAACCTCGG
65 ATACTCCAACCT-GG
* * * *
1605324 TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCTCGTTATTTCCAAG-GGA
1 TTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCCAAGAGGA
*
1605388 TACTCCAACCTCGA
66 TACTCCAACCT-GG
* *
1605402 TTTTA-TTTCTAAAACATTAATTTTCCACAATCGGGGATACTCCAACCCC
1 TTTTATTTTC-AAAACATCAATTTTTCACAATCGGGGATACTCCAACCCC
1605451 GATTTTATTT
Statistics
Matches: 251, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
77 7 0.03
78 120 0.48
79 116 0.46
80 8 0.03
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (78 bp):
TTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCCAAGAGGA
TACTCCAACCTGG
Found at i:1605448 original size:51 final size:51
Alignment explanation
Indices: 1605384--1605551 Score: 239
Period size: 51 Copynumber: 3.3 Consensus size: 51
1605374 TTATTTCCAA
*
1605384 GGGATACTCCAACCTCGATTTTATTTCTAAAACATTAATTTTCCACAATCG
1 GGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTCCACAATCG
* **
1605435 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTTACAATCG
1 GGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTCCACAATCG
* * * *
1605486 GGGATACTCTAA-CTCCGATTTTATTTCCAAAACATCGATTTTCCACCATCG
1 GGGATACTCCAACCT-CGATTTTATTTCTAAAACATCAATTTTCCACAATCG
*
1605537 GGGATACTCTAACCT
1 GGGATACTCCAACCT
1605552 TGTTATTTCC
Statistics
Matches: 104, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
50 1 0.01
51 101 0.97
52 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
GGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTCCACAATCG
Found at i:1605451 original size:157 final size:158
Alignment explanation
Indices: 1605087--1605451 Score: 576
Period size: 157 Copynumber: 2.3 Consensus size: 158
1605077 TCATTCATGT
* *
1605087 TTTTATTTTCCAAAACATTAATTTTTTACAATCGGGGATACTCCAACCCCATTATTTCCAAGAGG
1 TTTTA-TTTCTAAAACATTAATTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCAAGAGG
1605152 ATACTCCAACCCTGGCTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCA
65 ATACTCCAACCCTGGCTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCA
*
1605217 TTATTTCCAAGGGGATACTCCAACCCTAG
130 TTATTTCCAAGGGGATACTCCAACCCGAG
* * *
1605246 TTTTATTTCTAAAACATCAATTTTTTACAATCGGGGATACT-CTACCCCGTTATTTCCGAGAGGA
1 TTTTATTTCTAAAACATTAATTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCAAGAGGA
* * *
1605310 TACTCCAA-CCTCGGTTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCTCG
66 TACTCCAACCCT-GGCTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCA
1605374 TTATTTCCAA-GGGATACTCCAACCTCGA-
130 TTATTTCCAAGGGGATACTCCAACC-CGAG
**
1605402 TTTTATTTCTAAAACATTAATTTTCCACAATCGGGGATACTCCAACCCCG
1 TTTTATTTCTAAAACATTAATTTTTTACAATCGGGGATACTCCAACCCCG
1605452 ATTTTATTTC
Statistics
Matches: 190, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
156 55 0.29
157 96 0.51
158 34 0.18
159 5 0.03
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (158 bp):
TTTTATTTCTAAAACATTAATTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCAAGAGGA
TACTCCAACCCTGGCTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCAT
TATTTCCAAGGGGATACTCCAACCCGAG
Found at i:1605589 original size:130 final size:130
Alignment explanation
Indices: 1605435--1605711 Score: 412
Period size: 130 Copynumber: 2.1 Consensus size: 130
1605425 TCCACAATCG
**
1605435 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTTACAATCGGGGATACTCTAACT
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCTAACT
* * * **
1605500 CCGATTTTATTTCCAAAACATCGATTTTCCACCATCGGGGATACTCTAACCTTGTTATTTCCA-A
66 CCGATTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTT-CATA
1605564 A
130 A
* * *
1605565 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCATAATTGGGGATACTCTAACT
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCTAACT
* * **
1605630 CCGATTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATTG
66 CCGATTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTCATAA
1605695 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
1605712 TTATTTCTGA
Statistics
Matches: 132, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
129 2 0.02
130 130 0.98
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (130 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCTAACT
CCGATTTTATTTCCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTCATAA
Found at i:1605621 original size:51 final size:51
Alignment explanation
Indices: 1605565--1605683 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 51
1605555 TATTTCCAAA
* * *
1605565 GGGATACTCCAACCCCGGTTTTA-TTTCTAAAACATCAATTTTCCATAATTG
1 GGGATACTCCAACCCCGATTTTATTTTC-AAAACATCAATTTTCCACAATCG
* * *
1605616 GGGATACTCTAACTCCGATTTTATTTTCAAAACATCAATTTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTCCACAATCG
1605667 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
1605684 TTATTTCATT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
51 55 0.93
52 4 0.07
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTCCACAATCG
Found at i:1605621 original size:181 final size:180
Alignment explanation
Indices: 1605307--1605680 Score: 545
Period size: 181 Copynumber: 2.1 Consensus size: 180
1605297 ATTTCCGAGA
* * * *
1605307 GGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCT
1 GGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCT
* *
1605372 CGTTATTTCCAAGGGATACTCCAACCTCGATTTTATTTCTAAAACATTAATTTTCCACAATCGGG
66 CGTTATTTCCAAGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCACAATCGGG
*
1605437 GATACTCCAACCCCGATTTTA-TTTCTAAAACATCAATTTTTTACAATCGG
131 GATACTCCAACCCCGATTTTATTTTC-AAAACATCAATTTTTCACAATCGG
* * * * *
1605487 GGATACTCTAA-CTCCGATTTTATTTCCAAAACATCGATTTTCCACCATCGGGGATACTCTAACC
1 GGATACTCCAACCT-CGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACC
* * * *
1605551 TTGTTATTTCCAAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCATAATTG
65 TCGTTATTTCC-AAGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCACAATCG
* *
1605616 GGGATACTCTAACTCCGATTTTATTTTCAAAACATCAATTTTTCACAATCGG
129 GGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCACAATCGG
1605668 GGATACTCCAACC
1 GGATACTCCAACC
1605681 CCGTTATTTC
Statistics
Matches: 171, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
179 2 0.01
180 62 0.36
181 102 0.60
182 5 0.03
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (180 bp):
GGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCT
CGTTATTTCCAAGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCACAATCGGG
GATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCACAATCGG
Found at i:1605727 original size:28 final size:27
Alignment explanation
Indices: 1605666--1605731 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 27
1605656 TTTCACAATC
1605666 GGGGATACTCCAACCCCGTTATTTCATT
1 GGGGATACTCCAACCCCGTTATTTCA-T
1605694 GGGGATACTCCAACCCCGTTATTTC-T
1 GGGGATACTCCAACCCCGTTATTTCAT
1605720 GAGAGGATACTC
1 G-G-GGATACTC
1605732 TAGCCTCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 2 0.06
27 1 0.03
28 33 0.92
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTATTTCAT
Found at i:1607020 original size:77 final size:79
Alignment explanation
Indices: 1606938--1607106 Score: 189
Period size: 79 Copynumber: 2.2 Consensus size: 79
1606928 GACAGGGCTA
* * * * *
1606938 GAGTATCCCCGGTTGTGAGAAATCGATA-ATCA-GAAAAAAATCAGGATTGGAGTATCCCCTCGG
1 GAGTATCCCCGATTATGAGAAATCAATATATCAGGAAAAAAACCAGGATTGGAGTATCCCCTCAG
1607001 AAATAACGAGGTTG
66 AAATAACGAGGTTG
* * * * * * *
1607015 GAGTATCCCCAATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCAG
1 GAGTATCCCCGATTATGAGAAATCAATATATCAGGAAAAAAACCAGGATTGGAGTATCCCCTCAG
** *
1607080 AGGTAACGGGGTTG
66 AAATAACGAGGTTG
1607094 GAGTATCCCCGAT
1 GAGTATCCCCGAT
1607107 GAAATAACGA
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
77 24 0.32
78 2 0.03
79 48 0.65
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.24
Consensus pattern (79 bp):
GAGTATCCCCGATTATGAGAAATCAATATATCAGGAAAAAAACCAGGATTGGAGTATCCCCTCAG
AAATAACGAGGTTG
Found at i:1607098 original size:28 final size:28
Alignment explanation
Indices: 1607058--1607129 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
1607048 GGAATAAAGC
**
1607058 CGGGGTTGGAGTATCCCCTCA-GAGGTAA
1 CGGGGTTGGAGTATCCCC-CATGAAATAA
*
1607086 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCATGAAATAA
*
1607114 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1607130 TCAATTGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCATGAAATAA
Found at i:1607212 original size:52 final size:53
Alignment explanation
Indices: 1607138--1607292 Score: 179
Period size: 52 Copynumber: 2.9 Consensus size: 53
1607128 CCTCAATTGT
* * *
1607138 GAAAAATTGGTGTTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG
1 GAAAAATTCGTG-TTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGATTAAAG
** * **
1607192 G-AAAATTTTTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCAATT-GTG
1 GAAAAATTCGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGATTAAAG
** * *
1607243 GAAAAATTCGTGTTTTAGCAATAAAATCGGGGTTAGAGTATCTCCGATTA
1 GAAAAATTCGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGATTA
1607293 TGAGAAATCA
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
51 2 0.02
52 74 0.87
53 8 0.09
54 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (53 bp):
GAAAAATTCGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGATTAAAG
Found at i:1607360 original size:28 final size:28
Alignment explanation
Indices: 1607323--1607393 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
1607313 AATAAAGAAA
*
1607323 GGGTTAGAGTATCCCCTCGA-AAATAACG
1 GGGTTGGAGTATCCCC-CGATAAATAACG
* *
1607351 GGGTTGGAGTAT-CCCCGATGATTAACG
1 GGGTTGGAGTATCCCCCGATAAATAACG
*
1607378 GTGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
1607394 GATTGTGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.08
27 20 0.54
28 14 0.38
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCCGATAAATAACG
Found at i:1607442 original size:53 final size:51
Alignment explanation
Indices: 1607380--1607502 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 51
1607370 GATTAACGGT
* *
1607380 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTAG-AAAATTAGTG--TTTTGAAAATAAAATCGGA
* *
1607433 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTGTAGAAAATTAGTGTTTTGAAAATAAAATCGGA
* * *
1607484 GATGGAATATCCCTGATTG
1 GTTGGAGTATCCCCGATTG
1607503 CGGAGAATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
51 32 0.52
53 28 0.46
54 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTAGAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:1611134 original size:53 final size:50
Alignment explanation
Indices: 1611033--1611135 Score: 170
Period size: 53 Copynumber: 2.0 Consensus size: 50
1611023 TGGTCAATGC
*
1611033 AACTAGAGAATTGATTACCTTGGATAGTGATATAATCACCCTTTATATGG
1 AACTAGAGAATTGATTACCTTGGATAGTGATATAATCACCCTTCATATGG
1611083 AACTAGAGAATTGATTACCTTGGAAGATAGTGATATAATCACCCTTCATATGG
1 AACTAGAGAATTGATTACCTT-G--GATAGTGATATAATCACCCTTCATATGG
1611136 TGTAAAGGTG
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
50 21 0.43
51 1 0.02
53 27 0.55
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (50 bp):
AACTAGAGAATTGATTACCTTGGATAGTGATATAATCACCCTTCATATGG
Found at i:1612369 original size:19 final size:19
Alignment explanation
Indices: 1612333--1612370 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1612323 AATTTAATTT
*
1612333 AATAATAATAAATTAACAA
1 AATAATAATAAATCAACAA
1612352 AATAATAA-AATATCAACAA
1 AATAATAATAA-ATCAACAA
1612371 TTTAAACTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (19 bp):
AATAATAATAAATCAACAA
Found at i:1612415 original size:16 final size:16
Alignment explanation
Indices: 1612369--1612521 Score: 87
Period size: 16 Copynumber: 9.5 Consensus size: 16
1612359 AAATATCAAC
**
1612369 AATTTAAACTT-GCAT
1 AATTTAAACTTAAAAT
*
1612384 AAATTAAACTTGAAAAT
1 AATTTAAACTT-AAAAT
1612401 AATTTAAACTTAAAAT
1 AATTTAAACTTAAAAT
* * * *
1612417 TATTCGAAACTCAAAAA
1 AATT-TAAACTTAAAAT
* *
1612434 AAATTAGACTTAAAAT
1 AATTTAAACTTAAAAT
* *
1612450 AATTTAAATTTAAATT
1 AATTTAAACTTAAAAT
* *
1612466 GATTTAAAATTAAAAT
1 AATTTAAACTTAAAAT
* * *
1612482 GATTCAAA-TATAAAAC
1 AATTTAAACT-TAAAAT
**
1612498 AAAATAAA-TCTAAAAT
1 AATTTAAACT-TAAAAT
1612514 AATTTAAA
1 AATTTAAA
1612522 AATTTAATAT
Statistics
Matches: 103, Mismatches: 31, Indels: 7
0.73 0.22 0.05
Matches are distributed among these distances:
15 11 0.11
16 69 0.67
17 23 0.22
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (16 bp):
AATTTAAACTTAAAAT
Found at i:1613242 original size:55 final size:55
Alignment explanation
Indices: 1613158--1613949 Score: 934
Period size: 55 Copynumber: 14.0 Consensus size: 55
1613148 ATAAAGTGTA
* * *
1613158 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1613213 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* * *
1613274 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGGGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1613328 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
1613383 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1613438 TCTTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * *
1613493 TCCTGCTCTTTGGGGACTGAAAAGTGCCACTAACTCGTGTGGGCTTTGAAAGGGG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1613548 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* *
1613609 TCCTACTCTTTGAGGACTG-AAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
** * *
1613668 T-CTCGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCT-GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1613723 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* *
1613783 TCCCGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * * *
1613843 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACTAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1613898 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1613950 AAAAGATATC
Statistics
Matches: 658, Mismatches: 48, Indels: 63
0.86 0.06 0.08
Matches are distributed among these distances:
53 2 0.00
54 55 0.08
55 335 0.51
56 15 0.02
58 2 0.00
59 21 0.03
60 179 0.27
61 43 0.07
64 6 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1613317 original size:115 final size:113
Alignment explanation
Indices: 1613155--1613972 Score: 966
Period size: 115 Copynumber: 7.2 Consensus size: 113
1613145 AAAATAAAGT
* * *
1613155 GTATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCT
1 GTATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
*
1613220 CTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGAAAAA
65 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAA
* * * *
1613271 GCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGGTGTCCTGCTC
1 GTATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
*
1613336 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG--AG
66 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* * * *
1613380 GTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCTTGCT
1 GTATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
* *
1613445 CTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT----GAAAG
65 CTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* * * * * *
1613490 GTGTCCTGCTCTTTGGGGACTGAAAAGTGCCACTAACTCGTGTGGGCTTTGAAAGGGGTCCTGCT
1 GTATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
*
1613555 CTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
65 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAA
* * *
1613606 GCATCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGT-C
1 GTATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCC
**
1613670 TCGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG----
61 T-GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
*
1613720 GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTC
1 GTATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTC
* *
1613785 CCGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
60 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
** ** * * *
1613839 GGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAAAAGGTGTCCTGC
1 -GTATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
1613904 TCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
64 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAA
1613954 GATATCCTGCTCTTTGAGG
1 G-TATCCTGCTCTTTGAGG
1613973 GCTAAAAAGC
Statistics
Matches: 619, Mismatches: 53, Indels: 61
0.84 0.07 0.08
Matches are distributed among these distances:
108 1 0.00
109 24 0.04
110 165 0.27
111 4 0.01
112 3 0.00
113 2 0.00
114 48 0.08
115 226 0.37
116 46 0.07
119 8 0.01
120 91 0.15
121 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (113 bp):
GTATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
Found at i:1613352 original size:26 final size:26
Alignment explanation
Indices: 1613319--1613408 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
1613309 GGGTGGGCTT
1613319 TAAAAGGTGTCCTGCTCTTTGAGGAC
1 TAAAAGGTGTCCTGCTCTTTGAGGAC
* ** * * *
1613345 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TAAAAGGTGTCCTGC-TCTT-TGAGGAC
*
1613372 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 --TAAAAGGTGTCCTGCTCTTTGAGGAC
1613400 TAAAAGGTG
1 TAAAAGGTG
1613409 CCACCAACTT
Statistics
Matches: 45, Mismatches: 14, Indels: 10
0.65 0.20 0.14
Matches are distributed among these distances:
25 3 0.07
26 19 0.42
27 5 0.11
28 5 0.11
29 10 0.22
30 3 0.07
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (26 bp):
TAAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:1613568 original size:26 final size:26
Alignment explanation
Indices: 1613484--1613573 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 26
1613474 GTGTGGGCTT
1613484 TGAAAGGTGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
* * * * ***
1613510 TGAAAAGTGCCACTAACTCGTGTGGGCTT
1 TGAAAGGTGTC-CT-GCTC-TTTGGGGAC
*
1613539 TGAAAGGGGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
1613565 TGAAAGGTG
1 TGAAAGGTG
1613574 CCACCAACTT
Statistics
Matches: 45, Mismatches: 16, Indels: 6
0.67 0.24 0.09
Matches are distributed among these distances:
26 22 0.49
27 5 0.11
28 5 0.11
29 13 0.29
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:1613730 original size:175 final size:172
Alignment explanation
Indices: 1613158--1613972 Score: 1120
Period size: 175 Copynumber: 4.8 Consensus size: 172
1613148 ATAAAGTGTA
* * *
1613158 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
*
1613222 TTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGA
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGA
** *
1613287 GGACT-GAAGGTGCCACCAACTTGGGTGGGCTTT-AAAAGGTG
130 GGACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAAAAGGCG
** *
1613328 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTT
* ** *
1613393 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCTTGCTCTTTGAG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAG
* *
1613452 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGTG
131 GACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAAAAGGCG
* * * * * *
1613493 TCCTGCTCTTTGGGGACTGAAAAGTGCCACTAACTCGTGTGGGCTTTGAAAGGGGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTT
* *
1613558 TGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTACTCTTTGAG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAG
**
1613623 GACT-GAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
131 GACTGGAAAATGCCACCAACTTGGGTGGGCTTT----GAAAAGGCG
1613668 T-CTCGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 TCCT-GCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
* * *
1613732 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGA
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGA
*
1613796 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
130 GGACTGGAAAATGCCACCAACTTGGGTGGGCTTT----GAAAAGGCG
* *
1613843 TCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTT
* *
1613908 TGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGATATCCTGCTCTTTGA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG-CATCCTGCTCTTTGA
1613971 GG
130 GG
1613973 GCTAAAAAGC
Statistics
Matches: 575, Mismatches: 52, Indels: 31
0.87 0.08 0.05
Matches are distributed among these distances:
164 18 0.03
165 126 0.22
166 4 0.01
169 4 0.01
170 116 0.20
171 20 0.03
174 66 0.11
175 219 0.38
176 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (172 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAG
GACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAAAAGGCG
Found at i:1615609 original size:13 final size:13
Alignment explanation
Indices: 1615591--1615616 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1615581 CAATTTTTTG
1615591 TGTATCGATACAT
1 TGTATCGATACAT
1615604 TGTATCGATACAT
1 TGTATCGATACAT
1615617 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1615681 original size:21 final size:21
Alignment explanation
Indices: 1615655--1615730 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1615645 CTGCCAAGAA
*
1615655 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1615676 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1615696 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1615717 ATGTATCGATACAT
1 ATGTATCGATACAT
1615731 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1615701 original size:20 final size:20
Alignment explanation
Indices: 1615676--1615748 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1615666 CATCTTTTTT
1615676 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1615696 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1615717 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1615737 ATGTATCGATAC
1 ATGTATCGATAC
1615749 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1615712 original size:41 final size:41
Alignment explanation
Indices: 1615655--1615748 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1615645 CTGCCAAGAA
*
1615655 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1615696 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1615737 ATGTATCGATAC
1 ATGTATCGATAC
1615749 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1618208 original size:13 final size:13
Alignment explanation
Indices: 1618190--1618228 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1618180 ATAATCACCC
*
1618190 TGTATCGATACAG
1 TGTATCGATACAA
1618203 TGTATCGATACAA
1 TGTATCGATACAA
1618216 TGTATCGATACAA
1 TGTATCGATACAA
1618229 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1618239 original size:20 final size:20
Alignment explanation
Indices: 1618214--1618292 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1618204 GTATCGATAC
1618214 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1618234 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
1618259 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
1618279 CATGTATCGATACA
1 AATGTATCGATACA
1618293 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1620327 original size:15 final size:15
Alignment explanation
Indices: 1620307--1620337 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1620297 ATTTCGTTTG
*
1620307 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1620322 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1620337 G
1 G
1620338 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1624312 original size:13 final size:13
Alignment explanation
Indices: 1624294--1624319 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1624284 CAATTTTTTG
1624294 TGTATCGATACAT
1 TGTATCGATACAT
1624307 TGTATCGATACAT
1 TGTATCGATACAT
1624320 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1624384 original size:21 final size:21
Alignment explanation
Indices: 1624358--1624433 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1624348 CTGCCAAGAA
*
1624358 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1624379 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1624399 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1624420 ATGTATCGATACAT
1 ATGTATCGATACAT
1624434 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1624404 original size:20 final size:20
Alignment explanation
Indices: 1624379--1624451 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1624369 CATCTTTTTT
1624379 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1624399 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1624420 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1624440 ATGTATCGATAC
1 ATGTATCGATAC
1624452 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1624415 original size:41 final size:41
Alignment explanation
Indices: 1624358--1624451 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1624348 CTGCCAAGAA
*
1624358 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1624399 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1624440 ATGTATCGATAC
1 ATGTATCGATAC
1624452 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1624868 original size:1 final size:1
Alignment explanation
Indices: 1624864--1624934 Score: 61
Period size: 1 Copynumber: 71.0 Consensus size: 1
1624854 CTATTCTCTC
* * * * * ** * *
1624864 TTTTTCTTTGTTTTGTTTTTTTGTTTTGTTTTTTTTTTTTGCTTTTTTTTTCTTTTTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1624929 TTTTTT
1 TTTTTT
1624935 GAAGAGAATG
Statistics
Matches: 53, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:1624888 original size:13 final size:13
Alignment explanation
Indices: 1624865--1624934 Score: 81
Period size: 13 Copynumber: 5.3 Consensus size: 13
1624855 TATTCTCTCT
1624865 TTTTCTTTGTTTTG
1 TTTT-TTTGTTTTG
1624879 TTTTTTTGTTTTG
1 TTTTTTTGTTTTG
*
1624892 TTTTTTTTTTTTG
1 TTTTTTTGTTTTG
*
1624905 CTTTTTTT-TTCTTT
1 -TTTTTTTGTT-TTG
1624919 TTTTTTTGTTTT-
1 TTTTTTTGTTTTG
1624931 TTTT
1 TTTT
1624935 GAAGAGAATG
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
12 4 0.08
13 32 0.63
14 15 0.29
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:1624891 original size:18 final size:17
Alignment explanation
Indices: 1624870--1624934 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 17
1624860 TCTCTTTTTC
1624870 TTTGTTTTGTTTTTTTGT
1 TTTGTTTT-TTTTTTTGT
1624888 TTTGTTTTTTTTTTTTGCT
1 TTTG-TTTTTTTTTTTG-T
1624907 TTT-TTTTTCTTTTTT-T
1 TTTGTTTTT-TTTTTTGT
1624923 TTTGTTTTTTTT
1 TTTGTTTTTTTT
1624935 GAAGAGAATG
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.16
17 10 0.23
18 18 0.42
19 8 0.19
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (17 bp):
TTTGTTTTTTTTTTTGT
Found at i:1628048 original size:13 final size:13
Alignment explanation
Indices: 1628030--1628054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1628020 CATAAAGTGT
1628030 TGTATCGATACAA
1 TGTATCGATACAA
1628043 TGTATCGATACA
1 TGTATCGATACA
1628055 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1628052 original size:33 final size:33
Alignment explanation
Indices: 1628010--1628076 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1628000 TTCAACGATT
1628010 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1628043 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1628076 T
1 T
1628077 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1628135 original size:13 final size:13
Alignment explanation
Indices: 1628117--1628141 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1628107 ATCACTTAAA
1628117 TGTATCGATACAT
1 TGTATCGATACAT
1628130 TGTATCGATACA
1 TGTATCGATACA
1628142 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1628206 original size:52 final size:52
Alignment explanation
Indices: 1628150--1628278 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1628140 CACTGATCTT
*
1628150 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
1628202 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1628254 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1628279 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1637683 original size:12 final size:12
Alignment explanation
Indices: 1637666--1637690 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1637656 AAACAAACAG
1637666 ATATATAAATAA
1 ATATATAAATAA
1637678 ATATATAAATAA
1 ATATATAAATAA
1637690 A
1 A
1637691 CACCTCAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATATATAAATAA
Found at i:1640027 original size:52 final size:52
Alignment explanation
Indices: 1639967--1640150 Score: 201
Period size: 52 Copynumber: 3.5 Consensus size: 52
1639957 GAAATAACGA
* * * *
1639967 GGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGAAAATAAAACCGG
* ** * *
1640019 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTAAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTTGAAAATAAAACCGG
* * * *
1640071 GGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAG-CAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTTGAAAATAAAACCGG
* *
1640123 GGTTGGAGTATCCCCGATTATGAGAAAT
1 GGTTGGAGTATCCCCGATTGTGAAAAAT
1640151 CAATATTTTA
Statistics
Matches: 108, Mismatches: 21, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
51 6 0.06
52 88 0.81
53 14 0.13
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGAAAATAAAACCGG
Found at i:1640206 original size:28 final size:27
Alignment explanation
Indices: 1640173--1640245 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
1640163 AATAAAGTAA
**
1640173 GGGTTGGAGTATCCCCTCGGAAATAACG
1 GGGTTGGAGTATCCCCGAGG-AATAACG
* *
1640201 GGGTTGGAGTATCCCCGATGATTAACG
1 GGGTTGGAGTATCCCCGAGGAATAACG
*
1640228 GGATTGGAGTATCCCCGA
1 GGGTTGGAGTATCCCCGA
1640246 TTGTGAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGGAATAACG
Found at i:1640345 original size:51 final size:52
Alignment explanation
Indices: 1640232--1640352 Score: 165
Period size: 51 Copynumber: 2.3 Consensus size: 52
1640222 TTAACGGGAT
* * *
1640232 TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTTGGAAATAAAATCGGAGT
1 TGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTTGAAAATAAAATCGGAGA
*
1640285 TGGAGTATCCCCGATTAT-AGAAAATTAGTG-TTTTGAAAATAAAATTGGAGA
1 TGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTTGAAAATAAAATCGGAGA
*
1640336 TGGAATATCCCCGATTA
1 TGGAGTATCCCCGATTA
1640353 CGGAGAATTG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
51 34 0.55
52 1 0.02
53 27 0.44
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (52 bp):
TGGAGTATCCCCGATTATGAAAAATTAGTGTTTTTGAAAATAAAATCGGAGA
Found at i:1643636 original size:50 final size:52
Alignment explanation
Indices: 1643577--1643679 Score: 174
Period size: 53 Copynumber: 2.0 Consensus size: 52
1643567 TGGTCAATGC
*
1643577 AACTAGAGAATTGATTACCTT-G-GATAGTGATATAATCACCCTTTATATGG
1 AACTAGAGAATTGATTACCTTGGAGATAGTGATATAATCACCCTTCATATGG
1643627 AACTAGAGAATTGATTACCTTGGAAGATAGTGATATAATCACCCTTCATATGG
1 AACTAGAGAATTGATTACCTTGG-AGATAGTGATATAATCACCCTTCATATGG
1643680 TGTAAAGGTG
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
50 21 0.43
51 1 0.02
53 27 0.55
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (52 bp):
AACTAGAGAATTGATTACCTTGGAGATAGTGATATAATCACCCTTCATATGG
Found at i:1644918 original size:19 final size:19
Alignment explanation
Indices: 1644882--1644919 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1644872 AATTTAATTT
*
1644882 AATAATAATAAATTAATAA
1 AATAATAATAAATCAATAA
1644901 AATAATAA-AATATCAATAA
1 AATAATAATAA-ATCAATAA
1644920 TTTAAACTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (19 bp):
AATAATAATAAATCAATAA
Found at i:1644953 original size:16 final size:16
Alignment explanation
Indices: 1644931--1645070 Score: 118
Period size: 16 Copynumber: 8.6 Consensus size: 16
1644921 TTAAACTTGC
*
1644931 ATAAATTAAACTTTAAA
1 ATAATTTAAA-TTTAAA
1644948 ATAATTTAAATTTAAA
1 ATAATTTAAATTTAAA
* * *
1644964 ATTATTCGAAACTTAAA
1 ATAATT-TAAATTTAAA
*
1644981 AAAATTTAAATTTAAA
1 ATAATTTAAATTTAAA
1644997 ATAATTTAAATTTAAA
1 ATAATTTAAATTTAAA
* * *
1645013 TTGATTTAAAATTAAA
1 ATAATTTAAATTTAAA
** * *
1645029 ACGATTCAAATATAAA
1 ATAATTTAAATTTAAA
* ** *
1645045 ACAAAATAAATCTAAA
1 ATAATTTAAATTTAAA
1645061 ATAATTTAAA
1 ATAATTTAAA
1645071 ATTTTAATAT
Statistics
Matches: 97, Mismatches: 25, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
16 76 0.78
17 21 0.22
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (16 bp):
ATAATTTAAATTTAAA
Found at i:1645971 original size:2 final size:2
Alignment explanation
Indices: 1645966--1646001 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1645956 CATTTTTTGG
* *
1645966 TA TA TA CA TA TA TA TA TA TA TA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1646002 CACATCAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:1645987 original size:16 final size:16
Alignment explanation
Indices: 1645966--1646006 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
1645956 CATTTTTTGG
1645966 TATATACATATATATA
1 TATATACATATATATA
1645982 TATATACATATATATA
1 TATATACATATATATA
*
1645998 TATACACAT
1 TATATACAT
1646007 CAATATCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (16 bp):
TATATACATATATATA
Found at i:1646012 original size:14 final size:14
Alignment explanation
Indices: 1645977--1646006 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1645967 ATATACATAT
*
1645977 ATATATATATACAT
1 ATATATATATACAC
1645991 ATATATATATACAC
1 ATATATATATACAC
1646005 AT
1 AT
1646007 CAATATCTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATATATATACAC
Found at i:1648445 original size:18 final size:19
Alignment explanation
Indices: 1648416--1648454 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1648406 ATGGCATTAA
*
1648416 AATTTTTATAAATATTTAT
1 AATTTTTATAAATATATAT
1648435 AATTTTT-TAAATATATAT
1 AATTTTTATAAATATATAT
1648453 AA
1 AA
1648455 AATTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTTTTATAAATATATAT
Found at i:1648458 original size:20 final size:19
Alignment explanation
Indices: 1648412--1648458 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
1648402 AGTGATGGCA
1648412 TTAAAATTTTTATAAATAT
1 TTAAAATTTTTATAAATAT
*
1648431 TTATAATTTTT-TAAATAT
1 TTAAAATTTTTATAAATAT
1648449 ATATAAAATT
1 -T-TAAAATT
1648459 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.29
19 11 0.46
20 6 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAAATTTTTATAAATAT
Found at i:1648798 original size:16 final size:15
Alignment explanation
Indices: 1648777--1648852 Score: 73
Period size: 16 Copynumber: 4.8 Consensus size: 15
1648767 CCGAATAACC
1648777 CGAACCTGAAATGACT
1 CGAACCTGAAATGA-T
1648793 CGAACCTGAAATGATT
1 CGAACCTGAAATGA-T
*
1648809 CGAACCCGAAATGAT
1 CGAACCTGAAATGAT
*
1648824 CAGTATCC-GAAATGAT
1 C-G-AACCTGAAATGAT
*
1648840 CCAAACCTGAAAT
1 -CGAACCTGAAAT
1648853 AACTCGAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
15 5 0.10
16 42 0.82
17 4 0.08
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (15 bp):
CGAACCTGAAATGAT
Found at i:1648852 original size:32 final size:32
Alignment explanation
Indices: 1648779--1648860 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 32
1648769 GAATAACCCG
* *
1648779 AACCTGAAATGACTCGAACCTGAAATGATTCG
1 AACCTGAAATGACTCGAACCTGAAATGATCCA
* *
1648811 AACCCGAAATGA-TCAGTATCC-GAAATGATCCA
1 AACCTGAAATGACTC-G-AACCTGAAATGATCCA
*
1648843 AACCTGAAATAACTCGAA
1 AACCTGAAATGACTCGAA
1648861 TAATTAACTC
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
31 3 0.08
32 32 0.80
33 5 0.12
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (32 bp):
AACCTGAAATGACTCGAACCTGAAATGATCCA
Found at i:1649996 original size:48 final size:48
Alignment explanation
Indices: 1649944--1650049 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 48
1649934 GAAACAACTT
* * * *
1649944 GAACCCAAAATAATCCGAACTCGAAATGATCC-GAATCCAAAGTGACCC
1 GAACCCAAAATAACCCGAACCCGAAATGA-CCTGAACCCAAAATGACCC
** *
1649992 GAACCTGAAATGACCCGAACCCGAAATGACCTGAACCCAAAATGACCC
1 GAACCCAAAATAACCCGAACCCGAAATGACCTGAACCCAAAATGACCC
1650040 GAACCCAAAA
1 GAACCCAAAA
1650050 ACAACTCAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
47 2 0.04
48 46 0.96
ACGTcount: A:0.42, C:0.31, G:0.15, T:0.11
Consensus pattern (48 bp):
GAACCCAAAATAACCCGAACCCGAAATGACCTGAACCCAAAATGACCC
Found at i:1650049 original size:16 final size:16
Alignment explanation
Indices: 1649944--1650049 Score: 113
Period size: 16 Copynumber: 6.6 Consensus size: 16
1649934 GAAACAACTT
* *
1649944 GAACCCAAAATAATCC
1 GAACCCAAAATGACCC
* * *
1649960 GAACTCGAAATGATCC
1 GAACCCAAAATGACCC
* *
1649976 GAATCCAAAGTGACCC
1 GAACCCAAAATGACCC
**
1649992 GAACCTGAAATGACCC
1 GAACCCAAAATGACCC
* *
1650008 GAACCCGAAATGACCT
1 GAACCCAAAATGACCC
1650024 GAACCCAAAATGACCC
1 GAACCCAAAATGACCC
1650040 GAACCCAAAA
1 GAACCCAAAA
1650050 ACAACTCAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 74 1.00
ACGTcount: A:0.42, C:0.31, G:0.15, T:0.11
Consensus pattern (16 bp):
GAACCCAAAATGACCC
Found at i:1650089 original size:15 final size:15
Alignment explanation
Indices: 1650071--1650106 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
1650061 ATTTTATAAC
1650071 CCAAAATAA-CTCAAT
1 CCAAAATAATC-CAAT
1650086 CCAAAATAATCCAAT
1 CCAAAATAATCCAAT
1650101 CCAAAA
1 CCAAAA
1650107 CCAACCAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.17
Consensus pattern (15 bp):
CCAAAATAATCCAAT
Found at i:1650431 original size:18 final size:18
Alignment explanation
Indices: 1650410--1650457 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
1650400 TTTTAAAATT
1650410 TTTATTAATTATAAATAA
1 TTTATTAATTATAAATAA
1650428 TTTATTAATTATAAATAA
1 TTTATTAATTATAAATAA
*
1650446 TTAATATAATTA
1 TTTAT-TAATTA
1650458 ATATAGATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 22 0.79
19 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATTAATTATAAATAA
Found at i:1650445 original size:22 final size:22
Alignment explanation
Indices: 1650420--1650467 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
1650410 TTTATTAATT
*
1650420 ATAAATAAT-TTATTAATTATAA
1 ATAAATAATATAATTAA-TATAA
* *
1650442 ATAATTAATATAATTAATATAG
1 ATAAATAATATAATTAATATAA
1650464 ATAA
1 ATAA
1650468 CTTGAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAAATAATATAATTAATATAA
Found at i:1654350 original size:29 final size:27
Alignment explanation
Indices: 1654314--1654385 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 27
1654304 TTGATTTATT
1654314 ATTTAATTAATAAAAAATATTTTATTTAA
1 ATTTAATTAATAAAAAATA-TTT-TTTAA
*
1654343 ATTTAATT-AT-AAATATATTTTTTAA
1 ATTTAATTAATAAAAAATATTTTTTAA
* *
1654368 ATATATTTTAATAAAAAA
1 ATTTA-ATTAATAAAAAA
1654386 ATAAATTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
25 9 0.25
26 5 0.14
27 8 0.22
28 6 0.17
29 8 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTTAATTAATAAAAAATATTTTTTAA
Found at i:1654370 original size:13 final size:13
Alignment explanation
Indices: 1654352--1654376 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1654342 AATTTAATTA
1654352 TAAATATATTTTT
1 TAAATATATTTTT
1654365 TAAATATATTTT
1 TAAATATATTTT
1654377 AATAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATATTTTT
Found at i:1654511 original size:11 final size:11
Alignment explanation
Indices: 1654497--1654557 Score: 81
Period size: 12 Copynumber: 5.5 Consensus size: 11
1654487 TTTAATTTAA
1654497 ATATAATGAT-T
1 ATATAAT-ATAT
1654508 ATATAATATAT
1 ATATAATATAT
1654519 ATAT-ATATAT
1 ATATAATATAT
1654529 ATATATATATAT
1 ATATA-ATATAT
1654541 ATATATATATAT
1 ATATA-ATATAT
1654553 ATATA
1 ATATA
1654558 TTCCTTCTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
10 12 0.26
11 12 0.26
12 23 0.49
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (11 bp):
ATATAATATAT
Found at i:1654518 original size:2 final size:2
Alignment explanation
Indices: 1654507--1654558 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
1654497 ATATAATGAT
1654507 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1654548 TA TA TA TA TA T
1 TA TA TA TA TA T
1654559 TCCTTCTTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1656358 original size:13 final size:13
Alignment explanation
Indices: 1656336--1656370 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
1656326 GATTAAAATA
1656336 TTAAAGATTTTTAT
1 TTAAA-ATTTTTAT
*
1656350 TTTAAATTTTTAT
1 TTAAAATTTTTAT
1656363 TTAAAATT
1 TTAAAATT
1656371 AAATAAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (13 bp):
TTAAAATTTTTAT
Found at i:1657097 original size:30 final size:30
Alignment explanation
Indices: 1657061--1657138 Score: 129
Period size: 30 Copynumber: 2.6 Consensus size: 30
1657051 CATCCTAAAG
*
1657061 GGATTAAATTTATATTTTGTATAATTATGC
1 GGATTAAATTAATATTTTGTATAATTATGC
*
1657091 GGATTAAATTAATATTTTGTATAATTATGG
1 GGATTAAATTAATATTTTGTATAATTATGC
*
1657121 GGATTAAATTCATATTTT
1 GGATTAAATTAATATTTT
1657139 AATATAAGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.49
Consensus pattern (30 bp):
GGATTAAATTAATATTTTGTATAATTATGC
Found at i:1659952 original size:18 final size:16
Alignment explanation
Indices: 1659929--1659967 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
1659919 TGTATGTTTT
1659929 TGTATGTGTCTGCATGTG
1 TGTATGTGTCTG--TGTG
*
1659947 TGTATGTGTTTGTGTG
1 TGTATGTGTCTGTGTG
1659963 TGTAT
1 TGTAT
1659968 ATATAATAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.10, C:0.05, G:0.33, T:0.51
Consensus pattern (16 bp):
TGTATGTGTCTGTGTG
Found at i:1663717 original size:26 final size:26
Alignment explanation
Indices: 1663670--1663720 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1663660 TAATATTTAT
*
1663670 ATATTTTTATAATTAAATTAAAAATA
1 ATATTTTTATAAATAAATTAAAAATA
*
1663696 ATATTTTTATTAAATGAA-TAAAAAT
1 ATATTTTTA-TAAATAAATTAAAAAT
1663721 TTAGATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
ATATTTTTATAAATAAATTAAAAATA
Found at i:1664047 original size:2 final size:2
Alignment explanation
Indices: 1664040--1664099 Score: 79
Period size: 2 Copynumber: 30.5 Consensus size: 2
1664030 ATCTTCATTT
1664040 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1664080 TT TA TA TA TT TA TA TCA TA T
1 TA TA TA TA TA TA TA T-A TA T
1664100 TTAAATTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.04
2 48 0.92
3 2 0.04
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:1664134 original size:25 final size:26
Alignment explanation
Indices: 1664084--1664144 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
1664074 TATTATTTTA
1664084 TATATTTATA-TCATATTTAAATTAT
1 TATATTTATATTCATATTTAAATTAT
* *
1664109 T-TTTTTATATTCATATTT-ACTATAT
1 TATATTTATATTCATATTTAAAT-TAT
1664134 TATATTTATAT
1 TATATTTATAT
1664145 AAATTTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 9 0.30
25 13 0.43
26 8 0.27
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (26 bp):
TATATTTATATTCATATTTAAATTAT
Found at i:1664462 original size:24 final size:24
Alignment explanation
Indices: 1664414--1664462 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
1664404 TTACTTATGT
*
1664414 TGTTTTTATCTTATTTTTATTTTA
1 TGTTTTTATCTTATTTTTATGTTA
1664438 TGTTTTTA--TTATTTTTTCATGTTA
1 TGTTTTTATCTTA-TTTTT-ATGTTA
1664462 T
1 T
1664463 ATTCATCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 3 0.14
23 5 0.23
24 14 0.64
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.73
Consensus pattern (24 bp):
TGTTTTTATCTTATTTTTATGTTA
Found at i:1664678 original size:117 final size:117
Alignment explanation
Indices: 1664472--1664692 Score: 289
Period size: 117 Copynumber: 1.9 Consensus size: 117
1664462 TATTCATCTT
* * * *
1664472 GTTTAATTATGTCATTTTTGAAATTACCAAAATCCAATTTATACTATTTAAATAACTCTCAATTT
1 GTTTAATCATGTCATGTTTAAAATTACCAAAATCCAATTGATACTATTTAAATAACTCTCAATTT
* *
1664537 TATATTTCATATCATCGTGCTAGTGTTATTTTACTTTTTCATTATTTATATC
66 TATATTTCATATCATCATACTAGTGTTATTTTACTTTTTCATTATTTATATC
* * ** *
1664589 GTTTAATCATGTTATGTTTAAAATTATCAAAATTTAATTGATACTATTTAAATAACTTTCAATTT
1 GTTTAATCATGTCATGTTTAAAATTACCAAAATCCAATTGATACTATTTAAATAACTCTCAATTT
* * * * * *
1664654 TATGTTTCATGTTATCATATTAGTGTTGTTTTATTTTTT
66 TATATTTCATATCATCATACTAGTGTTATTTTACTTTTT
1664693 TATATCATAT
Statistics
Matches: 87, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
117 87 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (117 bp):
GTTTAATCATGTCATGTTTAAAATTACCAAAATCCAATTGATACTATTTAAATAACTCTCAATTT
TATATTTCATATCATCATACTAGTGTTATTTTACTTTTTCATTATTTATATC
Found at i:1665092 original size:44 final size:44
Alignment explanation
Indices: 1665044--1665158 Score: 124
Period size: 47 Copynumber: 2.5 Consensus size: 44
1665034 TTGGGGGTAG
1665044 TTTTGTAATTAAAATCAAATTGAGATAATATCAAATG-TGGGCAA
1 TTTTGTAA-TAAAATCAAATTGAGATAATATCAAATGATGGGCAA
* * * *
1665088 TTTTGTAATAAAATCTACATTGAAGGATAATGTTAATTGATGGGCAA
1 TTTTGTAATAAAATC-AAATTG-A-GATAATATCAAATGATGGGCAA
* *
1665135 TTTGGTAATAAAACCCAAATTGAG
1 TTTTGTAATAAAA-TCAAATTGAG
1665159 GCTGAAAGGA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
43 7 0.12
44 13 0.22
45 2 0.03
46 12 0.20
47 24 0.41
48 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (44 bp):
TTTTGTAATAAAATCAAATTGAGATAATATCAAATGATGGGCAA
Found at i:1665713 original size:19 final size:19
Alignment explanation
Indices: 1665671--1665713 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1665661 CATGGTATTG
1665671 ATAAATTATTGATAAAAAT
1 ATAAATTATTGATAAAAAT
* *
1665690 TTAAA-TATTGAATAATAAT
1 ATAAATTATTG-ATAAAAAT
1665709 ATAAA
1 ATAAA
1665714 ATGAATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
ATAAATTATTGATAAAAAT
Found at i:1666117 original size:21 final size:21
Alignment explanation
Indices: 1666068--1666120 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
1666058 ATATAATCTA
1666068 AATAAA-TTAATTTTTTATAT
1 AATAAATTTAATTTTTTATAT
*
1666088 --T-TATCTTAATTTTTTATAT
1 AATAAAT-TTAATTTTTTATAT
1666107 AATAAATTTAATTT
1 AATAAATTTAATTT
1666121 ATATATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
17 1 0.04
18 1 0.04
19 14 0.54
21 8 0.31
22 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
AATAAATTTAATTTTTTATAT
Found at i:1666138 original size:11 final size:11
Alignment explanation
Indices: 1666122--1666168 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
1666112 ATTTAATTTA
*
1666122 TATATTTATGT
1 TATATTTATAT
1666133 TATATTTATAT
1 TATATTTATAT
1666144 TAT-TTTATATT
1 TATATTTATA-T
*
1666155 TATAATT-TAT
1 TATATTTATAT
1666165 TATA
1 TATA
1666169 AAAGTTATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 11 0.34
11 19 0.59
12 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATATTTATAT
Found at i:1666151 original size:16 final size:17
Alignment explanation
Indices: 1666122--1666164 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
1666112 ATTTAATTTA
1666122 TATATTTATGTTATATT
1 TATATTTATGTTATATT
*
1666139 TATA-TTATTTTATATT
1 TATATTTATGTTATATT
1666155 TATAATTTAT
1 TAT-ATTTAT
1666165 TATAAAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 14 0.61
17 5 0.22
18 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TATATTTATGTTATATT
Done.