Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold128
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: 1835488
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 8 of 11
Found at i:1390545 original size:32 final size:32
Alignment explanation
Indices: 1390509--1390656 Score: 163
Period size: 32 Copynumber: 4.6 Consensus size: 32
1390499 ATCCTTTTAT
*
1390509 GCCCACACAAGCTGGTGGCAACCTTCCTCGAA
1 GCCCACACAAGCTGGTGGCAACCTTCCTCAAA
* * *
1390541 GCCCACACAAGATGGTGGCAACTTTTCTCAAA
1 GCCCACACAAGCTGGTGGCAACCTTCCTCAAA
* * * *
1390573 GCCCACATAAGCCGATGGCAATCTTCCTCAAA
1 GCCCACACAAGCTGGTGGCAACCTTCCTCAAA
* * *
1390605 GCCCACACAAGTTGGTGGTAATCTT-CTCAAAA
1 GCCCACACAAGCTGGTGGCAACCTTCCTC-AAA
* *
1390637 GCCCACACATGTTGGTGGCA
1 GCCCACACAAGCTGGTGGCA
1390657 TCCCCTTCCA
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
31 3 0.03
32 94 0.97
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (32 bp):
GCCCACACAAGCTGGTGGCAACCTTCCTCAAA
Found at i:1390656 original size:64 final size:64
Alignment explanation
Indices: 1390509--1390656 Score: 190
Period size: 64 Copynumber: 2.3 Consensus size: 64
1390499 ATCCTTTTAT
* *
1390509 GCCCACACAAGCTGGTGGCAACCTTCCTCGAAGCCCACACAAGATGGTGGCAACTTTTCTCAAA
1 GCCCACACAAGCTGGTGGCAACCTTCCTCAAAGCCCACACAAGATGGTGGCAACTCTTCTCAAA
* * * * * *
1390573 GCCCACATAAGCCGATGGCAATCTTCCTCAAAGCCCACACAAGTTGGTGGTAA-TCTTCTCAAAA
1 GCCCACACAAGCTGGTGGCAACCTTCCTCAAAGCCCACACAAGATGGTGGCAACTCTTCTC-AAA
* *
1390637 GCCCACACATGTTGGTGGCA
1 GCCCACACAAGCTGGTGGCA
1390657 TCCCCTTCCA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
63 6 0.09
64 64 0.91
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (64 bp):
GCCCACACAAGCTGGTGGCAACCTTCCTCAAAGCCCACACAAGATGGTGGCAACTCTTCTCAAA
Found at i:1390919 original size:104 final size:104
Alignment explanation
Indices: 1390795--1390982 Score: 225
Period size: 104 Copynumber: 1.8 Consensus size: 104
1390785 ATCTAATGTT
* * * *
1390795 GTTGGCCCTAAATCAACATATTAGCACTTTCT-TCATCTTCAAGTTTGATATTGCTGGCCTTGAA
1 GTTGGCCCTAAATCAACATATTAGCACTTT-TGTCATCTTCAAGTCTAATATCGCTGGCCGTGAA
*
1390859 TCAGCAGATTGTTACCTTTACCATCTCTAAGTCCAATATC
65 TCAGCAGATTGGTACCTTTACCATCTCTAAGTCCAATATC
* * * * * * * * *
1390899 GTTGGCCTTGAATCAGCATATTTGTAGTTTTGTCATTTTTAAGTCTAATATCGTTGGCCGTGAAT
1 GTTGGCCCTAAATCAACATATTAGCACTTTTGTCATCTTCAAGTCTAATATCGCTGGCCGTGAAT
*
1390964 CAGCATATTGGTACCTTTA
66 CAGCAGATTGGTACCTTTA
1390983 TCATTCTTGT
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
103 1 0.01
104 67 0.99
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (104 bp):
GTTGGCCCTAAATCAACATATTAGCACTTTTGTCATCTTCAAGTCTAATATCGCTGGCCGTGAAT
CAGCAGATTGGTACCTTTACCATCTCTAAGTCCAATATC
Found at i:1390987 original size:52 final size:52
Alignment explanation
Indices: 1390849--1390987 Score: 179
Period size: 52 Copynumber: 2.7 Consensus size: 52
1390839 TTGATATTGC
* * * *
1390849 TGGCCTTGAATCAGCAGATTGTTACCTTTACCATCTCTAAGTCCAATATCGT
1 TGGCCTTGAATCAGCATATTGGTACCTTTATCATTTCTAAGTCCAATATCGT
* ** * * *
1390901 TGGCCTTGAATCAGCATATTTGTAGTTTTGTCATTTTTAAGTCTAATATCGT
1 TGGCCTTGAATCAGCATATTGGTACCTTTATCATTTCTAAGTCCAATATCGT
*
1390953 TGGCCGTGAATCAGCATATTGGTACCTTTATCATT
1 TGGCCTTGAATCAGCATATTGGTACCTTTATCATT
1390988 CTTGTCATCT
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (52 bp):
TGGCCTTGAATCAGCATATTGGTACCTTTATCATTTCTAAGTCCAATATCGT
Found at i:1391043 original size:61 final size:61
Alignment explanation
Indices: 1390928--1391049 Score: 138
Period size: 61 Copynumber: 2.0 Consensus size: 61
1390918 ATTTGTAGTT
* ** * *
1390928 TTGTCATTTTTAAGTCTAATATCGTTGGCCGTGAATCAGCATATTGGTACCTTTATCATTC
1 TTGTCATCTTTAAGTCTAATATCGCAGGCCGTGAATCAGCATATTGGCACCTTTAACATTC
* * * **
1390989 TTGTCATCTTTAAGTCTGATATTGCAGGCTC-TGAATTAGCATATTGGCGTCTTTAACATTC
1 TTGTCATCTTTAAGTCTAATATCGCAGGC-CGTGAATCAGCATATTGGCACCTTTAACATTC
1391050 CTAAGCTTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 49 0.98
62 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (61 bp):
TTGTCATCTTTAAGTCTAATATCGCAGGCCGTGAATCAGCATATTGGCACCTTTAACATTC
Found at i:1391181 original size:53 final size:53
Alignment explanation
Indices: 1391070--1391197 Score: 152
Period size: 53 Copynumber: 2.4 Consensus size: 53
1391060 TGTCACTGAT
* * * *
1391070 CTTGAATCAGCACATTGGCA-CTCTTTTCATCTTCAAGTCTAATGTCGCTAGC
1 CTTGAATCAGCATATTGGCATCTCTTTTCATCTTCAAGCCCAATATCGCTAGC
* * *
1391122 CGTGAATCAGCATATTGGCATC-CTTTGTCATCTTTAAGCCCAATATCGCTGGC
1 CTTGAATCAGCATATTGGCATCTCTTT-TCATCTTCAAGCCCAATATCGCTAGC
* *
1391175 CTTGAATCAACATATTAGCATCT
1 CTTGAATCAGCATATTGGCATCT
1391198 TTATTATTCT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
52 22 0.35
53 41 0.65
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.34
Consensus pattern (53 bp):
CTTGAATCAGCATATTGGCATCTCTTTTCATCTTCAAGCCCAATATCGCTAGC
Found at i:1391225 original size:61 final size:61
Alignment explanation
Indices: 1391149--1391275 Score: 193
Period size: 61 Copynumber: 2.1 Consensus size: 61
1391139 GCATCCTTTG
* *
1391149 TCATCTTTAAGCCCAATATCGCTGGCCT-TGAATCAACATATTAGCATCTTTATTATTCTTC
1 TCATCTTTAAGCCCAATATCGCTGG-CTGTGAATCAACATATTAGCACCTTTATCATTCTTC
* * *
1391210 TCATCTTTAAGCCCAATATCGTTGGCTGTGAATCAACATATTGGCACCTTTATCATTTTTC
1 TCATCTTTAAGCCCAATATCGCTGGCTGTGAATCAACATATTAGCACCTTTATCATTCTTC
1391271 TCATC
1 TCATC
1391276 CTTATCATCA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 2 0.03
61 58 0.97
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.39
Consensus pattern (61 bp):
TCATCTTTAAGCCCAATATCGCTGGCTGTGAATCAACATATTAGCACCTTTATCATTCTTC
Found at i:1394875 original size:13 final size:13
Alignment explanation
Indices: 1394857--1394882 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1394847 TACACAAAAT
1394857 ATGTATCGATACA
1 ATGTATCGATACA
1394870 ATGTATCGATACA
1 ATGTATCGATACA
1394883 CAAAAACATG
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:1394880 original size:32 final size:33
Alignment explanation
Indices: 1394839--1394902 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
1394829 TAGCCAAACT
* *
1394839 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAACATGTATCAATACAA
1394871 TGTATCGATACACAAAAACATGTATCAATACA
1 TGTATCGATACACAAAAACATGTATCAATACA
1394903 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACAAAAACATGTATCAATACAA
Found at i:1397134 original size:21 final size:21
Alignment explanation
Indices: 1397101--1397150 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1397091 TTGCAAGTTG
*
1397101 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1397123 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1397144 AAATAAA
1 AAATAAA
1397151 ATCTTGCATA
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:1398968 original size:15 final size:15
Alignment explanation
Indices: 1398948--1398978 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1398938 TAAAAATATC
*
1398948 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1398963 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1398978 C
1 C
1398979 CAAACGAAAT
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:1400891 original size:29 final size:29
Alignment explanation
Indices: 1400858--1400923 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
1400848 GATTTTGTGT
1400858 TGAATGATGCTGTTAATGATTGAATTTGA
1 TGAATGATGCTGTTAATGATTGAATTTGA
1400887 TGAATGATGCTGTTAATGATTGAATTTGA
1 TGAATGATGCTGTTAATGATTGAATTTGA
1400916 TGAATGAT
1 TGAATGAT
1400924 TCAGTGTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.41
Consensus pattern (29 bp):
TGAATGATGCTGTTAATGATTGAATTTGA
Found at i:1400894 original size:17 final size:17
Alignment explanation
Indices: 1400872--1400924 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
1400862 TGATGCTGTT
1400872 AATGATTGAATTTGATG
1 AATGATTGAATTTGATG
* *
1400889 AATGA-TG---CTG-TT
1 AATGATTGAATTTGATG
1400901 AATGATTGAATTTGATG
1 AATGATTGAATTTGATG
1400918 AATGATT
1 AATGATT
1400925 CAGTGTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
12 6 0.22
13 4 0.15
16 4 0.15
17 13 0.48
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.42
Consensus pattern (17 bp):
AATGATTGAATTTGATG
Found at i:1401104 original size:13 final size:13
Alignment explanation
Indices: 1401086--1401111 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1401076 ACATTTTTCT
1401086 TTGTATCGATACA
1 TTGTATCGATACA
1401099 TTGTATCGATACA
1 TTGTATCGATACA
1401112 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1403047 original size:13 final size:13
Alignment explanation
Indices: 1403029--1403054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1403019 TACATAAAAT
1403029 ATGTATCGATACA
1 ATGTATCGATACA
1403042 ATGTATCGATACA
1 ATGTATCGATACA
1403055 CAAAAACATG
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:1403052 original size:32 final size:33
Alignment explanation
Indices: 1403011--1403074 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
1403001 TAGCCAAACT
* *
1403011 TGTATCGATACA-TAAAATATGTATCGATACAA
1 TGTATCGATACACAAAAACATGTATCGATACAA
1403043 TGTATCGATACACAAAAACATGTATCGATACA
1 TGTATCGATACACAAAAACATGTATCGATACA
1403075 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAACATGTATCGATACAA
Found at i:1408890 original size:32 final size:33
Alignment explanation
Indices: 1408830--1408892 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
1408820 AACCCAGAGG
*
1408830 TATCGATACATATTGCTTTGTATCGATACACTA
1 TATCGATACATATTGCTTGGTATCGATACACTA
1408863 TATCGATACATGA-T-CTTGGTATCGATACAC
1 TATCGATACAT-ATTGCTTGGTATCGATACAC
1408893 AGTGAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (33 bp):
TATCGATACATATTGCTTGGTATCGATACACTA
Found at i:1411122 original size:21 final size:21
Alignment explanation
Indices: 1411098--1411138 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1411088 TGGTAATAAA
1411098 GAATTAGCTAATGAA-AACAAT
1 GAATTAGCTAA-GAAGAACAAT
1411119 GAATTAGCTAAGAAGAACAA
1 GAATTAGCTAAGAAGAACAA
1411139 GAACTTGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.20
Consensus pattern (21 bp):
GAATTAGCTAAGAAGAACAAT
Found at i:1414849 original size:29 final size:30
Alignment explanation
Indices: 1414790--1414863 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 30
1414780 TATGTTTCAC
*
1414790 TTTTGATAATTTGTTTGAATGATTTTGTGT
1 TTTTGATAATTTGTTTGAATGATTGTGTGT
1414820 TTTTG-TAATTT-TTTG-ATGATTGTGCTTGT
1 TTTTGATAATTTGTTTGAATGATTGTG--TGT
1414849 TTGTTGATAAATTTG
1 TT-TTGAT-AATTTG
1414864 ATGTTTAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
27 8 0.22
28 4 0.11
29 11 0.30
30 8 0.22
31 1 0.03
32 5 0.14
ACGTcount: A:0.19, C:0.01, G:0.20, T:0.59
Consensus pattern (30 bp):
TTTTGATAATTTGTTTGAATGATTGTGTGT
Found at i:1416620 original size:19 final size:19
Alignment explanation
Indices: 1416596--1416793 Score: 183
Period size: 19 Copynumber: 11.7 Consensus size: 19
1416586 TTTCAACGAT
*
1416596 TTGTATCGATACATAACTG
1 TTGTATCGATACATAAGTG
1416615 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
1416629 -TGTATCGATACACAAGTG
1 TTGTATCGATACATAAGTG
1416647 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
1416661 -TGTATCGATACACAAGTG
1 TTGTATCGATACATAAGTG
1416679 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
1416693 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
1416711 TTGTATCAATACATAAGTG
1 TTGTATCGATACATAAGTG
1416730 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1416749 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
1416763 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
1416781 TTGTATCGATACA
1 TTGTATCGATACA
1416794 ATGTATCGCT
Statistics
Matches: 153, Mismatches: 2, Indels: 48
0.75 0.01 0.24
Matches are distributed among these distances:
13 44 0.29
15 8 0.05
17 8 0.05
19 93 0.61
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1416633 original size:32 final size:32
Alignment explanation
Indices: 1416597--1416801 Score: 311
Period size: 32 Copynumber: 6.2 Consensus size: 32
1416587 TTCAACGATT
*
1416597 TGTATCGATACATAACTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1416629 TGTATCGATACACAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1416661 TGTATCGATACACAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1416693 TGTATCGATACATAAGTGTTGTATCAATACATAA
1 TGTATCGATACATAAGTGTTGTATCGATAC--AA
1416727 GTGTTGTATCGATACATAAGTGTTGTATCGATACAA
1 ----TGTATCGATACATAAGTGTTGTATCGATACAA
*
1416763 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1416795 TGTATCG
1 TGTATCG
1416802 CTACGAAGCT
Statistics
Matches: 161, Mismatches: 6, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
32 128 0.80
34 2 0.01
36 2 0.01
38 29 0.18
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1416634 original size:13 final size:13
Alignment explanation
Indices: 1416616--1416704 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
1416606 ACATAACTGT
1416616 TGTATCGATACAA
1 TGTATCGATACAA
1416629 TGTATCGATACACAA
1 TGTATCGAT--ACAA
1416644 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1416661 TGTATCGATACACAA
1 TGTATCGAT--ACAA
1416676 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1416693 TGTATCGATACA
1 TGTATCGATACA
1416705 TAAGTGTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 30 0.47
15 8 0.12
17 8 0.12
19 18 0.28
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1416684 original size:51 final size:51
Alignment explanation
Indices: 1416629--1416793 Score: 198
Period size: 51 Copynumber: 3.2 Consensus size: 51
1416619 ATCGATACAA
*
1416629 TGTATCGATACACAAGTGTTGTATCGATACAATGTATCGATACACAAGTGT
1 TGTATCGATACACAAGTGTTGTATCGATACAATGTATCGATACATAAGTGT
*
1416680 TGTATCGAT--ACAA----TGTATCGATACATAAGTGTTGTATCAATACATAAGTGT
1 TGTATCGATACACAAGTGTTGTATCGATAC--AA----TGTATCGATACATAAGTGT
* *
1416731 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTTT
1 TGTATCGATACACAAGTGTTGTATCGATACAATGTATCGATACATAAGTGT
1416782 TGTATCGATACA
1 TGTATCGATACA
1416794 ATGTATCGCT
Statistics
Matches: 97, Mismatches: 5, Indels: 24
0.77 0.04 0.19
Matches are distributed among these distances:
45 11 0.11
47 2 0.02
49 4 0.04
51 64 0.66
53 3 0.03
55 2 0.02
57 11 0.11
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (51 bp):
TGTATCGATACACAAGTGTTGTATCGATACAATGTATCGATACATAAGTGT
Found at i:1416768 original size:13 final size:13
Alignment explanation
Indices: 1416750--1416774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1416740 ACATAAGTGT
1416750 TGTATCGATACAA
1 TGTATCGATACAA
1416763 TGTATCGATACA
1 TGTATCGATACA
1416775 TAAGTTTTGT
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:1416864 original size:13 final size:13
Alignment explanation
Indices: 1416846--1416871 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1416836 ATTACTCAAA
1416846 TGTATCGATACAT
1 TGTATCGATACAT
1416859 TGTATCGATACAT
1 TGTATCGATACAT
1416872 GCAGGCAAAT
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:1416937 original size:52 final size:52
Alignment explanation
Indices: 1416859--1416987 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
1416849 ATCGATACAT
1416859 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
1416911 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1416963 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1416988 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1422059 original size:50 final size:50
Alignment explanation
Indices: 1421991--1422090 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
1421981 TATAACTTTT
1421991 TTGAAAGCTTATTAACGAACCAAGAGGGGGGGGTGAATTGGTTCTTTTCG
1 TTGAAAGCTTATTAACGAACCAAGAGGGGGGGGTGAATTGGTTCTTTTCG
1422041 TTGAAAGCTTATTAACGAACCAAGAGGGGGGGGTGAATTGGTTCTTTTCG
1 TTGAAAGCTTATTAACGAACCAAGAGGGGGGGGTGAATTGGTTCTTTTCG
1422091 AATTTTCGGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (50 bp):
TTGAAAGCTTATTAACGAACCAAGAGGGGGGGGTGAATTGGTTCTTTTCG
Found at i:1422809 original size:13 final size:13
Alignment explanation
Indices: 1422791--1422816 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1422781 CAATTTTTTG
1422791 TGTATCGATACAT
1 TGTATCGATACAT
1422804 TGTATCGATACAT
1 TGTATCGATACAT
1422817 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:1422902 original size:20 final size:20
Alignment explanation
Indices: 1422877--1422949 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1422867 ATCTTTTTTT
1422877 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1422897 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1422918 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1422938 ATGTATCGATAC
1 ATGTATCGATAC
1422950 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:1422928 original size:41 final size:42
Alignment explanation
Indices: 1422855--1422949 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1422845 CTGCCAAGAA
*
1422855 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1422897 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1422938 ATGTATCGATAC
1 ATGTATCGATAC
1422950 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1425406 original size:13 final size:13
Alignment explanation
Indices: 1425388--1425426 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1425378 ATAATCACCC
*
1425388 TGTATCGATACAG
1 TGTATCGATACAA
1425401 TGTATCGATACAA
1 TGTATCGATACAA
1425414 TGTATCGATACAA
1 TGTATCGATACAA
1425427 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:1425437 original size:20 final size:20
Alignment explanation
Indices: 1425412--1425490 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1425402 GTATCGATAC
1425412 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1425432 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
1425457 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
1425477 CATGTATCGATACA
1 AATGTATCGATACA
1425491 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:1427526 original size:15 final size:15
Alignment explanation
Indices: 1427506--1427536 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1427496 ATTTCGTTTG
*
1427506 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1427521 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1427536 G
1 G
1427537 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:1430925 original size:50 final size:50
Alignment explanation
Indices: 1430850--1430949 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
1430840 CTGATACCAA
1430850 TTGAAAGCTTATTAACGAACCAAGAGGGGGGGGTGAATTGGTTCTTTTCG
1 TTGAAAGCTTATTAACGAACCAAGAGGGGGGGGTGAATTGGTTCTTTTCG
1430900 TTGAAAGCTTATTAACGAACCAAGAGGGGGGGGTGAATTGGTTCTTTTCG
1 TTGAAAGCTTATTAACGAACCAAGAGGGGGGGGTGAATTGGTTCTTTTCG
1430950 AATTTTCGGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (50 bp):
TTGAAAGCTTATTAACGAACCAAGAGGGGGGGGTGAATTGGTTCTTTTCG
Found at i:1431668 original size:13 final size:13
Alignment explanation
Indices: 1431650--1431675 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1431640 CAATTTTTTG
1431650 TGTATCGATACAT
1 TGTATCGATACAT
1431663 TGTATCGATACAT
1 TGTATCGATACAT
1431676 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:1431761 original size:20 final size:20
Alignment explanation
Indices: 1431736--1431808 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1431726 ATCTTTTTTT
1431736 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1431756 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1431777 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1431797 ATGTATCGATAC
1 ATGTATCGATAC
1431809 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:1431787 original size:41 final size:42
Alignment explanation
Indices: 1431714--1431808 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1431704 CTGCCAAGAA
*
1431714 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1431756 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1431797 ATGTATCGATAC
1 ATGTATCGATAC
1431809 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1432301 original size:33 final size:33
Alignment explanation
Indices: 1432264--1432330 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1432254 TTCAACGATT
1432264 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1432297 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1432330 T
1 T
1432331 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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1432302 original size:13 final size:13
Alignment explanation
Indices: 1432284--1432308 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1432274 CATAAAATGT
1432284 TGTATCGATACAA
1 TGTATCGATACAA
1432297 TGTATCGATACA
1 TGTATCGATACA
1432309 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:1432392 original size:13 final size:13
Alignment explanation
Indices: 1432374--1432398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1432364 ATTACTCACA
1432374 TGTATCGATACAT
1 TGTATCGATACAT
1432387 TGTATCGATACA
1 TGTATCGATACA
1432399 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:1432535 original size:52 final size:52
Alignment explanation
Indices: 1432407--1432527 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1432397 CACTGATCTT
*
1432407 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1432459 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1432511 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1432528 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1446027 original size:28 final size:28
Alignment explanation
Indices: 1445958--1446283 Score: 384
Period size: 28 Copynumber: 11.4 Consensus size: 28
1445948 CACCTTTTCC
* * *
1445958 AAAGCCCACAAGTCTGTGGCATCCTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC-TTCA
1445987 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
1446015 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC--TTCA
*
1446045 AAAGCCCACAAGTCAGTGGCAACCTTCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
1446073 AAAGCCCACAAGTCCGTGGCATCCTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC-TTCA
1446102 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
1446130 AAAGCCCACAAGCCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC--TTCA
*
1446160 AAAGCCCTCAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * * *
1446188 AAAGCCCACAAGTTAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
1446217 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* **
1446245 AAAGCACACAAGTTGGT-GCAACCCTATCA
1 AAAGCCCACAAGTCAGTGGCAA-CCT-TCA
1446274 AAAGCCCACA
1 AAAGCCCACA
1446284 CAAGTTGGTG
Statistics
Matches: 258, Mismatches: 31, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
27 4 0.02
28 120 0.47
29 84 0.33
30 50 0.19
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.18
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:1446128 original size:57 final size:57
Alignment explanation
Indices: 1445958--1446257 Score: 474
Period size: 57 Copynumber: 5.2 Consensus size: 57
1445948 CACCTTTTCC
*
1445958 AAAGCCCACAAGTCTGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* *
1446015 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCC
1 AAAGCCCACAAGTCAGTGGCATCC-TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
1446073 AAAGCCCACAAGTCCGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
1446130 AAAGCCCACAAGCCAGTGGCACCCTTTTCCAAAGCCCTCAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCC-TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * *
1446188 AAAGCCCACAAGTTAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
1446245 AAAGCACACAAGT
1 AAAGCCCACAAGT
1446258 TGGTGCAACC
Statistics
Matches: 223, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
57 118 0.53
58 105 0.47
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.18
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:1446156 original size:115 final size:115
Alignment explanation
Indices: 1445954--1446256 Score: 516
Period size: 115 Copynumber: 2.6 Consensus size: 115
1445944 TCCTCACCTT
*
1445954 TTCCAAAGCCCACAAGTCTGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
1 TTCCAAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
*
1446019 CCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACC
66 CCCACAAGCCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACC
*
1446069 TTCCAAAGCCCACAAGTCCGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
1 TTCCAAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
*
1446134 CCCACAAGCCAGTGGCACCCTTTTCCAAAGCCCTCAAGTCAGTGGCAACC
66 CCCACAAGCCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACC
* * * * *
1446184 TTCAAAAGCCCACAAGTTAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
1 TTCCAAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
*
1446249 CACACAAG
66 CCCACAAG
1446257 TTGGTGCAAC
Statistics
Matches: 178, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
115 178 1.00
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.18
Consensus pattern (115 bp):
TTCCAAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
CCCACAAGCCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACC
Found at i:1446362 original size:49 final size:49
Alignment explanation
Indices: 1446303--1446853 Score: 640
Period size: 49 Copynumber: 11.6 Consensus size: 49
1446293 GGCATCTTTT
1446303 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
* * *
1446352 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT---A--G-CACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
1446395 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
* * * * *
1446444 TTTAAGACCAATGTCGCTGGCCTTGAATCAACACATT---A--G-CACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
1446487 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
* * *
1446536 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCT-TCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTGTCATC
** * * ** *
1446585 TTTAAGTCCGGTATCGTTGGCTTTGAATCAGCATATTGGCACCATCATT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
* *
1446634 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
1446677 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
* * * ** *
1446726 TTTATGACCAATGTCATTGGCCTTGAATCAGCACATTGGCATCT-TCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTGTCATC
** * *
1446775 TTTAAGTCCGGTATCGCTGGCTTTGAATCAGCATATTGGCACCGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
* *
1446824 TTTAAGAT-CAATGTCGCTGGCCATGAATCA
1 TTTAAG-TCCAATATCGCTGGCCTTGAATCA
1446854 AAACATTGTC
Statistics
Matches: 421, Mismatches: 58, Indels: 46
0.80 0.11 0.09
Matches are distributed among these distances:
43 113 0.27
44 2 0.00
45 1 0.00
46 4 0.01
47 1 0.00
48 4 0.01
49 291 0.69
50 5 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATC
Found at i:1446460 original size:92 final size:92
Alignment explanation
Indices: 1446303--1446853 Score: 805
Period size: 92 Copynumber: 5.9 Consensus size: 92
1446293 GGCATCTTTT
*
1446303 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGTCCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
*
1446368 CTGGCCTTGAATCAGCACATTAGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
1446395 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
* *
1446460 CTGGCCTTGAATCAACACATTAGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
1446487 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
1446552 CTGGCCTTGAATCAGCACATTGGCATCTTCATC
66 CTGGCCTTGAATCAGCACATTGGCA----C--C
** * * ** * *
1446585 TTTAAGTCCGGTATCGTTGGCTTTGAATCAGCATATTGGCACCATCATTTTTAAGTCCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
1446650 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
1446677 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTATGACCAATGTCA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
*
1446742 TTGGCCTTGAATCAGCACATTGGCATCTTCATC
66 CTGGCCTTGAATCAGCACATTGGCA----C--C
** * * *
1446775 TTTAAGTCCGGTATCGCTGGCTTTGAATCAGCATATTGGCACCGTCATCTTTAAGATCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
*
1446840 CTGGCCATGAATCA
66 CTGGCCTTGAATCA
1446854 AAACATTGTC
Statistics
Matches: 415, Mismatches: 32, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
92 258 0.62
94 1 0.00
96 2 0.00
98 154 0.37
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:1446703 original size:190 final size:190
Alignment explanation
Indices: 1446303--1446860 Score: 905
Period size: 190 Copynumber: 3.0 Consensus size: 190
1446293 GGCATCTTTT
*
1446303 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGTCCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
* ** *
1446368 CTGGCCTTGAATCAGCACATTAGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
66 CTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGGTATCGCTGGCTTTGAATCAGC
* *
1446427 ATATTGGCACTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTAGCACC
131 ATATTGGCACCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTAGCACC
1446487 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
*
1446552 CTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGGTATCGTTGGCTTTGAATCAGC
66 CTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGGTATCGCTGGCTTTGAATCAGC
* * * *
1446617 ATATTGGCACCATCATTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
131 ATATTGGCACCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTAGCACC
* *
1446677 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTATGACCAATGTCA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
*
1446742 TTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGGTATCGCTGGCTTTGAATCAGC
66 CTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGGTATCGCTGGCTTTGAATCAGC
* *
1446807 ATATTGGCACCGTCATCTTTAAGAT-CAATGTCGCTGGCCATGAATCAAAACATT
131 ATATTGGCACCGTCATCTTTAAG-TCCAATGTCGCTGGCCTTGAATCAACACATT
1446861 GTCATTCTTC
Statistics
Matches: 346, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
184 88 0.25
188 1 0.00
190 256 0.74
191 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (190 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGGTATCGCTGGCTTTGAATCAGC
ATATTGGCACCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTAGCACC
Found at i:1447613 original size:13 final size:13
Alignment explanation
Indices: 1447595--1447619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1447585 CATAAAGTGT
1447595 TGTATCGATACAA
1 TGTATCGATACAA
1447608 TGTATCGATACA
1 TGTATCGATACA
1447620 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:1447617 original size:33 final size:33
Alignment explanation
Indices: 1447575--1447641 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1447565 TTCAACGATT
1447575 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1447608 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1447641 T
1 T
1447642 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:1447700 original size:13 final size:13
Alignment explanation
Indices: 1447682--1447771 Score: 80
Period size: 13 Copynumber: 7.9 Consensus size: 13
1447672 ATTACTCAAA
1447682 TGTATCGATACAT
1 TGTATCGATACAT
1447695 TGTATCGATACA-
1 TGTATCGATACAT
1447707 --T-T-GAT-C-T
1 TGTATCGATACAT
1447714 TGTATCGATACAT
1 TGTATCGATACAT
*
1447727 TGTATCGATACAC
1 TGTATCGATACAT
1447740 TG-ATC--T---T
1 TGTATCGATACAT
1447747 TGTATCGATACAT
1 TGTATCGATACAT
1447760 TGTATCGATACA
1 TGTATCGATACA
1447772 CTGATCTTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 26
0.69 0.02 0.29
Matches are distributed among these distances:
7 3 0.05
8 6 0.10
9 2 0.03
10 4 0.06
11 3 0.05
12 4 0.06
13 40 0.65
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1447751 original size:20 final size:20
Alignment explanation
Indices: 1447726--1447791 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1447716 TATCGATACA
1447726 TTGTATCGATACACTGATCT
1 TTGTATCGATACACTGATCT
1447746 TTGTATCGAT--AC--A---
1 TTGTATCGATACACTGATCT
1447759 TTGTATCGATACACTGATCT
1 TTGTATCGATACACTGATCT
1447779 TTGTATCGATACA
1 TTGTATCGATACA
1447792 TGCAGGCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 23 0.59
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACACTGATCT
Found at i:1447755 original size:33 final size:33
Alignment explanation
Indices: 1447682--1447792 Score: 206
Period size: 33 Copynumber: 3.4 Consensus size: 33
1447672 ATTACTCAAA
*
1447682 TGTATCGATACATTGTATCGATACATTGATC-T
1 TGTATCGATACATTGTATCGATACACTGATCTT
1447714 TGTATCGATACATTGTATCGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
1447747 TGTATCGATACATTGTATCGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
1447780 TGTATCGATACAT
1 TGTATCGATACAT
1447793 GCAGGCAAAT
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 30 0.39
33 47 0.61
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACACTGATCTT
Found at i:1447836 original size:52 final size:52
Alignment explanation
Indices: 1447780--1447904 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
1447770 CACTGATCTT
*
1447780 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1447832 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1447884 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1447905 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1451031 original size:52 final size:52
Alignment explanation
Indices: 1450968--1451091 Score: 221
Period size: 52 Copynumber: 2.4 Consensus size: 52
1450958 CGTTATGACA
* *
1450968 ATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATGAAATGTATCG
1 ATACATGCAGGCAAATTTTCCCAAATGTATCAATACACTATGAAATGTATCG
*
1451020 ATACATACAGGCAAATTTTCCCAAATGTATCAATACACTATGAAATGTATCG
1 ATACATGCAGGCAAATTTTCCCAAATGTATCAATACACTATGAAATGTATCG
1451072 ATACATGCAGGCAAATTTTC
1 ATACATGCAGGCAAATTTTC
1451092 ATATTTCGGG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (52 bp):
ATACATGCAGGCAAATTTTCCCAAATGTATCAATACACTATGAAATGTATCG
Found at i:1456376 original size:13 final size:13
Alignment explanation
Indices: 1456358--1456396 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1456348 TCATTACTTA
*
1456358 TATTTCAGGGCAT
1 TATTTCAGGGCAC
1456371 TATTTC-GAGGCAC
1 TATTTCAG-GGCAC
1456384 TATTTCAGGGCAC
1 TATTTCAGGGCAC
1456397 AATGACAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (13 bp):
TATTTCAGGGCAC
Found at i:1466036 original size:157 final size:156
Alignment explanation
Indices: 1465607--1466209 Score: 720
Period size: 157 Copynumber: 3.9 Consensus size: 156
1465597 TTTCATGTTT
*
1465607 AAGGTATACCCT-TAGGGGTATTTTTGTAATTTTTTAAAACCTAGTCCTAGGTTGTCACCGGGTC
1 AAGGTATACCCTATAGGGGCATTTTTGTAATTTTTTAAAACCTAGTCCTAGGTTGTCACCGGGTC
* * * *
1465671 AGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTAATCCCATCTCTAATCTTTTTAAGTCTTT
66 TGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTCTAATCTTTTTAAGTCCTT
1465736 TAGGGTTACC-GAGATACTTTCATGTCG
131 TAGGGTTACCAG-GATACTTT-ATGTCG
* * * *
1465763 AAGGTATA-CCTATAGAGGGCATTTTCGTAA--TTTCAAAACCTAGTCTTAGGTTGTCACCCGGT
1 AAGGTATACCCTATAG-GGGCATTTTTGTAATTTTTTAAAACCTAGTCCTAGGTTGTCACCGGGT
* ** * *
1465825 CTGTTTTTATGTTGAAGGTAGGTATTTAGGATAGGTTCATCCCATCTTTAATCTTTTTAAGTCCT
65 CTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTCTAATCTTTTTAAGTCCT
*
1465890 TTAGGGTTACCAGGATACGTTTATGTCA
130 TTAGGGTTACCAGGATAC-TTTATGTCG
* * ** * * *
1465918 AAGATATA-CCTATAGGGGCATTTTTGTAATTTTTT-AGAGTTAAATCCTAGGTTTTTCACTGGG
1 AAGGTATACCCTATAGGGGCATTTTTGTAATTTTTTAAAACCT-AGTCCTAGG-TTGTCACCGGG
* * **
1465981 TCTGCTTTTATGCTGAAGGTGGGTATTTAGGATAGTTTCATCCTGTCTCTAATCTTTTTAAGTCC
64 TCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTCTAATCTTTTTAAGTCC
* * *
1466046 TTTAAGGTTACTAAGATACTTTTATGTCG
129 TTTAGGGTTACCAGGATAC-TTTATGTCG
* * * *
1466075 AAGGTATATCC-ATAGGGGTATTTTTGAAATTTTTTAAAACCTAGTCATAGGTTGTCACCGGGT-
1 AAGGTATACCCTATAGGGGCATTTTTGTAATTTTTTAAAACCTAGTCCTAGGTTGTCACCGGGTC
* * * * *
1466138 TCGCTTTTATGCCAAAGGTGAGTATTTAGGATAGGTTCATCCCATTTGTAATCCTTTTTAACTCC
66 T-GCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTCTAAT-CTTTTTAAGTCC
1466203 TTTAGGG
129 TTTAGGG
1466210 GTATCGAGTA
Statistics
Matches: 377, Mismatches: 58, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
154 13 0.03
155 127 0.34
156 77 0.20
157 155 0.41
158 5 0.01
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (156 bp):
AAGGTATACCCTATAGGGGCATTTTTGTAATTTTTTAAAACCTAGTCCTAGGTTGTCACCGGGTC
TGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTCTAATCTTTTTAAGTCCTT
TAGGGTTACCAGGATACTTTATGTCG
Found at i:1466263 original size:312 final size:310
Alignment explanation
Indices: 1465651--1466212 Score: 756
Period size: 312 Copynumber: 1.8 Consensus size: 310
1465641 TAAAACCTAG
1465651 TCCTAGGTTGTCACCGGGTCAGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTAATCCCATC
1 TCCTAGGTTGTCACCGGGTCAGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTAATCCCATC
* * *
1465716 TCTAATCTTTTTAAGTCTTTTAGGGTTACCGAGATACTTTCATGTCGAAGGTATACCTATAGAGG
66 TCTAATCTTTTTAAGTCCTTTAAGGTTACCAAGATACTTTCATGTCGAAGGTATACCTATAGAGG
* * * ***
1465781 GCATTTTCGTAATTTCAAAACCTAGTCTTAGGTTGTCACCCGGTCTGTTTTTATGTTGAAGGTAG
131 GCATTTTCGAAATTTCAAAACCTAGTCATAGGTTGTCACCCGGTCTGCTTTTATGCCAAAGGTAG
* *
1465846 GTATTTAGGATAGGTTCATCCCATCTTTAATCTTTTTAAGTCCTTTAGGGTTACCAGGATACGTT
196 GTATTTAGGATAGGTTCATCCCATCTTTAATCTTTTTAACTCCTTTAGGGGTACCAGGATAC-TT
* *
1465911 TATGTCAAAGATATACCTATAGGGGCATTTTTGTAATTTTTTAGAGTTAAA
260 TATGTCAAAGATATACCTATAGAGGCATTTTCGTAATTTTTTAGAGTTAAA
* * * * * * * **
1465962 TCCTAGGTTTTTCACTGGGTCTGCTTTTATGCTGAAGGTGGGTATTTAGGATAGTTTCATCCTGT
1 TCCTAGG-TTGTCACCGGGTCAGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTAATCCCAT
* *
1466027 CTCTAATCTTTTTAAGTCCTTTAAGGTTACTAAGATACTTTTATGTCGAAGGTATATCC-ATAG-
65 CTCTAATCTTTTTAAGTCCTTTAAGGTTACCAAGATACTTTCATGTCGAAGGTATA-CCTATAGA
* * * *
1466090 GGGTATTTTTGAAATTTTTTAAAACCTAGTCATAGGTTGTCACCGGGT-TCGCTTTTATGCCAAA
129 GGGCATTTTCGAAA--TTTCAAAACCTAGTCATAGGTTGTCACCCGGTCT-GCTTTTATGCCAAA
1466154 GGT-GAGTATTTAGGATAGGTTCATCCCAT-TTGTAATCCTTTTTAACTCCTTTAGGGGTA
191 GGTAG-GTATTTAGGATAGGTTCATCCCATCTT-TAAT-CTTTTTAACTCCTTTAGGGGTA
1466213 TCGAGTATTT
Statistics
Matches: 217, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
311 18 0.08
312 107 0.49
313 72 0.33
314 20 0.09
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (310 bp):
TCCTAGGTTGTCACCGGGTCAGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTAATCCCATC
TCTAATCTTTTTAAGTCCTTTAAGGTTACCAAGATACTTTCATGTCGAAGGTATACCTATAGAGG
GCATTTTCGAAATTTCAAAACCTAGTCATAGGTTGTCACCCGGTCTGCTTTTATGCCAAAGGTAG
GTATTTAGGATAGGTTCATCCCATCTTTAATCTTTTTAACTCCTTTAGGGGTACCAGGATACTTT
ATGTCAAAGATATACCTATAGAGGCATTTTCGTAATTTTTTAGAGTTAAA
Found at i:1468420 original size:13 final size:13
Alignment explanation
Indices: 1468402--1468426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1468392 ATTATGCCTA
1468402 AAAAAACAAAAAC
1 AAAAAACAAAAAC
1468415 AAAAAACAAAAA
1 AAAAAACAAAAA
1468427 AATCGAATGA
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:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAC
Found at i:1469989 original size:44 final size:44
Alignment explanation
Indices: 1469814--1470264 Score: 240
Period size: 44 Copynumber: 10.3 Consensus size: 44
1469804 CTAACATATC
* * **
1469814 GTTACCACCCTGGTCAGATTGTTTTCATTCTGA-TTGACATATG
1 GTTACCACCCTGGTCAAATTTTTTTCATTCTGATTTGATGTATG
** * *
1469857 GTTACCACCCTGGTCAAATTTTCCTCCTTCTTG-TTTGATGCATG
1 GTTACCACCCTGGTCAAATTTTTTTCATTC-TGATTTGATGTATG
* * * * **
1469901 GCTACCACCTTGGTCAAATTTTTTT-ATT-TCAGTCTGACATATG
1 GTTACCACCCTGGTCAAATTTTTTTCATTCTGA-TTTGATGTATG
* * * *
1469944 GTTATCACCCTAGTCAGATTTTTTTCATTCTGATTTGATGCATG
1 GTTACCACCCTGGTCAAATTTTTTTCATTCTGATTTGATGTATG
* * *** * *
1469988 GTTAGCACCCTGGTC-AATCTGCCTCTTTCTTG-TTTGACGTATG
1 GTTACCACCCTGGTCAAATTTTTTTCATTC-TGATTTGATGTATG
* * * * *
1470031 TTTACCACCCTAGTTAAACTCTTTTT-ATT-TCAGTTTGATGTATG
1 GTTACCACCCTGGTCAAA-TTTTTTTCATTCTGA-TTTGATGTATG
* * * * * *
1470075 GTTACCACCTTGGTTAGATTCTTTTCATTCTGATTTAATGCATG
1 GTTACCACCCTGGTCAAATTTTTTTCATTCTGATTTGATGTATG
* * ***** *
1470119 GTTATCACCCTAGTCAAATCAGCCTCCTTCCTG-TTTGATGTATG
1 GTTACCACCCTGGTCAAATTTTTTTCATT-CTGATTTGATGTATG
* * * * * **
1470163 GTTACCACCTTGGTCAAACTCTTTTCAGGTCAG-TTTGACATATG
1 GTTACCACCCTGGTCAAATTTTTTTCA-TTCTGATTTGATGTATG
* * ** * *
1470207 GATACCACCCTGGTCAGATTCCTTTCATTCCTG-CTTGACGTATG
1 GTTACCACCCTGGTCAAATTTTTTTCATT-CTGATTTGATGTATG
1470251 GTTACCACCCTGGT
1 GTTACCACCCTGGT
1470265 TAAGCTCTTT
Statistics
Matches: 298, Mismatches: 94, Indels: 31
0.70 0.22 0.07
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 88 0.30
44 196 0.66
45 12 0.04
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (44 bp):
GTTACCACCCTGGTCAAATTTTTTTCATTCTGATTTGATGTATG
Found at i:1470277 original size:44 final size:44
Alignment explanation
Indices: 1470018--1470308 Score: 178
Period size: 44 Copynumber: 6.6 Consensus size: 44
1470008 GCCTCTTTCT
* * * * *
1470018 TGTTTGACGTATGTTTACCACCCTAGTTAAACTCTTTTTATTTC
1 TGTTTGACGTATGGTTACCACCCTGGTTAAGCTCTTTTCATTCC
* * * *
1470062 AGTTTGATGTATGGTTACCACCTTGGTT-AGATTCTTTTCATT-C
1 TGTTTGACGTATGGTTACCACCCTGGTTAAG-CTCTTTTCATTCC
* * * * * * * *** *
1470105 TGATTTAATGCATGGTTATCACCCTAGTCAA-ATCAGCCTCCTTCC
1 TG-TTTGACGTATGGTTACCACCCTGGTTAAGCTC-TTTTCATTCC
* * * * *
1470150 TGTTTGATGTATGGTTACCACCTTGGTCAAACTCTTTTCAGGT-C
1 TGTTTGACGTATGGTTACCACCCTGGTTAAGCTCTTTTCA-TTCC
* * * * * *
1470194 AGTTTGACATATGGATACCACCCTGG-TCAGATTCCTTTCATTCC
1 TGTTTGACGTATGGTTACCACCCTGGTTAAG-CTCTTTTCATTCC
*
1470238 TGCTTGACGTATGGTTACCACCCTGGTTAAGCTCTTTTCATTCC
1 TGTTTGACGTATGGTTACCACCCTGGTTAAGCTCTTTTCATTCC
* * * *
1470282 CGTTTGACGTGTGATTACCACTCTGGT
1 TGTTTGACGTATGGTTACCACCCTGGT
1470309 CAAACGTTTC
Statistics
Matches: 183, Mismatches: 54, Indels: 20
0.71 0.21 0.08
Matches are distributed among these distances:
43 7 0.04
44 166 0.91
45 10 0.05
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (44 bp):
TGTTTGACGTATGGTTACCACCCTGGTTAAGCTCTTTTCATTCC
Found at i:1472102 original size:156 final size:151
Alignment explanation
Indices: 1471854--1472157 Score: 394
Period size: 156 Copynumber: 2.0 Consensus size: 151
1471844 CTGTAAGATG
** *
1471854 ATTTTCAAAATATGAAGTTTTTTACTCTGTAAATTTTCGGTAGGATTTTTCTAAGTTTATAATTT
1 ATTTTCAAAATATGAAGTTTTTTACTCCATAAATTTTCAGTAGGATTTTTCTAAGTTTATAATTT
* * *
1471919 TCAAAATTCTTTAAATATTATTGTTTAATTCATATTAAATTAG-TTTTGAAAATTTCAACTTATT
66 TAAAAATTCTTTAAATATTATTGTTTAATTCACATTAAATCAGTTTTTGAAAA-TTCAACTTATT
1471983 TTATAAGTTTTAGAATTTTTCCT
130 TTATAAGTTTT-GAATTTTTCCT
* * *
1472006 ATTTTCAAAATATGGAATTTTTTTACTCCATAAATTTCTCTAGTAGTATTTTTCTTAGTTTATAA
1 ATTTTCAAAATAT-GAAGTTTTTTACTCCATAAATTT-TC-AGTAGGATTTTTCTAAGTTTATAA
* * * * *
1472071 TTTTTAAAAATTCTTTGAATATTGTTGTTTAATTCACATTGAATCAGTTTTTTTAAAATTCAATT
63 -TTTTAAAAATTCTTTAAATATTATTGTTTAATTCACATTAAATCAG-TTTTTGAAAATTCAACT
* *
1472136 TATTTTGTGAGTTTTGAATTTT
126 TATTTTATAAGTTTTGAATTTT
1472158 ATATAACCAT
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
152 13 0.10
153 20 0.15
154 2 0.02
155 21 0.16
156 47 0.36
157 19 0.15
158 8 0.06
ACGTcount: A:0.31, C:0.08, G:0.09, T:0.52
Consensus pattern (151 bp):
ATTTTCAAAATATGAAGTTTTTTACTCCATAAATTTTCAGTAGGATTTTTCTAAGTTTATAATTT
TAAAAATTCTTTAAATATTATTGTTTAATTCACATTAAATCAGTTTTTGAAAATTCAACTTATTT
TATAAGTTTTGAATTTTTCCT
Found at i:1473513 original size:23 final size:25
Alignment explanation
Indices: 1473470--1473527 Score: 93
Period size: 23 Copynumber: 2.4 Consensus size: 25
1473460 TTTGTTGTTT
1473470 TTTTATGTATGTACATTTTCATATGA
1 TTTTATG-ATGTACATTTTCATATGA
1473496 TTTTATGATG-A-ATTTTCATATGA
1 TTTTATGATGTACATTTTCATATGA
1473519 TTTTATGAT
1 TTTTATGAT
1473528 ATTTTAACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 21 0.66
24 1 0.03
25 3 0.09
26 7 0.22
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (25 bp):
TTTTATGATGTACATTTTCATATGA
Found at i:1473518 original size:12 final size:11
Alignment explanation
Indices: 1473484--1473522 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
1473474 ATGTATGTAC
1473484 ATTTTCATATG
1 ATTTTCATATG
1473495 ATTTT-ATGATG
1 ATTTTCAT-ATG
1473506 AATTTTCATATG
1 -ATTTTCATATG
1473518 ATTTT
1 ATTTT
1473523 ATGATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.08
11 13 0.52
12 8 0.32
13 2 0.08
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.56
Consensus pattern (11 bp):
ATTTTCATATG
Found at i:1473533 original size:10 final size:11
Alignment explanation
Indices: 1473492--1473533 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
1473482 ACATTTTCAT
1473492 ATGATTTTATG
1 ATGATTTTATG
1473503 ATGAATTTTCAT-
1 ATG-ATTTT-ATG
1473515 ATGATTTTATG
1 ATGATTTTATG
1473526 AT-ATTTTA
1 ATGATTTTA
1473534 ACATGTAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 8 0.29
11 10 0.36
12 8 0.29
13 2 0.07
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (11 bp):
ATGATTTTATG
Found at i:1474035 original size:166 final size:165
Alignment explanation
Indices: 1473548--1474066 Score: 645
Period size: 165 Copynumber: 3.1 Consensus size: 165
1473538 GTAAGGACTA
* * * *
1473548 AAATGAAAATTTTTAAAAGTTTAGGGATTAAATAGCAAATTTTAGTTTTTAAAGGTATAATCATC
1 AAATGAAAA-TTTCAAAAGTTTAGAGATTAAATAGCAAATTTTAGTTTTTAAAGATAAAATCATC
* *
1473613 ATTTTAGTCATTTTTAAAGATTTGTATTATTCCTATGGCCTT-CTTAGA-GCTATAAAAATTTTC
65 ATTTTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCCATAGAGGC-ATAAAAATTTTC
* * *
1473676 AAAACTTTTCGTATCCTCTTGGTTTTTCATGAGGTAAG
129 AAGACTTTT-GTATCCTCTCGGTTTTTCATTAGGTAAG
* *
1473714 AAAT-AAATTTTTCAAAAGTTTA-AGGATTAAATAGCAAATTTTAGTTTTTAAAGCTAAAA-CAT
1 AAATGAAA-ATTTCAAAAGTTTAGA-GATTAAATAGCAAATTTTAGTTTTTAAAGATAAAATCAT
* * *
1473776 TATTTTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCCATAGGGGCATAAAAACTTTC
64 CATTTTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCCATAGAGGCATAAAAATTTTC
** * * *
1473841 AAGACTTATCATATCCTTTCGGTTTTTCATTAGATACG
129 AAGACTT-TTGTATCCTCTCGGTTTTTCATTAGGTAAG
* * * *
1473879 AAATGAAAATTTGAAAAGTTTAGAGATTAAATAGCAAATTTTAGTTTTTAGAGAAAAAATAATCA
1 AAATGAAAATTTCAAAAGTTTAGAGATTAAATAGCAAATTTTAGTTTTTAAAGATAAAATCATCA
* * * *
1473944 TTTTAGTCATTTTTAAAGATTTCTATTATTTCTATGGCCTTCCGTAGAGGCATAGATATTTTCAA
66 TTTTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCCATAGAGGCATAAAAATTTTCAA
** *
1474009 GACCTTTTGTATCCTCTCAATTTTTCATTGGGTATA-
131 GA-CTTTTGTATCCTCTCGGTTTTTCATTAGGTA-AG
*
1474045 AAATGAAATTTTCAAAAGTTTA
1 AAATGAAAATTTCAAAAGTTTA
1474067 AGGGCTTAAT
Statistics
Matches: 302, Mismatches: 41, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
164 44 0.15
165 139 0.46
166 116 0.38
167 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (165 bp):
AAATGAAAATTTCAAAAGTTTAGAGATTAAATAGCAAATTTTAGTTTTTAAAGATAAAATCATCA
TTTTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCCATAGAGGCATAAAAATTTTCAA
GACTTTTGTATCCTCTCGGTTTTTCATTAGGTAAG
Found at i:1475099 original size:21 final size:20
Alignment explanation
Indices: 1475069--1475142 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
1475059 TTCTACAATT
1475069 TGTATCGATACAATAAGAT-AA
1 TGTATCGATAC-ATAAG-TGAA
*
1475090 TGTATGGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* * ***
1475110 TGTAGCAATACATGCTTGAAA
1 TGTATCGATACATAAGTG-AA
1475131 TGTATCGATACA
1 TGTATCGATACA
1475143 GGACTATGCA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 19 0.45
21 22 0.52
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:1475111 original size:20 final size:21
Alignment explanation
Indices: 1475069--1475113 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1475059 TTCTACAATT
1475069 TGTATCGATACAATAAGATAA
1 TGTATCGATACAATAAGATAA
*
1475090 TGTATGGATAC-ATAAG-TGAA
1 TGTATCGATACAATAAGAT-AA
1475110 TGTA
1 TGTA
1475114 GCAATACATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.50
21 10 0.45
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAATAAGATAA
Found at i:1475259 original size:52 final size:52
Alignment explanation
Indices: 1475195--1475296 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 52
1475185 TCGATATATT
* * *
1475195 TTTCATTGTATCGATACATTCTGGGTTTTCAACTCAAATGTATCAATACAAG
1 TTTCATTCTATCGATACATTCTGAGTTTTCAACCCAAATGTATCAATACAAG
**
1475247 TTTCATTCTATCGATACATTCTGAGTTTTTGACCCAAATGTATCAATACA
1 TTTCATTCTATCGATACATTCTGAGTTTTCAACCCAAATGTATCAATACA
1475297 TTCTTCAATG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (52 bp):
TTTCATTCTATCGATACATTCTGAGTTTTCAACCCAAATGTATCAATACAAG
Found at i:1481258 original size:81 final size:81
Alignment explanation
Indices: 1481141--1481291 Score: 266
Period size: 81 Copynumber: 1.9 Consensus size: 81
1481131 TTTTTAAAAC
* * *
1481141 AATATATGGAACTATAATTAAATATTTATTTAAACCAAATTAATCAAAACTTATTTAACACATAA
1 AATATAGGGAACCATAATTAAATATTTATTAAAACCAAATTAATCAAAACTTATTTAACACATAA
1481206 ATAATCTCTTTTTTTT
66 ATAATCTCTTTTTTTT
1481222 AATATAGGGAACCATAATTAAATATTTATTAAAACCAAATTAATCAAAACTTATTTAACACATAA
1 AATATAGGGAACCATAATTAAATATTTATTAAAACCAAATTAATCAAAACTTATTTAACACATAA
*
1481287 TTAAT
66 ATAAT
1481292 TTTAGGCCTG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (81 bp):
AATATAGGGAACCATAATTAAATATTTATTAAAACCAAATTAATCAAAACTTATTTAACACATAA
ATAATCTCTTTTTTTT
Found at i:1483111 original size:146 final size:146
Alignment explanation
Indices: 1482841--1483123 Score: 399
Period size: 146 Copynumber: 1.9 Consensus size: 146
1482831 TGAAAGGTCA
* * *
1482841 TAAGAATAATAGAAATCTTTAAAAGTGGCTAAAATGATGATTTTACCTCTAAAAACTAAAATTTG
1 TAAGAATAAAAGAAATCTTTAAAAGTGACTAAAATGATGATTTTACCACTAAAAACTAAAATTTG
*
1482906 CTATTTAATCCCTAAAATTTTAAAAATCTCATTTCGTACCTGACGAAAAACAAAGAGGATGCAAA
66 CTATTTAATCCCTAAAATTTTAAAAATCTCATTTCGTACCTGACGAAAAACAAAGAGGATACAAA
1482971 AAGTTTTGTAAATTTC
131 AAGTTTTGTAAATTTC
*
1482987 TAAGAATAAAAGAAATATTTTAAAA-TGACTAAAATGATGATTTTACCACTAAAAACTAAAATTT
1 TAAGAATAAAAGAAAT-CTTTAAAAGTGACTAAAATGATGATTTTACCACTAAAAACTAAAATTT
* ** * * * * * * *
1483051 TCTATTTAATCTTTAAAGTTTTAAAATTTTCATTTCGTACCTGATGGAAAACCGAA-AGGATACG
65 GCTATTTAATCCCTAAAATTTTAAAAATCTCATTTCGTACCTGA-CGAAAAACAAAGAGGATACA
1483115 AAAAGTTTT
129 AAAAGTTTT
1483124 AAAAATTGCT
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
146 105 0.88
147 15 0.12
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (146 bp):
TAAGAATAAAAGAAATCTTTAAAAGTGACTAAAATGATGATTTTACCACTAAAAACTAAAATTTG
CTATTTAATCCCTAAAATTTTAAAAATCTCATTTCGTACCTGACGAAAAACAAAGAGGATACAAA
AAGTTTTGTAAATTTC
Found at i:1486831 original size:167 final size:164
Alignment explanation
Indices: 1486617--1487098 Score: 493
Period size: 167 Copynumber: 2.9 Consensus size: 164
1486607 TTAAATTTCG
* * * * *
1486617 GAGTTTTCTTCTTCATAAATTTTTTTGGAAGGA-TTTTCATGGGTTTAAAATTTTCAAAATTCAT
1 GAGTTTTCTTCTCCAT-AATTTTTTCGGAGGGATTTTTC-TAGGTTTAAAATTTTTAAAATTCAT
* * *
1486681 TAAATATTATTATTTAATTCACATTAAATCATTTTTCAAAAACTCCTTAATTTTCATGAGTTTTT
64 TAAATATTATTATTTAATTCAAATTAAATCATTTTTAAAAAACTCCTTCATTTTCATGAGTTTTT
*
1486746 GAATTTTTTCCTTAAAA-TTTCTCGGTTTTCTAAATATA
129 GAATTTTTT-CTTAAAATTTTCT-GGTTTTCGAAATA-A
1486784 GAGTTTTCTTCTCCATAATTTATTTCGGAGGGATTTTTCTAGGTTTAAAATTTTTAAAATTCATT
1 GAGTTTTCTTCTCCATAATTT-TTTCGGAGGGATTTTTCTAGGTTTAAAATTTTTAAAATTCATT
* * * * * *
1486849 AAATTTTATGATTTAACTCAAATTAAATCAATTTTAAAAAACTCCTTCATTTTCCTAAGTTTTTG
65 AAATATTATTATTTAATTCAAATTAAATCATTTTTAAAAAACTCCTTCATTTTCATGAGTTTTTG
* ** *
1486914 AATTTTTTTCTTGAAATTTTCTTTTTTTCGAAATAC
130 AA-TTTTTTCTTAAAATTTTCTGGTTTTCGAAATAA
* * ** * ** * ** *
1486950 GAAATTTTCTAATTTGTA-AATGTTTTCCAAGGGATTTTTCTTGGTTTTTAATTTTTAAAATTTA
1 G-AGTTTTCT--TCTCCATAATTTTTTCGGAGGGATTTTTCTAGGTTTAAAATTTTTAAAATTCA
* * * * * ** *
1487014 TCAAATATTATTATTTAATTCATATTTAATCATTTTTGAAAAATTAATTCATCTTCATGAGTTAT
63 TTAAATATTATTATTTAATTCAAATTAAATCATTTTTAAAAAACTCCTTCATTTTCATGAGTT-T
1487079 TTGAATTTTTTCTTGAAAAT
127 TTGAATTTTTTCTT-AAAAT
1487099 CCATTTTTTC
Statistics
Matches: 261, Mismatches: 45, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
166 6 0.02
167 222 0.85
168 30 0.11
169 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (164 bp):
GAGTTTTCTTCTCCATAATTTTTTCGGAGGGATTTTTCTAGGTTTAAAATTTTTAAAATTCATTA
AATATTATTATTTAATTCAAATTAAATCATTTTTAAAAAACTCCTTCATTTTCATGAGTTTTTGA
ATTTTTTCTTAAAATTTTCTGGTTTTCGAAATAA
Found at i:1487124 original size:19 final size:18
Alignment explanation
Indices: 1487082--1487126 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1487072 GAGTTATTTG
**
1487082 AATTTTTTCTTGAAAATC
1 AATTTTTTCTAAAAAATC
*
1487100 CATTTTTTCTAAAAAATC
1 AATTTTTTCTAAAAAATC
1487118 AAGTTTTTT
1 AA-TTTTTT
1487127 ATTCCATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.51
Consensus pattern (18 bp):
AATTTTTTCTAAAAAATC
Found at i:1490621 original size:81 final size:82
Alignment explanation
Indices: 1490501--1490689 Score: 222
Period size: 81 Copynumber: 2.3 Consensus size: 82
1490491 TATGACATGT
** ** * * ** **
1490501 TCTAATTGGTTGACATTATCAATTTTGCCTTGGTCAACCCCTTTAACATGTTGGCTTTATTGGTT
1 TCTAATTGGTTGACATTATCGGTTTTGCCTAAGTCAACCCCTCTAACATGTTAGCTAAATCAGTT
1490566 TTACCT-TGGCCAACCCC
66 TT-CCTCTGGCCAACCCC
*
1490583 TCTAATTGGTTGAC-TTATCGGTTTTG-CTCAAGTTAACCCCTCTAACATGTTAGCTAAATCAGT
1 TCTAATTGGTTGACATTATCGGTTTTGCCT-AAGTCAACCCCTCTAACATGTTAGCTAAATCAGT
*
1490646 TTTGCTCTGGCCAACCCC
65 TTTCCTCTGGCCAACCCC
*
1490664 TCTAATTGGTTGACTTTATCGGTTTT
1 TCTAATTGGTTGACATTATCGGTTTT
1490690 ACCTTGGCTA
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
80 4 0.04
81 63 0.68
82 25 0.27
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.40
Consensus pattern (82 bp):
TCTAATTGGTTGACATTATCGGTTTTGCCTAAGTCAACCCCTCTAACATGTTAGCTAAATCAGTT
TTCCTCTGGCCAACCCC
Found at i:1490689 original size:41 final size:41
Alignment explanation
Indices: 1490501--1490849 Score: 175
Period size: 41 Copynumber: 8.6 Consensus size: 41
1490491 TATGACATGT
* ** * *
1490501 TCTAATTGGTTGACATTATCAATTTTGC-CTTGGTCAACCCC
1 TCTAATTGGTTGACTTTATCGGTTTTACTC-TGGCCAACCCC
* * * *
1490542 TTTAACAT-GTTGGCTTTATTGGTTTTAC-CTTGGCCAACCCC
1 TCTAA-TTGGTTGACTTTATCGGTTTTACTC-TGGCCAACCCC
* ** **
1490583 TCTAATTGGTTGAC-TTATCGGTTTTGCTCAAGTTAACCCC
1 TCTAATTGGTTGACTTTATCGGTTTTACTCTGGCCAACCCC
* ** * *
1490623 TCTAACAT-GTT-AGCTAAATCAGTTTTGCTCTGGCCAACCCC
1 TCTAA-TTGGTTGA-CTTTATCGGTTTTACTCTGGCCAACCCC
*
1490664 TCTAATTGGTTGACTTTATCGGTTTTAC-CTTGGCTAACCCC
1 TCTAATTGGTTGACTTTATCGGTTTTACTC-TGGCCAACCCC
* * ** * * **
1490705 TCTCATTTGTTGGTTTTATCGGTTTTACTTTGGCTAACTTC
1 TCTAATTGGTTGACTTTATCGGTTTTACTCTGGCCAACCCC
* * ** * * *
1490746 TCTAATTAGTTGACTTTATTGACTTTACCCTAGTCAACCCC
1 TCTAATTGGTTGACTTTATCGGTTTTACTCTGGCCAACCCC
* ** *
1490787 T-TAAATCT-ATT-AGCTTTATTAG-TTT-CTCTAGCCAACCCC
1 TCT-AAT-TGGTTGA-CTTTATCGGTTTTACTCTGGCCAACCCC
1490826 TCTAA-TGGTTGACTTTATCGGTTT
1 TCTAATTGGTTGACTTTATCGGTTT
1490850 CACCATGGTC
Statistics
Matches: 230, Mismatches: 61, Indels: 36
0.70 0.19 0.11
Matches are distributed among these distances:
37 1 0.00
38 9 0.04
39 19 0.08
40 36 0.16
41 162 0.70
42 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (41 bp):
TCTAATTGGTTGACTTTATCGGTTTTACTCTGGCCAACCCC
Found at i:1490749 original size:82 final size:80
Alignment explanation
Indices: 1490501--1490849 Score: 260
Period size: 82 Copynumber: 4.3 Consensus size: 80
1490491 TATGACATGT
* ** * *
1490501 TCTAATTGGTTGACATTATCAATTTTGCCTTGGTCAACCCCTTTAACATGTTGGCTTTATTGGTT
1 TCTAATTGGTTGACTTTATCGGTTTT-CCTTGGT-AACCCCTCTAACATGTTGGCTTTATCGGTT
*
1490566 TTACCTTGGCCAACCCC
64 TTACTTTGGCCAACCCC
** * * ** *
1490583 TCTAATTGGTTGAC-TTATCGGTTTTGCTCAAGTTAACCCCTCTAACATGTTAGCTAAATCAGTT
1 TCTAATTGGTTGACTTTATCGGTTTT-C-CTTGGTAACCCCTCTAACATGTTGGCTTTATCGGTT
* *
1490647 TTGCTCTGGCCAACCCC
64 TTACTTTGGCCAACCCC
* ** *
1490664 TCTAATTGGTTGACTTTATCGGTTTTACCTTGGCTAACCCCTCTCATTTGTTGGTTTTATCGGTT
1 TCTAATTGGTTGACTTTATCGGTTTT-CCTTGG-TAACCCCTCTAACATGTTGGCTTTATCGGTT
* **
1490729 TTACTTTGGCTAACTTC
64 TTACTTTGGCCAACCCC
* * * * * * * * **
1490746 TCTAATTAGTTGACTTTATTGACTTTACCCTAGTCAACCCCT-TAA-ATCTATTAGCTTTATTAG
1 TCTAATTGGTTGACTTTATCG-GTTTTCCTTGGT-AACCCCTCTAACA--TGTTGGCTTTATCGG
* *
1490809 -TTT-CTCTAGCCAACCCC
62 TTTTACTTTGGCCAACCCC
1490826 TCTAA-TGGTTGACTTTATCGGTTT
1 TCTAATTGGTTGACTTTATCGGTTT
1490850 CACCATGGTC
Statistics
Matches: 208, Mismatches: 52, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
78 3 0.01
79 13 0.06
80 14 0.07
81 71 0.34
82 104 0.50
83 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (80 bp):
TCTAATTGGTTGACTTTATCGGTTTTCCTTGGTAACCCCTCTAACATGTTGGCTTTATCGGTTTT
ACTTTGGCCAACCCC
Found at i:1490921 original size:161 final size:162
Alignment explanation
Indices: 1490650--1490965 Score: 367
Period size: 161 Copynumber: 2.0 Consensus size: 162
1490640 ATCAGTTTTG
* * * **
1490650 CTCTGGCCAACCCCTCTAATTGGTTGACTTTATCGGTTTTACCTTGGCTAACCCCTCTCATTTGT
1 CTCTAGCCAACCCCTCTAATTGGTTGACTTTATCGGTTTCACCATGGCTAACCCCTCAAATTTGT
* * ** * *
1490715 TGGTTTTATCGGTTTTACTTTGGCTAACTTCTCTAATTAGTTGACTTTAT-TGACTTTACCCTAG
66 TGGTTTAATCAGTTTTACTTTACCCAACTTCTCTAATTAGTTGACTTTATCAG-CTTTACCCTAG
1490779 TCAACCCCTTAAATCTATTAGCTTTATTAGTTT
130 TCAACCCCTTAAATCTATTAGCTTTATTAGTTT
*
1490812 CTCTAGCCAACCCCTCTAA-TGGTTGACTTTATCGGTTTCACCATGG-TCAATCCCTCAAATTTG
1 CTCTAGCCAACCCCTCTAATTGGTTGACTTTATCGGTTTCACCATGGCT-AACCCCTCAAATTTG
* * * **
1490875 TTGGTTTAATTAG-TTT-CTTCTAACCCAACCTT-T-TAAATTGGTTGACTTTATCAGTTTTGGC
65 TTGGTTTAATCAGTTTTACTT-T-ACCCAA-CTTCTCT-AATTAGTTGACTTTATCAGCTTTACC
*
1490936 CTAGTCAACCCCTTAAATCTATTGGCTTTA
126 CTAGTCAACCCCTTAAATCTATTAGCTTTA
1490966 CCGATTTCGC
Statistics
Matches: 130, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
159 3 0.02
160 6 0.05
161 99 0.76
162 22 0.17
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (162 bp):
CTCTAGCCAACCCCTCTAATTGGTTGACTTTATCGGTTTCACCATGGCTAACCCCTCAAATTTGT
TGGTTTAATCAGTTTTACTTTACCCAACTTCTCTAATTAGTTGACTTTATCAGCTTTACCCTAGT
CAACCCCTTAAATCTATTAGCTTTATTAGTTT
Found at i:1491045 original size:284 final size:284
Alignment explanation
Indices: 1490714--1491284 Score: 948
Period size: 284 Copynumber: 2.0 Consensus size: 284
1490704 CTCTCATTTG
1490714 TTGGTTTTATCGGTTTTACTTTGGCTAACTTCTCTAATTAGTTGACTTTATTGACTTTACCCTAG
1 TTGGTTTTATCGGTTTTACTTTGGCTAACTTCTCTAATTAGTTGACTTTATTGAC-TTACCCTAG
*
1490779 TCAACCCCTTAAATCTATTAGCTTTATTAG-TTTCTCTAGCCAACCCCTCTAATGGTTGACTTTA
65 TCAACCCCTTAAATCTATTAGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGACTTTA
* * **
1490843 TCGGTTTCACCATGGTCAATCCCTCAAATTTGTTGGTTTAATTAGTTTCTTCTAACCCAACCTTT
130 TCGGTTTCACCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAACCCAACCCCT
* * *
1490908 TAAATTGGTTGACTTTATC-AGTTTTGGCCTAGTCAACCCCTTAAATCTATTGGCTTTACCGATT
195 TAAATTGGTTGACTTTATCGA-TTTTGGCCTAGTCAACCCCTCAAATCTATTGGCTTGACCAATT
**
1490972 TCGCCTTGGCCAATGCCTCTAACCTA
259 TCGCCTTGGCCAACACCTCTAACCTA
*
1490998 TTGGTTTTATCGGTTTTACTTTGGCTAACTTCTCTAATTAGTTGACTTTATTGACTTATCCTAGT
1 TTGGTTTTATCGGTTTTACTTTGGCTAACTTCTCTAATTAGTTGACTTTATTGACTTACCCTAGT
* *
1491063 CAACCCCTTAAATCTGTTGGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGACTTTAT
66 CAACCCCTTAAATCTATTAGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGACTTTAT
*
1491128 CGGTTTCACCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCTT
131 CGGTTTCACCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAACCCAACCCCTT
* * *
1491193 AAATTGGTTGACTTTATCGATTTTGGCCTAGTTAACTCCTCAAATCTATTGGCTTGACTAATTTC
196 AAATTGGTTGACTTTATCGATTTTGGCCTAGTCAACCCCTCAAATCTATTGGCTTGACCAATTTC
*
1491258 GCCTTGGCCAACACCTTTAACCTA
261 GCCTTGGCCAACACCTCTAACCTA
1491282 TTG
1 TTG
1491285 ACTTTGTCAG
Statistics
Matches: 267, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
283 36 0.13
284 230 0.86
285 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (284 bp):
TTGGTTTTATCGGTTTTACTTTGGCTAACTTCTCTAATTAGTTGACTTTATTGACTTACCCTAGT
CAACCCCTTAAATCTATTAGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGACTTTAT
CGGTTTCACCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAACCCAACCCCTT
AAATTGGTTGACTTTATCGATTTTGGCCTAGTCAACCCCTCAAATCTATTGGCTTGACCAATTTC
GCCTTGGCCAACACCTCTAACCTA
Found at i:1491101 original size:40 final size:39
Alignment explanation
Indices: 1491057--1491209 Score: 121
Period size: 41 Copynumber: 3.8 Consensus size: 39
1491047 ATTGACTTAT
* *
1491057 CCTAGTCAACCCCTTAAATCTGTTGGCTTTATTAGTTTTC-
1 CCTAGCCAACCCCTTAAAT-TGTTGACTTTATTAG-TTTCA
* **
1491097 CCTAGCCAACCCCTCT-AATGGTTGACTTTATCGGTTTCA
1 CCTAGCCAACCCCT-TAAATTGTTGACTTTATTAGTTTCA
* * * * * * *
1491136 CCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCT
1 CC-TAGCCAACCCCTTAAA-TTGTTGACTTTATTAGTTTCA
1491177 CCTAAGCCAACCCCTTAAATTGGTTGACTTTAT
1 CCT-AGCCAACCCCTTAAATT-GTTGACTTTAT
1491210 CGATTTTGGC
Statistics
Matches: 85, Mismatches: 21, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
38 4 0.05
39 13 0.15
40 30 0.35
41 38 0.45
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (39 bp):
CCTAGCCAACCCCTTAAATTGTTGACTTTATTAGTTTCA
Found at i:1491145 original size:80 final size:82
Alignment explanation
Indices: 1491061--1491211 Score: 220
Period size: 80 Copynumber: 1.9 Consensus size: 82
1491051 ACTTATCCTA
* *
1491061 GTCAACCCCTTAAATCTGTTGGCTTTATTAGTTT-TCCCT-AGCCAACCCCTCT-AA-TGGTTGA
1 GTCAACCCCTCAAATCTGTTGGCTTAATTAGTTTCT-CCTAAGCCAACCCCT-TAAATTGGTTGA
1491122 CTTTATCGGTTTCACCATG
64 CTTTATCGGTTTCACCATG
* *
1491141 GTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCTTAAATTGGTTGACT
1 GTCAACCCCTCAAATCTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCTTAAATTGGTTGACT
1491206 TTATCG
66 TTATCG
1491212 ATTTTGGCCT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
80 34 0.54
81 14 0.22
82 15 0.24
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.38
Consensus pattern (82 bp):
GTCAACCCCTCAAATCTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCTTAAATTGGTTGACT
TTATCGGTTTCACCATG
Found at i:1491234 original size:82 final size:79
Alignment explanation
Indices: 1491057--1491247 Score: 208
Period size: 82 Copynumber: 2.4 Consensus size: 79
1491047 ATTGACTTAT
* * *
1491057 CCTAGTCAACCCCTTAAATCTGTTGGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGA
1 CCTAGTCAACTCCTCAAATCTGTTGGCTTAATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGA
1491122 CTTTATCGGTTTCA
66 CTTTATCGGTTTCA
* *
1491136 CCATGGTCAA-TCCCTCAAATTTGTTGGCTTAATTAG-TTTCTCCTAAGCCAACCCCT-TAAATT
1 CC-TAGTCAACT-CCTCAAATCTGTTGGCTTAATTAGTTTTC-CCT-AGCCAACCCCTCT-AA-T
* **
1491198 GGTTGACTTTATCGATTTTGG
60 GGTTGACTTTATCG-GTTTCA
* *
1491219 CCTAGTTAACTCCTCAAATCTATTGGCTT
1 CCTAGTCAACTCCTCAAATCTGTTGGCTT
1491248 GACTAATTTC
Statistics
Matches: 92, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
79 6 0.07
80 31 0.34
81 13 0.14
82 36 0.39
83 6 0.07
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (79 bp):
CCTAGTCAACTCCTCAAATCTGTTGGCTTAATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGA
CTTTATCGGTTTCA
Found at i:1493141 original size:74 final size:74
Alignment explanation
Indices: 1493020--1493167 Score: 251
Period size: 74 Copynumber: 2.0 Consensus size: 74
1493010 ACACTAACGG
* *
1493020 CTACTTGTCTTTGGATTCGATCTCGACATTTAAGCATACTATCTTGTTTATGTAACAATATGGTT
1 CTACTTGTCTTCGGATTCGATCTCGACATTTAAGCATACTATCTTGTTTATATAACAATATGGTT
1493085 TCATTTAAT
66 TCATTTAAT
* * *
1493094 CTACTTGTCTTCGGATTCGGTCTCGACATTTTAGCATACTATGTTGTTTATATAACAATATGGTT
1 CTACTTGTCTTCGGATTCGATCTCGACATTTAAGCATACTATCTTGTTTATATAACAATATGGTT
1493159 TCATTTAAT
66 TCATTTAAT
1493168 TTATTATTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (74 bp):
CTACTTGTCTTCGGATTCGATCTCGACATTTAAGCATACTATCTTGTTTATATAACAATATGGTT
TCATTTAAT
Found at i:1494062 original size:21 final size:23
Alignment explanation
Indices: 1494038--1494081 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1494028 TGCTATTATC
*
1494038 TATAT-AATATGTTCCTA-AGTA
1 TATATAAATATCTTCCTATAGTA
1494059 TATATAAATATCTTCCTATAGTA
1 TATATAAATATCTTCCTATAGTA
1494082 ATGTCCTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (23 bp):
TATATAAATATCTTCCTATAGTA
Found at i:1498243 original size:19 final size:20
Alignment explanation
Indices: 1498206--1498243 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1498196 TAACATTATC
*
1498206 TCACAAATTATGCAAATATG
1 TCACAAATTAAGCAAATATG
*
1498226 TCAC-AATTAAGCACATAT
1 TCACAAATTAAGCAAATAT
1498244 TCTTAAATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (20 bp):
TCACAAATTAAGCAAATATG
Found at i:1498827 original size:24 final size:24
Alignment explanation
Indices: 1498790--1498845 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
1498780 ATCCTTGTTT
*
1498790 TCATTTTTGATTTCAATAAT-AAA
1 TCATTTTTAATTTCAATAATGAAA
**
1498813 TCATTTTTAATTTTCAATTTTGAAA
1 TCATTTTTAA-TTTCAATAATGAAA
1498838 TCATTTTT
1 TCATTTTT
1498846 CTATATTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 9 0.32
24 8 0.29
25 11 0.39
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (24 bp):
TCATTTTTAATTTCAATAATGAAA
Found at i:1501382 original size:166 final size:166
Alignment explanation
Indices: 1501126--1501521 Score: 415
Period size: 166 Copynumber: 2.4 Consensus size: 166
1501116 AAATATTAAT
* * *
1501126 ATTTAACTCATAGTAAATTATTTTTGAAAAATTTATTTATTTTCATGAGTTTTTCATTTTTTTCC
1 ATTTAATTCACAG-AAATTATTTTTGAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTTTCC
* * * ** * ** * * * *
1501191 TTAAAATTCTCTTGTTTTTGAAAAATGGAGTTTTTTATTCCGTAAATGTTT-TCGAGGGGTATTT
65 TTAAAAGTCTCCTATCCTCGAAAAATCAAGTTTTCTATTCCATAAATGTTTGT-AAGGAG-ATTT
* *
1501255 TTCACGGTCTAA-AATTTTAATATTCATCA-AATATCATC
128 TTCACAGTCTAAGAATTTTAAAATTCAT-ATAATATCATC
*
1501293 ATTTAATTCACAGAAATTATTTTTGAAAAATTCATTTATTTTCATGAGTTTTTCCA-TTTTTTCT
1 ATTTAATTCACAGAAATTATTTTTGAAAAATTCATTTATTTTCATGAGTTTTT-CATTTTTTTCC
*
1501357 TTAAAAGTCTCCTATCCTCGAAAAATCAAGTTTTCTATTTCATAAATGTTTGTAAGGAGATTTTT
65 TTAAAAGTCTCCTATCCTCGAAAAATCAAGTTTTCTATTCCATAAATGTTTGTAAGGAGATTTTT
* * * *
1501422 CTCAGTTTAAGATTTTTAAAATTCATATAATATTATC
130 CACAGTCTAAGAATTTTAAAATTCATATAATATCATC
* * * * * * **
1501459 ATTAAATTCCCATTAAATCAATTTTGTAAAATTCAATTTATTTT-ATGAGTTTTGAATTTTTTT
1 ATTTAATTCACA-GAAATTATTTTTGAAAAATTC-ATTTATTTTCATGAGTTTTTCATTTTTTT
1501522 GTATTTATTA
Statistics
Matches: 191, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
165 14 0.07
166 122 0.64
167 46 0.24
168 9 0.05
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (166 bp):
ATTTAATTCACAGAAATTATTTTTGAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTTTCCT
TAAAAGTCTCCTATCCTCGAAAAATCAAGTTTTCTATTCCATAAATGTTTGTAAGGAGATTTTTC
ACAGTCTAAGAATTTTAAAATTCATATAATATCATC
Found at i:1504187 original size:75 final size:73
Alignment explanation
Indices: 1503960--1504449 Score: 400
Period size: 75 Copynumber: 6.9 Consensus size: 73
1503950 GGATAAAAAA
* *
1503960 TGCCACCAGCTTGTGTGGGCTTTTAAAAAAGAAAAAGAAAAAGCGTCCTACTCTTTGAGGACTAA
1 TGCCACCAGCTTGTGTGGGC-TTT-AAAAAG-AAAA-AAAAAGCATCCTGCTCTTTGAGGACTAA
*
1504025 AAGGAAAAATGG
62 AAGGAAAAAGGG
* * * *
1504037 TGCCACTAGCTTGTGTGGGCTTTAAAAAG-AAAAAAAAGCATCTTGCCCTTTGAGGACTGAAA-G
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAAAAAGCATCCTGCTCTTTGAGGACTAAAAGG
**
1504100 AATAAAATG
66 AA-AAAGGG
* **
1504109 TGCCACCAGCTTGTATGGGCTTTTAAAAAAGAAAAAAAAAGCATCCTATTCTTTGAGGACTAAAA
1 TGCCACCAGCTTGTGTGGGC-TTT-AAAAAGAAAAAAAAAGCATCCTGCTCTTTGAGGACTAAAA
1504174 GGAAAAAGGG
64 GGAAAAAGGG
* * * * *
1504184 TGCCATCAACTTAG-GT-GGCTTTAAAAAGAAAAAAGAAATGCGTCCTGCTCTTTAAGAACTAAA
1 TGCCACCAGCTT-GTGTGGGCTTTAAAAAGAAAAAA-AAA-GCATCCTGCTCTTTGAGGACT-AA
*
1504247 AAGATAAAAAGGG
62 AAG-GAAAAAGGG
* * * *
1504260 TGCCACCAACTTATGTAGGCTTTGAAAAAGAAAAAAAAA-CATCCTGCTCTTTTAGGACT-----
1 TGCCACCAGCTTGTGTGGGCTTT-AAAAAGAAAAAAAAAGCATCCTGCTCTTTGAGGACTAAAAG
1504319 --AAAA-GG
65 GAAAAAGGG
* * * * *
1504325 TGCCACTAGCTTGTGTGAGCATTAAAAAG---AAAAAGGCATCCTACTCTTTGAGGACT------
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAAAAAGCATCCTGCTCTTTGAGGACTAAAAGG
1504381 -AAAA-GG
66 AAAAAGGG
* * * *
1504387 TGCCACCAGCTTTTGTGGGCTTT-AAATGAAAAAGAAAAGCGTCCTGCTATTTGAGGACTAAAA
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAA-AAAAGCATCCTGCTCTTTGAGGACTAAAA
1504450 AAAGGTAAAA
Statistics
Matches: 342, Mismatches: 49, Indels: 52
0.77 0.11 0.12
Matches are distributed among these distances:
61 9 0.03
62 43 0.13
64 8 0.02
65 40 0.12
66 4 0.01
71 3 0.01
72 59 0.17
73 12 0.04
74 25 0.07
75 71 0.21
76 28 0.08
77 28 0.08
78 12 0.04
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (73 bp):
TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAAAAAGCATCCTGCTCTTTGAGGACTAAAAGG
AAAAAGGG
Found at i:1504366 original size:62 final size:64
Alignment explanation
Indices: 1504286--1504449 Score: 201
Period size: 62 Copynumber: 2.6 Consensus size: 64
1504276 AGGCTTTGAA
* *
1504286 AAAGAAAAA-AAAA-CATCCTGCTCTTTTAGGACTAAAAGGTGCCACTAGCTTGTGTGAGCATT
1 AAAGAAAAAGAAAAGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGAGCATT
* * * * * *
1504348 AAA-AAGAA-AAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAGCTTTTGTGGGCTTT
1 AAAGAAAAAGAAAAGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGAGCATT
* *
1504410 AAATGAAAAAGAAAAGCGTCCTGCTATTTGAGGACTAAAA
1 AAA-GAAAAAGAAAAGCATCCTGCTCTTTGAGGACTAAAA
1504450 AAAGGTAAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
61 7 0.08
62 49 0.58
64 4 0.05
65 25 0.29
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (64 bp):
AAAGAAAAAGAAAAGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGAGCATT
Found at i:1505449 original size:15 final size:14
Alignment explanation
Indices: 1505429--1505461 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
1505419 TGGTTCTTTC
1505429 TTTTTTGTTTTTGTT
1 TTTTTTGTTTTT-TT
1505444 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
1505458 TTTT
1 TTTT
1505462 GGGTCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (14 bp):
TTTTTTGTTTTTTT
Found at i:1511358 original size:148 final size:148
Alignment explanation
Indices: 1511090--1511388 Score: 571
Period size: 148 Copynumber: 2.0 Consensus size: 148
1511080 AAACATTCTT
1511090 TCTAGGTCTAATTTAGCATGAATGCTAGATTTAAATTGCTCTTCAATCCCACCACCAAGTATGAC
1 TCTAGGTCTAATTTAGCATGAATGCTAGATTTAAATTGCTCTTCAATCCCACCACCAAGTATGAC
*
1511155 TACATCTGCGAAGCTCTTTGGAAAGGTCCTTGGCACTTTTCCATAATAAAGAGTTTGTCAGTAAG
66 TACATCTGCGAAGCTCTTTGGAAAGGTCCTTGGCACTTTTCCATAATAAAGAGTTTGTCAGCAAG
1511220 GGATCGATCTAGGCAGCC
131 GGATCGATCTAGGCAGCC
*
1511238 TCTAGGTCTAATTTAGCATGAATGCTAGATTTAAATTGCTCTTTAATCCCACCACCAAGTATGAC
1 TCTAGGTCTAATTTAGCATGAATGCTAGATTTAAATTGCTCTTCAATCCCACCACCAAGTATGAC
1511303 TACATCTGCGAAGCTCTTTGGAAAGGTCCTTGGCACTTTTCCATAATAAAGAGTTTGTCAGCAAG
66 TACATCTGCGAAGCTCTTTGGAAAGGTCCTTGGCACTTTTCCATAATAAAGAGTTTGTCAGCAAG
*
1511368 GGATCGATTTAGGCAGCC
131 GGATCGATCTAGGCAGCC
1511386 TCT
1 TCT
1511389 TCCATCCACC
Statistics
Matches: 148, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
148 148 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (148 bp):
TCTAGGTCTAATTTAGCATGAATGCTAGATTTAAATTGCTCTTCAATCCCACCACCAAGTATGAC
TACATCTGCGAAGCTCTTTGGAAAGGTCCTTGGCACTTTTCCATAATAAAGAGTTTGTCAGCAAG
GGATCGATCTAGGCAGCC
Found at i:1514905 original size:20 final size:20
Alignment explanation
Indices: 1514880--1514933 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
1514870 GTTACAAGTA
1514880 ATGTATCGATACAAT-T-CAT
1 ATGTATCGATACAATGTAC-T
1514899 CATGTATCGATACAATGTACT
1 -ATGTATCGATACAATGTACT
1514920 ATGTATCGATACAA
1 ATGTATCGATACAA
1514934 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.91
21 2 0.06
22 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACT
Found at i:1515020 original size:13 final size:13
Alignment explanation
Indices: 1515002--1515028 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1514992 TACAATGATC
1515002 ATGTATCGATACA
1 ATGTATCGATACA
1515015 ATGTATCGATACA
1 ATGTATCGATACA
1515028 A
1 A
1515029 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1515044 original size:33 final size:32
Alignment explanation
Indices: 1514983--1515046 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
1514973 AAAATTGTCC
* *
1514983 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
1515015 ATGTATCGATACAAAGCATAATGTATCGATAC
1 ATGTATCGATACAAAG-ATAATGTATCGATAC
1515047 TTCTGGATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:1516801 original size:145 final size:145
Alignment explanation
Indices: 1516538--1516827 Score: 528
Period size: 145 Copynumber: 2.0 Consensus size: 145
1516528 TATCGATCAT
1516538 GTGGTGGAAGGCGAGTAGCTTTGTTTAAGGGAACTCTCATGTTACGAGGAGCCGTCCCCTCTTTG
1 GTGGTGGAAGGCGAGTAGCTTTGTTTAAGGGAACTCTCATGTTACGAGGAGCCGTCCCCTCTTTG
*
1516603 GTCTCTCCCTCACATGGCATGTTAAGAGTGCCGACTAGAATGGAGGGGGTAAGGACTAAGTCTTG
66 GTCTCTCCCTCACATGGCATGTTAAGAGTGCAGACTAGAATGGAGGGGGTAAGGACTAAGTCTTG
1516668 ACCCATAAGATAGGA
131 ACCCATAAGATAGGA
* *
1516683 GTGGTGGAAGGCGAGTGGCTTTGTTTAAGGGAACTCTCATGTTACGAGGAGTCGTCCCCTCTTTG
1 GTGGTGGAAGGCGAGTAGCTTTGTTTAAGGGAACTCTCATGTTACGAGGAGCCGTCCCCTCTTTG
*
1516748 GTCTCTCCTTCACATGGCATGTTAAGAGTGTCAG-CTAGAATGGAGGGGGTAAGGACTAAGTCTT
66 GTCTCTCCCTCACATGGCATGTTAAGAGTG-CAGACTAGAATGGAGGGGGTAAGGACTAAGTCTT
1516812 GACCCATAAGATAGGA
130 GACCCATAAGATAGGA
1516828 ACGAATAGCA
Statistics
Matches: 140, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
145 138 0.99
146 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.27
Consensus pattern (145 bp):
GTGGTGGAAGGCGAGTAGCTTTGTTTAAGGGAACTCTCATGTTACGAGGAGCCGTCCCCTCTTTG
GTCTCTCCCTCACATGGCATGTTAAGAGTGCAGACTAGAATGGAGGGGGTAAGGACTAAGTCTTG
ACCCATAAGATAGGA
Found at i:1517673 original size:13 final size:13
Alignment explanation
Indices: 1517655--1517681 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1517645 ATAGTAACCC
1517655 ATGTATCGATACA
1 ATGTATCGATACA
1517668 ATGTATCGATACA
1 ATGTATCGATACA
1517681 A
1 A
1517682 GGAATGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1525821 original size:123 final size:124
Alignment explanation
Indices: 1525606--1526617 Score: 1216
Period size: 123 Copynumber: 8.2 Consensus size: 124
1525596 ATTTTAGCCT
* * * * * *
1525606 TTTAGTCCTCAAAAAGTAGGATGCCTTTTTCCTTTTTCAAAGCCCATAAGAGTTGGTGACACCCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTT-C-TTTTCAAAGCCCACACGAGTTGGTGGCACCCT
* * * *
1525671 TTAGTCCTCAAAGAGTAGAACGTCTTTTTCCTTTTCAAAGCCCACACGAGTTGGTAGCACCC
64 TTAGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * *
1525733 TTTAGTCCTCGAAGAGCAGGACGCCTTTTTCTTTTC-AAGCCCACATGAGTTAGTGGCA-CCTTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* * * *
1525796 AGTCTTTAAAGAGCAGGACGCCTTTTTTTTTTCACAG-CCACACGAGTTGGTGGCACCC
66 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * **
1525854 TTTAGTCCTCAAGGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCACCCTTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* ** * *
1525919 AGTCCTCAAAGAGCAAGATACTTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCC
66 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * ** *
1525978 TTTAGTCTTCAAAGAGCAAGACGATTTTTTCTTTTC-AAGCCCACCCGAGTTGGTGGCA-CCTTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* * **
1526041 AGTCCTCAAAAAGTAGGACATCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
66 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
** * *
1526100 TTTAGTCCTCAAAGAGCAATATGCCTTTTT-TGTTTTAAAGCCCACACGAGTTGGTGGCA-CCTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCT-TTTCAAAGCCCACACGAGTTGGTGGCACCCTT
* * *
1526163 CTAGTCCTCAAAGAGCAGGATGCC-TTTTCGTTTCAAAGCCTACACGAGTTGGTGGCACCC
65 -TAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * ** *
1526223 TTTAATCCTCAAAAAGCAAGATTCCTTTGTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
** * *
1526288 AGTTTTCAAAGAGCAGGACACCTTTTT-TTCGT-AAAGCCCACACGAGTTGGTGGCACCC
66 AGTCCTCAAAGAGCAGGACGCCTTTTTCTT-TTCAAAGCCCACACGAGTTGGTGGCACCC
* * ** * * *
1526346 TTTAGTCCTAAAAAAATAGGACGTCTTTTTCCTTTTTAAAAGCCCACACGAGTTGGTGGCACCTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTT-C-TTTTCAAAGCCCACACGAGTTGGTGGCACCCT
* * * *
1526411 TTAGTCCTCAAAGAGTAGGATGCCTTTTTCCTTTTCAAAGCCCACACAAGTTGGGGGCACCC
64 TTAGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * *
1526473 TTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGGGTTGGTGGCACCCTTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* * * * *
1526538 AGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCTACACGAGTTGGTGGCACCT
66 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* *
1526597 TTTAGTCCTCAAGGAGTAGGA
1 TTTAGTCCTCAAAGAGCAGGA
1526618 TATTTTCCTT
Statistics
Matches: 764, Mismatches: 106, Indels: 33
0.85 0.12 0.04
Matches are distributed among these distances:
121 54 0.07
122 113 0.15
123 256 0.34
124 144 0.19
125 117 0.15
126 3 0.00
127 77 0.10
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (124 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
Found at i:1525921 original size:62 final size:62
Alignment explanation
Indices: 1525606--1526618 Score: 1218
Period size: 62 Copynumber: 16.4 Consensus size: 62
1525596 ATTTTAGCCT
* * * * *
1525606 TTTAGTCCTCAAAAAGTAGGATGCCTTTTTCCTTTTTCAAAGCCCATAAGAGTTGGTGACACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTT-C-TTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * *
1525670 TTTAGTCCTCAAAGAGTAGAACGTCTTTTTCCTTTTCAAAGCCCACACGAGTTGGTAGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * *
1525733 TTTAGTCCTCGAAGAGCAGGACGCCTTTTTCTTTTC-AAGCCCACATGAGTTAGTGGCA-CC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * *
1525793 TTTAGTCTTTAAAGAGCAGGACGCCTTTTTTTTTTCACAG-CCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* **
1525854 TTTAGTCCTCAAGGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * *
1525916 TTTAGTCCTCAAAGAGCAAGATACTTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * ** *
1525978 TTTAGTCTTCAAAGAGCAAGACGATTTTTTCTTTTC-AAGCCCACCCGAGTTGGTGGCA-CC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * ***
1526038 TTTAGTCCTCAAAAAGTAGGACATCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
** *
1526100 TTTAGTCCTCAAAGAGCAATATGCCTTTTT-TGTTTTAAAGCCCACACGAGTTGGTGGCA-CC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCT-TTTCAAAGCCCACACGAGTTGGTGGCACCC
* *
1526161 TTCTAGTCCTCAAAGAGCAGGATGCC-TTTTCGTTTCAAAGCCTACACGAGTTGGTGGCACCC
1 TT-TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * *
1526223 TTTAATCCTCAAAAAGCAAGATTCCTTTGTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
** ** *
1526285 TTTAGTTTTCAAAGAGCAGGACACCTTTTT-TTCGT-AAAGCCCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTT-TTCAAAGCCCACACGAGTTGGTGGCACCC
* * ** * * * *
1526346 TTTAGTCCTAAAAAAATAGGACGTCTTTTTCCTTTTTAAAAGCCCACACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTT-C-TTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * *
1526410 TTTAGTCCTCAAAGAGTAGGATGCCTTTTTCCTTTTCAAAGCCCACACAAGTTGGGGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* ** *
1526473 TTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGGGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * *
1526535 TTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCTACACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* *
1526597 TTTAGTCCTCAAGGAGTAGGAT
1 TTTAGTCCTCAAAGAGCAGGAT
1526619 ATTTTCCTTT
Statistics
Matches: 823, Mismatches: 111, Indels: 32
0.85 0.11 0.03
Matches are distributed among these distances:
60 81 0.10
61 201 0.24
62 350 0.43
63 109 0.13
64 82 0.10
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (62 bp):
TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
Found at i:1526082 original size:184 final size:185
Alignment explanation
Indices: 1525606--1526683 Score: 1160
Period size: 184 Copynumber: 5.8 Consensus size: 185
1525596 ATTTTAGCCT
* * * * * * *
1525606 TTTAGTCCTCAAAAAGTAGGATGCCTTTTTCCTTTTTCAAAGCCCATAAGAGTTGGTGACACCCT
1 TTTAGTCCTCAAAGAGCAGGA--CGTTTTTTC-TTTTC-AAGCCCACACGAGTTGGTGGCACCCT
* * * *
1525671 TTAGTCCTCAAAGAGTAGAACGTCTTTTTCCTTTTCAAAGCCCACACGAGTTGGTAGCACCCTTT
62 TTAGTCCTCAAAGAGTAGGATGTCTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTT
* * * * *
1525736 AGTCCTCGAAGAGCAGGACGCCTTTTTCTTTTC-AAGCCCACATGAGTTAGTGGCA-CC
127 AGTCCTCAAAGAGCAGGACACTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* *
1525793 TTTAGTCTTTAAAGAGCAGGACGCCTTTTTT-TTTTCACAG-CCACACGAGTTGGTGGCACCCTT
1 TTTAGTCCTCAAAGAGCAGGACG--TTTTTTCTTTTCA-AGCCCACACGAGTTGGTGGCACCCTT
* * * *
1525856 TAGTCCTCAAGGAGCAGGATGCCTTTTT-CTTTTCAAAGCCCACATAAGTTGGTGGCACCCTTTA
63 TAGTCCTCAAAGAGTAGGATGTCTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTA
* * *
1525920 GTCCTCAAAGAGCAAGATACTTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCC
128 GTCCTCAAAGAGCAGGACACTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * *
1525978 TTTAGTCTTCAAAGAGCAAGACGATTTTTTCTTTTCAAGCCCACCCGAGTTGGTGGCA-CCTTTA
1 TTTAGTCCTCAAAGAGCAGGACG-TTTTTTCTTTTCAAGCCCACACGAGTTGGTGGCACCCTTTA
* ** *
1526042 GTCCTCAAAAAGTAGGACATCTTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGT
65 GTCCTCAAAGAGTAGGATGTCTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGT
** *
1526106 CCTCAAAGAGCAATATGC-CTTTTTTGTTTT-AAAGCCCACACGAGTTGGTGGCA-CC
130 CCTCAAAGAGCAGGA--CACTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* ** * *
1526161 TTCTAGTCCTCAAAGAGCAGGATGCCTTTTCGTTTCAAAGCCTACACGAGTTGGTGGCACCCTTT
1 TT-TAGTCCTCAAAGAGCAGGACGTTTTTTCTTTTC-AAGCCCACACGAGTTGGTGGCACCCTTT
* * * * * *
1526226 AATCCTCAAAAAGCAAGAT-TCCTTTGT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTA
64 AGTCCTCAAAGAGTAGGATGT-CTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTA
** **
1526289 GTTTTCAAAGAGCAGGACACCTTTTTT-TCGT-AAAGCCCACACGAGTTGGTGGCACCC
128 GTCCTCAAAGAGCAGGACA-CTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * ** * *
1526346 TTTAGTCCTAAAAAAATAGGACGTCTTTTTCCTTTTTAAAAGCCCACACGAGTTGGTGGCACCTT
1 TTTAGTCCTCAAAGAGCAGGACGT-TTTTT-C-TTTT-CAAGCCCACACGAGTTGGTGGCACCCT
* *
1526411 TTAGTCCTCAAAGAGTAGGATGCCTTTTTCCTTTTCAAAGCCCACACAAGTTGGGGGCACCCTTT
62 TTAGTCCTCAAAGAGTAGGATGTCTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTT
* * *
1526476 AGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGGGTTGGTGGCACCC
127 AGTCCTCAAAGAGCAGGACACTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * * *
1526535 TTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCTACACGAGTTGGTGGCACCTTTT
1 TTTAGTCCTCAAAGAGCAGGACG-TTTTTTC-TTTTCAAGCCCACACGAGTTGGTGGCACCCTTT
* * * * * *
1526600 AGTCCTCAAGGAGTAGGATATTTTCCTTTCCCCTTTT-AAAGCCCACACAAGTTGGTGTCATCTT
64 AGTCCTCAAAGAGTAGGATGTCTT--TTT--CCTTTTCAAAGCCCACACAAGTTGGTGGCACCCT
* *
1526664 TTACTCTTCAAAGAGCAGGA
125 TTAGTCCTCAAAGAGCAGGA
1526684 GGCACTTCAT
Statistics
Matches: 759, Mismatches: 103, Indels: 55
0.83 0.11 0.06
Matches are distributed among these distances:
183 74 0.10
184 249 0.33
185 154 0.20
186 1 0.00
187 125 0.16
188 58 0.08
189 52 0.07
190 40 0.05
191 6 0.01
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (185 bp):
TTTAGTCCTCAAAGAGCAGGACGTTTTTTCTTTTCAAGCCCACACGAGTTGGTGGCACCCTTTAG
TCCTCAAAGAGTAGGATGTCTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTC
CTCAAAGAGCAGGACACTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
Found at i:1526788 original size:38 final size:38
Alignment explanation
Indices: 1526738--1526810 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
1526728 ACACATTTCA
*
1526738 TTTCCTTTTTCCTTTGT-CTTCAAAGAGCAAAACACCTT
1 TTTCCTTTTTCCTTTGTCCTT-AAAAAGCAAAACACCTT
* *
1526776 TTTCTTTTTTCCTTTGTCCTTAAAAAGCAAGACAC
1 TTTCCTTTTTCCTTTGTCCTTAAAAAGCAAAACAC
1526811 ATTCCGTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 28 0.90
39 3 0.10
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (38 bp):
TTTCCTTTTTCCTTTGTCCTTAAAAAGCAAAACACCTT
Found at i:1526880 original size:42 final size:42
Alignment explanation
Indices: 1526671--1527385 Score: 605
Period size: 42 Copynumber: 17.2 Consensus size: 42
1526661 CTTTTACTCT
* *
1526671 TCAAAGAGCAGGAGGCACTTCATTTCCTTCTTTTCCCTTTTGTCC
1 TCAAAGAGCAGGACGCACTTTATTTCCTT-TTTT-CC-TTTGTCC
* * * *
1526716 TCAAGGATCAGGACACA-TTTCATTTCC-TTTTTCCTTTGTCT
1 TCAAAGAGCAGGACGCACTTT-ATTTCCTTTTTTCCTTTGTCC
** *
1526757 TCAAAGAGCA--AAACACCTT-TTT-CTTTTTTCCTTTGTCC
1 TCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCC
* * * * ** *
1526795 TTAAAAAGCAAGACACA-TTCCGTTTCCTTCTTTTTCCTTTATCC
1 TCAAAGAGCAGGACGCACTT-TATTTCC-T-TTTTTCCTTTGTCC
* * * ** *
1526839 TTAACGAGTAGGGTGCACTTTATTTCCTTTTTTCCTTTATCC
1 TCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCC
*
1526881 TCAAAGAGCAGGACACACTTTATTTCCTTCTTTTCCTTTGTCC
1 TCAAAGAGCAGGACGCACTTTATTTCCTT-TTTTCCTTTGTCC
* * * * *
1526924 TCAAAGAGTATGATGCA---T-TTTCCTTTTTTGCTTTTATCC
1 TCAAAGAGCAGGACGCACTTTATTTCCTTTTTT-CCTTTGTCC
* * * *
1526963 TCAAAGAGTAGGACGCATTTTATTTCCTTCTCTCCTTTGTCC
1 TCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCC
*
1527005 TCAAAGAGCAGGATGCA-TTTCATTTCCTTCTTCTT-CTTTGTCC
1 TCAAAGAGCAGGACGCACTTT-ATTTCCTT-TT-TTCCTTTGTCC
** * *
1527048 TCAAAGAGCAGGACATACTTCATTTCCTTTTTTCCTTTATCC
1 TCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCC
*
1527090 TCAAAGAGCAGGACGCAC-----TT--TTTTTTCCCTTGTCC
1 TCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCC
* * *
1527125 TCAAAGATCAGGACGCACTTTATTTCCTTCTCTCCTTTGTCC
1 TCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCC
* * *
1527167 TCAAAGAGCAGGACGCACTTCATTTCCTTCATTTCCCTTTTATCC
1 TCAAAGAGCAGGACGCACTTTATTTCCTT--TTTTCC-TTTGTCC
**
1527212 TCAAAGAATAGGACGCACTTTATTT-CTTTTTTCCTTTTGTCC
1 TCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCC-TTTGTCC
* *
1527254 TCAAAGAGCAGGATGCACTTTATTTCC-TTTTCCCTTTGTCC
1 TCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCC
* *
1527295 TCAAAGAGCAGGATGCACTTTATTTCC-TTTTCCCTTTGTCC
1 TCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCC
** * * *
1527336 TCGAAA-AATATGACACACTTAATTTCCTTATTTTCCTTTGTCC
1 TC-AAAGAGCAGGACGCACTTTATTTCCTT-TTTTCCTTTGTCC
1527379 TCAAAGA
1 TCAAAGA
1527386 CTAGGATGTA
Statistics
Matches: 549, Mismatches: 84, Indels: 76
0.77 0.12 0.11
Matches are distributed among these distances:
35 30 0.05
37 3 0.01
38 28 0.05
39 34 0.06
40 9 0.02
41 87 0.16
42 182 0.33
43 87 0.16
44 40 0.07
45 49 0.09
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (42 bp):
TCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCC
Found at i:1527126 original size:35 final size:36
Alignment explanation
Indices: 1527075--1527337 Score: 159
Period size: 41 Copynumber: 6.5 Consensus size: 36
1527065 CTTCATTTCC
* *
1527075 TTTTTTCCTTTATCCTCAAAGAGCAGGACGCACTT-
1 TTTTTTCCCTTGTCCTCAAAGAGCAGGACGCACTTA
*
1527110 TTTTTTCCCTTGTCCTCAAAGATCAGGACGCACTTTA
1 TTTTTTCCCTTGTCCTCAAAGAGCAGGACGCAC-TTA
1527147 TTTCCTTCTCTCCTTTGTCCTCAAAGAGCAGGACGCACTTCA
1 TTT--TT-TC-CC-TTGTCCTCAAAGAGCAGGACGCACTT-A
* **
1527189 TTTCCTTCATTTCCCTTTTATCCTCAAAGAATAGGACGCACTTTA
1 --T--TT--TTTCCC--TTGTCCTCAAAGAGCAGGACGCAC-TTA
* *
1527234 TTTCTTTTTTCCTTTTGTCCTCAAAGAGCAGGATGCACTTTA
1 ----TTTTTTCC-CTTGTCCTCAAAGAGCAGGACGCAC-TTA
*
1527276 TTTCCTTTTCCCTTTGTCCTCAAAGAGCAGGATGCACTTTA
1 -TT--TTTTCCC-TTGTCCTCAAAGAGCAGGACGCAC-TTA
1527317 TTTCCTTTTCCCTTTGTCCTC
1 -TT--TTTTCCC-TTGTCCTC
1527338 GAAAAATATG
Statistics
Matches: 192, Mismatches: 16, Indels: 34
0.79 0.07 0.14
Matches are distributed among these distances:
35 30 0.16
36 2 0.01
37 3 0.02
39 4 0.02
40 2 0.01
41 59 0.31
42 48 0.25
43 5 0.03
44 3 0.02
45 27 0.14
46 7 0.04
47 2 0.01
ACGTcount: A:0.19, C:0.28, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTTTTCCCTTGTCCTCAAAGAGCAGGACGCACTTA
Found at i:1527150 original size:77 final size:79
Alignment explanation
Indices: 1526701--1527337 Score: 462
Period size: 85 Copynumber: 7.7 Consensus size: 79
1526691 CATTTCCTTC
* * * *
1526701 TTTTCCCTTTTGTCCTCAAGGATCAGGACACA-TTTCATTTCC-TTTTTCCTTTGTCTTCAAAGA
1 TTTTCCC-TTTGTCCTCAAAGAGCAGGACGCACTTT-ATTTCCTTTTTTCCTTTGTCCTCAAAGA
** *
1526764 GCAAAACAC-CTTTTTCT
64 GCAGGACGCAC-TTTT-T
* * * * * ** * * *
1526781 TTTTTCCTTTGTCCTTAAAAAGCAAGACACA-TTCCGTTTCCTTCTTTTTCCTTTATCCTTAACG
1 TTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTT-TATTTCC-T-TTTTTCCTTTGTCCTCAAAG
* **
1526845 AGTAGGGTGCACTTTATTTCCT
63 AGCAGGACGCAC--T-TTT--T
* * *
1526867 TTTTTCCTTTATCCTCAAAGAGCAGGACACACTTTATTTCCTTCTTTTCCTTTGTCCTCAAAGAG
1 TTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTT-TTTTCCTTTGTCCTCAAAGAG
* * * *
1526932 TATGATGCATTTTCCTT
65 CAGGACGCACTTT--TT
* * * * * * *
1526949 TTTTGCTTTTATCCTCAAAGAGTAGGACGCATTTTATTTCCTTCTCTCCTTTGTCCTCAAAGAGC
1 TTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCCTCAAAGAGC
* *
1527014 AGGATGCATTTCATTT
66 AGGACGCACTT--TTT
* ** * *
1527030 CCTTCTTCTTCTTTGTCCTCAAAGAGCAGGACATACTTCATTTCCTTTTTTCCTTTATCCTCAAA
1 --TT-TTC-CCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCCTCAAA
1527095 GAGCAGGACGCAC-TTTT
62 GAGCAGGACGCACTTTTT
* * *
1527112 TTTTCCC-TTGTCCTCAAAGATCAGGACGCACTTTATTTCCTTCTCTCCTTTGTCCTCAAAGAGC
1 TTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCCTCAAAGAGC
1527176 AGGACGCACTTCATTTCCT
66 AGGACGCAC-T--TTT--T
* **
1527195 TCATTTCCCTTTTATCCTCAAAGAATAGGACGCACTTTATTT-CTTTTTTCCTTTTGTCCTCAAA
1 T--TTTCCC-TTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCC-TTTGTCCTCAAA
*
1527259 GAGCAGGATGCACTTTATTT
62 GAGCAGGACGCAC-TT-TTT
* *
1527279 CCTTTTCCCTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCC-TTTTCCCTTTGTCCTC
1 --TTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCCTC
1527338 GAAAAATATG
Statistics
Matches: 452, Mismatches: 72, Indels: 64
0.77 0.12 0.11
Matches are distributed among these distances:
77 59 0.13
78 1 0.00
79 29 0.06
80 8 0.02
81 34 0.08
82 73 0.16
83 41 0.09
84 15 0.03
85 92 0.20
86 44 0.10
87 56 0.12
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (79 bp):
TTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTTTTTCCTTTGTCCTCAAAGAGC
AGGACGCACTTTTT
Found at i:1527152 original size:162 final size:165
Alignment explanation
Indices: 1526671--1527385 Score: 682
Period size: 167 Copynumber: 4.3 Consensus size: 165
1526661 CTTTTACTCT
* * * * *
1526671 TCAAAGAGCAGGAGGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAGGATCAGGACACATTT
1 TCAAAGAGCAGGATGCACTTCATTTCCTTCTTTT-CCTTTTATCCTCAAAGAGCAGGACACACTT
* ** * * *
1526736 CATTTCC-TTTTTCCTTTGTCTTCAAAGAGCAAAACAC-CTTTTTCTTTTTTCCTTTGTCCTTAA
65 CATTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCAC--TTTCTTTTTTCCCTTGTCCTCAA
* * * ** * *
1526799 AAAGCAAGACACA-TTCCGTTTCCTTCTTTTTCCTTTATCC
128 AGAGCAGGACGCACTT-TATTTCCTTC--TCTCCTTTGTCC
* * * * * *
1526839 TTAACGAGTAGGGTGCACTTTATTTCCTT-TTTTCC-TTTATCCTCAAAGAGCAGGACACACTTT
1 TCAAAGAGCAGGATGCACTTCATTTCCTTCTTTTCCTTTTATCCTCAAAGAGCAGGACACACTTC
* * * * ** *
1526902 ATTTCCTTCTTTTCCTTTGTCCTCAAAGAGTATGATGCATTTTCCTTTTTTGCTTTTATCCTCAA
66 ATTTCCTT-TTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTT-CTTTTTT-CCCTTGTCCTCAA
* *
1526967 AGAGTAGGACGCATTTTATTTCCTTCTCTCCTTTGTCC
128 AGAGCAGGACGCACTTTATTTCCTTCTCTCCTTTGTCC
* * *
1527005 TCAAAGAGCAGGATGCATTTCATTTCCTTCTTCTT-C-TTTGTCCTCAAAGAGCAGGACATACTT
1 TCAAAGAGCAGGATGCACTTCATTTCCTTCTT-TTCCTTTTATCCTCAAAGAGCAGGACACACTT
*
1527068 CATTTCCTTTTTTCCTTTATCCTCAAAGAGCAGGACGCAC-TT-TTTTTTCCCTTGTCCTCAAAG
65 CATTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTTCTTTTTTCCCTTGTCCTCAAAG
*
1527131 ATCAGGACGCACTTTATTTCCTTCTCTCCTTTGTCC
130 AGCAGGACGCACTTTATTTCCTTCTCTCCTTTGTCC
* * ** *
1527167 TCAAAGAGCAGGACGCACTTCATTTCCTTCATTTCCCTTTTATCCTCAAAGAATAGGACGCACTT
1 TCAAAGAGCAGGATGCACTTCATTTCCTTC-TTTTCCTTTTATCCTCAAAGAGCAGGACACACTT
* * *
1527232 TATTT-CTTTTTTCCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCCCTTTGTCCT
65 CATTTCCTTTTTTCC-TTTGTCCTCAAAGAGCAGGACGCACTTT-CTT--TTTTCCC-TTGTCCT
* *
1527296 CAAAGAGCAGGATGCACTTTATTTCCTTTTC-CCTTTGTCC
125 CAAAGAGCAGGACGCACTTTATTTCCTTCTCTCCTTTGTCC
** * ** * * *
1527336 TCGAAA-AATATGACACACTTAATTTCCTTATTTTCC-TTTGTCCTCAAAGA
1 TC-AAAGAGCAGGATGCACTTCATTTCCTTCTTTTCCTTTTATCCTCAAAGA
1527386 CTAGGATGTA
Statistics
Matches: 457, Mismatches: 71, Indels: 39
0.81 0.13 0.07
Matches are distributed among these distances:
162 74 0.16
163 18 0.04
164 49 0.11
165 33 0.07
166 65 0.14
167 85 0.19
168 57 0.12
169 38 0.08
170 38 0.08
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (165 bp):
TCAAAGAGCAGGATGCACTTCATTTCCTTCTTTTCCTTTTATCCTCAAAGAGCAGGACACACTTC
ATTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTTCTTTTTTCCCTTGTCCTCAAAGA
GCAGGACGCACTTTATTTCCTTCTCTCCTTTGTCC
Found at i:1527199 original size:128 final size:124
Alignment explanation
Indices: 1526671--1527323 Score: 446
Period size: 124 Copynumber: 5.2 Consensus size: 124
1526661 CTTTTACTCT
* * * * * * *
1526671 TCAAAGAGCAGGAGGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAGGATCAGGACACATTT
1 TCAAAGAGCAGGACGCACTTCATTTCCTTCATTTCCCCTTTATCCTCAAAGAACAGGACGCA---
* * ** * * * *
1526736 CATTTCCTTTTTCCT-TTGTCTTCAAAGAGCA--AAACACCTT-TTTCTTTTTTCCTTTGTCC
63 C-TTTCTTTTTTCCTCTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTCTCCCTTTGTCC
* * * * * ** * * ** **
1526795 TTAAAAAGCAAGACACA-TTCCGTTTCCTTC-TTTTTCCTTTATCCTTAACGAGTAGGGTGCACT
1 TCAAAGAGCAGGACGCACTT-CATTTCCTTCATTTCCCCTTTATCCTCAAAGAACAGGACGCAC-
* * *
1526858 TTATTTCCTTTTTTCCT-TTATCCTCAAAGAGCAGGACACACTTTATTTCCTTCTTTTCCTTTGT
64 ---TTT-CTTTTTTCCTCTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTC--TCCCTTTGT
1526922 CC
123 CC
* * * ** * ** *
1526924 TCAAAGAGTATGATGCA--T--TTTCCTT--TTTTGCTTTTATCCTCAAAGAGTAGGACGCATTT
1 TCAAAGAGCAGGACGCACTTCATTTCCTTCATTTCCCCTTTATCCTCAAAGAACAGGACGCACTT
* * * *
1526983 TATTTCCTTCTCTCCTTTGTCCTCAAAGAGCAGGATGCA-TTTCATTTCCTTCTTCTTCTTTGTC
66 TCTTT-TTTC-CT-C-TTGTCCTCAAAGAGCAGGACGCACTTT-ATTTCCTTC-TC-CCTTTGTC
1527047 C
124 C
** * *
1527048 TCAAAGAGCAGGACATACTTCATTTCCTT--TTT-TCCTTTATCCTCAAAGAGCAGGACGCAC-T
1 TCAAAGAGCAGGACGCACTTCATTTCCTTCATTTCCCCTTTATCCTCAAAGAACAGGACGCACTT
*
1527109 T-TTTTTTCC-CTTGTCCTCAAAGATCAGGACGCACTTTATTTCCTTCTCTCCTTTGTCC
66 TCTTTTTTCCTCTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTCTC-CCTTTGTCC
* *
1527167 TCAAAGAGCAGGACGCACTTCATTTCCTTCATTTCCCTTTTATCCTCAAAGAATAGGACGCACTT
1 TCAAAGAGCAGGACGCACTTCATTTCCTTCATTTCCCCTTTATCCTCAAAGAACAGGACGCAC--
* * *
1527232 TATTTCTTTTTTCCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCCCTTTGTCC
64 --TTTCTTTTTTCCTCTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTCTCCCTTTGTCC
* *
1527295 TCAAAGAGCAGGATGCACTTTATTTCCTT
1 TCAAAGAGCAGGACGCACTTCATTTCCTT
1527324 TTCCCTTTGT
Statistics
Matches: 428, Mismatches: 69, Indels: 60
0.77 0.12 0.11
Matches are distributed among these distances:
119 41 0.10
120 37 0.09
121 9 0.02
122 24 0.06
123 32 0.07
124 121 0.28
125 10 0.02
126 10 0.02
127 32 0.07
128 55 0.13
129 57 0.13
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.41
Consensus pattern (124 bp):
TCAAAGAGCAGGACGCACTTCATTTCCTTCATTTCCCCTTTATCCTCAAAGAACAGGACGCACTT
TCTTTTTTCCTCTTGTCCTCAAAGAGCAGGACGCACTTTATTTCCTTCTCCCTTTGTCC
Found at i:1527228 original size:87 final size:85
Alignment explanation
Indices: 1527113--1527428 Score: 329
Period size: 87 Copynumber: 3.8 Consensus size: 85
1527103 CGCACTTTTT
*
1527113 TTTCCC-TTGTCCTCAAAG-ATCAGGACGCACTTTATTTCCTTCTCTCCTTTGTCCTCAAAGAGC
1 TTTCCCTTTGTCCTCAAAGAAT-AGGACGCACTTTATTTCCTTTTCTCCTTTGTCCTCAAAGAGC
*
1527176 AGGACGCACTTCATTTCCTTCA
65 AGGACGCACTTAATTTCCTT-A
* *
1527198 TTTCCCTTTTATCCTCAAAGAATAGGACGCACTTTATTT-CTTTTTTCCTTTTGTCCTCAAAGAG
1 TTTCCC-TTTGTCCTCAAAGAATAGGACGCACTTTATTTCCTTTTCTCC-TTTGTCCTCAAAGAG
* *
1527262 CAGGATGCACTTTATTTCC-T-
64 CAGGACGCACTTAATTTCCTTA
** * **
1527282 TTTCCCTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTC-CCTTTGTCCTCGAAA-AAT
1 TTTCCCTTTGTCCTCAAAGAATAGGACGCACTTTATTTCCTTTTCTCCTTTGTCCTC-AAAGAGC
* *
1527345 ATGACACACTTAATTTCCTTA
65 AGGACGCACTTAATTTCCTTA
* * * *
1527366 TTTTCCTTTGTCCTCAAAGACTA-G--G-A-TGTA-CTCC-TTT-TCCTTTGTCCTCAAAGAGCA
1 TTTCCCTTTGTCCTCAAAGAATAGGACGCACTTTATTTCCTTTTCTCCTTTGTCCTCAAAGAGCA
1527423 GGACGC
66 GGACGC
1527429 CCCTTCCTTT
Statistics
Matches: 196, Mismatches: 25, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
76 3 0.02
77 20 0.10
78 3 0.02
79 3 0.02
80 1 0.01
81 1 0.01
82 24 0.12
83 35 0.18
84 31 0.16
85 6 0.03
86 8 0.04
87 59 0.30
88 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (85 bp):
TTTCCCTTTGTCCTCAAAGAATAGGACGCACTTTATTTCCTTTTCTCCTTTGTCCTCAAAGAGCA
GGACGCACTTAATTTCCTTA
Found at i:1530136 original size:78 final size:79
Alignment explanation
Indices: 1529894--1530239 Score: 396
Period size: 79 Copynumber: 4.4 Consensus size: 79
1529884 ATTTCCGAAA
* * *
1529894 GGATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTTCATAATCGGGGATACTCCAACCC
1 GGATACTCTAACCCCGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCC
1529959 CGTTATTTTCAAGG
66 CGTTATTTTCAAGG
* * *
1529973 CGATACTCTAACCCCGATTTTATTTCCAAAACA-CTGATTTTTCATAATCTGGGATACTCCAACC
1 GGATACTCTAACCCCGATTTTATTTCCAAAACATC-GATTTTTCACAATCGGGGATACTCCAACC
*
1530037 CCGTTATTTTCAAGC
65 CCGTTATTTTCAAGG
* * * *
1530052 GAATACTCTAACCCC-AGCTTTATTT-CAAAACATCAATTTTTCACAATCAGGGATACTCCAACC
1 GGATACTCTAACCCCGA-TTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACC
* * *
1530115 TCTTTA-TTTCTGAGG
65 CCGTTATTTTC-AAGG
* * * * * *
1530130 GGATACTCTAACCTCGATTTTATTTCTAAAATATTGATCTTTCACAATCGGGGATACTCCGACCC
1 GGATACTCTAACCCCGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCC
** *
1530195 TTTTATTTTCGAGG
66 CGTTATTTTCAAGG
* *
1530209 GGATACTCTAATCCC-AGTTTTATCTCCAAAA
1 GGATACTCTAACCCCGA-TTTTATTTCCAAAA
1530240 TATTAAAGTT
Statistics
Matches: 228, Mismatches: 31, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
77 4 0.02
78 62 0.27
79 158 0.69
80 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (79 bp):
GGATACTCTAACCCCGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCC
CGTTATTTTCAAGG
Found at i:1530142 original size:157 final size:158
Alignment explanation
Indices: 1529912--1530239 Score: 426
Period size: 157 Copynumber: 2.1 Consensus size: 158
1529902 CAACCCTGAT
* * *
1529912 TTTATTTCCAAAACATCGATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCAAGGCGAT
1 TTTATTTCCAAAACATCAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTCAAGGCGAT
* * *
1529977 ACTCTAACCCCGATTTTATTTCCAAAACACTGATTTTTCATAATCTGGGATACTCCAACCCCGTT
66 ACTCTAACCCCGATTTTATTTCCAAAACACTGATCTTTCACAATCGGGGATACTCCAACCCCGTT
1530042 ATTTTCAAGCGAATACTCTAACCCCAGC
131 ATTTTCAAGCGAATACTCTAACCCCAGC
* * * *
1530070 TTTATTT-CAAAACATCAATTTTTCACAATCAGGGATACTCCAACCTCTTTA-TTTCTGAGGGGA
1 TTTATTTCCAAAACATCAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTC-AAGGCGA
* * * * * **
1530133 TACTCTAACCTCGATTTTATTTCTAAAATATTGATCTTTCACAATCGGGGATACTCCGACCCTTT
65 TACTCTAACCCCGATTTTATTTCCAAAACACTGATCTTTCACAATCGGGGATACTCCAACCCCGT
* * * * *
1530198 TATTTTCGAGGGGATACTCTAATCCCAGT
130 TATTTTCAAGCGAATACTCTAACCCCAGC
*
1530227 TTTATCTCCAAAA
1 TTTATTTCCAAAA
1530240 TATTAAAGTT
Statistics
Matches: 145, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
156 4 0.03
157 129 0.89
158 12 0.08
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (158 bp):
TTTATTTCCAAAACATCAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTCAAGGCGAT
ACTCTAACCCCGATTTTATTTCCAAAACACTGATCTTTCACAATCGGGGATACTCCAACCCCGTT
ATTTTCAAGCGAATACTCTAACCCCAGC
Found at i:1531252 original size:16 final size:15
Alignment explanation
Indices: 1531208--1531255 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
1531198 TTTTGGTTGT
*
1531208 TAAGACTTGTAAATA
1 TAAGCCTTGTAAATA
1531223 TAAGCCTTGTAAATA
1 TAAGCCTTGTAAATA
**
1531238 TAAGGTTTGGTAAATA
1 TAAGCCTT-GTAAATA
1531254 TA
1 TA
1531256 GGACATGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 20 0.69
16 9 0.31
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (15 bp):
TAAGCCTTGTAAATA
Found at i:1533628 original size:12 final size:12
Alignment explanation
Indices: 1533594--1533638 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
1533584 GTTTCTTTGT
*
1533594 GAAAGGAAAAGAA
1 GAAAAGAAAA-AA
1533607 -AAAAGAAAAAAA
1 GAAAAG-AAAAAA
1533619 GAAAAGAAAAAA
1 GAAAAGAAAAAA
1533631 GAAAAGAA
1 GAAAAGAA
1533639 TGAAAGGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 20 0.69
13 9 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAAAA
Found at i:1533988 original size:19 final size:19
Alignment explanation
Indices: 1533960--1534026 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
1533950 GGGAAAACAG
*
1533960 AAAAACAAAAAAAAAGGAA
1 AAAAAAAAAAAAAAAGGAA
* * *
1533979 AAAAATAAAAAGAAATGAA
1 AAAAAAAAAAAAAAAGGAA
1533998 AAAGAAGAAAAAAAGAAAGGAA
1 AAA-AA-AAAAAAA-AAAGGAA
1534020 GAAAAAA
1 -AAAAAA
1534027 GAAATAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 19 0.50
20 2 0.05
21 6 0.16
22 8 0.21
23 3 0.08
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAGGAA
Found at i:1533999 original size:26 final size:25
Alignment explanation
Indices: 1533970--1534037 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 25
1533960 AAAAACAAAA
1533970 AAAAAGGAAAAAAATAA-AAAGAAATG
1 AAAAA-GAAAAAAATAAGAAAGAAA-G
*
1533996 AAAAAGAAGAAAAA-AAGAAAGGAAG
1 AAAAAGAA-AAAAATAAGAAAGAAAG
*
1534021 AAAAAAGAAATAAATAA
1 -AAAAAGAAAAAAATAA
1534038 TGCAGGATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
25 10 0.28
26 26 0.72
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (25 bp):
AAAAAGAAAAAAATAAGAAAGAAAG
Found at i:1534013 original size:22 final size:23
Alignment explanation
Indices: 1533976--1534030 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
1533966 AAAAAAAAAG
* *
1533976 GAAAAAA-ATAAAAAGAAATGAA
1 GAAAAAAGAAAAAAAGAAAGGAA
*
1533998 -AAAGAAGAAAAAAAGAAAGGAA
1 GAAAAAAGAAAAAAAGAAAGGAA
1534020 GAAAAAAGAAA
1 GAAAAAAGAAA
1534031 TAAATAATGC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 5 0.19
22 13 0.48
23 9 0.33
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (23 bp):
GAAAAAAGAAAAAAAGAAAGGAA
Found at i:1534024 original size:15 final size:16
Alignment explanation
Indices: 1534001--1534030 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1533991 AAATGAAAAA
1534001 GAAGAAAAAAAGAAAG
1 GAAGAAAAAAAGAAAG
1534017 GAAG-AAAAAAGAAA
1 GAAGAAAAAAAGAAA
1534031 TAAATAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
GAAGAAAAAAAGAAAG
Found at i:1535101 original size:24 final size:24
Alignment explanation
Indices: 1535069--1535115 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1535059 CTATACCTGG
1535069 TCAAACTCTTTTTATTCCCATTTA
1 TCAAACTCTTTTTATTCCCATTTA
1535093 TCAAACTCTTTTTATTCCCATTT
1 TCAAACTCTTTTTATTCCCATTT
1535116 GACGTGATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (24 bp):
TCAAACTCTTTTTATTCCCATTTA
Found at i:1535146 original size:45 final size:45
Alignment explanation
Indices: 1535095--1535207 Score: 118
Period size: 45 Copynumber: 2.5 Consensus size: 45
1535085 CCCATTTATC
* * * * * *
1535095 AAACTCTTTTTATTCCCATTTGACGTGATGGTTTTTGCCCTGGTT
1 AAACTCTTTTCATTACCATTTGACATGATGGTTCTCGCCCTAGTT
* * * *
1535140 AAACTCTTGTCATTACTATTTGGCATTATGGTTCTCGCCCTAGTT
1 AAACTCTTTTCATTACCATTTGACATGATGGTTCTCGCCCTAGTT
*
1535185 AAACATCTTTTCATTTCCATTTG
1 AAAC-TCTTTTCATTACCATTTG
1535208 GCTGTACCTA
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
45 39 0.72
46 15 0.28
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.45
Consensus pattern (45 bp):
AAACTCTTTTCATTACCATTTGACATGATGGTTCTCGCCCTAGTT
Found at i:1535327 original size:80 final size:80
Alignment explanation
Indices: 1535140--1535448 Score: 305
Period size: 81 Copynumber: 3.8 Consensus size: 80
1535130 TGCCCTGGTT
* * * * ** * * * *
1535140 AAACTCTTGTCATTACTATTTGGCATTATGGTTCTCGCCCTAGTTAAACATCTTTTCATTTCCAT
1 AAACTCTTTTCATT-CTATTTGACGTGATGGTTCTTACCCTGGTCAAACATCTTTTCATTCCCGT
*
1535205 TTGGCTGTACCTAGTC
65 TTGACTGTACCTAGTC
** * * * * *
1535221 ATGCTCTTCTCATTCCTATTTTACGTGATGGTTCTTACCCTAGTCAAACAT-TTTGCATTCCTGT
1 AAACTCTTTTCATT-CTATTTGACGTGATGGTTCTTACCCTGGTCAAACATCTTTTCATTCCCGT
* *
1535285 TTGATTGTACCTGGTC
65 TTGACTGTACCTAGTC
* * * * *
1535301 AAACTCTTTTCATTCTTGTTTGACGTGATGTTTCTTACCTTGGTCAAACATCTTTTCGTTCCCAT
1 AAACTCTTTTCATTC-TATTTGACGTGATGGTTCTTACCCTGGTCAAACATCTTTTCATTCCCGT
1535366 TTGACTGTACCTAGTC
65 TTGACTGTACCTAGTC
* * * * *
1535382 AAACTTTTTTCACTACCATTTGACGTGATGGTTCTCACCCTGGCCAAACATCTTTTCATTCCCGT
1 AAACTCTTTTCA-TTCTATTTGACGTGATGGTTCTTACCCTGGTCAAACATCTTTTCATTCCCGT
1535447 TT
65 TT
1535449 AACTATATCT
Statistics
Matches: 183, Mismatches: 42, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
79 1 0.01
80 63 0.34
81 117 0.64
82 2 0.01
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (80 bp):
AAACTCTTTTCATTCTATTTGACGTGATGGTTCTTACCCTGGTCAAACATCTTTTCATTCCCGTT
TGACTGTACCTAGTC
Found at i:1535595 original size:81 final size:80
Alignment explanation
Indices: 1535483--1535750 Score: 272
Period size: 81 Copynumber: 3.3 Consensus size: 80
1535473 CCATTCCCTA
** * * * *
1535483 TTGACTGTATTTGGTCAAAATCTTTTCATTACAATTT-AAAGTGATGGTTCTCGCCTTGGTCAAA
1 TTGACTGTACCTGGTCAAACT-TTTTTATTACAATTTGACA-TGATGGTTCTCACCTTGGTCAAA
*
1535547 CATTTTTTCATTCCTGT
64 CATCTTTTCATTCCTGT
* * * * * * *
1535564 TTGACTCTACCTGGTCCAACTCTTTTTATTACTATTTGGCATGATGGTTCTTACCCTAGTCAAAC
1 TTGACTGTACCTGGTCAAACT-TTTTTATTACAATTTGACATGATGGTTCTCACCTTGGTCAAAC
* *
1535629 ATCTTTT-GTT-CTCAT
65 ATCTTTTCATTCCT-GT
* * * * *
1535644 TTAACTGTACCTAGTTAAACTTTTTTCATTACAATTTGACATGATAGTTCTCTCCTTGGTCAAAC
1 TTGACTGTACCTGGTCAAACTTTTTT-ATTACAATTTGACATGATGGTTCTCACCTTGGTCAAAC
1535709 ATCTTTTCATTCCTGT
65 ATCTTTTCATTCCTGT
*
1535725 TTGACTGTACATGGTCAAACTTTTTT
1 TTGACTGTACCTGGTCAAACTTTTTT
1535751 CATCCGGTTT
Statistics
Matches: 148, Mismatches: 34, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
79 7 0.05
80 57 0.39
81 81 0.55
82 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (80 bp):
TTGACTGTACCTGGTCAAACTTTTTTATTACAATTTGACATGATGGTTCTCACCTTGGTCAAACA
TCTTTTCATTCCTGT
Found at i:1535687 original size:80 final size:80
Alignment explanation
Indices: 1535541--1535798 Score: 247
Period size: 80 Copynumber: 3.2 Consensus size: 80
1535531 TCTCGCCTTG
* * * * * * * *
1535541 GTCAAACATTTTTTCATTCCTGTTTGACTCTACCTGGTCCAACTCTTTTT-ATTACTATTTGGCA
1 GTCAAACATCTTTTCATTCCTATTTAACTGTACATAGTCAAACT-TTTTTCATTACAATTTGGCA
*
1535605 TGATGGTTCTTACCCTA
65 TGATAGTTCTT-CCCTA
* * * *
1535622 GTCAAACATCTTTT-GTT-CTCATTTAACTGTACCTAGTTAAACTTTTTTCATTACAATTTGACA
1 GTCAAACATCTTTTCATTCCT-ATTTAACTGTACATAGTCAAACTTTTTTCATTACAATTTGGCA
* *
1535685 TGATAGTTCTCTCCTTG
65 TGATAGTTCT-TCCCTA
* * * * **
1535702 GTCAAACATCTTTTCATTCCTGTTTGACTGTACATGGTCAAACTTTTTTCA-TCCGGTTTGGCAT
1 GTCAAACATCTTTTCATTCCTATTTAACTGTACATAGTCAAACTTTTTTCATTACAATTTGGCAT
1535766 GATAGTTCTTGCCCTA
66 GATAGTTCTT-CCCTA
1535782 GTCAAAC-TCTTTTCATT
1 GTCAAACATCTTTTCATT
1535799 TCGGTTTGAC
Statistics
Matches: 146, Mismatches: 25, Indels: 14
0.79 0.14 0.08
Matches are distributed among these distances:
79 18 0.12
80 85 0.58
81 41 0.28
82 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (80 bp):
GTCAAACATCTTTTCATTCCTATTTAACTGTACATAGTCAAACTTTTTTCATTACAATTTGGCAT
GATAGTTCTTCCCTA
Found at i:1535704 original size:161 final size:159
Alignment explanation
Indices: 1535505--1535794 Score: 422
Period size: 161 Copynumber: 1.8 Consensus size: 159
1535495 GGTCAAAATC
* *
1535505 TTTTCATTACAATTTAAAGTGATGGTTCTCGCCTTGGTCAAACATTTTTTCATTCCTGTTTGACT
1 TTTTCATTACAATTTAAAGTGATAGTTCTCGCCTTGGTCAAACATCTTTTCATTCCTGTTTGACT
* * * *
1535570 CTACCTGGTCCAACTCTTTTT-ATTACTATTTGGCATGATGGTTCTTACCCTAGTCAAACATCTT
66 CTACATGGTCAAACT-TTTTTCA-TACGATTTGGCATGATAGTTCTTACCCTAGTCAAAC-TCTT
1535634 TTGTTCTCATTTAACTGTACCTAGTTAAACTT
128 TTGTTCTCATTTAACTGTACCTAGTTAAACTT
* *
1535666 TTTTCATTACAATTTGACA-TGATAGTTCTCTCCTTGGTCAAACATCTTTTCATTCCTGTTTGAC
1 TTTTCATTACAATTT-AAAGTGATAGTTCTCGCCTTGGTCAAACATCTTTTCATTCCTGTTTGAC
* * * *
1535730 TGTACATGGTCAAACTTTTTTCATCCGGTTTGGCATGATAGTTCTTGCCCTAGTCAAACTCTTTT
65 TCTACATGGTCAAACTTTTTTCATACGATTTGGCATGATAGTTCTTACCCTAGTCAAACTCTTTT
1535795 CATTTCGGTT
Statistics
Matches: 115, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
159 6 0.05
160 36 0.31
161 71 0.62
162 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (159 bp):
TTTTCATTACAATTTAAAGTGATAGTTCTCGCCTTGGTCAAACATCTTTTCATTCCTGTTTGACT
CTACATGGTCAAACTTTTTTCATACGATTTGGCATGATAGTTCTTACCCTAGTCAAACTCTTTTG
TTCTCATTTAACTGTACCTAGTTAAACTT
Found at i:1535830 original size:44 final size:45
Alignment explanation
Indices: 1535736--1535884 Score: 137
Period size: 44 Copynumber: 3.4 Consensus size: 45
1535726 TGACTGTACA
* * * *
1535736 TGGTCAAACTTTTTTCA-TCCGGTTTGGCATGATAGTTCTTGCCC
1 TGGTCAAACTCTTTTCATTTCGGTTTGACATGATAGTCCTTGCCC
* *
1535780 TAGTCAAACTCTTTTCATTTCGGTTTGACATGATGGTCCTTG-CC
1 TGGTCAAACTCTTTTCATTTCGGTTTGACATGATAGTCCTTGCCC
** *** *
1535824 TGGTCAAACTCCGTTCATTTTTCTTTGACGTGAT-GT--TTAGCCC
1 TGGTCAAACTCTTTTCATTTCGGTTTGACATGATAGTCCTT-GCCC
*
1535867 TGGTCAAACACTTTTCAT
1 TGGTCAAACTCTTTTCAT
1535885 CCTTGTTCGA
Statistics
Matches: 86, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 19 0.22
44 44 0.51
45 20 0.23
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (45 bp):
TGGTCAAACTCTTTTCATTTCGGTTTGACATGATAGTCCTTGCCC
Found at i:1537320 original size:163 final size:161
Alignment explanation
Indices: 1537086--1537582 Score: 420
Period size: 163 Copynumber: 3.0 Consensus size: 161
1537076 TTTTAACTTC
* * * * ** *
1537086 AAAATTCTTTAAATATTATTATTTAATTATCATTAAATCAGTTTTTCAAAATTC-TTTTTATTTC
1 AAAATTCTTTAAATA-TAATATTTAATCATC-GTAAATCAATTTTGAAAAATTCATTTAT-TTTC
* * * *
1537150 ATGAGTTTTTCATTTATCTTTTAAAATT-TTTTCGTTTTT-AAAATTTAAAGTTTTCTTCTCCGT
63 ATGAGTTTTTCATTT-TCTTTTAAAATTCTCTT-GTTTTTGAAAA-TCAAAGTTTT-TACTCCAT
* * * ** *
1537213 -AATTTTTTTAGGGAGATTTTT-T-TGTTTATAATTTTT
124 AAATGTTTATAGGGAGATTTTTCTCGGTCCA-AAATTTT
1537249 AAAATTCTTTAAATAGTAATATTTAACTCATCGTAAATCAATTTTGAAAAATTCATTTATTTTCA
1 AAAATTCTTTAAATA-TAATATTTAA-TCATCGTAAATCAATTTTGAAAAATTCATTTATTTTCA
* *
1537314 TGAGTTTTTCATTTTTTTTTTAAATTCTCTTGTTTTTGAAAATCAAAGTTTTTACTCCATAAATG
64 TGAGTTTTTCATTTTCTTTTAAAATTCTCTTGTTTTTGAAAATCAAAGTTTTTACTCCATAAATG
*
1537379 TTTATGGGGAGATTTTTCTCGGTCCAAAATTTT
129 TTTATAGGGAGATTTTTCTCGGTCCAAAATTTT
* * * ** * * *
1537412 AATATTCATCAAATATCGTCATTTAATTCATAGTAAATTAATTTTGAAAATTTCATTTATTTTCA
1 AAAATTCTTTAAATATAAT-ATTTAA-TCATCGTAAATCAATTTTGAAAAATTCATTTATTTTCA
* * * * * *
1537477 TGAGTTTTTCATTTT-TCTTTAAAATTC-CTCTATTCTCGAAAAATC-GAGTTTCTATTCCATAA
64 TGAGTTTTTCATTTTCT-TTTAAAATTCTCT-TGTTTTTG-AAAATCAAAGTTTTTACTCCATAA
* * * **
1537539 ATATTTTTGAGGG-GATTTTTCTGGGTTTAAAATTTT
126 ATGTTTAT-AGGGAGATTTTTCTCGGTCCAAAATTTT
1537575 CAAAATTC
1 -AAAATTC
1537583 ATCTAATATT
Statistics
Matches: 277, Mismatches: 44, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
161 6 0.02
162 48 0.17
163 197 0.71
164 26 0.09
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.51
Consensus pattern (161 bp):
AAAATTCTTTAAATATAATATTTAATCATCGTAAATCAATTTTGAAAAATTCATTTATTTTCATG
AGTTTTTCATTTTCTTTTAAAATTCTCTTGTTTTTGAAAATCAAAGTTTTTACTCCATAAATGTT
TATAGGGAGATTTTTCTCGGTCCAAAATTTT
Done.