Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 55 of 82
Found at i:20095840 original size:20 final size:20
Alignment explanation
Indices: 20095815--20095862 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
20095805 GGGTTTTTAT
20095815 GTGGGAACTCTAGTTGTGAG
1 GTGGGAACTCTAGTTGTGAG
20095835 GTGGGAACTCTAGTTGTGAG
1 GTGGGAACTCTAGTTGTGAG
*
20095855 GTGTGAAC
1 GTGGGAAC
20095863 CGCGGCACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.10, G:0.40, T:0.29
Consensus pattern (20 bp):
GTGGGAACTCTAGTTGTGAG
Found at i:20102230 original size:43 final size:43
Alignment explanation
Indices: 20102140--20102261 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 43
20102130 TGACTCAACT
**
20102140 ATGTGCGAGTAGGGAGTGCGCATAAGC-CGAG-GATGACCCGATT
1 ATGTGCGAGTAGGGAGTGCGCATAA-CTCG-GTGATGACCCGACC
*
20102183 ATGTGCGAGTAGGGAGTGCACATAACTCGGTGATGACCC-AGCC
1 ATGTGCGAGTAGGGAGTGCGCATAACTCGGTGATGACCCGA-CC
* *
20102226 ATGTGTGAGTTA-GGAGTGCGCATGAGCT-GGTGATGA
1 ATGTGCGAG-TAGGGAGTGCGCAT-AACTCGGTGATGA
20102262 TGATGATGAT
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 3 0.04
43 60 0.88
44 5 0.07
ACGTcount: A:0.25, C:0.17, G:0.37, T:0.21
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAACTCGGTGATGACCCGACC
Found at i:20102709 original size:60 final size:60
Alignment explanation
Indices: 20102585--20102711 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
20102575 CTGCAGCGAG
* * * * * *
20102585 AAACTTTTTGTTTCTGGGTTACAATTTCGCTGCAGCGAAATTCATTCTCGTTGCAATAAG
1 AAACTTTCTGTTTCTAGGTTACAATTTCGCTGCAGCGAAATTAATTCGCGTTGCAACAAA
* * *
20102645 AAACTTTCTGTTTTTAGGTTACAATTTCGCTGCAGCGAGATTAATTCGCGCTT-CAGCAAA
1 AAACTTTCTGTTTCTAGGTTACAATTTCGCTGCAGCGAAATTAATTCGCG-TTGCAACAAA
20102705 AAACTTT
1 AAACTTT
20102712 TTATTTTGTC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 55 0.96
61 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (60 bp):
AAACTTTCTGTTTCTAGGTTACAATTTCGCTGCAGCGAAATTAATTCGCGTTGCAACAAA
Found at i:20104401 original size:9 final size:9
Alignment explanation
Indices: 20104382--20104441 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
20104372 AAAATCATCC
20104382 AAAAATAAAT
1 AAAAAT-AAT
20104392 AAAAATAAT
1 AAAAATAAT
*
20104401 -AATATAAT
1 AAAAATAAT
20104409 AGAATAATAAT
1 A-AA-AATAAT
*
20104420 AATAATAAT
1 AAAAATAAT
*
20104429 AATAATAAT
1 AAAAATAAT
20104438 AAAA
1 AAAA
20104442 GAGAACAGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
8 7 0.16
9 21 0.49
10 9 0.21
11 6 0.14
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (9 bp):
AAAAATAAT
Found at i:20104403 original size:3 final size:3
Alignment explanation
Indices: 20104389--20104439 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
20104379 TCCAAAAATA
* *
20104389 AAT AAA AAT AAT AAT -AT AAT -AG AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20104435 AAT AA
1 AAT AA
20104440 AAGAGAACAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 3 0.07
3 39 0.93
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:20105061 original size:20 final size:22
Alignment explanation
Indices: 20105025--20105065 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
20105015 GGAAAATCTG
20105025 AAAAAGAAAAAAGAAGAGAGAT
1 AAAAAGAAAAAAGAAGAGAGAT
20105047 AAAAAG-AAAAA-AAGAGAGA
1 AAAAAGAAAAAAGAAGAGAGA
20105066 AAGGAAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAAAAGAAGAGAGAT
Found at i:20105132 original size:14 final size:14
Alignment explanation
Indices: 20105113--20105139 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20105103 AGGAAAAAAG
20105113 AGAAAGAGAGAAGA
1 AGAAAGAGAGAAGA
20105127 AGAAAGAGAGAAG
1 AGAAAGAGAGAAG
20105140 GAAGGAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (14 bp):
AGAAAGAGAGAAGA
Found at i:20105163 original size:46 final size:46
Alignment explanation
Indices: 20105105--20105225 Score: 128
Period size: 46 Copynumber: 2.7 Consensus size: 46
20105095 TGCCGACGAG
* *
20105105 GAAAAAAG-AGAAAGAGAGAAGAAGAAAGAGA-GAAGGAAGGAAAA
1 GAAAAAAGAAGAAAGAAAGAAGAAGAAAGAGAGGAAGAAAGGAAAA
* *
20105149 GAAAAAAGGAAGAAAGAAAG-A-AAGAAAG-GCTAGGAAGAAAGGGAAG
1 GAAAAAA-GAAGAAAGAAAGAAGAAGAAAGAG--AGGAAGAAAGGAAAA
*
20105195 GAAAAAAGAA-AAAGAAAGAAGAAGACAGAGA
1 GAAAAAAGAAGAAAGAAAGAAGAAGAAAGAGA
20105226 AGAGGCCGAC
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
43 1 0.02
44 22 0.34
45 8 0.12
46 32 0.50
47 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.32, T:0.01
Consensus pattern (46 bp):
GAAAAAAGAAGAAAGAAAGAAGAAGAAAGAGAGGAAGAAAGGAAAA
Found at i:20105165 original size:4 final size:4
Alignment explanation
Indices: 20105113--20105176 Score: 53
Period size: 4 Copynumber: 16.5 Consensus size: 4
20105103 AGGAAAAAAG
* * * * *
20105113 AGAA AGAG AG-A AG-A AGAA AGAG AGAA GGAA GGAAA AGAA A-AA AGGA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG-AA AGAA AGAA AGAA
20105159 AGAA AGAA AGAA AGAA AG
1 AGAA AGAA AGAA AGAA AG
20105177 GCTAGGAAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
3 8 0.16
4 38 0.78
5 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:20105266 original size:4 final size:4
Alignment explanation
Indices: 20105253--20105344 Score: 75
Period size: 4 Copynumber: 23.0 Consensus size: 4
20105243 GGGAAAGGAG
* *
20105253 AGAA AG-A AGAA AGAGA AGGAA AGAA AGAA A-AA AGGAA AGAG AGAA GGAA
1 AGAA AGAA AGAA AGA-A A-GAA AGAA AGAA AGAA A-GAA AGAA AGAA AGAA
* * *
20105302 GGAA AGAA AGAA AGGA A-AA AGAA AGAG AG-A AGAA GAGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA -AGAA AGAA
20105345 CAGCCAACCA
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
3 10 0.14
4 49 0.68
5 11 0.15
6 2 0.03
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:20105333 original size:35 final size:37
Alignment explanation
Indices: 20105246--20105344 Score: 132
Period size: 35 Copynumber: 2.8 Consensus size: 37
20105236 GACAAGGGGG
* * * *
20105246 AAAGGAGAGAAAGAAGAAAGAGAAGGAAAGAAAGAAA
1 AAAGGAAAGAGAGAAGGAAGAGAAAGAAAGAAAGAAA
*
20105283 AAAGGAAAGAGAGAAGGAAG-GAAAGAAAGAAAGGAA
1 AAAGGAAAGAGAGAAGGAAGAGAAAGAAAGAAAGAAA
20105319 AAA-GAAAGAGAGAA-GAAGAGAAAGAA
1 AAAGGAAAGAGAGAAGGAAGAGAAAGAA
20105345 CAGCCAACCA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
34 4 0.07
35 18 0.32
36 17 0.30
37 17 0.30
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (37 bp):
AAAGGAAAGAGAGAAGGAAGAGAAAGAAAGAAAGAAA
Found at i:20105821 original size:2 final size:2
Alignment explanation
Indices: 20105814--20105844 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20105804 CTAAGGCTAA
20105814 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20105845 AGAACGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20105993 original size:10 final size:10
Alignment explanation
Indices: 20105961--20105999 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
20105951 CAAAAATAAT
20105961 AATAATGATA
1 AATAATGATA
*
20105971 ATTAA-GA-A
1 AATAATGATA
20105979 AATAATGATA
1 AATAATGATA
20105989 AATAATGATA
1 AATAATGATA
20105999 A
1 A
20106000 CAATAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 5 0.20
9 4 0.16
10 16 0.64
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (10 bp):
AATAATGATA
Found at i:20113958 original size:17 final size:17
Alignment explanation
Indices: 20113932--20113970 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
20113922 TTTAAAATTT
20113932 AATTAAATAT-TTATAA
1 AATTAAATATCTTATAA
20113948 AATTGAAATATCTTAT-A
1 AATT-AAATATCTTATAA
20113965 AATTAA
1 AATTAA
20113971 TAAAATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.29
17 11 0.52
18 4 0.19
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
AATTAAATATCTTATAA
Found at i:20114748 original size:30 final size:30
Alignment explanation
Indices: 20114714--20114781 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
20114704 CCTGGCGGTA
*
20114714 GTGGTGGTCCTGGTGGCAATGGTGGTGGCT-
1 GTGGTGGTCCTGGCGGCAATGGTGGTGG-TG
* *
20114744 GTGGTGGCCCTGGCGGTAATGGTGGTGGTG
1 GTGGTGGTCCTGGCGGCAATGGTGGTGGTG
20114774 GTGGTGGT
1 GTGGTGGT
20114782 GGGCAGTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 1 0.03
30 32 0.97
ACGTcount: A:0.06, C:0.12, G:0.53, T:0.29
Consensus pattern (30 bp):
GTGGTGGTCCTGGCGGCAATGGTGGTGGTG
Found at i:20114766 original size:18 final size:18
Alignment explanation
Indices: 20114698--20114768 Score: 55
Period size: 18 Copynumber: 4.3 Consensus size: 18
20114688 TGGTGGCAGC
*
20114698 GGTGGCCCTGGCGGTAGT
1 GGTGGCCCTGGCGGTAAT
* * *
20114716 GGTGGTCCTGGTGGCAAT
1 GGTGGCCCTGGCGGTAAT
*
20114734 GGTGG---TGGC--T-GT
1 GGTGGCCCTGGCGGTAAT
20114746 GGTGGCCCTGGCGGTAAT
1 GGTGGCCCTGGCGGTAAT
20114764 GGTGG
1 GGTGG
20114769 TGGTGGTGGT
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
12 6 0.15
15 7 0.18
17 1 0.03
18 25 0.64
ACGTcount: A:0.07, C:0.17, G:0.51, T:0.25
Consensus pattern (18 bp):
GGTGGCCCTGGCGGTAAT
Found at i:20127157 original size:29 final size:28
Alignment explanation
Indices: 20127115--20127185 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
20127105 GAAGAAGCTA
*
20127115 ACAA-AGAAAAGCTGTACATGAATAGAT
1 ACAAGAGAAAAGCTGTACATGAACAGAT
* * *
20127142 ATAAGAGAAGAAGCTGTACGTGAACAGGT
1 ACAAGAGAA-AAGCTGTACATGAACAGAT
20127171 ACAAGAGAACAAGCT
1 ACAAGAGAA-AAGCT
20127186 AAAAGAGAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
27 3 0.08
28 4 0.11
29 29 0.81
ACGTcount: A:0.48, C:0.13, G:0.24, T:0.15
Consensus pattern (28 bp):
ACAAGAGAAAAGCTGTACATGAACAGAT
Found at i:20129080 original size:63 final size:63
Alignment explanation
Indices: 20129007--20129137 Score: 244
Period size: 63 Copynumber: 2.1 Consensus size: 63
20128997 AGCTCAAGAC
20129007 AAAACTCGGACAAAAAAGACCTATTAATTTACATAACTATATGCCTACAAGATCCCAGCTCCA
1 AAAACTCGGACAAAAAAGACCTATTAATTTACATAACTATATGCCTACAAGATCCCAGCTCCA
* *
20129070 AAAACTCGGACAAAAAAGGCCTATTAATTTTCATAACTATATGCCTACAAGATCCCAGCTCCA
1 AAAACTCGGACAAAAAAGACCTATTAATTTACATAACTATATGCCTACAAGATCCCAGCTCCA
20129133 AAAAC
1 AAAAC
20129138 ATGAATCCTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.43, C:0.25, G:0.10, T:0.22
Consensus pattern (63 bp):
AAAACTCGGACAAAAAAGACCTATTAATTTACATAACTATATGCCTACAAGATCCCAGCTCCA
Found at i:20130134 original size:25 final size:24
Alignment explanation
Indices: 20130109--20130201 Score: 78
Period size: 25 Copynumber: 3.5 Consensus size: 24
20130099 TTTTATCTCA
*
20130109 TTTTTTATCTTTTTTTTTCCTTTC
1 TTTTTTTTCTTTTTTTTTCCTTTC
20130133 ATTTTTTTTCACTTTTTTATTTCTCTCTCTC
1 -TTTTTTTT--CTTTTTT-TTTC-CT-T-TC
*
20130164 TTTTTTTTCTTTTTTTCTTTCTTTC
1 TTTTTTTTCTTTTTTT-TTCCTTTC
* *
20130189 TTTTCTTCCTTTT
1 TTTTTTTTCTTTT
20130202 CTATCAACAT
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
25 20 0.35
26 1 0.02
27 10 0.18
28 13 0.23
29 2 0.04
30 9 0.16
31 2 0.04
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTTTTCTTTTTTTTTCCTTTC
Found at i:20130193 original size:9 final size:9
Alignment explanation
Indices: 20130162--20130203 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
20130152 TTTCTCTCTC
*
20130162 TCTTTTTTT
1 TCTTTTCTT
20130171 TCTTTT-TT
1 TCTTTTCTT
20130179 TC-TTTCTT
1 TCTTTTCTT
20130187 TCTTTTCTT
1 TCTTTTCTT
*
20130196 CCTTTTCT
1 TCTTTTCT
20130204 ATCAACATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 3 0.10
8 8 0.27
9 19 0.63
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TCTTTTCTT
Found at i:20134285 original size:27 final size:27
Alignment explanation
Indices: 20134255--20134306 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
20134245 TGCCCCTCGA
*
20134255 ATTAGCCACACCAGCACTGTTTCCAAG
1 ATTAACCACACCAGCACTGTTTCCAAG
* * *
20134282 ATTAACCGCACTAGCATTGTTTCCA
1 ATTAACCACACCAGCACTGTTTCCA
20134307 TGACCTTTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (27 bp):
ATTAACCACACCAGCACTGTTTCCAAG
Found at i:20134432 original size:27 final size:27
Alignment explanation
Indices: 20134390--20134441 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
20134380 CCCCCAAATT
*
20134390 AGCATTGTCTCCAAGATTAGTCGCACC
1 AGCATTGTCTCCAAGATTAGCCGCACC
* *
20134417 AGCATTGTTTCTAAGATTAGCCGCA
1 AGCATTGTCTCCAAGATTAGCCGCA
20134442 TGACATTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (27 bp):
AGCATTGTCTCCAAGATTAGCCGCACC
Found at i:20136805 original size:182 final size:182
Alignment explanation
Indices: 20136497--20136860 Score: 559
Period size: 182 Copynumber: 2.0 Consensus size: 182
20136487 CAACTCCTTG
** * * * *
20136497 GTTTGATATGATTGCAATTCTATTCTTTATCCCAGAAAGTAATGCAGACTTGTCAAAGGTAACAT
1 GTTTGATATGATTGCAATTCTAAACTATATCCCACAAAGTAACGCAGACTTATCAAAGGTAACAT
* * *
20136562 TGTTACTCACCAAAAACTTAAGGAACTTACGATCAATACACCACAACCGATAACTTTTCACCTTA
66 TCTAACTCACCAAAAACTTAAGGAACTTACGATCAATACACCACAACCGATAACCTTTCACCTTA
*
20136627 AATGCATAGCCTAGGAATACGCACTCCATTACCCTCGCATCAAGTTTACCAT
131 AATGCATAGCCTAGGAATACGCACTCCATTACCCTCACATCAAGTTTACCAT
*
20136679 GTTTGATGTGATTGCAATTCTAAACTATATCCCACAAAGTAACGCAGACTTATCAAAGGTAACAT
1 GTTTGATATGATTGCAATTCTAAACTATATCCCACAAAGTAACGCAGACTTATCAAAGGTAACAT
* *
20136744 TCTAACTCACCAAAAACTTAA-GAGACTTACGATCAGTACACCACAACTGATAACCTTTCACCTT
66 TCTAACTCACCAAAAACTTAAGGA-ACTTACGATCAATACACCACAACCGATAACCTTTCACCTT
* * * *
20136808 AAATGCATAGCCTAGGAATATGTACTTCGTTACCCTCACATCAAGTTTACCAT
130 AAATGCATAGCCTAGGAATACGCACTCCATTACCCTCACATCAAGTTTACCAT
20136861 CACCTATATG
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
181 2 0.01
182 162 0.99
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (182 bp):
GTTTGATATGATTGCAATTCTAAACTATATCCCACAAAGTAACGCAGACTTATCAAAGGTAACAT
TCTAACTCACCAAAAACTTAAGGAACTTACGATCAATACACCACAACCGATAACCTTTCACCTTA
AATGCATAGCCTAGGAATACGCACTCCATTACCCTCACATCAAGTTTACCAT
Found at i:20139278 original size:25 final size:27
Alignment explanation
Indices: 20139228--20139288 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
20139218 ATTTGCTCAA
* *
20139228 CAAGA-TATACTAGTTTAACTAAAATT
1 CAAGACTATCCTAGTTAAACTAAAATT
20139254 -AA-ACTATCCTAGTTAAAC-AACAATT
1 CAAGACTATCCTAGTTAAACTAA-AATT
20139279 CAAGACTATC
1 CAAGACTATC
20139289 ATAACAGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 3 0.10
25 18 0.62
26 2 0.07
27 6 0.21
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.30
Consensus pattern (27 bp):
CAAGACTATCCTAGTTAAACTAAAATT
Found at i:20139409 original size:16 final size:15
Alignment explanation
Indices: 20139381--20139410 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
20139371 TTGAAATGCT
20139381 AAAAAAAAGAGAGAG
1 AAAAAAAAGAGAGAG
20139396 AAAAAAAAGTAGAGA
1 AAAAAAAAG-AGAGA
20139411 ATATGCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (15 bp):
AAAAAAAAGAGAGAG
Found at i:20144876 original size:37 final size:37
Alignment explanation
Indices: 20144835--20144940 Score: 140
Period size: 37 Copynumber: 2.9 Consensus size: 37
20144825 CGTCATCATG
**
20144835 TGTGCACTCCCTACTCGCACACTCTGTCATCATCACA
1 TGTGCACTCCCTACTCGCACACTCCATCATCATCACA
* **
20144872 TGTGCACTCTCTACTCGCACACTCCATCATCATCATG
1 TGTGCACTCCCTACTCGCACACTCCATCATCATCACA
* * *
20144909 TGTGCACTCCCTACTCACACACTTCAACATCA
1 TGTGCACTCCCTACTCGCACACTCCATCATCA
20144941 CCACCCAACA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.40, G:0.09, T:0.27
Consensus pattern (37 bp):
TGTGCACTCCCTACTCGCACACTCCATCATCATCACA
Found at i:20148041 original size:141 final size:141
Alignment explanation
Indices: 20147554--20148051 Score: 581
Period size: 141 Copynumber: 3.5 Consensus size: 141
20147544 TTTCGGCAGT
* * * ** * * **
20147554 TTCATCTGCTACATAACCCGGTTTATATTTATTTTCAAGGCGTGTGATGTAAGACGATTGGA-AA
1 TTCATCTACAACATAACCAGGTTTATATTTGCTTTCGAGGCGAGCAATGTAAGACGA-TGGAGAA
* * * *
20147618 GAACTCTTCTCCTT-AGCTTCATCCACTCCATAACCAGGTTTATATCTGCTTTCAAGACGTGCAA
65 GAACTCTT-TCCTTCAGTTTCATCCACTCCATAACCTGGTTTATATTTGCTTTCAAGGCGTGCAA
* *
20147682 TCTTTTCCTCTGC
129 TCTTTTCATCAGC
* * * * *
20147695 TTCATCGACTACATAACCAGCTTTATATTTGCTTTCAAGGCGTGCAATGTAAGACGATGGAGAAG
1 TTCATCTACAACATAACCAGGTTTATATTTGCTTTCGAGGCGAGCAATGTAAGACGATGGAGAAG
* * * *
20147760 AACTCTTT--TTCTCGATTTCATCCACTCCATAACCTGGCTTATATTTGCTCTCAAGGCATGCAA
66 AACTCTTTCCTTC-AG-TTTCATCCACTCCATAACCTGGTTTATATTTGCTTTCAAGGCGTGCAA
*
20147823 TCTTTTCATCAAC
129 TCTTTTCATCAGC
* *
20147836 TTCATCTACAACATAACCAGGTTTATATTTGCTTTCGAGGTGAGCAATGTAAGAAGATGGAGAAG
1 TTCATCTACAACATAACCAGGTTTATATTTGCTTTCGAGGCGAGCAATGTAAGACGATGGAGAAG
* *
20147901 AACTCTTTCCTTCAGTTTCATCCACTCCATAATCTGGTTTATATTTGCTTTCGAGGCGTGCAATC
66 AACTCTTTCCTTCAGTTTCATCCACTCCATAACCTGGTTTATATTTGCTTTCAAGGCGTGCAATC
*
20147966 TTTTCATCAGT
131 TTTTCATCAGC
* * * * * ***
20147977 TTCATATACAACATAACTAGGTTTATATTTGCTTTCGAGGCGCGCGATGTACGACGACAAAGAAG
1 TTCATCTACAACATAACCAGGTTTATATTTGCTTTCGAGGCGAGCAATGTAAGACGATGGAGAAG
*
20148042 AAGTCTTTCC
66 AACTCTTTCC
20148052 CTCCTCTTCA
Statistics
Matches: 306, Mismatches: 45, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
138 2 0.01
140 6 0.02
141 294 0.96
142 1 0.00
143 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (141 bp):
TTCATCTACAACATAACCAGGTTTATATTTGCTTTCGAGGCGAGCAATGTAAGACGATGGAGAAG
AACTCTTTCCTTCAGTTTCATCCACTCCATAACCTGGTTTATATTTGCTTTCAAGGCGTGCAATC
TTTTCATCAGC
Found at i:20152492 original size:38 final size:38
Alignment explanation
Indices: 20152436--20152511 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
20152426 AATTCAACAC
*
20152436 TATCAGATTTCTCTTACAGATTTTAAGAAAGACAAGAG
1 TATCAGATTTCTCTTACAGATTCTAAGAAAGACAAGAG
* * *
20152474 TATCGGATTTCTCTTACAGATTCTAAGGAAGAGAAGAG
1 TATCAGATTTCTCTTACAGATTCTAAGAAAGACAAGAG
20152512 AAATATTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (38 bp):
TATCAGATTTCTCTTACAGATTCTAAGAAAGACAAGAG
Found at i:20155665 original size:22 final size:23
Alignment explanation
Indices: 20155637--20155680 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
20155627 ATTTTATTTT
20155637 AATATTTT-TAATT-ATATTTAAA
1 AATATTTTAT-ATTAATATTTAAA
20155659 AATATTTTATATTAATATTTAA
1 AATATTTTATATTAATATTTAA
20155681 TATTTTGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATATTTTATATTAATATTTAAA
Found at i:20155680 original size:23 final size:22
Alignment explanation
Indices: 20155637--20155680 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
20155627 ATTTTATTTT
20155637 AATATTTTTAATTATATTTAAA
1 AATATTTTTAATTATATTTAAA
20155659 AATA-TTTTATATTAATATTTAA
1 AATATTTTTA-ATT-ATATTTAA
20155681 TATTTTGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 7 0.35
23 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATATTTTTAATTATATTTAAA
Found at i:20157179 original size:16 final size:16
Alignment explanation
Indices: 20157160--20157194 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
20157150 ATATAAATCT
*
20157160 CATTTTTATTAAAAAA
1 CATTTTAATTAAAAAA
*
20157176 CATTTTAATTAGAAAA
1 CATTTTAATTAAAAAA
20157192 CAT
1 CAT
20157195 AATATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (16 bp):
CATTTTAATTAAAAAA
Found at i:20159186 original size:42 final size:41
Alignment explanation
Indices: 20159129--20159227 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 41
20159119 TTAATAATTA
*
20159129 ATAATTTAAATATTAAAATTTTAAAATATTAACATGTTATTT
1 ATAATTT-AATATTAAAATTTTAAAATACTAACATGTTATTT
* * * * *
20159171 TTAATTTAATCATTAACATTTTTAAATACTAATATTTTATTT
1 ATAATTTAAT-ATTAAAATTTTAAAATACTAACATGTTATTT
*
20159213 ATACTTTAAATATTA
1 ATAATTT-AATATTA
20159228 TTATGATTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
41 3 0.06
42 41 0.87
43 3 0.06
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (41 bp):
ATAATTTAATATTAAAATTTTAAAATACTAACATGTTATTT
Found at i:20159495 original size:16 final size:15
Alignment explanation
Indices: 20159431--20159495 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 15
20159421 CCATTAAAAG
*
20159431 TAAAATTTAATATAT
1 TAAAATTTAATATTT
**
20159446 TAATAATTTAATAAGT
1 TAA-AATTTAATATTT
20159462 TAAACA-TTAATATTTT
1 TAAA-ATTTAATA-TTT
20159478 TAAAATATTAATATTT
1 TAAAAT-TTAATATTT
20159494 TA
1 TA
20159496 TTTGTAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
15 11 0.27
16 24 0.59
17 6 0.15
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (15 bp):
TAAAATTTAATATTT
Found at i:20161676 original size:14 final size:14
Alignment explanation
Indices: 20161665--20161694 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20161655 CTATCTCAAT
20161665 ACATACATCTCATA
1 ACATACATCTCATA
*
20161679 ACATACATTTCATA
1 ACATACATCTCATA
20161693 AC
1 AC
20161695 CTCATAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (14 bp):
ACATACATCTCATA
Found at i:20161748 original size:80 final size:80
Alignment explanation
Indices: 20161617--20161926 Score: 365
Period size: 80 Copynumber: 3.9 Consensus size: 80
20161607 ATAACATTTC
** **
20161617 CATAAATCA-TCAGCATGCTTAACTTATAGTGTATATGACTATCTCAATACATACATCTCATAAC
1 CATAAATCACTCA-CATGCTTAACCCATAGTGTATATGACTATCTCAATACATACATCTCATGGC
20161681 ATACATTTCATAACCT
65 ATACATTTCATAACCT
* * * * * *
20161697 CATAAATCACTTACATGCTTAACCCATAGAGTATATGACTATCTCATTACATATATTTCATGGCG
1 CATAAATCACTCACATGCTTAACCCATAGTGTATATGACTATCTCAATACATACATCTCATGGCA
20161762 TACATTTCATAACCT
66 TACATTTCATAACCT
* * * *
20161777 CATAAATCACTCACATGCCTAGCCCTTAGTGTATATGACTATCTCAACACATACATCTCATGGCA
1 CATAAATCACTCACATGCTTAACCCATAGTGTATATGACTATCTCAATACATACATCTCATGGCA
* * *
20161842 TATATTTTATAATCT
66 TACATTTCATAACCT
* * * * *
20161857 CATAAATCACTCACATGCTTAGCCAATAGTGTACATGA-TATGCTTAA-AGCATACATCTTATGG
1 CATAAATCACTCACATGCTTAACCCATAGTGTATATGACTAT-CTCAATA-CATACATCTCATGG
*
20161920 CACACAT
64 CATACAT
20161927 GTTGCAATCT
Statistics
Matches: 196, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
79 4 0.02
80 190 0.97
81 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (80 bp):
CATAAATCACTCACATGCTTAACCCATAGTGTATATGACTATCTCAATACATACATCTCATGGCA
TACATTTCATAACCT
Found at i:20162973 original size:21 final size:21
Alignment explanation
Indices: 20162948--20163020 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
20162938 TTAAAAAAAA
20162948 ATGTATTGATACATGATGAAC
1 ATGTATTGATACATGATGAAC
** * *
20162969 ATGTATCAATGCATGACT--AT
1 ATGTATTGATACATGA-TGAAC
* *
20162989 ATATATTGATACATCATGAAC
1 ATGTATTGATACATGATGAAC
20163010 ATGTATTGATA
1 ATGTATTGATA
20163021 TATTTGAAAC
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.03
20 12 0.32
21 24 0.63
22 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (21 bp):
ATGTATTGATACATGATGAAC
Found at i:20163047 original size:19 final size:19
Alignment explanation
Indices: 20163023--20163071 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
20163013 TATTGATATA
20163023 TTTGAAACAGAATGCAATT
1 TTTGAAACAGAATGCAATT
20163042 TTTGAAACAGAATGCAATT
1 TTTGAAACAGAATGCAATT
20163061 TTTGAAACAGA
1 TTTGAAACAGA
20163072 TTACATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (19 bp):
TTTGAAACAGAATGCAATT
Found at i:20163242 original size:16 final size:15
Alignment explanation
Indices: 20163221--20163255 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
20163211 TAAAAATATC
20163221 AAAAGAATCAAAATCT
1 AAAAGAATCAAAAT-T
*
20163237 AAAAGAATTAAAATT
1 AAAAGAATCAAAATT
20163252 AAAA
1 AAAA
20163256 TTTTGGTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (15 bp):
AAAAGAATCAAAATT
Found at i:20173322 original size:16 final size:17
Alignment explanation
Indices: 20173301--20173333 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
20173291 TATCTTTCAC
20173301 TTTTATAT-TTTTTAAT
1 TTTTATATATTTTTAAT
20173317 TTTTATATATTTTTAAT
1 TTTTATATATTTTTAAT
20173334 ATAATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATATATTTTTAAT
Found at i:20186187 original size:28 final size:28
Alignment explanation
Indices: 20186146--20186226 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
20186136 TCTTGATGGG
* * * *
20186146 TGATGGGTTTAAAGTGTTTATCCACTCC
1 TGATGAGTTAAAAGTATTCATCCACTCC
*
20186174 TGATGAGTTAAAAGTATTCATCCACTTC
1 TGATGAGTTAAAAGTATTCATCCACTCC
*
20186202 -GAGTG-GTTAAATGTATTCATCCACT
1 TGA-TGAGTTAAAAGTATTCATCCACT
20186227 TTTTATGGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 21 0.46
28 25 0.54
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (28 bp):
TGATGAGTTAAAAGTATTCATCCACTCC
Found at i:20186235 original size:27 final size:27
Alignment explanation
Indices: 20186180--20186246 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
20186170 CTCCTGATGA
*
20186180 GTTAAAAGTATTCATCCACTTCGAGTG
1 GTTAAATGTATTCATCCACTTCGAGTG
**
20186207 GTTAAATGTATTCATCCACTTTTTA-TG
1 GTTAAATGTATTCATCCAC-TTCGAGTG
20186234 GTTAAATGTATTC
1 GTTAAATGTATTC
20186247 TTATTATTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 33 0.92
28 3 0.08
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (27 bp):
GTTAAATGTATTCATCCACTTCGAGTG
Found at i:20187753 original size:14 final size:13
Alignment explanation
Indices: 20187722--20187778 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
20187712 ATTTTGTAAT
*
20187722 TTTTAGTTATTT-
1 TTTTATTTATTTA
20187734 TTTTATTTAGTTTA
1 TTTTATTTA-TTTA
* *
20187748 TTTTATTAAGTTA
1 TTTTATTTATTTA
20187761 TTTTAATTTTATTTA
1 TTTT-A-TTTATTTA
20187776 TTT
1 TTT
20187779 ATCTTAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
12 8 0.22
13 10 0.28
14 9 0.25
15 9 0.25
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:20187771 original size:19 final size:19
Alignment explanation
Indices: 20187747--20187788 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
20187737 TATTTAGTTT
*
20187747 ATTTTATTAAGTTATTTTA
1 ATTTTATTAAGTTATCTTA
* *
20187766 ATTTTATTTATTTATCTTA
1 ATTTTATTAAGTTATCTTA
20187785 ATTT
1 ATTT
20187789 AGTCATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTATTAAGTTATCTTA
Found at i:20195290 original size:28 final size:29
Alignment explanation
Indices: 20195242--20195307 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
20195232 GTAAATTTTT
** *
20195242 AAAAATTACACTTTTACCCCCGTAAAGTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
*
20195271 AAAAATTACATTTTTA-CCCCAAAAACTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
20195299 AAAAATTAC
1 AAAAATTAC
20195308 CCATAGACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 18 0.55
29 15 0.45
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.27
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCCCAAAAACTG
Found at i:20197329 original size:35 final size:35
Alignment explanation
Indices: 20197275--20197355 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
20197265 GGTTATAATA
*
20197275 TTCATCCA-TACTTGCTGGGTAGTGAGTTAAAAATGG
1 TTCATCCACT-CTTGATGGGTAGTGAGTTAAAAAT-G
* * *
20197311 TT-ATCCACTCTTGATGGGTGGTGGGTTAAAAGTG
1 TTCATCCACTCTTGATGGGTAGTGAGTTAAAAATG
20197345 TTCATCCACTC
1 TTCATCCACTC
20197356 CTAGTTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
34 3 0.08
35 33 0.85
36 3 0.08
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (35 bp):
TTCATCCACTCTTGATGGGTAGTGAGTTAAAAATG
Found at i:20197473 original size:27 final size:27
Alignment explanation
Indices: 20197334--20197476 Score: 136
Period size: 27 Copynumber: 5.4 Consensus size: 27
20197324 ATGGGTGGTG
* * *
20197334 GGTTAAAAGTGTTCATCCACTCCTA--
1 GGTTAAATGTATTCATCCACTTCTAGT
*
20197359 -GTTAAAAGTATTCATCCA-TTCTAACG-
1 GGTTAAATGTATTCATCCACTTCT-A-GT
**
20197385 GGTTAAAAATATTCATCCAC-TCATAGT
1 GGTTAAATGTATTCATCCACTTC-TAGT
* *
20197412 GGTTAAATATATTCATCCACTTCTGGT
1 GGTTAAATGTATTCATCCACTTCTAGT
*
20197439 GGTTAAATGTATTCATGCACTTCTAGT
1 GGTTAAATGTATTCATCCACTTCTAGT
20197466 GGTTAAATGTA
1 GGTTAAATGTA
20197477 GGGGATTTTT
Statistics
Matches: 102, Mismatches: 8, Indels: 14
0.82 0.06 0.11
Matches are distributed among these distances:
23 3 0.03
24 18 0.18
26 1 0.01
27 77 0.75
28 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (27 bp):
GGTTAAATGTATTCATCCACTTCTAGT
Found at i:20198044 original size:47 final size:47
Alignment explanation
Indices: 20197987--20198514 Score: 650
Period size: 47 Copynumber: 11.2 Consensus size: 47
20197977 CGACATGCTC
* *
20197987 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAAACGCCAGAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * * * ** *
20198034 AGAGTTGGTGACACGCCATGGTGAGAATTTGTGACACGGTAGCTTTC
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
*
20198081 AGAGTTGGTGAGACGCCATGGAGGGAATTTGTGACACGCTAGAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * * * *
20198128 AGAGTTGGTGACACGGCATGGAGGAAATTTGTGACACGCCA-ACGTTT
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGA-GTTA
* *
20198175 AGAGTTGGTGAGACCCCATGGAGGGAATCTATGACACGCTAGAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* *
20198222 AGAGTTGGTGACACAG-CATGGAGGGAATCTGTGACACGCCA-ACGTTCA
1 AGAGTTGGTGAGAC-GCCATGGAGGGAATCTGTGACACGCTAGA-GTT-A
20198270 A-AGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * * *
20198316 AGAGTTGGTGACACGGCATGGAGAGAATCTGTGACACGCTAGCGTTC
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* *
20198363 AGAGTTAGTGAGACGCCATGAAGGGAATCTGTGACACGCTAGAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * * *
20198410 AGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACGCTAGCGTTC
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * * *
20198457 AGAGTTCGTGAGACGTCATGGAGGAAATCTGTGACATGCTAGAGTTC
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
20198504 AGAGTTGGTGA
1 AGAGTTGGTGA
20198515 CAAGCTATGG
Statistics
Matches: 411, Mismatches: 62, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
46 5 0.01
47 402 0.98
48 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.23
Consensus pattern (47 bp):
AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
Found at i:20198049 original size:24 final size:23
Alignment explanation
Indices: 20198017--20198142 Score: 60
Period size: 24 Copynumber: 5.3 Consensus size: 23
20198007 GAGGGAATCT
*
20198017 GTGAAACGCCAGAGTTAAGAGTTG
1 GTGACACGCCAG-GTTAAGAGTTG
* * *
20198041 GTGACACGCCATGG-TGAGAATTT
1 GTGACACGCCA-GGTTAAGAGTTG
** * *
20198064 GTGACACGGTAGCTTTCAGAGTTG
1 GTGACACGCCAG-GTTAAGAGTTG
* * * *
20198088 GTGAGACGCCATGG--AGGGAATTT
1 GTGACACGCCA-GGTTA-AGAGTTG
*
20198111 GTGACACGCTAGAGTTAAGAGTTG
1 GTGACACGCCAG-GTTAAGAGTTG
20198135 GTGACACG
1 GTGACACG
20198143 GCATGGAGGA
Statistics
Matches: 71, Mismatches: 23, Indels: 16
0.65 0.21 0.15
Matches are distributed among these distances:
22 2 0.03
23 29 0.41
24 37 0.52
25 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.34, T:0.24
Consensus pattern (23 bp):
GTGACACGCCAGGTTAAGAGTTG
Found at i:20198069 original size:23 final size:23
Alignment explanation
Indices: 20197945--20198071 Score: 67
Period size: 23 Copynumber: 5.5 Consensus size: 23
20197935 GGGTTTAGAG
* * * *
20197945 TTTGTGAAACGTCATGTTGGGAA
1 TTTGTGACACGCCATGGTGAGAA
* * * * *
20197968 TGTGTGACACGACATGCTCAGAG
1 TTTGTGACACGCCATGGTGAGAA
* * * *
20197991 TTGGTGAGACGCCATGGAGGGAA
1 TTTGTGACACGCCATGGTGAGAA
* * * *
20198014 TCTGTGAAACGCCA-GAGTTAAGAG
1 TTTGTGACACGCCATG-G-TGAGAA
*
20198038 TTGGTGACACGCCATGGTGAGAA
1 TTTGTGACACGCCATGGTGAGAA
20198061 TTTGTGACACG
1 TTTGTGACACG
20198072 GTAGCTTTCA
Statistics
Matches: 72, Mismatches: 29, Indels: 6
0.67 0.27 0.06
Matches are distributed among these distances:
22 1 0.01
23 56 0.78
24 14 0.19
25 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (23 bp):
TTTGTGACACGCCATGGTGAGAA
Found at i:20198094 original size:94 final size:94
Alignment explanation
Indices: 20197985--20198516 Score: 771
Period size: 94 Copynumber: 5.7 Consensus size: 94
20197975 CACGACATGC
* *
20197985 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAAACGCCAGAGTTAAGAGTTGGTGACACGC
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGTGACACGC
* * * *
20198050 CATGGTGAGAATTTGTGACACGGTAGCTT
66 CATGGAGAGAATCTGTGACACGCTAGCGT
* *
20198079 TCAGAGTTGGTGAGACGCCATGGAGGGAATTTGTGACACGCTAGAGTTAAGAGTTGGTGACACGG
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGTGACACGC
* * *
20198144 CATGGAG-GAAATTTGTGACACGCCAACGT
66 CATGGAGAG-AATCTGTGACACGCTAGCGT
* * *
20198173 TTAGAGTTGGTGAGACCCCATGGAGGGAATCTATGACACGCTAGAGTTAAGAGTTGGTGACACAG
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGTGACAC-G
* * *
20198238 -CATGGAGGGAATCTGTGACACGCCAACGT
65 CCATGGAGAGAATCTGTGACACGCTAGCGT
* *
20198267 TCAAAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGTGACACGG
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGTGACACGC
20198332 CATGGAGAGAATCTGTGACACGCTAGCGT
66 CATGGAGAGAATCTGTGACACGCTAGCGT
* * * *
20198361 TCAGAGTTAGTGAGACGCCATGAAGGGAATCTGTGACACGCTAGAGTTAAGAGTTTGTGACATGC
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGTGACACGC
*
20198426 CATGGAGGGAATCTGTGACACGCTAGCGT
66 CATGGAGAGAATCTGTGACACGCTAGCGT
* * * * *
20198455 TCAGAGTTCGTGAGACGTCATGGAGGAAATCTGTGACATGCTAGAGTTCAGAGTTGGTGACA
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGTGACA
20198517 AGCTATGGTC
Statistics
Matches: 399, Mismatches: 35, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
93 2 0.01
94 395 0.99
95 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.23
Consensus pattern (94 bp):
TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGTGACACGC
CATGGAGAGAATCTGTGACACGCTAGCGT
Found at i:20198419 original size:24 final size:24
Alignment explanation
Indices: 20198298--20198422 Score: 64
Period size: 24 Copynumber: 5.3 Consensus size: 24
20198288 GGAGGGAATC
20198298 TGTGACACGCTAGAGTTAAGAGTT
1 TGTGACACGCTAGAGTTAAGAGTT
* * * *
20198322 GGTGACACGGCATGGAG---AGAATC
1 TGTGACAC-GC-TAGAGTTAAGAGTT
* *
20198345 TGTGACACGCTAGCGTTCAGAGTT
1 TGTGACACGCTAGAGTTAAGAGTT
* * * * * *
20198369 AGTGAGACGCCATGA---AGGGAATC
1 TGTGACACGCTA-GAGTTA-AGAGTT
20198392 TGTGACACGCTAGAGTTAAGAGTT
1 TGTGACACGCTAGAGTTAAGAGTT
20198416 TGTGACA
1 TGTGACA
20198423 TGCCATGGAG
Statistics
Matches: 68, Mismatches: 23, Indels: 20
0.61 0.21 0.18
Matches are distributed among these distances:
21 3 0.04
22 4 0.06
23 23 0.34
24 30 0.44
25 4 0.06
26 4 0.06
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (24 bp):
TGTGACACGCTAGAGTTAAGAGTT
Found at i:20200078 original size:13 final size:13
Alignment explanation
Indices: 20200060--20200084 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20200050 TTTCAGAAAA
20200060 TTTATAAAATCAT
1 TTTATAAAATCAT
20200073 TTTATAAAATCA
1 TTTATAAAATCA
20200085 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:20205718 original size:15 final size:15
Alignment explanation
Indices: 20205698--20205743 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
20205688 TCCTTAAAAC
20205698 AACTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
20205713 AACTTTAAAATCCAA
1 AACTTTAAAATCAAA
*
20205728 AGCTTTAAAATCAAA
1 AACTTTAAAATCAAA
20205743 A
1 A
20205744 TATCTGATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (15 bp):
AACTTTAAAATCAAA
Found at i:20207869 original size:156 final size:156
Alignment explanation
Indices: 20207678--20207997 Score: 464
Period size: 156 Copynumber: 2.1 Consensus size: 156
20207668 TAGTAATTTC
* * * *
20207678 TGTAATTACAGTTTACGAAAGCGATGACAGGTCCTCAACCA-CTGATCGGTCCAGC-TCAACCGC
1 TGTAATTGCAGTTTACGAAAGCGACGACAGGTCCTCAACCATC-GATAGGTCCAGCTTCAA-CAC
20207741 AGACAACTAACGAGCCGACGGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATA
64 AGACAACTAACGAGCCGACGGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATA
20207806 CATGATTATTGAATAACACAGTTATATA
129 CATGATTATTGAATAACACAGTTATATA
* * * * * *
20207834 TGTAATTGCAGTTTACGAAAGTGACGATAGGTCCTCAAGCATCGATAGGTCCGGCTTTAATACAG
1 TGTAATTGCAGTTTACGAAAGCGACGACAGGTCCTCAACCATCGATAGGTCCAGCTTCAACACAG
* * * *
20207899 ACTACTAACGAGCCGTCGGTTAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATATA
66 ACAACTAACGAGCCGACGGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACA
*
20207964 TGATTATTGAATAACATAGTTATATA
131 TGATTATTGAATAACACAGTTATATA
*
20207990 TGTTATTG
1 TGTAATTG
20207998 TAATTGACCT
Statistics
Matches: 146, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
156 142 0.97
157 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (156 bp):
TGTAATTGCAGTTTACGAAAGCGACGACAGGTCCTCAACCATCGATAGGTCCAGCTTCAACACAG
ACAACTAACGAGCCGACGGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACA
TGATTATTGAATAACACAGTTATATA
Found at i:20208652 original size:31 final size:31
Alignment explanation
Indices: 20208357--20208658 Score: 347
Period size: 31 Copynumber: 9.8 Consensus size: 31
20208347 GTCAGCCTTA
* * *
20208357 GCGTGTGACAACATTTGACTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
20208388 GCATGTCACAACATTTTACTTGTTATTCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * *
20208419 GCGTGTCACAACATTTGATTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * * *
20208450 GTGTGTCAGAACATTTTGCTTGTTATACTTG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * *
20208481 GCGTGTCACAACAATTTGCTTGTTATGGATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * *
20208512 GCGTGTAACAACGTTTAACTTATTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
20208543 GTGTGTCACAATATTTTACTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
*
20208574 GCATGTCACAACA-TTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTA-CTTGTTATGCATG
* * *
20208605 GCGTGTCACAACATTTTACTTGATATACACG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
20208636 GCGTGTCACAACATTTTA-TTGTT
1 GCGTGTCACAACATTTTACTTGTT
20208659 TATGGTTTGT
Statistics
Matches: 224, Mismatches: 45, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
30 8 0.04
31 212 0.95
32 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (31 bp):
GCGTGTCACAACATTTTACTTGTTATGCATG
Found at i:20210210 original size:17 final size:16
Alignment explanation
Indices: 20210190--20210268 Score: 72
Period size: 17 Copynumber: 4.9 Consensus size: 16
20210180 TTGTCTGTAT
*
20210190 AATTTTTTTGTATACAG
1 AATTTTTTT-TATACAC
20210207 AATTTTTTTTAT--AC
1 AATTTTTTTTATACAC
** *
20210221 AATTAATTTTATGCAC
1 AATTTTTTTTATACAC
*
20210237 AAATTTTTTGTATACAC
1 -AATTTTTTTTATACAC
*
20210254 AATTTATTTTATACA
1 AATTTTTTTTATACA
20210269 ATTCATTGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
14 11 0.22
16 18 0.36
17 21 0.42
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (16 bp):
AATTTTTTTTATACAC
Found at i:20210214 original size:16 final size:14
Alignment explanation
Indices: 20210193--20210269 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 14
20210183 TCTGTATAAT
20210193 TTTTTTGTATACAGAA
1 TTTTTT-TATACA-AA
20210209 TTTTTTTTATAC-AA
1 -TTTTTTTATACAAA
*
20210223 TTAATTTTATGCACAAA
1 TT-TTTTTAT--ACAAA
20210240 TTTTTTGTATACACAA
1 TTTTTT-TATACA-AA
20210256 TTTATTTTATACAA
1 TTT-TTTTATACAA
20210270 TTCATTGTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
13 2 0.04
14 8 0.16
15 4 0.08
16 21 0.41
17 16 0.31
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (14 bp):
TTTTTTTATACAAA
Found at i:20210264 original size:47 final size:48
Alignment explanation
Indices: 20210188--20210381 Score: 149
Period size: 52 Copynumber: 3.9 Consensus size: 48
20210178 CCTTGTCTGT
* * * *
20210188 ATAATTTTTTTGTATACAGAATTTTTTTTATACAATTAATTTTATGCA-C
1 ATAA-TTTTTTGTATACACAATTTATTTTATACAATT-ATTTTATACAGA
* *
20210237 A-AATTTTTTGTATACACAATTTATTTTATACAATTCATTGTAAACAGA
1 ATAATTTTTTGTATACACAATTTATTTTATACAATT-ATTTTATACAGA
* * * *
20210285 ATTAATTCTTTCTGTATACACAATATACTTTATACAATTATTTTATATACA
1 A-TAATT-TTT-TGTATACACAATTTATTTTATACAATTATTTTATACAGA
* * * *
20210336 ATTAGTTTTTTTGCCTATACACAATTAATTTGATACCAATAATTTT
1 A-TA-ATTTTTTG--TATACACAATTTATTTTATA-CAATTATTTT
20210382 TTTCCTTTTC
Statistics
Matches: 117, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
47 37 0.32
48 3 0.03
49 1 0.01
50 6 0.05
51 18 0.15
52 43 0.37
53 9 0.08
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (48 bp):
ATAATTTTTTGTATACACAATTTATTTTATACAATTATTTTATACAGA
Found at i:20210335 original size:15 final size:16
Alignment explanation
Indices: 20210315--20210344 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20210305 CAATATACTT
20210315 TATACAATTA-TTTTA
1 TATACAATTAGTTTTA
20210330 TATACAATTAGTTTT
1 TATACAATTAGTTTT
20210345 TTTGCCTATA
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:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (16 bp):
TATACAATTAGTTTTA
Found at i:20210626 original size:31 final size:31
Alignment explanation
Indices: 20210553--20210628 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
20210543 AATCCACTAT
* * * *
20210553 CACTCAGCGAGTCAATCGATAAATTTGCTTC
1 CACTCAGCGTGTCAACCCATAAATCTGCTTC
20210584 CACTCAGCGTGTCAACCCATAAATCTGCTTC
1 CACTCAGCGTGTCAACCCATAAATCTGCTTC
*
20210615 CACTCAACGTGTCA
1 CACTCAGCGTGTCA
20210629 GAACAATTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (31 bp):
CACTCAGCGTGTCAACCCATAAATCTGCTTC
Found at i:20214371 original size:31 final size:31
Alignment explanation
Indices: 20214333--20214812 Score: 524
Period size: 31 Copynumber: 15.5 Consensus size: 31
20214323 CCAGAACTTA
*
20214333 TTATGCATGGCGGGTCAGAACAATTTAATTG
1 TTATGCATGGCGTGTCAGAACAATTTAATTG
* *
20214364 TTATGCATGGCGTGTCACAAC--GTTAACTTG
1 TTATGCATGGCGTGTCAGAACAATTTAA-TTG
*
20214394 TTATGCATGGTGTGTCAGAACAATTTAATTG
1 TTATGCATGGCGTGTCAGAACAATTTAATTG
*
20214425 TTATGCATGGCGTGTCACAAC-ATTTAACTTG
1 TTATGCATGGCGTGTCAGAACAATTTAA-TTG
*
20214456 TTATGCATGGCGTGTCAGAACAA-TGAACTTG
1 TTATGCATGGCGTGTCAGAACAATTTAA-TTG
* *
20214487 TTATGCATGGCGGGTTAGAACAATTTAATTG
1 TTATGCATGGCGTGTCAGAACAATTTAATTG
* *
20214518 TTATGCATGGCGTGTCACAAC-GTTTAACTTG
1 TTATGCATGGCGTGTCAGAACAATTTAA-TTG
* * *
20214549 TTATGCATGGTGGGTCATAACAATTTAATTG
1 TTATGCATGGCGTGTCAGAACAATTTAATTG
* * *
20214580 TTATGCATGGCATGTCACAAC-GTTTAACTTG
1 TTATGCATGGCGTGTCAGAACAATTTAA-TTG
* *
20214611 TTATGCATGGTGTGTCAGAACAATTTACTTG
1 TTATGCATGGCGTGTCAGAACAATTTAATTG
* * *
20214642 TTATTCATGGTGGGTCAGAACAATTTAATTG
1 TTATGCATGGCGTGTCAGAACAATTTAATTG
* *
20214673 TTATGCATGGCGTGTCACAAC-GTTTAACTTG
1 TTATGCATGGCGTGTCAGAACAATTTAA-TTG
* *
20214704 TTATGCATGGCGTTTCAGAACAATTTACTTG
1 TTATGCATGGCGTGTCAGAACAATTTAATTG
* * *
20214735 TTATGCATGGCGTGTCAGAATATTTTACTTG
1 TTATGCATGGCGTGTCAGAACAATTTAATTG
** * * * *
20214766 ACATGCACGGCGTGTCACAACATTTTACTTG
1 TTATGCATGGCGTGTCAGAACAATTTAATTG
* * *
20214797 TTTTGCAAGGCATGTC
1 TTATGCATGGCGTGTC
20214813 TCACATTTAT
Statistics
Matches: 381, Mismatches: 56, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
29 4 0.01
30 43 0.11
31 313 0.82
32 21 0.06
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (31 bp):
TTATGCATGGCGTGTCAGAACAATTTAATTG
Found at i:20219375 original size:23 final size:23
Alignment explanation
Indices: 20219345--20219403 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
20219335 AAGTCAAATG
*
20219345 TCGTGACACGCCACGCATCAGTA
1 TCGTGACACGCCACGCATCACTA
* *
20219368 TCGTGACACGCCATGCATCACTG
1 TCGTGACACGCCACGCATCACTA
*
20219391 TCGTGACATGCCA
1 TCGTGACACGCCA
20219404 ATCACTGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.24, C:0.34, G:0.22, T:0.20
Consensus pattern (23 bp):
TCGTGACACGCCACGCATCACTA
Found at i:20219500 original size:55 final size:54
Alignment explanation
Indices: 20219440--20219618 Score: 187
Period size: 55 Copynumber: 3.3 Consensus size: 54
20219430 ACCAATAGCA
* * * *
20219440 GTGACACGCTAAAAACTCAAAAAATTAGTTGACCCACGACACGCCAAGAATAGCC
1 GTGACACGCTAAAAAC-CAAAAAATTAGTTAACCCACAACACGCCAGGAACAGCC
* * * * * * *
20219495 GTGACACACCAAATACCCATAAATTCAGTTAACCCACTACACGCCAGGAACAGCT
1 GTGACACGCTAAAAACCAAAAAATT-AGTTAACCCACAACACGCCAGGAACAGCC
* * **
20219550 GTGACACGCTAACAACCTAAAAAACTAGTTAACCCACAACACGGTAGGAACAGCC
1 GTGACACGCTAAAAACC-AAAAAATTAGTTAACCCACAACACGCCAGGAACAGCC
*
20219605 GTCACACGCTAAAA
1 GTGACACGCTAAAA
20219619 TAACTCTAAC
Statistics
Matches: 99, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
54 7 0.07
55 87 0.88
56 5 0.05
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.15
Consensus pattern (54 bp):
GTGACACGCTAAAAACCAAAAAATTAGTTAACCCACAACACGCCAGGAACAGCC
Found at i:20237488 original size:24 final size:23
Alignment explanation
Indices: 20237445--20237497 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
20237435 ACAAAATCAT
20237445 CAATAAAAATAATATAATAAATAA
1 CAATAAAAATAATATAATAAA-AA
*
20237469 CAATAAAAA-AATGATGATAAAAA
1 CAATAAAAATAAT-ATAATAAAAA
*
20237492 TAATAA
1 CAATAA
20237498 TAATTCGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (23 bp):
CAATAAAAATAATATAATAAAAA
Found at i:20237492 original size:26 final size:26
Alignment explanation
Indices: 20237449--20237500 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
20237439 AATCATCAAT
20237449 AAAAATAATATAATAAATAACAATAA
1 AAAAATAATATAATAAATAACAATAA
* *
20237475 AAAAATGATGATAA-AAATAATAATAA
1 AAAAATAAT-ATAATAAATAACAATAA
20237501 TTCGAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (26 bp):
AAAAATAATATAATAAATAACAATAA
Found at i:20237768 original size:17 final size:16
Alignment explanation
Indices: 20237748--20237783 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
20237738 TTGCTTACGA
*
20237748 AAAAATATAATAATAAT
1 AAAAATATAAAAAT-AT
20237765 AAAAATATAAAAATAT
1 AAAAATATAAAAATAT
20237781 AAA
1 AAA
20237784 TAAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAATATAAAAATAT
Found at i:20237774 original size:8 final size:8
Alignment explanation
Indices: 20237748--20237783 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
20237738 TTGCTTACGA
20237748 AAAAATAT
1 AAAAATAT
*
20237756 AATAATAAT
1 AAAAAT-AT
20237765 AAAAATAT
1 AAAAATAT
20237773 AAAAATAT
1 AAAAATAT
20237781 AAA
1 AAA
20237784 TAAATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAAATAT
Found at i:20237777 original size:27 final size:27
Alignment explanation
Indices: 20237747--20237803 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
20237737 ATTGCTTACG
20237747 AAAAAATATAAT-AAT-AATAAAAATATA
1 AAAAAATA-AATAAATAAATAAAAA-ATA
*
20237774 AAAATATAAATAAATAAATAAAAAATA
1 AAAAAATAAATAAATAAATAAAAAATA
20237801 AAA
1 AAA
20237804 TTTTTGTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 3 0.11
27 16 0.59
28 8 0.30
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (27 bp):
AAAAAATAAATAAATAAATAAAAAATA
Found at i:20237779 original size:14 final size:14
Alignment explanation
Indices: 20237757--20237803 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
20237747 AAAAAATATA
*
20237757 ATAATAATAAAAAT
1 ATAAAAATAAAAAT
*
20237771 ATAAAAATATAAAT
1 ATAAAAATAAAAAT
20237785 A-AATAAATAAAAA-
1 ATAA-AAATAAAAAT
20237798 ATAAAA
1 ATAAAA
20237804 TTTTTGTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
ATAAAAATAAAAAT
Found at i:20237785 original size:20 final size:19
Alignment explanation
Indices: 20237762--20237802 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
20237752 ATATAATAAT
20237762 AATAAA-AATATAAAAATATA
1 AATAAATAA-ATAAAAA-ATA
20237782 AATAAATAAATAAAAAATA
1 AATAAATAAATAAAAAATA
20237801 AA
1 AA
20237803 ATTTTTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 13 0.65
21 2 0.10
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AATAAATAAATAAAAAATA
Found at i:20237932 original size:13 final size:13
Alignment explanation
Indices: 20237901--20237959 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
20237891 GTAAAGTATG
*
20237901 AAAAAAATAATAT
1 AAAAAAATAAAAT
**
20237914 TTAAAAATAAAAT
1 AAAAAAATAAAAT
*
20237927 AGAAAAATATGATAAT
1 A-AAAAA-AT-AAAAT
20237943 AAAAAAATAAAAT
1 AAAAAAATAAAAT
20237956 AAAA
1 AAAA
20237960 TGAAAATAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
13 18 0.50
14 6 0.17
15 7 0.19
16 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:20237932 original size:27 final size:27
Alignment explanation
Indices: 20237902--20237996 Score: 66
Period size: 29 Copynumber: 3.3 Consensus size: 27
20237892 TAAAGTATGA
20237902 AAAAAATAATATTTAAAAATAAAATAG
1 AAAAAATAATATTTAAAAATAAAATAG
* ** *
20237929 AAAAATATGATAATAAAAAAATAAAATAA
1 AAAAA-ATAAT-ATTTAAAAATAAAATAG
* *
20237958 AATGAAAATAACAATTAAATAATAATAA-ATG
1 AA--AAAATAATATTTAAA-AATAA-AATA-G
20237989 AAAAAATA
1 AAAAAATA
20237997 GATAATTGCA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
27 5 0.10
28 4 0.08
29 26 0.51
30 9 0.18
31 7 0.14
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (27 bp):
AAAAAATAATATTTAAAAATAAAATAG
Found at i:20244277 original size:18 final size:18
Alignment explanation
Indices: 20244248--20244289 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
20244238 TTATATATTG
*
20244248 TTTTTGTTTTTTTCT-TA
1 TTTTTTTTTTTTTCTCTA
*
20244265 TTCTTTTTTTTTTCTCTA
1 TTTTTTTTTTTTTCTCTA
20244283 TTTTTTT
1 TTTTTTT
20244290 CTCTCTCCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTTTTTCTCTA
Found at i:20244650 original size:47 final size:47
Alignment explanation
Indices: 20244580--20244675 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 47
20244570 AATTAAGGGA
*
20244580 TTAAACTGTTACGATTTTGAATAG-AGAGACTAAATTTCATAAGAATT
1 TTAAACTGTTACGATTTTAAATAGAAG-GACTAAATTTCATAAGAATT
* * * * *
20244627 TTAAATTGTTATGATTTTAAATAGAAGGATTAAATTTCGTAATAATT
1 TTAAACTGTTACGATTTTAAATAGAAGGACTAAATTTCATAAGAATT
20244674 TT
1 TT
20244676 GGAGAAAACG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 40 0.95
48 2 0.05
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (47 bp):
TTAAACTGTTACGATTTTAAATAGAAGGACTAAATTTCATAAGAATT
Found at i:20245005 original size:282 final size:276
Alignment explanation
Indices: 20244627--20245134 Score: 608
Period size: 283 Copynumber: 1.8 Consensus size: 276
20244617 CATAAGAATT
* * * * *
20244627 TTAAATTGTTATGATTTTAAATAGAAGGATTAAATTTCGTAATAATTTTGGAGAAAACGATAAAA
1 TTAAATTGTTATGATTTTAAATAAAAGGATTAAATTTCATAATAATTTTGAAAAAAACGAAAAAA
* *
20244692 TTGAAGTAATTTATAAAATCAAGACATTAAACTGCTGCGATTTTGAATAGAA-GAAAAAACAAAT
66 TTGAAGTAATTTATAAAATCAAGACATTAAACTACTACGATTTTGAATA-AAGGAAAAAACAAAT
* * * * * * *
20244756 CAAG-GATTAAACTGTTACGATTTTGAATAGATAGACTGAATTTCACAATAATTTTGGAGAAAAC
130 CAAGAAATTAAACTGATACAATTTTGAATAAAAAGACTAAATTTCACAATAATTTTAGAGAAAAC
* * *
20244820 AACGACGATAAAATTGAAGTAATTCTTAAAATCAAGAGATTAAAATTGTTGTGATTTTTAATAAA
195 AACAAAGATAAAATTAAAGTAATTCTTAAAATCAAGAGATTAAAATTGTTGTGATTTTTAATAAA
20244885 GAAAGCAAATCAAGAGA
260 GAAAGCAAATCAAGAGA
* * *
20244902 TTAAATTGTTGTGATTTTGAATAAAAAGGATTAAATTTTATAATAATTTTGAAAAAAACAACAAG
1 TTAAATTGTTATGATTTTAAAT-AAAAGGATTAAATTTCATAATAATTTTG--AAAAA-AAC---
* * * * *
20244967 GAAAAAATTGATGTAATTCT-TAAAATCAAGAGATTAAACTATTATGATTTTGAATAAAGGAGAA
59 GAAAAAATTGAAGTAATT-TATAAAATCAAGACATTAAACTACTACGATTTTGAATAAAGGAAAA
* * * * * *
20245031 AATAAATCAAGAAATTAAATTGATGCAATTTTGAATAAAAAGATTAAATTTTATAATAATTTTAG
123 AACAAATCAAGAAATTAAACTGATACAATTTTGAATAAAAAGACTAAATTTCACAATAATTTTAG
* * *
20245096 AGAAAATAATAAAGATAAAATTAAAGTAATTTTTAAAAT
188 AGAAAACAACAAAGATAAAATTAAAGTAATTCTTAAAAT
20245135 TAAAAAATTA
Statistics
Matches: 189, Mismatches: 34, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
275 20 0.11
276 25 0.13
278 3 0.02
279 3 0.02
281 2 0.01
282 61 0.32
283 75 0.40
ACGTcount: A:0.48, C:0.06, G:0.14, T:0.32
Consensus pattern (276 bp):
TTAAATTGTTATGATTTTAAATAAAAGGATTAAATTTCATAATAATTTTGAAAAAAACGAAAAAA
TTGAAGTAATTTATAAAATCAAGACATTAAACTACTACGATTTTGAATAAAGGAAAAAACAAATC
AAGAAATTAAACTGATACAATTTTGAATAAAAAGACTAAATTTCACAATAATTTTAGAGAAAACA
ACAAAGATAAAATTAAAGTAATTCTTAAAATCAAGAGATTAAAATTGTTGTGATTTTTAATAAAG
AAAGCAAATCAAGAGA
Found at i:20245132 original size:142 final size:140
Alignment explanation
Indices: 20244627--20245165 Score: 538
Period size: 141 Copynumber: 3.9 Consensus size: 140
20244617 CATAAGAATT
** * * * ** *
20244627 TTAAATTGTTATGATTTTAAATAGAAGGATTAAATTTCGTAATAATTTTG-GAGAA-AAC---GA
1 TTAAATTGTTGCGATTTTGAATAAAAAGATTAAATTTTATAATAATTTTGAGAAAACAACAAAGA
* * * *
20244687 TAAAATTGAAGTAATT-TATAAAATCAAGACATTAAACTGCTGCGATTTTGAATAGAAGAAAAAA
66 TAAAATTGAAGTAATTCT-TAAAATCAAGAGATTAAACTGTTGTGATTTTGAATA-AAGAGAAAA
20244751 CAAATCAAG-GA
129 CAAATCAAGAGA
* * * * * * * * * *
20244762 TTAAACTGTTACGATTTTGAATAGATAGACTGAATTTCACAATAATTTTGGAGAAAACAACGACG
1 TTAAATTGTTGCGATTTTGAATAAAAAGATTAAATTTTATAATAATTTT-GAGAAAACAACAAAG
* * *
20244827 ATAAAATTGAAGTAATTCTTAAAATCAAGAGATTAAAATTGTTGTGATTTTTAAT-AA-AGAAAG
65 ATAAAATTGAAGTAATTCTTAAAATCAAGAGATT-AAACTGTTGTGATTTTGAATAAAGAGAAAA
20244890 CAAATCAAGAGA
129 CAAATCAAGAGA
* * *
20244902 TTAAATTGTTGTGATTTTGAATAAAAAGGATTAAATTTTATAATAATTTTGAAAAAAACAACAAG
1 TTAAATTGTTGCGATTTTGAATAAAAA-GATTAAATTTTATAATAATTTTG-AGAAAACAACAAA
* * * *
20244967 GAAAAAATTGATGTAATTCTTAAAATCAAGAGATTAAACTATTATGATTTTGAATAAAGGAGAAA
64 GATAAAATTGAAGTAATTCTTAAAATCAAGAGATTAAACTGTTGTGATTTTGAATAAA-GAGAAA
* *
20245032 ATAAATCAAGAAA
128 ACAAATCAAGAGA
* * * *
20245045 TTAAATTGATGCAATTTTGAATAAAAAGATTAAATTTTATAATAATTTTAGAGAAAATAATAAAG
1 TTAAATTGTTGCGATTTTGAATAAAAAGATTAAATTTTATAATAATTTT-GAGAAAACAACAAAG
* * * * * * *
20245110 ATAAAATTAAAGTAATTTTTAAAATTAAAAAATTAAACTGTTTTAATTTTGAATAA
65 ATAAAATTGAAGTAATTCTTAAAATCAAGAGATTAAACTGTTGTGATTTTGAATAA
20245166 CAAAACTAAA
Statistics
Matches: 334, Mismatches: 55, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
135 40 0.12
136 1 0.00
137 4 0.01
138 3 0.01
139 13 0.04
140 43 0.13
141 95 0.28
142 95 0.28
143 40 0.12
ACGTcount: A:0.48, C:0.05, G:0.13, T:0.33
Consensus pattern (140 bp):
TTAAATTGTTGCGATTTTGAATAAAAAGATTAAATTTTATAATAATTTTGAGAAAACAACAAAGA
TAAAATTGAAGTAATTCTTAAAATCAAGAGATTAAACTGTTGTGATTTTGAATAAAGAGAAAACA
AATCAAGAGA
Found at i:20245417 original size:29 final size:30
Alignment explanation
Indices: 20245362--20245428 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
20245352 TGATGGGACA
* *
20245362 ACATGTCTCTGCTGGCCGGAAATTGGTGTGT
1 ACATGT-TCTGCTGGCCGCAAACTGGTGTGT
*
20245393 AC-TGTTCTGCTGGCTGCAAACTGGTGTGT
1 ACATGTTCTGCTGGCCGCAAACTGGTGTGT
20245422 ACATGTT
1 ACATGTT
20245429 GATGTTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 23 0.72
30 7 0.22
31 2 0.06
ACGTcount: A:0.16, C:0.19, G:0.30, T:0.34
Consensus pattern (30 bp):
ACATGTTCTGCTGGCCGCAAACTGGTGTGT
Found at i:20250219 original size:36 final size:37
Alignment explanation
Indices: 20250134--20250232 Score: 155
Period size: 37 Copynumber: 2.7 Consensus size: 37
20250124 GGATAATACT
*
20250134 TTCCGTTGGAAATCCGTTAAAAATTTTCAACAGAAAA
1 TTCCGTTGGAAATCCGTTGAAAATTTTCAACAGAAAA
* *
20250171 TTTCGTTAGAAATCCGTTGAAAATTTTCAACAG-AAA
1 TTCCGTTGGAAATCCGTTGAAAATTTTCAACAGAAAA
*
20250207 TTCCATTGGAAATCCGTTGAAAATTT
1 TTCCGTTGGAAATCCGTTGAAAATTT
20250233 GAAATTTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
36 26 0.46
37 30 0.54
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.33
Consensus pattern (37 bp):
TTCCGTTGGAAATCCGTTGAAAATTTTCAACAGAAAA
Found at i:20252838 original size:6 final size:6
Alignment explanation
Indices: 20252758--20252837 Score: 124
Period size: 6 Copynumber: 13.3 Consensus size: 6
20252748 GCTCCACATG
*
20252758 ATCTTC ATCTTC ATCTTC ATCTTC ATCATC ATCTTC ATCTTC ATCTTC
1 ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC
* * *
20252806 ATCATC ATCTTC ATCTTC ATCATC ATTTTC AT
1 ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC AT
20252838 TATCTTCTCC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
ATCTTC
Found at i:20256139 original size:298 final size:298
Alignment explanation
Indices: 20255603--20256201 Score: 1074
Period size: 298 Copynumber: 2.0 Consensus size: 298
20255593 AGCTTTGCTA
**
20255603 CCTTCTTCTTCATTTTATAAAAGTCGATAGGTAAATTCTCATCAGATGGCAACATATTCTTTATT
1 CCTTCTTCTTCATCCTATAAAAGTCGATAGGTAAATTCTCATCAGATGGCAACATATTCTTTATT
*
20255668 TTCTCCAACAGTCGATCAAAACATGATTCACTCAAATTGTACTCCGCCTTAACATTTAAAAGTTG
66 TTCTCCAACAGTCGATCAAAACATGATTCACTCAAATTGTACTCAGCCTTAACATTTAAAAGTTG
*
20255733 CGACACAACTGAAAGCGTTGTGTGCTTTGTGCAACCTACCCATAAAGGTTCCTCTGCATTGCTTA
131 CGACACAACTGAAAGCGTTGTGTGCTTTGTGCAACCTACCCACAAAGGTTCCTCTGCATTGCTTA
* * *
20255798 ACAAAGAGTAAAAGGAAGATGCATTTGGATTGGGATCTTCTTCCGCAAAGCTCGACTCATTTTCA
196 ACAAAGAGTAAAAAGAAGATGCATTTGGATTGGGATCTTCTTCCACAAAGCTCAACTCATTTTCA
**
20255863 AAACCATGGTTGAAAGCAACTTCGGGATGCATAGCATC
261 AAACCATGGTTGAAAGCAACTTCGGGACACATAGCATC
20255901 CCTTCTTCTTCATCCTATAAAAGTCGATAGGTAAATTCTCATCAGATGGCAACATATTCTTTATT
1 CCTTCTTCTTCATCCTATAAAAGTCGATAGGTAAATTCTCATCAGATGGCAACATATTCTTTATT
*
20255966 ATT-TCCAACAGTTGATCAAAACATGATTCACTCAAATTGTACTCAGCCTTAACATTTAAAAGTT
66 -TTCTCCAACAGTCGATCAAAACATGATTCACTCAAATTGTACTCAGCCTTAACATTTAAAAGTT
20256030 GCGACACAACTGAAAGCGTTGTGTGCTTTGTGCAACCTACCCACAAAGGTTCCTCTGCATTGCTT
130 GCGACACAACTGAAAGCGTTGTGTGCTTTGTGCAACCTACCCACAAAGGTTCCTCTGCATTGCTT
*
20256095 AACAAAGAGTAAAAAGAAGATGCATTTGGATTGGGATCTTCTTCCATAAAGCTCAACTCATTTTC
195 AACAAAGAGTAAAAAGAAGATGCATTTGGATTGGGATCTTCTTCCACAAAGCTCAACTCATTTTC
*
20256160 AGAACCATGGTTGAAAGCAACTTCGGGACACATAGCATC
260 AAAACCATGGTTGAAAGCAACTTCGGGACACATAGCATC
20256199 CCT
1 CCT
20256202 AACCATTCTA
Statistics
Matches: 288, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
298 286 0.99
299 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (298 bp):
CCTTCTTCTTCATCCTATAAAAGTCGATAGGTAAATTCTCATCAGATGGCAACATATTCTTTATT
TTCTCCAACAGTCGATCAAAACATGATTCACTCAAATTGTACTCAGCCTTAACATTTAAAAGTTG
CGACACAACTGAAAGCGTTGTGTGCTTTGTGCAACCTACCCACAAAGGTTCCTCTGCATTGCTTA
ACAAAGAGTAAAAAGAAGATGCATTTGGATTGGGATCTTCTTCCACAAAGCTCAACTCATTTTCA
AAACCATGGTTGAAAGCAACTTCGGGACACATAGCATC
Found at i:20257030 original size:461 final size:459
Alignment explanation
Indices: 20256167--20257064 Score: 1634
Period size: 461 Copynumber: 2.0 Consensus size: 459
20256157 TTCAGAACCA
20256167 TGGTTGAAAGCAACTTCGGGACACATAGCATCCCTAACCATTCTAGTATATGAATTTTCTATTTC
1 TGGTTGAAAGCAACTTCGGGACACATAGCATCCCTAACCATTCTAGTATATGAATTTTCTATTTC
20256232 ATCTTCATATGTAAGTTCTCGAAAAACAGCATCTCCCTCAAATCTAAGGGATGGTTCGACTCTAG
66 ATCTTCATATGTAAGTTCTCGAAAAACAGCATCTCCCTCAAATCTAAGGGATGGTTCGACTCTAG
* * *
20256297 ATTTGCTTCTTGATGATTGTCCAACATCATGTTTCCTATGTAAACTCCAAATTGTGTAAGCCCCA
131 ATTTGCTTCTTGATGATTGTCCAACATCATCTTCCCCATGTAAACTCCAAATTGTGTAAGCCCCA
*
20256362 GTAAAACCTCGGTTTAGGATGTGTTCTGTGACTTTATCTTTATCTAAGAACTTGTTGTTACTACA
196 GTAAAACCACGGTTTAGGATGTGTTCTGTGACTTTATCTTTATCTAAGAACTTGTTGTTACTACA
20256427 TCGTGTGCAAGGGCATCTAATTTTATTCTTCCACATAAATGTAGTCTTCGAACATGCAAAATTAA
261 TCGTGTGCAAGGGCATCTAATTTTATTCTTCCACATAAATGTAGTCTTCGAACATGCAAAATTAA
20256492 TAAATTCAGTAACTCCATTTACAAATTCAGTTGTAATGAATCCATTCTGTAATCGACAGTACATC
326 TAAATTCAGTAACTCCATTTACAAATTCAGTTGTAATGAATCCATTCTGTAATCGACAGTACATC
* *
20256557 CAAGAACGATCTCCCGACATTCTGTAATCCTAAGTGTCATAGAATATAATAATCAGGAGTAATTC
391 CAAGAACGATCTCCCGACACTCTATAATCCTAAGTGTCATAGAATATAATAATCAGGAGTAATTC
20256622 CCAT
456 CCAT
* * *
20256626 NTGGTTGAAAGCAACTTTGGGACGCATAGCATCTCTAACCATTCTAGTATATGAATTTTCTATTT
1 -TGGTTGAAAGCAACTTCGGGACACATAGCATCCCTAACCATTCTAGTATATGAATTTTCTATTT
20256691 CATCTTCATATGTAAGTTCTCGAAAAACAGCATCTCCCTCAAATCTAAGGGATGGTTCGACTCTA
65 CATCTTCATATGTAAGTTCTCGAAAAACAGCATCTCCCTCAAATCTAAGGGATGGTTCGACTCTA
*
20256756 GATTTGCTTCTTGATGATTGTCCAACATAGATCTTCCCCATGTAAACTCCAAATTGTGTAAGCCC
130 GATTTGCTTCTTGATGATTGTCCAACAT-CATCTTCCCCATGTAAACTCCAAATTGTGTAAGCCC
*
20256821 TAGTAAAACCACGGTTTAGGATGTGTTCTGTGACTTTATCTTTATCTAAGAACTTGTTGTTACTA
194 CAGTAAAACCACGGTTTAGGATGTGTTCTGTGACTTTATCTTTATCTAAGAACTTGTTGTTACTA
20256886 CATCGTGTGCAAGGGCATCTAATTTTATTCTTCCACATAAATGTAGTCTTCGAACATGCAAAATT
259 CATCGTGTGCAAGGGCATCTAATTTTATTCTTCCACATAAATGTAGTCTTCGAACATGCAAAATT
* * *
20256951 AATAAATTTAGTAACTCCATTTACAAATTCAGTTGTAATGAATCCATTCTGTAATTGACGGTACA
324 AATAAATTCAGTAACTCCATTTACAAATTCAGTTGTAATGAATCCATTCTGTAATCGACAGTACA
* *
20257016 TCCAAGAGCGATCTCCCGACACTCTATAATTCTAAGTGTCATAGAATAT
389 TCCAAGAACGATCTCCCGACACTCTATAATCCTAAGTGTCATAGAATAT
20257065 CATTATCAAG
Statistics
Matches: 421, Mismatches: 16, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
460 154 0.37
461 267 0.63
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (459 bp):
TGGTTGAAAGCAACTTCGGGACACATAGCATCCCTAACCATTCTAGTATATGAATTTTCTATTTC
ATCTTCATATGTAAGTTCTCGAAAAACAGCATCTCCCTCAAATCTAAGGGATGGTTCGACTCTAG
ATTTGCTTCTTGATGATTGTCCAACATCATCTTCCCCATGTAAACTCCAAATTGTGTAAGCCCCA
GTAAAACCACGGTTTAGGATGTGTTCTGTGACTTTATCTTTATCTAAGAACTTGTTGTTACTACA
TCGTGTGCAAGGGCATCTAATTTTATTCTTCCACATAAATGTAGTCTTCGAACATGCAAAATTAA
TAAATTCAGTAACTCCATTTACAAATTCAGTTGTAATGAATCCATTCTGTAATCGACAGTACATC
CAAGAACGATCTCCCGACACTCTATAATCCTAAGTGTCATAGAATATAATAATCAGGAGTAATTC
CCAT
Found at i:20257146 original size:2 final size:2
Alignment explanation
Indices: 20257133--20257180 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
20257123 CAATATGTAT
*
20257133 TA TA TT TA TA TA TA TA TA TA -A TA TA TA TA TA -A TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20257172 TA TA TA TA T
1 TA TA TA TA T
20257181 TCAAAATTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20257156 original size:9 final size:9
Alignment explanation
Indices: 20257124--20257179 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
20257114 CCTACATTTC
*
20257124 AATATGTAT
1 AATATATAT
* *
20257133 TATATTTAT
1 AATATATAT
20257142 ATATATATAT
1 A-ATATATAT
20257152 AATATATAT
1 AATATATAT
20257161 -ATAATATAT
1 AAT-ATATAT
20257170 AATATATAT
1 AATATATAT
20257179 A
1 A
20257180 TTCAAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 2 0.05
9 28 0.70
10 10 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (9 bp):
AATATATAT
Found at i:20257158 original size:7 final size:8
Alignment explanation
Indices: 20257133--20257180 Score: 66
Period size: 7 Copynumber: 6.4 Consensus size: 8
20257123 CAATATGTAT
*
20257133 TATATTTA
1 TATATATA
20257141 TATATATA
1 TATATATA
20257149 TATA-ATA
1 TATATATA
20257156 TATATATA
1 TATATATA
20257164 -ATATATA
1 TATATATA
20257171 -ATATATA
1 TATATATA
20257178 TAT
1 TAT
20257181 TCAAAATTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
7 21 0.57
8 16 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TATATATA
Found at i:20257158 original size:11 final size:10
Alignment explanation
Indices: 20257133--20257180 Score: 66
Period size: 9 Copynumber: 5.1 Consensus size: 10
20257123 CAATATGTAT
*
20257133 TATATTTATA
1 TATATATATA
20257143 TATATATATA
1 TATATATATA
20257153 -ATATATATA
1 TATATATATA
20257162 TA-ATATATA
1 TATATATATA
20257171 -ATATATATA
1 TATATATATA
20257180 T
1 T
20257181 TCAAAATTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
8 1 0.03
9 23 0.68
10 10 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TATATATATA
Found at i:20258001 original size:35 final size:36
Alignment explanation
Indices: 20257939--20258019 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 36
20257929 ATTTTCTTCT
* * *
20257939 ACAAAAATATTAAAATTTAAATTTAAATAA-TCAAAA
1 ACAAAAATCTTAAAACTTAAAATTAAATAACT-AAAA
20257975 ACAAAAATCTT-AAACTTAAAATTAAATAACTAAAA
1 ACAAAAATCTTAAAACTTAAAATTAAATAACTAAAA
*
20258010 ACAAATATCT
1 ACAAAAATCT
20258020 GGGGAACTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 29 0.73
36 11 0.28
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (36 bp):
ACAAAAATCTTAAAACTTAAAATTAAATAACTAAAA
Found at i:20262868 original size:22 final size:21
Alignment explanation
Indices: 20262843--20262898 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
20262833 AAGAATTATT
20262843 AAAAAATTTATAAAAAAAATTA
1 AAAAAATTTATAAAAAAAA-TA
* * * *
20262865 AAAAAACTTATATAACATATA
1 AAAAAATTTATAAAAAAAATA
20262886 AAAAAATTT-TAAA
1 AAAAAATTTATAAA
20262899 CTTTTAGTAG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 3 0.11
21 10 0.36
22 15 0.54
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAAATTTATAAAAAAAATA
Found at i:20268910 original size:19 final size:19
Alignment explanation
Indices: 20268886--20268923 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
20268876 TCTTCTAAAC
20268886 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
20268905 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
20268924 AATCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:20273278 original size:18 final size:19
Alignment explanation
Indices: 20273237--20273286 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
20273227 CATTTCAAGA
*
20273237 ATTCATGCACATGACATAT
1 ATTCATCCACATGACATAT
* *
20273256 TTTCATCCATATG-CATAT
1 ATTCATCCACATGACATAT
20273274 ATTCATCTCACAT
1 ATTCATC-CACAT
20273287 TTTTTTTGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (19 bp):
ATTCATCCACATGACATAT
Found at i:20279559 original size:22 final size:22
Alignment explanation
Indices: 20279485--20279599 Score: 119
Period size: 21 Copynumber: 5.3 Consensus size: 22
20279475 CCTTTTCTTA
* *
20279485 TAAAACCTCTGGGTACATTTT-
1 TAAAACCTCCGAGTACATTTTC
*
20279506 TAAAACCTCCGAGTACA-TCTC
1 TAAAACCTCCGAGTACATTTTC
* *
20279527 CAAAACCTTCGAGTACATTTTC
1 TAAAACCTCCGAGTACATTTTC
* *
20279549 TAAAACTTTCGAGTACATTTTC
1 TAAAACCTCCGAGTACATTTTC
* *
20279571 -AAAACCTCCAAGTACATTTTTA
1 TAAAACCTCCGAGTACA-TTTTC
20279593 TAAAACC
1 TAAAACC
20279600 CCTAACTATC
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
20 2 0.03
21 43 0.55
22 27 0.35
23 6 0.08
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (22 bp):
TAAAACCTCCGAGTACATTTTC
Found at i:20279574 original size:43 final size:42
Alignment explanation
Indices: 20279497--20279592 Score: 129
Period size: 43 Copynumber: 2.3 Consensus size: 42
20279487 AAACCTCTGG
* *
20279497 GTACATTTTTAAAACCTCCGAGTACATCTCCAAAACCTTCGA
1 GTACATTTTTAAAACCTCCGAGTACATCTCCAAAACCTCCAA
* * * *
20279539 GTACATTTTCTAAAACTTTCGAGTACATTTTCAAAACCTCCAA
1 GTACATTTT-TAAAACCTCCGAGTACATCTCCAAAACCTCCAA
20279582 GTACATTTTTA
1 GTACATTTTTA
20279593 TAAAACCCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 11 0.23
43 36 0.77
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.34
Consensus pattern (42 bp):
GTACATTTTTAAAACCTCCGAGTACATCTCCAAAACCTCCAA
Found at i:20279691 original size:22 final size:21
Alignment explanation
Indices: 20279666--20279731 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
20279656 CCTTTCCTTA
* *
20279666 TAAAACCTCTGTGTACATTTTT
1 TAAAACCTCCGAGTACA-TTTT
20279688 TAAAACCTCCGAGTACATTTT
1 TAAAACCTCCGAGTACATTTT
* * *
20279709 CAAAACCTCCAAGTACACTTT
1 TAAAACCTCCGAGTACATTTT
20279730 TA
1 TA
20279732 TGAAACCTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
21 23 0.61
22 15 0.39
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (21 bp):
TAAAACCTCCGAGTACATTTT
Found at i:20279841 original size:21 final size:21
Alignment explanation
Indices: 20279815--20279895 Score: 92
Period size: 21 Copynumber: 3.9 Consensus size: 21
20279805 TTTTTTTTTA
* *
20279815 TAAAACCTTTGAGTATATCTT
1 TAAAACCTCTGAGTACATCTT
**
20279836 TAAAACCTCCAAGTACATCTT
1 TAAAACCTCTGAGTACATCTT
* *
20279857 CAAAACCTCTGAGTACATTTT
1 TAAAACCTCTGAGTACATCTT
20279878 TAAAACCTCT-AGATACAT
1 TAAAACCTCTGAG-TACAT
20279896 TATCAAAACC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 2 0.04
21 48 0.96
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (21 bp):
TAAAACCTCTGAGTACATCTT
Found at i:20279884 original size:146 final size:146
Alignment explanation
Indices: 20279528--20279885 Score: 371
Period size: 139 Copynumber: 2.5 Consensus size: 146
20279518 GTACATCTCC
* * * * *
20279528 AAAACCT-TCGAGTACATT-TTCTAAAACTTTCGAGTACATTTTCAAAACCTCCAAGTACATTTT
1 AAAACCTCT-GAGTACATTCTT-TAAAACCTCCAAGTACATCTTCAAAACCTCCAAGTACACTTT
* *
20279591 TATAAAACC--C--CTAACT---ATCAATATATCTTTAAAGTTATGTAGCCTCATTTAGAAACGA
64 TATAAAACCTTCGGGTAACTAGCATCAATATATCTTTAAAGTTACGTAGCCTCATTTAGAAACGA
* *
20279649 GGAGCAACCTTTCCTTAT
129 CGAACAACCTTTCCTTAT
* * * *
20279667 AAAACCTCTGTGTACATTTTTTAAAACCTCCGAGTACATTTTCAAAACCTCCAAGTACACTTTTA
1 AAAACCTCTGAGTACATTCTTTAAAACCTCCAAGTACATCTTCAAAACCTCCAAGTACACTTTTA
* * * * *
20279732 TGAAACCTTCGGGTAACTAGCATCAATATTTCTTTATAGTTACGTAGCCTCATTTAGAGATGACG
66 TAAAACCTTCGGGTAACTAGCATCAATATATCTTTAAAGTTACGTAGCCTCATTTAGAAACGACG
**
20279797 AACAACCTTTTTTTTTTAT
131 AACAACC---TTTCCTTAT
* * **
20279816 AAAACCTTTGAGTATA-TCTTTAAAACCTCCAAGTACATCTTCAAAACCTCTGAGTACA-TTTT-
1 AAAACCTCTGAGTACATTCTTTAAAACCTCCAAGTACATCTTCAAAACCTCCAAGTACACTTTTA
20279878 TAAAACCT
66 TAAAACCT
20279886 CTAGATACAT
Statistics
Matches: 183, Mismatches: 24, Indels: 17
0.82 0.11 0.08
Matches are distributed among these distances:
139 62 0.34
140 3 0.02
141 1 0.01
143 5 0.03
146 51 0.28
147 4 0.02
148 37 0.20
149 20 0.11
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.35
Consensus pattern (146 bp):
AAAACCTCTGAGTACATTCTTTAAAACCTCCAAGTACATCTTCAAAACCTCCAAGTACACTTTTA
TAAAACCTTCGGGTAACTAGCATCAATATATCTTTAAAGTTACGTAGCCTCATTTAGAAACGACG
AACAACCTTTCCTTAT
Found at i:20279895 original size:42 final size:42
Alignment explanation
Indices: 20279812--20279907 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
20279802 CCTTTTTTTT
* *
20279812 TTAT-AAAACCTTTGAGTATATCTTTAAAACCTCCAAGTACA
1 TTATCAAAACCTCTGAGTACATCTTTAAAACCTCCAAGTACA
* *
20279853 TCT-TCAAAACCTCTGAGTACATTTTTAAAACCT-CTAGATACA
1 T-TATCAAAACCTCTGAGTACATCTTTAAAACCTCCAAG-TACA
20279895 TTATCAAAACCTC
1 TTATCAAAACCTC
20279908 CAGGTACATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
41 6 0.13
42 41 0.87
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (42 bp):
TTATCAAAACCTCTGAGTACATCTTTAAAACCTCCAAGTACA
Found at i:20279896 original size:21 final size:22
Alignment explanation
Indices: 20279837--20279917 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 22
20279827 GTATATCTTT
*
20279837 AAAACCTCCA-AGTACATCTTC
1 AAAACCTCCAGAGTACATTTTC
* *
20279858 AAAACCT-CTGAGTACATTTTT
1 AAAACCTCCAGAGTACATTTTC
* *
20279879 AAAACCTCTAGA-TACATTATC
1 AAAACCTCCAGAGTACATTTTC
20279900 AAAACCTCCAG-GTACATT
1 AAAACCTCCAGAGTACATT
20279918 CTTATGAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
20 1 0.02
21 46 0.94
22 2 0.04
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.28
Consensus pattern (22 bp):
AAAACCTCCAGAGTACATTTTC
Found at i:20280032 original size:337 final size:327
Alignment explanation
Indices: 20279427--20280041 Score: 808
Period size: 337 Copynumber: 1.9 Consensus size: 327
20279417 GTAATTAGTG
* *
20279427 TCAATATTTCTTTAAAGTTACTTAGCCCCATTTTGAGATGAAGAACAACCTTTTCTTATAAAACC
1 TCAATATTTCTTTAAAGTTACGTAGCCCCATTTAGAGATGAAGAACAACCTTTTCTTATAAAACC
* * * *
20279492 TCTGGGTACATTTTTAAAACCTCCGAGTACATCTCCAAAACCTTCGAGTACATTTTCTAAAACTT
66 TCTGAGTACATCTTTAAAACCTCCAAGTACATCTCCAAAACCTTCGAGTACATTTTCTAAAACTC
* * * *
20279557 TCGAGTACATTTTCAAAACCTCCAAGTACATTTTTATAAAACCCCTAACTATCAATATATCTTTA
131 TAGAGTACATTATCAAAACCTCCAAGTACATTCTTATAAAACCCCTAACTAGCAATATATCTTTA
* * *
20279622 AAGTTATGTAGCCTCATTTAGAAACGAGGAGCAACCTTTCCTTATAAAACCTCTGTGTACATTTT
196 AAGGTACGTAGCCTCATTTAGAAACGAGGAGCAACCTTTCCTTATAAAACCTCTGTGTACATTCT
**
20279687 TTAAAACCTCCGAGTACATTTTCAAAACCTCCAAGTACACTTTTATGAAACCTTCGGGTAACTAG
261 CCAAAACCTCCGAGTACATTTTCAAAACCTCCAAGTACACTTTTATGAAACCTTCGGGTAACTAG
20279752 CA
326 CA
* * * *
20279754 TCAATATTTCTTTATAGTTACGTAGCCTCATTTAGAGATGACGAACAACCTTTTTTTTTTATAAA
1 TCAATATTTCTTTAAAGTTACGTAGCCCCATTTAGAGATGAAGAACAACC---TTTTCTTATAAA
* * *
20279819 ACCTTTGAGTATATCTTTAAAACCTCCAAGTACATCTTCAAAACC-TCTGAGTACATTTT-TAAA
63 ACCTCTGAGTACATCTTTAAAACCTCCAAGTACATCTCCAAAACCTTC-GAGTACATTTTCTAAA
* *
20279882 ACCTCTAGA-TACATTATCAAAACCTCCAGGTACATTCTTATGAAATCTCCGGAC-AACTAGCAA
127 A-CTCTAGAGTACATTATCAAAACCTCCAAGTACATTCTTAT-AAAAC-CC---CTAACTAGCAA
* * *
20279945 TAATATTTCCTTTAAAGGTACGTAGCCTCATTTAGAGATGAGGAGCAACCTTTTCTTATAAAACC
186 T-ATA--T-CTTTAAAGGTACGTAGCCTCATTTAGAAACGAGGAGCAACCTTTCCTTATAAAACC
*
20280010 TCT-TATTACATTCTCCAAAACCTCCGAGTACA
247 TCTGT-GTACATTCTCCAAAACCTCCGAGTACA
20280042 CTCTTATAAA
Statistics
Matches: 245, Mismatches: 28, Indels: 20
0.84 0.10 0.07
Matches are distributed among these distances:
327 45 0.18
329 36 0.15
330 70 0.29
331 2 0.01
333 9 0.04
334 4 0.02
336 2 0.01
337 77 0.31
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (327 bp):
TCAATATTTCTTTAAAGTTACGTAGCCCCATTTAGAGATGAAGAACAACCTTTTCTTATAAAACC
TCTGAGTACATCTTTAAAACCTCCAAGTACATCTCCAAAACCTTCGAGTACATTTTCTAAAACTC
TAGAGTACATTATCAAAACCTCCAAGTACATTCTTATAAAACCCCTAACTAGCAATATATCTTTA
AAGGTACGTAGCCTCATTTAGAAACGAGGAGCAACCTTTCCTTATAAAACCTCTGTGTACATTCT
CCAAAACCTCCGAGTACATTTTCAAAACCTCCAAGTACACTTTTATGAAACCTTCGGGTAACTAG
CA
Found at i:20280156 original size:51 final size:51
Alignment explanation
Indices: 20280071--20280208 Score: 190
Period size: 51 Copynumber: 2.7 Consensus size: 51
20280061 GTAATCATTT
* * * *
20280071 ATTTC-TTTAAAGTTGTTTAAGCCTTGGGTCAGGAGTTGTTTATTTTTTGA
1 ATTTCTTTTAAAATTGTTTAAGCCTCGGATGAGGAGTTGTTTATTTTTTGA
20280121 ATTTCTTTTAAAATTGTTTAAGCCTCGGATGAGGAGTTGTTTATTTTTTGA
1 ATTTCTTTTAAAATTGTTTAAGCCTCGGATGAGGAGTTGTTTATTTTTTGA
** * *
20280172 ATTGATTTTCAAATTGTGTAA-CCTCGGATGAGGAGTT
1 ATTTCTTTTAAAATTGTTTAAGCCTCGGATGAGGAGTT
20280209 ATATAATTAG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 21 0.27
51 58 0.73
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (51 bp):
ATTTCTTTTAAAATTGTTTAAGCCTCGGATGAGGAGTTGTTTATTTTTTGA
Found at i:20280330 original size:12 final size:13
Alignment explanation
Indices: 20280312--20280344 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
20280302 AATCAATTTC
*
20280312 TTTTATTTATTTA
1 TTTTATTTACTTA
20280325 -TTTATTTACTTA
1 TTTTATTTACTTA
20280337 TTTTATTT
1 TTTTATTT
20280345 TATTGATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTACTTA
Found at i:20281302 original size:32 final size:32
Alignment explanation
Indices: 20281266--20281340 Score: 141
Period size: 32 Copynumber: 2.3 Consensus size: 32
20281256 GTTGAGTCGA
*
20281266 GAGAGAAAAAAAGAAGGGAAATGGAGAAAGAG
1 GAGAGAAAAAAAAAAGGGAAATGGAGAAAGAG
20281298 GAGAGAAAAAAAAAAGGGAAATGGAGAAAGAG
1 GAGAGAAAAAAAAAAGGGAAATGGAGAAAGAG
20281330 GAGAGAAAAAA
1 GAGAGAAAAAA
20281341 GAGATTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.03
Consensus pattern (32 bp):
GAGAGAAAAAAAAAAGGGAAATGGAGAAAGAG
Found at i:20281774 original size:26 final size:27
Alignment explanation
Indices: 20281745--20281795 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
20281735 AAATAGACAG
*
20281745 AAAAATGA-AAAAATGGTTATAATAAT
1 AAAAATGATAAAAATGGTTAAAATAAT
*
20281771 AAAAATGATAAAAATGTTTAAAATA
1 AAAAATGATAAAAATGGTTAAAATA
20281796 TGTTTAGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (27 bp):
AAAAATGATAAAAATGGTTAAAATAAT
Found at i:20282575 original size:17 final size:17
Alignment explanation
Indices: 20282553--20282585 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20282543 TTATTTCTTC
*
20282553 TTTTTCTTTTTATTTTG
1 TTTTTCATTTTATTTTG
20282570 TTTTTCATTTTATTTT
1 TTTTTCATTTTATTTT
20282586 TGATCTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTCATTTTATTTTG
Found at i:20287443 original size:2 final size:2
Alignment explanation
Indices: 20287388--20287429 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
20287378 ACACACACAC
20287388 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20287430 TCTTATGCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20288463 original size:32 final size:31
Alignment explanation
Indices: 20288421--20288486 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 31
20288411 TATCATATTG
* *
20288421 TTTTTTTTTTTT-CAAAGTACATACATTTGA
1 TTTTTTTTTTTTGAAAAGAACATACATTTGA
*
20288451 TTTTTTTGTTTTTGAAAAGAACATAGATTTGA
1 TTTTTTT-TTTTTGAAAAGAACATACATTTGA
20288483 TTTT
1 TTTT
20288487 AGGAAACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 7 0.23
31 5 0.16
32 19 0.61
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.56
Consensus pattern (31 bp):
TTTTTTTTTTTTGAAAAGAACATACATTTGA
Found at i:20290896 original size:16 final size:16
Alignment explanation
Indices: 20290864--20290893 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20290854 TATTTTGTGT
20290864 TAACATTATAAAATTA
1 TAACATTATAAAATTA
20290880 TAAC-TTATAAAATT
1 TAACATTATAAAATT
20290894 TATTTTTTGT
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:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
TAACATTATAAAATTA
Found at i:20290953 original size:41 final size:40
Alignment explanation
Indices: 20290902--20291041 Score: 165
Period size: 41 Copynumber: 3.5 Consensus size: 40
20290892 TTTATTTTTT
20290902 GTTATTTAAGTTTATGTTATTTGTTTGGATATTTGTTGTTA
1 GTTATTTAAGTTTATGTTATTTGTTTGGATATTT-TTGTTA
* * * *
20290943 GTTATTTAAGTTTATGTTGTTTATTTGAATATTTATGTATA
1 GTTATTTAAGTTTATGTTATTTGTTTGGATATTTTTGT-TA
* ** * *
20290984 GTTATTTAAGTTTAT-ATCGTTGTATGGATATTTATTTTTA
1 GTTATTTAAGTTTATGTTATTTGTTTGGATATTT-TTGTTA
20291024 GTTATTTAAGTTTATGTT
1 GTTATTTAAGTTTATGTT
20291042 TAAGATCTTT
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
40 32 0.39
41 51 0.61
ACGTcount: A:0.24, C:0.01, G:0.16, T:0.59
Consensus pattern (40 bp):
GTTATTTAAGTTTATGTTATTTGTTTGGATATTTTTGTTA
Found at i:20296083 original size:15 final size:15
Alignment explanation
Indices: 20296063--20296091 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20296053 TTTGTTAAAC
20296063 TTTATATATAATTAA
1 TTTATATATAATTAA
20296078 TTTATATATAATTA
1 TTTATATATAATTA
20296092 CATATATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATATATAATTAA
Found at i:20305279 original size:42 final size:42
Alignment explanation
Indices: 20305213--20305308 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
20305203 TTATGCGCAT
*
20305213 ATAGCCGGGTCAACAACGGCTTATGTGCACTCCCACTCACAC
1 ATAGCCGGGTCAACAACAGCTTATGTGCACTCCCACTCACAC
* * * **
20305255 ATAGCTGGGTCAACAACAGTTTATGTGCACTCCTACTTGCAC
1 ATAGCCGGGTCAACAACAGCTTATGTGCACTCCCACTCACAC
20305297 ATAGCCGGGTCA
1 ATAGCCGGGTCA
20305309 GCACTCCTAC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (42 bp):
ATAGCCGGGTCAACAACAGCTTATGTGCACTCCCACTCACAC
Found at i:20305326 original size:28 final size:28
Alignment explanation
Indices: 20305281--20305335 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
20305271 CAGTTTATGT
**
20305281 GCACTCCTACTTGCACATAGCCGGGTCA
1 GCACTCCTACTCACACATAGCCGGGTCA
*
20305309 GCACTCCTACTCATACATAGCCGGGTC
1 GCACTCCTACTCACACATAGCCGGGTC
20305336 CAAATCAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (28 bp):
GCACTCCTACTCACACATAGCCGGGTCA
Found at i:20311699 original size:14 final size:14
Alignment explanation
Indices: 20311677--20311712 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
20311667 TTGTAAATTA
*
20311677 TCTCTTCATCTTAC
1 TCTCCTCATCTTAC
20311691 TCTCCTCATCTTAC
1 TCTCCTCATCTTAC
*
20311705 TCCCCTCA
1 TCTCCTCA
20311713 AATGTAACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.14, C:0.44, G:0.00, T:0.42
Consensus pattern (14 bp):
TCTCCTCATCTTAC
Found at i:20319246 original size:14 final size:16
Alignment explanation
Indices: 20319211--20319249 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
20319201 ATTATTATTA
20319211 TTATTATTT-TCCATT
1 TTATTATTTCTCCATT
20319226 TTATTATTTCTCC-TT
1 TTATTATTTCTCCATT
20319241 TT-TTATTTC
1 TTATTATTTC
20319250 ATTTTTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.30
15 13 0.57
16 3 0.13
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTATTTCTCCATT
Found at i:20319576 original size:17 final size:17
Alignment explanation
Indices: 20319551--20319585 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
20319541 ATTTTTTATT
20319551 TTTGCCATGCATCTATA
1 TTTGCCATGCATCTATA
*
20319568 TTTGTCATGCATCTATA
1 TTTGCCATGCATCTATA
20319585 T
1 T
20319586 ATATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (17 bp):
TTTGCCATGCATCTATA
Found at i:20319662 original size:2 final size:2
Alignment explanation
Indices: 20319655--20319748 Score: 152
Period size: 2 Copynumber: 47.0 Consensus size: 2
20319645 NNNNNNNNNN
20319655 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
20319697 AT AT AT AT AT AT TT AT AT AT AT TT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
20319739 TT AT AT AT AT
1 AT AT AT AT AT
20319749 CTTAAAAAAG
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:20325440 original size:29 final size:29
Alignment explanation
Indices: 20325379--20325443 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
20325369 GTAAATTTTT
** *
20325379 AAAAATTACACTTTTACCCCCGTAAAGTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
*
20325408 AAAAATTACATTTTTA-CCCCAAAAACTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
20325436 AAAAATTA
1 AAAAATTA
20325444 TCCATAGACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCCCAAAAACTG
Found at i:20336360 original size:197 final size:197
Alignment explanation
Indices: 20336025--20337035 Score: 1583
Period size: 197 Copynumber: 5.1 Consensus size: 197
20336015 AAACAAGAGG
*
20336025 TGAATTGCACAAGTAATCCGCGGTCAGACTCCACACATATGTGCAAGCCTAAAAAACTATTGAAC
1 TGAATTGCACAAGTAATCCACGGTCAGACTCCACACATATGTGCAAGCCTAAAAAACTATTGAAC
20336090 AAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCTTCAACAGGTAA
66 AAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCTTCAACAGGTAA
* * *
20336155 TGCAATATATAAAAACCAATCACGCACTGCCTTAAAAACTACTGAACAAAAGCCTCAAAGCAACA
131 CGCAATATATAAAAACCAGTCACGCACTGCCTAAAAAACTACTGAACAAAAGCCTCAAAGCAACA
20336220 CA
196 CA
* * *
20336222 TGAATTGCACAAGTAATCCATGGTCAGACTCCACACATATGTGCAAGCCTGAAAAACTACTGAAC
1 TGAATTGCACAAGTAATCCACGGTCAGACTCCACACATATGTGCAAGCCTAAAAAACTATTGAAC
* * *
20336287 AAAAGCCTCTAAACAACACATGAATTGCACAAGTCATGCGCCACCACTCTCGCTTCAACAAGTAA
66 AAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCTTCAACAGGTAA
20336352 CGCAATATATAAAAACCAGTCACGCACTGCCTAAAAAACTACTGAACAAAAGCCTCAAAGCAACA
131 CGCAATATATAAAAACCAGTCACGCACTGCCTAAAAAACTACTGAACAAAAGCCTCAAAGCAACA
20336417 CA
196 CA
* * *
20336419 TGAATTGCACAAGTAATCCACGGTCAAACTCCACACATATGTGCAAGCCCAAAAAACTATTAAAC
1 TGAATTGCACAAGTAATCCACGGTCAGACTCCACACATATGTGCAAGCCTAAAAAACTATTGAAC
* * *
20336484 AAAAGCCTCAAAACAATACATGAATTGCACAAGTCACGTGCCACTACTCTCGCTTCAACAGGTAA
66 AAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCTTCAACAGGTAA
* *
20336549 CGTAATATATAAAAACCAGTCATGCACTGCCTAAAAAACTACTGAACAAAAGCCTCAAAGCAACA
131 CGCAATATATAAAAACCAGTCACGCACTGCCTAAAAAACTACTGAACAAAAGCCTCAAAGCAACA
20336614 CA
196 CA
* *
20336616 TGAATTGCACAAGTAATCCACGGTCAGACTCCACACATATGTGCAAGCCCAAAAAACTATTAAAC
1 TGAATTGCACAAGTAATCCACGGTCAGACTCCACACATATGTGCAAGCCTAAAAAACTATTGAAC
* * *
20336681 AAAAGCCTCTAAATAACACATGAATTGCACAAGTTACGCGCCACCACTCTCGCTTCAACAGGTAA
66 AAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCTTCAACAGGTAA
* *
20336746 CGCAATATATAAAAACAAGTCACGCACTGCCTAAAAAACTACTGAAAAAAAGCCTCAAAAGCAAC
131 CGCAATATATAAAAACCAGTCACGCACTGCCTAAAAAACTACTGAACAAAAGCCTC-AAAGCAAC
20336811 ACA
195 ACA
* *
20336814 TGAATTGCACAAGTAATCCATGGTCAGACTCCACACATATGTGCAAGCCTAAAAAACTACTGAAC
1 TGAATTGCACAAGTAATCCACGGTCAGACTCCACACATATGTGCAAGCCTAAAAAACTATTGAAC
* *** *
20336879 AAAAGCCTCAAAACAACATATGAATTGCACAAGTCACGCGCCATTGCTCTTGCAATATATAACAA
66 AAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGC----T-T--CAA
* * ** * *
20336944 TAGGTCACTTAATATATAAAAACCAGTCACGCACTGCTTAAAAAACTACTGAAC-AAAGCCTTAA
124 CAGGTAACGCAATATATAAAAACCAGTCACGCACTGCCTAAAAAACTACTGAACAAAAGCCTCAA
*
20337008 AACAACACA
189 AGCAACACA
20337017 TGAATTGCACAAGTCAATC
1 TGAATTGCACAAGT-AATC
20337036 ACGCACCGCC
Statistics
Matches: 749, Mismatches: 56, Indels: 11
0.92 0.07 0.01
Matches are distributed among these distances:
197 545 0.73
198 117 0.16
202 1 0.00
203 25 0.03
204 11 0.01
205 50 0.07
ACGTcount: A:0.42, C:0.27, G:0.13, T:0.19
Consensus pattern (197 bp):
TGAATTGCACAAGTAATCCACGGTCAGACTCCACACATATGTGCAAGCCTAAAAAACTATTGAAC
AAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCTTCAACAGGTAA
CGCAATATATAAAAACCAGTCACGCACTGCCTAAAAAACTACTGAACAAAAGCCTCAAAGCAACA
CA
Found at i:20345339 original size:14 final size:14
Alignment explanation
Indices: 20345302--20345351 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
20345292 TTATTTATTT
20345302 TTTTATTTTAT-TA
1 TTTTATTTTATATA
*
20345315 TCATTATTTTTATATA
1 T-TTTA-TTTTATATA
20345331 TTTTATTTTATATA
1 TTTTATTTTATATA
20345345 -TTTATTT
1 TTTTATTT
20345352 AATTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 8 0.25
14 12 0.38
15 9 0.28
16 3 0.09
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTATTTTATATA
Found at i:20345340 original size:34 final size:31
Alignment explanation
Indices: 20345263--20345352 Score: 82
Period size: 30 Copynumber: 3.0 Consensus size: 31
20345253 TAATACTCAA
*
20345263 ATATTTATTATATTATTTATTACATTTATTTAT
1 ATATTTATTTTA-T-TTTATTACATTTATTTAT
*
20345296 TTATTT-TTTTATTTTATTATCA-TTATTT-T
1 ATATTTATTTTATTTTATTA-CATTTATTTAT
* *
20345325 -TATATATTTTATTTTA-TATATTTATTTA
1 ATATTTATTTTATTTTATTACATTTATTTA
20345353 ATTTAATTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
27 1 0.02
28 12 0.24
29 11 0.22
30 13 0.27
31 3 0.06
32 4 0.08
33 5 0.10
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (31 bp):
ATATTTATTTTATTTTATTACATTTATTTAT
Found at i:20345341 original size:42 final size:42
Alignment explanation
Indices: 20345266--20345351 Score: 104
Period size: 42 Copynumber: 2.0 Consensus size: 42
20345256 TACTCAAATA
* * *
20345266 TTTATTATATTATTTATTACATTTATTTATTTATTTTTTTAT
1 TTTATTATATTATTTATTACATATATTTATTTATATATTTAT
*
20345308 TTTATTATCATTATTT-TTATATAT-TTTATTTTATATATTTAT
1 TTTATTAT-ATTATTTATTACATATATTTA-TTTATATATTTAT
20345350 TT
1 TT
20345352 AATTTAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 4 0.11
42 27 0.71
43 7 0.18
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (42 bp):
TTTATTATATTATTTATTACATATATTTATTTATATATTTAT
Found at i:20345352 original size:12 final size:12
Alignment explanation
Indices: 20345264--20345352 Score: 57
Period size: 12 Copynumber: 7.5 Consensus size: 12
20345254 AATACTCAAA
20345264 TATTTAT-TATAT
1 TATTTATATAT-T
*
20345276 TATTTATTACATT
1 TATTTA-TATATT
*
20345289 TATTTATTTATT
1 TATTTATATATT
20345301 T-TTT-TAT-TT
1 TATTTATATATT
20345310 TA-TTATCAT-TAT
1 TATTTAT-ATAT-T
20345322 T-TTTATATATTT
1 TATTTATATA-TT
20345334 TATTTTATATATT
1 TA-TTTATATATT
20345347 TATTTA
1 TATTTA
20345353 ATTTAATTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
9 5 0.08
10 3 0.05
11 8 0.13
12 23 0.37
13 13 0.21
14 10 0.16
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTTATATATT
Found at i:20345363 original size:10 final size:10
Alignment explanation
Indices: 20345344--20345373 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
20345334 TATTTTATAT
20345344 ATTT-ATTTA
1 ATTTAATTTA
20345353 ATTTAATTTA
1 ATTTAATTTA
20345363 ATTTAATTTA
1 ATTTAATTTA
20345373 A
1 A
20345374 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTAATTTA
Done.