Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005546.1 Hibiscus syriacus cultivar Beakdansim tig00012840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1755203
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 8
Found at i:1155821 original size:50 final size:51
Alignment explanation
Indices: 1155751--1155852 Score: 143
Period size: 50 Copynumber: 2.0 Consensus size: 51
1155741 TGCACATGAA
* * *
1155751 GACTTTGGGCTCCAAGATGAACCATCACAACACCATTCGGCCAAGGAAGAT
1 GACTTTGGGCGCCAAGATGAACAATCACAACACAATTCGGCCAAGGAAGAT
* * *
1155802 GACTTT-GGCGCCAAGATGAACAATCATATCACAATTCGGCCAAGGGAGAT
1 GACTTTGGGCGCCAAGATGAACAATCACAACACAATTCGGCCAAGGAAGAT
1155852 G
1 G
1155853 CATCTTCATC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
50 39 0.87
51 6 0.13
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.19
Consensus pattern (51 bp):
GACTTTGGGCGCCAAGATGAACAATCACAACACAATTCGGCCAAGGAAGAT
Found at i:1161791 original size:23 final size:23
Alignment explanation
Indices: 1161744--1161791 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1161734 AGTGTTTGAG
* * **
1161744 ATACACCATCATCACCATCTTCC
1 ATACAACATCAACACCATCAACC
1161767 ATACAACATCAACACCATCAACC
1 ATACAACATCAACACCATCAACC
1161790 AT
1 AT
1161792 CTTCCATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (23 bp):
ATACAACATCAACACCATCAACC
Found at i:1164700 original size:25 final size:25
Alignment explanation
Indices: 1164654--1164701 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1164644 TTTCTCAAAA
*
1164654 AAATGTTAGACAAAAGATAATAAAT
1 AAATGTTAGACAAAAGAAAATAAAT
*
1164679 AAATGTTAGATAAATA-AAAATAA
1 AAATGTTAGACAAA-AGAAAATAA
1164702 TTATATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.25
Consensus pattern (25 bp):
AAATGTTAGACAAAAGAAAATAAAT
Found at i:1166006 original size:4 final size:4
Alignment explanation
Indices: 1165989--1166051 Score: 56
Period size: 4 Copynumber: 14.8 Consensus size: 4
1165979 AGAAATTAAT
1165989 AATA AATA ATATA AATA AAT- AATAA AATAA AATAA AATAA AATA AATA
1 AATA AATA A-ATA AATA AATA AAT-A AAT-A AAT-A AAT-A AATA AATA
* *
1166037 AATA GATA AGTA AAT
1 AATA AATA AATA AAT
1166052 GAAAAAACAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
3 3 0.06
4 27 0.52
5 22 0.42
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:1166007 original size:13 final size:13
Alignment explanation
Indices: 1165989--1166037 Score: 64
Period size: 13 Copynumber: 3.7 Consensus size: 13
1165979 AGAAATTAAT
1165989 AATAAATAATATA
1 AATAAATAATATA
1166002 AATAAATAATA-A
1 AATAAATAATATA
*
1166014 AATAAAATAAAATAA
1 AAT-AAATAATAT-A
1166029 AATAAATAA
1 AATAAATAA
1166038 ATAGATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 4 0.12
13 18 0.56
14 6 0.19
15 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATAAATAATATA
Found at i:1166017 original size:5 final size:5
Alignment explanation
Indices: 1166009--1166038 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
1165999 ATAAATAAAT
1166009 AATAA AATAA AATAA AATAA AAT-A AATAA A
1 AATAA AATAA AATAA AATAA AATAA AATAA A
1166039 TAGATAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:1166128 original size:37 final size:37
Alignment explanation
Indices: 1166064--1166465 Score: 226
Period size: 36 Copynumber: 10.9 Consensus size: 37
1166054 AAAAACATTT
* * *
1166064 TTTTTAAAACTATACAATATAT-GTTTTAAAAAATAA
1 TTTTCAAAACTATATAATATATATTTTTAAAAAATAA
*
1166100 TTTTCAAAA-TCATATAGTATATATTTTTAAAAGAATAA
1 TTTTCAAAACT-ATATAATATATATTTTTAAAA-AATAA
* *
1166138 TTTTCAAAACTAGATAATATATAATTTTTTAAAAACTAA
1 TTTTCAAAACTATATAATATAT-A-TTTTTAAAAAATAA
* * *
1166177 -TTTAAAAATGTATATATAATATATATTTTTAAAAACTAA
1 TTTTCAAAA---CTATATAATATATATTTTTAAAAAATAA
* *
1166216 TTTTCAAAACTATATAATATATGTTTTCAAAAAAT-A
1 TTTTCAAAACTATATAATATATATTTTTAAAAAATAA
* * **
1166252 CTTTCAAAAGCTATAT-AT-TATATATTTCCAAAAT-A
1 TTTTCAAAA-CTATATAATATATATTTTTAAAAAATAA
* * * * *
1166287 -TTTAAAAACTCATATATTATATAATTTT-CAGAATAA
1 TTTTCAAAACT-ATATAATATATATTTTTAAAAAATAA
* * * *
1166323 -TTTC-AAACTATATAATAAATAATTTT-CAAAAT-G
1 TTTTCAAAACTATATAATATATATTTTTAAAAAATAA
* * * * *
1166356 TTTT-AAAACTTATATATTGTACATAAGTTTTCAAAAA-AG
1 TTTTCAAAAC-TATATA--ATATAT-ATTTTTAAAAAATAA
* ** *
1166395 TTTTAAAAAACTATATAATATATATTTCAAAAAAATATT
1 TTTT-CAAAACTATATAATATATATTTTTAAAAAATA-A
* * *
1166434 TTTTGAAAACTATAT-AT-TGTATTTTTCAAAAA
1 TTTTCAAAACTATATAATATATATTTTTAAAAAA
1166466 CACTTTCAAA
Statistics
Matches: 292, Mismatches: 47, Indels: 54
0.74 0.12 0.14
Matches are distributed among these distances:
33 2 0.01
34 38 0.13
35 30 0.10
36 50 0.17
37 50 0.17
38 50 0.17
39 33 0.11
40 23 0.08
41 16 0.05
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (37 bp):
TTTTCAAAACTATATAATATATATTTTTAAAAAATAA
Found at i:1166178 original size:39 final size:39
Alignment explanation
Indices: 1166087--1166275 Score: 146
Period size: 37 Copynumber: 4.9 Consensus size: 39
1166077 ACAATATATG
* *
1166087 TTTTAAAAAATAATTTTCAAAA-TCATATAGTATAT-A-T
1 TTTTAAAAAATAATTTTCAAAACT-AGATAATATATAATT
1166124 TTTTAAAAGAATAATTTTCAAAACTAGATAATATATAATT
1 TTTTAAAA-AATAATTTTCAAAACTAGATAATATATAATT
* *
1166164 TTTTAAAAACTAA-TTT-AAAAAT-G-TATATATAATATATAT
1 TTTTAAAAAATAATTTTCAAAACTAGATA-ATAT-ATA-AT-T
* * *
1166203 TTTTAAAAACTAATTTTCAAAACTATATAATATAT--GT
1 TTTTAAAAAATAATTTTCAAAACTAGATAATATATAATT
* * * *
1166240 TTTCAAAAAAT-ACTTTCAAAAGCTATATATTATATA
1 TTTTAAAAAATAATTTTCAAAA-CTAGATAATATATA
1166276 TTTCCAAAAT
Statistics
Matches: 127, Mismatches: 11, Indels: 27
0.77 0.07 0.16
Matches are distributed among these distances:
35 2 0.02
36 14 0.11
37 38 0.30
38 28 0.22
39 20 0.16
40 12 0.09
41 7 0.06
42 4 0.03
43 2 0.02
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (39 bp):
TTTTAAAAAATAATTTTCAAAACTAGATAATATATAATT
Found at i:1166276 original size:39 final size:37
Alignment explanation
Indices: 1166064--1166465 Score: 217
Period size: 38 Copynumber: 10.9 Consensus size: 37
1166054 AAAAACATTT
* *
1166064 TTTTTAAAACTATACA--ATATATGTTTTAAAAAATAA
1 TTTTCAAAACTATATATTATATAT-TTTTAAAAAATAA
*
1166100 TTTTCAAAA-TCATATAGTATATATTTTTAAAAGAATAA
1 TTTTCAAAACT-ATATATTATATATTTTTAAAA-AATAA
* * *
1166138 TTTTCAAAACTAGATAATATATAATTTTTTAAAAACTAA
1 TTTTCAAAACTATATATTATAT-A-TTTTTAAAAAATAA
* * *
1166177 -TTTAAAAATGTATATATAATATATATTTTTAAAAACTAA
1 TTTTCAAAA-CTATATAT--TATATATTTTTAAAAAATAA
* * *
1166216 TTTTCAAAACTATATAATATATGTTTTCAAAAAAT-A
1 TTTTCAAAACTATATATTATATATTTTTAAAAAATAA
* **
1166252 CTTTCAAAAGCTATATATTATATA--TTTCCAAAAT-A
1 TTTTCAAAA-CTATATATTATATATTTTTAAAAAATAA
* * * *
1166287 -TTTAAAAACTCATATATTATATAATTTT-CAGAATAA
1 TTTTCAAAACT-ATATATTATATATTTTTAAAAAATAA
* * * * *
1166323 -TTTC-AAACTATATAATAAATAATTTT-CAAAAT-G
1 TTTTCAAAACTATATATTATATATTTTTAAAAAATAA
* * * *
1166356 TTTT-AAAACTTATATATTGTACATAAGTTTTCAAAAA-AG
1 TTTTCAAAAC-TATATA-T-TATAT-ATTTTTAAAAAATAA
* * ** *
1166395 TTTTAAAAAACTATATAATATATATTTCAAAAAAATATT
1 TTTT-CAAAACTATATATTATATATTTTTAAAAAATA-A
* * *
1166434 TTTTGAAAACTATATATTGTAT-TTTTCAAAAA
1 TTTTCAAAACTATATATTATATATTTTTAAAAA
1166466 CACTTTCAAA
Statistics
Matches: 294, Mismatches: 44, Indels: 55
0.75 0.11 0.14
Matches are distributed among these distances:
33 2 0.01
34 46 0.16
35 25 0.09
36 28 0.10
37 55 0.19
38 61 0.21
39 44 0.15
40 23 0.08
41 10 0.03
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (37 bp):
TTTTCAAAACTATATATTATATATTTTTAAAAAATAA
Found at i:1166303 original size:34 final size:34
Alignment explanation
Indices: 1166143--1166426 Score: 146
Period size: 34 Copynumber: 7.8 Consensus size: 34
1166133 AATAATTTTC
* * *
1166143 AAAACTAGATAATATATAATTTTTTAAAAACTAATTTA
1 AAAACTATATATTATATAA--TTTTCAAAA-T-ATTTA
* * * *
1166181 AAAATGTATATATAATATATATTTTTAAAAACTAATTTTC
1 AAAA-CTATATAT--TATATAATTTTCAAAA-T-A-TTTA
* *
1166221 AAAACTATATAATATAT-GTTTTCAAAAAATACTTTCA
1 AAAACTATATATTATATAATTTTC--AAAATA-TTT-A
* *
1166258 AAAGCTATATATTATAT-ATTTCCAAAATATTTA
1 AAAACTATATATTATATAATTTTCAAAATATTTA
*
1166291 AAAACTCATATATTATATAATTTTCAGAATAATTT-
1 AAAACT-ATATATTATATAATTTTCAAAAT-ATTTA
* * * * *
1166326 CAAACTATATAATAAATAATTTTCAAAATGTTTT
1 AAAACTATATATTATATAATTTTCAAAATATTTA
* *
1166360 AAAACTTATATATTGTACATAAGTTTTCAAAAAAGTTTTAA
1 AAAAC-TATATA-T-TATATAA-TTTTCAAAATA--TTT-A
*
1166401 AAAACTATATAATATAT-A-TTTCAAAA
1 AAAACTATATATTATATAATTTTCAAAA
1166427 AAATATTTTT
Statistics
Matches: 197, Mismatches: 31, Indels: 39
0.74 0.12 0.15
Matches are distributed among these distances:
33 9 0.05
34 38 0.19
35 34 0.17
36 12 0.06
37 32 0.16
38 21 0.11
39 24 0.12
40 16 0.08
41 11 0.06
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (34 bp):
AAAACTATATATTATATAATTTTCAAAATATTTA
Found at i:1167221 original size:84 final size:84
Alignment explanation
Indices: 1167135--1167865 Score: 830
Period size: 84 Copynumber: 8.7 Consensus size: 84
1167125 GAATGTAATT
* * * * * *
1167135 GAACTCGGAGGTCTTCGGTTGGCAGATAGCCCTTCTCA-ACTTAAGCTATACTGCAAATGATGTG
1 GAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCT-AGACTTAAGTTATGCTGCAAATGATGTG
*
1167199 CCTTGGAGCTGAGCGTAGTT
65 CCTTGGAGCTGAGCGTAGTC
* * * * * ** *
1167219 GAACTCGAAGGTCTTTAG-TAACATATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATATGC
1 GAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-
*** * *
1167283 CCTCAAAGCTGAGTGTAATC
65 CCTTGGAGCTGAGCGTAGTC
** * *
1167303 GAACTCGGGGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
1 GAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
*
1167368 CGTT-GAGCTGAGCGTAGTT
66 C-TTGGAGCTGAGCGTAGTC
* * * * * * *
1167387 GAATTCAAAGGTC-TTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATATG
1 GAACTCGAAGGTCTTTG-GTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
* *
1167451 CCTAGGAGCTGAGTGTAGTC
65 CCTTGGAGCTGAGCGTAGTC
* * *
1167471 GAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
1 GAACTCGAAGGTC-TTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
1167535 CCTTGGAGCTGAGCGTAGTC
65 CCTTGGAGCTGAGCGTAGTC
** * *
1167555 GAACTCGAAGGTCTTTGGTTGGTAAATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGT
1 GAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-
* * *
1167620 CGTT-GAGCTGAGCATAGTT
65 CCTTGGAGCTGAGCGTAGTC
* * * * *
1167639 GAACTCAAAGGTC-TTGTGTTGCCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATG
1 GAACTCGAAGGTCTTTG-GTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
*
1167703 CCTAGGAGCTGAGCGTAGTC
65 CCTTGGAGCTGAGCGTAGTC
* * * *
1167723 GAACTCGAAGGTCTTTTGG-TGACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
1 GAACTCGAAGGTC-TTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
1167787 CCTTGGAGCTGAGCGTAGTC
65 CCTTGGAGCTGAGCGTAGTC
* *
1167807 GAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTTGACTTAAGTTATACTGCAAATG
1 GAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATG
1167866 TTGTCTTAAA
Statistics
Matches: 533, Mismatches: 99, Indels: 30
0.81 0.15 0.05
Matches are distributed among these distances:
82 1 0.00
83 51 0.10
84 433 0.81
85 42 0.08
86 6 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (84 bp):
GAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
CTTGGAGCTGAGCGTAGTC
Found at i:1167570 original size:252 final size:252
Alignment explanation
Indices: 1167133--1167865 Score: 1112
Period size: 252 Copynumber: 2.9 Consensus size: 252
1167123 CTGAATGTAA
** * * * * *
1167133 TTGAACTCGGAGGTCTTCG-GTTGGCAGATAGCCCTTCTCA-ACTTAAGCTATACTGCAAATGAT
1 TTGAACTCAAAGGTCTT-GTGTTGGCAGACAACCCTTCT-AGACTTAAGTTGTGCTGCAAATGAT
* * * * * *
1167196 GTGCCTTGGAGCTGAGCGTAGTTGAACTCGAAGGTC-TTTAGTAACATATAACCCTTCTAGCCTT
64 ATGCCTAGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAAATAACCCTTCTAGCCTT
* * *** * * **
1167260 GAGTTATGCTATAAATGATATGCCCTCAAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGTTGG
129 GAGTTATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGG
* *
1167325 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAG
193 CAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCGTTGAGCTGAGCATAG
* *
1167385 TTGAATTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATAT
1 TTGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATAT
* *
1167450 GCCTAGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGA
66 GCCTAGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAAATAACCCTTCTAGCCTTGA
* *
1167515 GTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAA
131 GTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
*
1167580 ATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGTCGTTGAGCTGAGCATAG
196 ATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCGTTGAGCTGAGCATAG
*
1167637 TTGAACTCAAAGGTCTTGTGTTGCCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATAT
1 TTGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATAT
1167702 GCCTAGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAAATAACCCTTCTAGCCTTGA
66 GCCTAGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAAATAACCCTTCTAGCCTTGA
*
1167767 GTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAG
131 GTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
*
1167832 ATAACCCTTCTTGACTTAAGTTATACTGCAAATG
196 ATAACCCTTCTTGACTTAAGTTATGCTGCAAATG
1167866 TTGTCTTAAA
Statistics
Matches: 439, Mismatches: 39, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
251 2 0.00
252 392 0.89
253 45 0.10
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (252 bp):
TTGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATAT
GCCTAGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAAATAACCCTTCTAGCCTTGA
GTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
ATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCGTTGAGCTGAGCATAG
Found at i:1172930 original size:25 final size:25
Alignment explanation
Indices: 1172884--1172931 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1172874 TTTCTCAAAA
*
1172884 AAATGTTAGACAAAAGATAATAAAT
1 AAATGTTAGACAAAAGAAAATAAAT
*
1172909 AAATGTTAGATAAATA-AAAATAA
1 AAATGTTAGACAAA-AGAAAATAA
1172932 TTATATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.25
Consensus pattern (25 bp):
AAATGTTAGACAAAAGAAAATAAAT
Found at i:1174341 original size:38 final size:36
Alignment explanation
Indices: 1174251--1174567 Score: 208
Period size: 37 Copynumber: 8.8 Consensus size: 36
1174241 AACATTTTTT
* * *
1174251 AAAACGATACAATATATGTTTTTAAAAA--AA-TTC
1 AAAACTATATAATATATATTTTTAAAAACTAATTTC
* *
1174284 AAAA-TCATAT-A-GTATATTTTTAAAAGAATAATTTC
1 AAAACT-ATATAATATATATTTTTAAAA-ACTAATTTC
* *
1174319 AAAACTAGATAATATA-ATATTTTAAAAACTAATTTAAA
1 AAAACTATATAATATATAT-TTTTAAAAACTAATTT--C
*
1174357 AATATATATATATAATATATATTTTTAAAAACTAATTTTC
1 AA-A-A-CTATATAATATATATTTTTAAAAACTAA-TTTC
*
1174397 AAAACTATATAACATATATTTTTTAAAAACTAATTTTC
1 AAAACTATATAATATATA-TTTTTAAAAACTAA-TTTC
* * * *
1174435 AAAACTATATAATATATGTTTTCAAAAAATACTTTC
1 AAAACTATATAATATATATTTTTAAAAACTAATTTC
* *** *
1174471 AAAAGCTATATATTATATA-TTTCCCAAA-T-ATTTA
1 AAAA-CTATATAATATATATTTTTAAAAACTAATTTC
* * * * *
1174505 AAAACTCATATATTATATAATTTTCAGAA-TGATTTC
1 AAAACT-ATATAATATATATTTTTAAAAACTAATTTC
* *
1174541 -AAACTATATAATATATAATTTTCAAAA
1 AAAACTATATAATATATATTTTTAAAAA
1174568 TGTTTTAAAA
Statistics
Matches: 233, Mismatches: 30, Indels: 41
0.77 0.10 0.13
Matches are distributed among these distances:
31 12 0.05
32 2 0.01
33 9 0.04
34 41 0.18
35 23 0.10
36 30 0.13
37 45 0.19
38 38 0.16
39 2 0.01
40 3 0.01
41 23 0.10
42 5 0.02
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (36 bp):
AAAACTATATAATATATATTTTTAAAAACTAATTTC
Found at i:1174344 original size:37 final size:36
Alignment explanation
Indices: 1174270--1174640 Score: 184
Period size: 34 Copynumber: 10.2 Consensus size: 36
1174260 CAATATATGT
*
1174270 TTTTAAAAA--AA-TTCAAAA-TCATATAGTAT-AT-
1 TTTTAAAAACTAATTTCAAAACT-ATATAATATAATA
* *
1174301 TTTTAAAAGAATAATTTCAAAACTAGATAATATAATA
1 TTTTAAAA-ACTAATTTCAAAACTATATAATATAATA
* *
1174338 TTTTAAAAACTAATTTAAAAATATATATATATAATATATA
1 TTTTAAAAACTAATTTCAAAA-CTATATA-AT-ATA-ATA
* *
1174378 TTTTTAAAAACTAATTTTCAAAACTATATAACATATATT
1 -TTTTAAAAACTAA-TTTCAAAACTATATAATATA-ATA
*
1174417 TTTTAAAAACTAATTTTCAAAACTATATAATAT-ATG
1 TTTTAAAAACTAA-TTTCAAAACTATATAATATAATA
* * *
1174453 TTTTCAAAAAATACTTTCAAAAGCTATATATTAT-ATA
1 TTTT-AAAAACTAATTTCAAAA-CTATATAATATAATA
*** * *
1174490 TTTCCCAAA-T-ATTTAAAAACTCATATATTAT-ATAA
1 TTTTAAAAACTAATTTCAAAACT-ATATAATATAAT-A
* * *
1174525 TTTTCAGAA-TGATTTC-AAACTATATAATAT-ATAA
1 TTTTAAAAACTAATTTCAAAACTATATAATATAAT-A
* * * * *
1174559 TTTTCAAAA-T-GTTTTAAAACTTATATATTGTACATA
1 TTTTAAAAACTAATTTCAAAAC-TATATAATATA-ATA
* * *
1174595 GGTTTTCAAAACGT-TTTTAAAAACTATATAATAT-ATA
1 --TTTTAAAAAC-TAATTTCAAAACTATATAATATAATA
*
1174632 TTTCAAAAA
1 TTTTAAAAA
1174641 AAAATATTTT
Statistics
Matches: 277, Mismatches: 37, Indels: 48
0.77 0.10 0.13
Matches are distributed among these distances:
31 8 0.03
32 1 0.00
33 5 0.02
34 45 0.16
35 43 0.16
36 36 0.13
37 40 0.14
38 43 0.16
39 17 0.06
40 13 0.05
41 19 0.07
42 7 0.03
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (36 bp):
TTTTAAAAACTAATTTCAAAACTATATAATATAATA
Found at i:1174375 original size:41 final size:42
Alignment explanation
Indices: 1174327--1174451 Score: 163
Period size: 38 Copynumber: 3.0 Consensus size: 42
1174317 TCAAAACTAG
*
1174327 ATAATATAATATTTTAAAAACTAA-TTT-AAAAATATATATAT
1 ATAATAT-ATATTTTAAAAACTAATTTTCAAAACTATATATAT
*
1174368 ATAATATATATTTTTAAAAACTAATTTTCAAAACTATATA-AC
1 ATAATATATA-TTTTAAAAACTAATTTTCAAAACTATATATAT
1174410 AT-ATAT-T-TTTTAAAAACTAATTTTCAAAACTATATAATAT
1 ATAATATATATTTTAAAAACTAATTTTCAAAACTATAT-ATAT
1174450 AT
1 AT
1174452 GTTTTCAAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
38 28 0.37
39 1 0.01
40 7 0.09
41 24 0.32
42 6 0.08
43 10 0.13
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.42
Consensus pattern (42 bp):
ATAATATATATTTTAAAAACTAATTTTCAAAACTATATATAT
Found at i:1174380 original size:78 final size:82
Alignment explanation
Indices: 1174296--1174451 Score: 223
Period size: 78 Copynumber: 2.0 Consensus size: 82
1174286 AATCATATAG
*
1174296 TATATTTTTAAAAGAATAA-TTTCAAAACTAGATAATATA-ATATTTTAAAAACTAA-TTT-AAA
1 TATATTTTTAAAA-AATAATTTTCAAAACTAGATAACATATATATTTTAAAAACTAATTTTCAAA
1174357 AATATAT-ATATATAATA
65 AATATATAATATATAATA
* * *
1174374 TATATTTTTAAAAACTAATTTTCAAAACTATATAACATATATTTTTTAAAAACTAATTTTCAAAA
1 TATATTTTTAAAAAATAATTTTCAAAACTAGATAACATATATATTTTAAAAACTAATTTTCAAAA
*
1174439 CTATATAATATAT
66 ATATATAATATAT
1174452 GTTTTCAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
77 4 0.06
78 31 0.46
79 15 0.22
80 3 0.04
81 9 0.13
82 6 0.09
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (82 bp):
TATATTTTTAAAAAATAATTTTCAAAACTAGATAACATATATATTTTAAAAACTAATTTTCAAAA
ATATATAATATATAATA
Found at i:1174812 original size:2 final size:2
Alignment explanation
Indices: 1174805--1174831 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1174795 CAAATGTGTA
1174805 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 A
1174832 CGTCTTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1179950 original size:53 final size:53
Alignment explanation
Indices: 1179879--1179994 Score: 162
Period size: 53 Copynumber: 2.2 Consensus size: 53
1179869 GTTGCACCTA
* * *
1179879 AGTGCCGAAATGGAAATTCACAAACTTATTATGAATTCCATG-GATGCACACAT
1 AGTGCCGAAATGGAAATTCACAAAATCATTATGAATACCATGAG-TGCACACAT
* *
1179932 AGTGTCGAAATGGTAATTCACAAAATCATTATGAATACCATGAGTGCACACAT
1 AGTGCCGAAATGGAAATTCACAAAATCATTATGAATACCATGAGTGCACACAT
*
1179985 AGTGCTGAAA
1 AGTGCCGAAA
1179995 GTACATATAG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 54 0.98
54 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (53 bp):
AGTGCCGAAATGGAAATTCACAAAATCATTATGAATACCATGAGTGCACACAT
Found at i:1180789 original size:20 final size:22
Alignment explanation
Indices: 1180766--1180815 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
1180756 TATTTTAATA
*
1180766 AGGATTTATTT-CTTTA-TTTT
1 AGGATTTATTTACCTTATTTTT
*
1180786 AGGATTATTTTTACCTTATTTTT
1 AGGATT-TATTTACCTTATTTTT
1180809 AGGATTT
1 AGGATTT
1180816 TGAAAGCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 6 0.24
21 4 0.16
22 5 0.20
23 10 0.40
ACGTcount: A:0.22, C:0.06, G:0.12, T:0.60
Consensus pattern (22 bp):
AGGATTTATTTACCTTATTTTT
Found at i:1188979 original size:24 final size:24
Alignment explanation
Indices: 1188947--1188993 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1188937 AGTCTTCCTG
1188947 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
1188971 ATGATGTATAAAACATCTATGTA
1 ATGATGTATAAAACATCTATGTA
1188994 TAATGTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:1189592 original size:30 final size:31
Alignment explanation
Indices: 1189533--1189592 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
1189523 AACCATTCAA
* * *
1189533 AACTTTTCCAAAACTATCAAATTGGTCCCCC
1 AACTTTTCAAAAACTATAAAATTGATCCCCC
*
1189564 AACTTTTCAAAAATTATAAAATT-ATCCCC
1 AACTTTTCAAAAACTATAAAATTGATCCCC
1189593 AAATTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (31 bp):
AACTTTTCAAAAACTATAAAATTGATCCCCC
Found at i:1199936 original size:15 final size:15
Alignment explanation
Indices: 1199916--1199953 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
1199906 ACCCTGAACA
1199916 TCGAATTTCGCAACT
1 TCGAATTTCGCAACT
1199931 TCGAATTTCGCAACT
1 TCGAATTTCGCAACT
1199946 TCGAATTT
1 TCGAATTT
1199954 GGCTCTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (15 bp):
TCGAATTTCGCAACT
Found at i:1200399 original size:2 final size:2
Alignment explanation
Indices: 1200392--1200434 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
1200382 GATACTAGGC
1200392 AT AT AT AT AT AT AT A- 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
1200433 AT
1 AT
1200435 TATTTTTGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1202343 original size:2 final size:2
Alignment explanation
Indices: 1202336--1202362 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1202326 ACCAAACCAA
1202336 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 A
1202363 CCAATTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1205693 original size:23 final size:23
Alignment explanation
Indices: 1205605--1205683 Score: 131
Period size: 23 Copynumber: 3.4 Consensus size: 23
1205595 TGTACTTATG
*
1205605 TGCTGAATCATTCAGTACTGTTT
1 TGCTGAATCAGTCAGTACTGTTT
* *
1205628 TGCTAAATCAGTCAGTAATGTTT
1 TGCTGAATCAGTCAGTACTGTTT
1205651 TGCTGAATCAGTCAGTACTGTTT
1 TGCTGAATCAGTCAGTACTGTTT
1205674 TGCTGAATCA
1 TGCTGAATCA
1205684 TTCAACACTG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (23 bp):
TGCTGAATCAGTCAGTACTGTTT
Found at i:1221152 original size:24 final size:24
Alignment explanation
Indices: 1221125--1221173 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
1221115 TCTTTAATGT
1221125 ATATTTAATTGAATTAATT-AAATA
1 ATATTTAATT-AATTAATTCAAATA
* *
1221149 ATATTTTATTTATTAATTCAAATA
1 ATATTTAATTAATTAATTCAAATA
1221173 A
1 A
1221174 CTTTAAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
ATATTTAATTAATTAATTCAAATA
Found at i:1225322 original size:15 final size:15
Alignment explanation
Indices: 1225302--1225337 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
1225292 AGTTTGTCTT
1225302 CCTTGAGATAGTTTC
1 CCTTGAGATAGTTTC
1225317 CCTTGAGATAGTTTC
1 CCTTGAGATAGTTTC
1225332 CCTTGA
1 CCTTGA
1225338 AACATTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (15 bp):
CCTTGAGATAGTTTC
Found at i:1225568 original size:36 final size:35
Alignment explanation
Indices: 1225456--1225569 Score: 95
Period size: 36 Copynumber: 3.2 Consensus size: 35
1225446 AAAGACTTCA
* * *
1225456 TCTCACTCGAGATAGTTTCTCTTGAAATATATTTTG
1 TCTCACTTGA-ATAGTTTCTCTTGAAAAAAATTTTG
* *** * * *
1225492 TCTCAC-TCAATACACTCTCTAGAAACAAAAGTTTA
1 TCTCACTTGAATAGTTTCTCTTGAAA-AAAATTTTG
*
1225527 TCTCACTTGATATAGTTTCTCTTGAAAGAAATTTTG
1 TCTCACTTGA-ATAGTTTCTCTTGAAAAAAATTTTG
1225563 TCTCACT
1 TCTCACT
1225570 CGAGACACTA
Statistics
Matches: 57, Mismatches: 18, Indels: 6
0.70 0.22 0.07
Matches are distributed among these distances:
34 12 0.21
35 12 0.21
36 21 0.37
37 12 0.21
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (35 bp):
TCTCACTTGAATAGTTTCTCTTGAAAAAAATTTTG
Found at i:1225578 original size:71 final size:72
Alignment explanation
Indices: 1225441--1225578 Score: 197
Period size: 71 Copynumber: 1.9 Consensus size: 72
1225431 TGTTTTACTT
* * *
1225441 GAAACAAAGACTTCATCTCACTCGAGATAGTTTCTCTTGAAATATATTTTGTCTCACTCAATACA
1 GAAACAAAGACTTCATCTCACTCGAGATAGTTTCTCTTGAAAGAAATTTTGTCTCACTCAAGACA
1225506 CTCTCTA
66 CTCTCTA
* * * * *
1225513 GAAACAAA-AGTTTATCTCACTTGATATAGTTTCTCTTGAAAGAAATTTTGTCTCACTCGAGACA
1 GAAACAAAGACTTCATCTCACTCGAGATAGTTTCTCTTGAAAGAAATTTTGTCTCACTCAAGACA
1225577 CT
66 CT
1225579 ATCCCTTGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
71 50 0.86
72 8 0.14
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (72 bp):
GAAACAAAGACTTCATCTCACTCGAGATAGTTTCTCTTGAAAGAAATTTTGTCTCACTCAAGACA
CTCTCTA
Found at i:1226072 original size:116 final size:116
Alignment explanation
Indices: 1225937--1226407 Score: 446
Period size: 113 Copynumber: 4.1 Consensus size: 116
1225927 GAAGAGTCTG
* * *
1225937 TAATGAGAAGAACTCGTCTAATGGGGGAGAATAAGTTCATAATGAGAAGAGCTTGTTCGACATTT
1 TAATGAGAAGAACTCGTCTAAT-GGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTT
* *
1226002 TGTTCAAATCCATTGA-AGAAGGAGGTGG-TCAA-ATTTTCAAAAAAGAGTTCA
65 T-TTCAAATCCA-TCACAGAAGGAGGTGGATCAACATTTTCAAAAGAGAGTTCA
* * * * * *
1226053 TAATGATAAGAACTAGTCTAATGATGGTA-AAGAAGTTCAAAATAAGAAGCGCTTGTTCGACCTT
1 TAATGAGAAGAACTCGTCTAATG--GGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC-T
**
1226117 TTTTTCAAATCCATCACAGAAGGAGGTGGATCAACATTTTC-AGTGAGAGTTCA
63 TTTTTCAAATCCATCACAGAAGGAGGTGGATCAACATTTTCAAAAGAGAGTTCA
* * * * * *
1226170 TAATGAGAATAACCCGTCTAA--AGAAGAAGAAGTTCATAATGAGAAGAACTTATTTGACCTTTT
1 TAATGAGAAGAACTCGTCTAATGGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTTT
* *
1226233 TTCAAATCCATCACAGAATGAGGTGGATCAACATTTTCAAAAGATAGTTCA
66 TTCAAATCCATCACAGAAGGAGGTGGATCAACATTTTCAAAAGAGAGTTCA
* * ** * *
1226284 TAATGAGAAGAACTCATAC-AAT---AA-AAG-AGTTTATAATGAGAAGAATTTGTTCAATCTTT
1 TAATGAGAAGAACTCGT-CTAATGGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTT
* * * * *** * *
1226343 TTGCTTAAATCAATCATAGAAGAAGGTGGATCAATGCTTCCAAAAGGGAGTTCA
65 TT--TCAAATCCATCACAGAAGGAGGTGGATCAACATTTTCAAAAGAGAGTTCA
1226397 TAATGAGAAGA
1 TAATGAGAAGA
1226408 GCTCATTCAT
Statistics
Matches: 295, Mismatches: 48, Indels: 27
0.80 0.13 0.07
Matches are distributed among these distances:
111 28 0.09
112 3 0.01
113 95 0.32
114 52 0.18
115 4 0.01
116 70 0.24
117 37 0.13
118 6 0.02
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (116 bp):
TAATGAGAAGAACTCGTCTAATGGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTTT
TTCAAATCCATCACAGAAGGAGGTGGATCAACATTTTCAAAAGAGAGTTCA
Found at i:1230648 original size:29 final size:27
Alignment explanation
Indices: 1230585--1230662 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 27
1230575 TATGGTGCAA
*
1230585 ATCTACGAGGCACTTTCGAGTG-TAAT
1 ATCTACGAGGCACTTTCGAGTGCAAAT
* *
1230611 -TCTATGAGGAACTTTCGAGTGCAAATTT
1 ATCTACGAGGCACTTTCGAGTGCAAA--T
1230639 ATCTACGAGGCAC-TTCTGAGTGCA
1 ATCTACGAGGCACTTTC-GAGTGCA
1230663 TATAGAGCGC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
25 19 0.45
26 2 0.05
28 4 0.10
29 17 0.40
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (27 bp):
ATCTACGAGGCACTTTCGAGTGCAAAT
Found at i:1240266 original size:75 final size:75
Alignment explanation
Indices: 1240139--1240358 Score: 260
Period size: 75 Copynumber: 2.9 Consensus size: 75
1240129 AAACTATAAA
* ** * *
1240139 CAAATCTCAGGACTCGGACCACAATATTAAGTATAGAACAACAAAATTCATAAACAAACCACAAT
1 CAAATCTCAAGACTCAAACCACAATATTAAGTATAGAACAATAAAATCCATAAACAAACCACAAT
*
1240204 ATTAAAATGT
66 ATTAAAATAT
* * * *
1240214 CAAATCTCAAGACTCAAACCATAATATTAAGTTTAGTACAATAAAGTCCATAAACAAACCACAAT
1 CAAATCTCAAGACTCAAACCACAATATTAAGTATAGAACAATAAAATCCATAAACAAACCACAAT
*
1240279 ATCAAAATAT
66 ATTAAAATAT
** * * * * * * *
1240289 TGAATCTCAAGATTCAAACCACAATATTAACTCTAAAACAATAAAATCCATAAACATACCATAAC
1 CAAATCTCAAGACTCAAACCACAATATTAAGTATAGAACAATAAAATCCATAAACAAACCACAAT
1240354 ATTAA
66 ATTAA
1240359 GTCTAAAAAA
Statistics
Matches: 121, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 121 1.00
ACGTcount: A:0.50, C:0.20, G:0.06, T:0.23
Consensus pattern (75 bp):
CAAATCTCAAGACTCAAACCACAATATTAAGTATAGAACAATAAAATCCATAAACAAACCACAAT
ATTAAAATAT
Found at i:1240378 original size:39 final size:40
Alignment explanation
Indices: 1240303--1240397 Score: 129
Period size: 39 Copynumber: 2.4 Consensus size: 40
1240293 TCTCAAGATT
* *
1240303 CAAACCACAATATTAACTCTAAAACAATAAAATCCATAAA
1 CAAACCATAACATTAACTCTAAAACAATAAAATCCATAAA
* *
1240343 CATACCATAACATTAAGTCTAAAA-AATAAAATCCATAAA
1 CAAACCATAACATTAACTCTAAAACAATAAAATCCATAAA
* *
1240382 CAAACTATAATATTAA
1 CAAACCATAACATTAA
1240398 AGTGTCAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 28 0.58
40 20 0.42
ACGTcount: A:0.57, C:0.19, G:0.01, T:0.23
Consensus pattern (40 bp):
CAAACCATAACATTAACTCTAAAACAATAAAATCCATAAA
Found at i:1242466 original size:63 final size:62
Alignment explanation
Indices: 1242259--1242494 Score: 203
Period size: 63 Copynumber: 3.7 Consensus size: 62
1242249 AATTAAGTTC
* * * * ** *
1242259 ATATCCTTTTGAATATTCCAAATTAAAATATATTTATCTTTTAATTTGAATATTAGGATAATT
1 ATATCCTTTTGAATATTTCAAATTAAAATATATATAT-ATTTAATTTGAATATAAAAATTATT
** * *
1242322 AT-T-CTTTTGAATACCTCAAATTAAAAGGTATTGATTATCTATTTAACTTTAAATATTAAAAAG
1 ATATCCTTTTGAATATTTCAAATTAAAA--TA-T-A-TATATATTTAA-TTTGAATA-T-AAAA-
1242385 ATTATT
57 ATTATT
1242391 ATATCCTTTTGAATATTTCAAATTAAAATA-ATATATATTTAAGTTTGAATAGTAAAAATTATCT
1 ATATCCTTTTGAATATTTCAAATTAAAATATATATATATTTAA-TTTGAATA-TAAAAATTAT-T
*
1242455 ATAT-CTTTTGAATATTTCAAATTAAAAGATAT-TATTATTT
1 ATATCCTTTTGAATATTTCAAATTAAAATATATATA-TATTT
1242495 TGAATACTAA
Statistics
Matches: 141, Mismatches: 18, Indels: 27
0.76 0.10 0.15
Matches are distributed among these distances:
61 20 0.14
62 1 0.01
63 35 0.25
64 17 0.12
65 24 0.17
66 11 0.08
67 1 0.01
68 1 0.01
69 9 0.06
70 1 0.01
71 21 0.15
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (62 bp):
ATATCCTTTTGAATATTTCAAATTAAAATATATATATATTTAATTTGAATATAAAAATTATT
Found at i:1247930 original size:65 final size:67
Alignment explanation
Indices: 1247850--1248114 Score: 267
Period size: 65 Copynumber: 4.0 Consensus size: 67
1247840 AATTAAACTC
* * *
1247850 ATATCCTTTTGAATATTCCAAATTAAAAGATAT-TTATCTCTTTAA-TTTGAATATTATTATGAT
1 ATAT-CTTTTGAATATTCCAAATTAAAAGATATATTATCTATTTAACTTTGAATATTA-AAAGAT
1247913 AATT
64 AATT
* *
1247917 AT-TCTTTTTAATA-TCTCAAATTAAAAGGTATTTATTATCTATTTAACTTTGAATATTAAAAAG
1 ATATCTTTTGAATATTC-CAAATTAAAA-G-ATATATTATCTATTTAACTTTGAATATT-AAAAG
1247980 ATAATT
62 ATAATT
** * * * *
1247986 ATATCTTTTTGAATATTTAAAATT-AAA-ATA-A-TATCTATTTAAGTTTTAATAGTAAAAGGTA
1 ATATC-TTTTGAATATTCCAAATTAAAAGATATATTATCTATTTAACTTTGAATATTAAAAGATA
*
1248047 TTT
65 ATT
* * *
1248050 ATATCTTTTGAATATTCCAAATTAAAAGATATTATTATATGTTTAATTTTGAATATTAAAAGATA
1 ATATCTTTTGAATATTCCAAATTAAAAGATA-TATTATCTATTTAACTTTGAATATTAAAAGATA
1248115 TCTATTTTAA
Statistics
Matches: 162, Mismatches: 22, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
63 16 0.10
64 19 0.12
65 41 0.25
66 3 0.02
67 8 0.05
68 35 0.22
69 20 0.12
70 6 0.04
71 13 0.08
72 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (67 bp):
ATATCTTTTGAATATTCCAAATTAAAAGATATATTATCTATTTAACTTTGAATATTAAAAGATAA
TT
Found at i:1248020 original size:30 final size:29
Alignment explanation
Indices: 1247964--1248021 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
1247954 TCTATTTAAC
* *
1247964 TTTGAATATTAAAAAGATAATTATATCTT
1 TTTGAATATTAAAAAGAAAATAATATCTT
**
1247993 TTTGAATATTTAAAATTAAAATAATATCT
1 TTTGAATA-TTAAAAAGAAAATAATATCT
1248022 ATTTAAGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (29 bp):
TTTGAATATTAAAAAGAAAATAATATCTT
Found at i:1256269 original size:21 final size:21
Alignment explanation
Indices: 1256244--1256307 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
1256234 GCAATGATAG
1256244 ATTTGGCTTGCAAATTGTCAA
1 ATTTGGCTTGCAAATTGTCAA
* *
1256265 ATTT-G---GC-AATTGTTAG
1 ATTTGGCTTGCAAATTGTCAA
* *
1256281 GTTTGACTTGCAAATTGTCAA
1 ATTTGGCTTGCAAATTGTCAA
1256302 ATTTGG
1 ATTTGG
1256308 TAAGTTGGCA
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
16 10 0.33
17 2 0.07
20 3 0.10
21 15 0.50
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.41
Consensus pattern (21 bp):
ATTTGGCTTGCAAATTGTCAA
Found at i:1261010 original size:37 final size:37
Alignment explanation
Indices: 1260956--1261026 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
1260946 AGGTGGAGAT
* * *
1260956 TTGTTAGATTTGGCTTGCAAATTTTTAAATTTGGCAA
1 TTGTTAGATTTGACTTGCAAATTGTCAAATTTGGCAA
*
1260993 TTGTTAGGTTTGACTTGCAAATTGTCAAATTTGG
1 TTGTTAGATTTGACTTGCAAATTGTCAAATTTGG
1261027 TGAGTTGGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.45
Consensus pattern (37 bp):
TTGTTAGATTTGACTTGCAAATTGTCAAATTTGGCAA
Found at i:1265360 original size:31 final size:31
Alignment explanation
Indices: 1265324--1265382 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1265314 AACTTAAAAG
* *
1265324 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
1265355 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
1265383 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1265433 original size:22 final size:22
Alignment explanation
Indices: 1265407--1265449 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1265397 TAATAAATTA
1265407 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1265429 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1265450 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1265458 original size:22 final size:22
Alignment explanation
Indices: 1265409--1265457 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1265399 ATAAATTATT
**
1265409 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1265431 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1265454 TAAA
1 TAAA
1265458 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1265461 original size:54 final size:54
Alignment explanation
Indices: 1265397--1266077 Score: 735
Period size: 54 Copynumber: 12.4 Consensus size: 54
1265387 ACAACTACAA
1265397 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
1265451 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--C
* * * * * *
1265511 TAAAATAAATCAATCT-ATACAAATAAAT---TA-TTTAAAATAAATCAATTCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1265563 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
1265617 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
1265674 TTTTAAAATAAAT-CAATCCATACAAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
*
1265729 TAATAAATTATTTAAAATAAATCAATCGATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
1265783 TAATAAATTATTTAAAATAAATCAATCGATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * **
1265837 TAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
**
1265895 TAATAAATTATTTAAAATAAATCAATTTATATTTTAAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTT-AAAATAAATCAATCCATAC
1265950 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
1266004 TAATAAATTATTTAAAAT--A--AAT---TATTTTAAAATAAATCAATCCATATTTTA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA----C
1266055 TAATAAATTATTTTAAAATAAAT
1 TAATAAATTA-TTTAAAATAAAT
1266078 TATTTTATAA
Statistics
Matches: 533, Mismatches: 57, Indels: 73
0.80 0.09 0.11
Matches are distributed among these distances:
47 24 0.05
49 3 0.01
50 19 0.04
51 10 0.02
52 10 0.02
53 2 0.00
54 259 0.49
55 68 0.13
56 13 0.02
57 21 0.04
58 83 0.16
59 1 0.00
60 1 0.00
62 16 0.03
63 3 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:1265467 original size:32 final size:32
Alignment explanation
Indices: 1265429--1266025 Score: 438
Period size: 32 Copynumber: 21.4 Consensus size: 32
1265419 CAATCCATAT
1265429 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1265461 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1265491 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1265509 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1265541 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1265573 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1265595 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1265627 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1265657 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1265675 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1265707 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1265739 TTTAAAATAAATC-A---AT-C-GAT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1265761 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1265793 TTTAAAATAAATC-A---AT-C-GAT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1265815 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1265847 TTTAAAATAAATCAATTCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1265877 --T--AATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1265905 TTTAAAATAAATCAAT---T--T-AT--ATT-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1265928 TTAAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1265960 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1265982 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1266014 TTTAAAATAAAT
1 TTTAAAATAAAT
1266026 TATTTTAAAA
Statistics
Matches: 457, Mismatches: 19, Indels: 178
0.70 0.03 0.27
Matches are distributed among these distances:
20 2 0.00
22 85 0.19
23 25 0.05
24 11 0.02
26 66 0.14
27 7 0.02
28 19 0.04
29 3 0.01
30 8 0.02
31 17 0.04
32 214 0.47
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1265548 original size:14 final size:14
Alignment explanation
Indices: 1265531--1265584 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
1265521 CAATCTATAC
1265531 AAATAAATTATTTA
1 AAATAAATTATTTA
*
1265545 AAATAAATCAATTCATA
1 AAATAAAT-TATT--TA
*
1265562 CTAATAAATTATTTA
1 -AAATAAATTATTTA
1265577 AAATAAAT
1 AAATAAAT
1265585 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 5 0.16
17 5 0.16
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:1265585 original size:166 final size:166
Alignment explanation
Indices: 1265397--1266077 Score: 898
Period size: 166 Copynumber: 4.1 Consensus size: 166
1265387 ACAACTACAA
1265397 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1265462 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCT
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCT
*
1265527 ATACAAATAAATTATTTAAAATAAATCAATTCATAC
131 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
1265563 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
1265628 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCT
1265693 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
131 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
*
1265729 TAATAAATTATTTAAAATAAATCAATCGATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* *** * * * *
1265794 TTAAAATAAATCAATCGATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
66 TTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-TTTAAAATAAA
* *
1265858 TCAAT-TCATACAACTACA--A--T--AATAAATCAATCCATAC
124 TCAATCT-ATACAAATAAATTATTTAAAATAAATCAATCCATAC
**
1265895 TAATAAATTATTTAAAATAAATCAATTTATATTTTAAAAATAAATCAATCCATACTAATAAATTA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTT-AAAATAAATCAATCCATACTAATAAATTA
* ** * *
1265960 TTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--CT--AATAAAT-TAT-
65 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
*
1266015 T-TA-AAATAAATTATTTTAAAATAAATCAATCCATATTTTA
130 TATACAAATAAATTA-TTTAAAATAAATCAATCCATA----C
1266055 TAATAAATTATTTTAAAATAAAT
1 TAATAAATTA-TTTAAAATAAAT
1266078 TATTTTATAA
Statistics
Matches: 466, Mismatches: 28, Indels: 47
0.86 0.05 0.09
Matches are distributed among these distances:
149 5 0.01
150 2 0.00
151 1 0.00
152 3 0.01
153 7 0.02
154 1 0.00
155 1 0.00
156 16 0.03
159 1 0.00
160 10 0.02
161 14 0.03
162 1 0.00
163 9 0.02
165 9 0.02
166 306 0.66
167 49 0.11
168 3 0.01
170 2 0.00
171 1 0.00
172 25 0.05
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (166 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCT
ATACAAATAAATTATTTAAAATAAATCAATCCATAC
Found at i:1265599 original size:22 final size:22
Alignment explanation
Indices: 1265573--1265615 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1265563 TAATAAATTA
1265573 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1265595 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1265616 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1265624 original size:22 final size:22
Alignment explanation
Indices: 1265575--1265623 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1265565 ATAAATTATT
**
1265575 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1265597 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1265620 TAAA
1 TAAA
1265624 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1265700 original size:18 final size:18
Alignment explanation
Indices: 1265679--1265736 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
1265669 CCATATTTTA
1265679 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
* *
1265697 AAATAAAT-TAT--TTA-
1 AAATAAATCAATCCATAC
1265711 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
*
1265729 TAATAAAT
1 AAATAAAT
1265737 TATTTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 8 0.26
15 4 0.13
17 4 0.13
18 15 0.48
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAATCAATCCATAC
Found at i:1265704 original size:22 final size:22
Alignment explanation
Indices: 1265631--1265704 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
1265621 AAATTATTTA
*
1265631 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
1265656 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
1265678 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
1265701 AAAT
1 AAAT
1265705 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:1265790 original size:22 final size:22
Alignment explanation
Indices: 1265741--1265789 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1265731 ATAAATTATT
* **
1265741 TAAAATAAATCAATCGATATTT
1 TAAAATAAATCAATCCATATAA
1265763 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1265786 TAAA
1 TAAA
1265790 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1265844 original size:22 final size:22
Alignment explanation
Indices: 1265795--1265843 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1265785 ATAAATTATT
* **
1265795 TAAAATAAATCAATCGATATTT
1 TAAAATAAATCAATCCATATAA
1265817 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1265840 TAAA
1 TAAA
1265844 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1265986 original size:22 final size:22
Alignment explanation
Indices: 1265960--1266062 Score: 98
Period size: 22 Copynumber: 4.5 Consensus size: 22
1265950 TAATAAATTA
1265960 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1265982 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
1266005 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
1266029 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1266051 TTTATAATAAAT
1 TTTAAAATAAAT
1266063 TATTTTAAAA
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
22 35 0.57
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1266033 original size:69 final size:67
Alignment explanation
Indices: 1265951--1266146 Score: 218
Period size: 69 Copynumber: 2.9 Consensus size: 67
1265941 AATCCATACT
*
1265951 AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAAT-AAT-CATA-AAATAAATTAT
1266014 TTTAA
63 TTTAA
* * **
1266019 AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAAAATAAATTATTTT
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAATAATCATAAAATAAATTATTTT
*
1266084 AT
66 AA
** * **
1266086 AATAAATTATTTTAAAATAATTAT-AATAAATTATTTTAAAATAAATTATTTTAAAATAAAT
1 AATAAATTATTTTAAAATAA--ATCAATCCA-TATTTTAAAATAAATAATCATAAAATAAAT
1266147 AACCTTATTA
Statistics
Matches: 114, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
66 9 0.08
67 26 0.23
68 15 0.13
69 64 0.56
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAATAATCATAAAATAAATTATTTT
AA
Found at i:1266034 original size:15 final size:15
Alignment explanation
Indices: 1266005--1266146 Score: 154
Period size: 15 Copynumber: 9.5 Consensus size: 15
1265995 AATCCATACT
1266005 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
1266019 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
1266034 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
1266056 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
1266071 AATAAATTATTTTAT
1 AATAAATTATTTTAA
1266086 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1266101 AAT-AATTA---T--
1 AATAAATTATTTTAA
1266110 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1266125 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1266140 AATAAAT
1 AATAAAT
1266147 AACCTTATTA
Statistics
Matches: 110, Mismatches: 4, Indels: 27
0.78 0.03 0.19
Matches are distributed among these distances:
9 3 0.03
10 5 0.05
11 1 0.01
13 1 0.01
14 14 0.13
15 68 0.62
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
22 10 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:1266131 original size:54 final size:52
Alignment explanation
Indices: 1265979--1266146 Score: 202
Period size: 54 Copynumber: 3.3 Consensus size: 52
1265969 AATCAATCCA
* *
1265979 TATTTTAAAATAAATCAATC--CATA--CTAATAAATTA-TTTAAAATAAAT
1 TATTTTAAAATAAATCAATCAAAATATTATAATAAATTATTTTAAAATAAAT
* * *
1266026 TATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTAAAATAAATCAATCAAAATATTATAATAAATTATTTTAAAATAAAT
* * * *
1266078 TATTTTATAATAAATTATTTTAAAATAATTATAATAAATTATTTTAAAATAAAT
1 TATTTTAAAATAAATCA-ATCAAAAT-ATTATAATAAATTATTTTAAAATAAAT
1266132 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
1266147 AACCTTATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
47 20 0.19
49 2 0.02
51 10 0.10
52 27 0.26
53 4 0.04
54 40 0.39
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (52 bp):
TATTTTAAAATAAATCAATCAAAATATTATAATAAATTATTTTAAAATAAAT
Found at i:1266188 original size:69 final size:68
Alignment explanation
Indices: 1266020--1266182 Score: 201
Period size: 69 Copynumber: 2.4 Consensus size: 68
1266010 ATTATTTAAA
** * * **
1266020 ATAAATTATTTTAAAATAA--ATCAATCCA-TATTTTATAATAAATTATTTTAAAATAAATTATT
1 ATAAATTATTTTAAAATAATTAT-AATAAATTATTTTAAAATAAATTATTTTAAAATAAATAACC
1266082 TTAT
65 TTAT
1266086 AATAAATTATTTTAAAATAATTATAATAAATTATTTTAAAATAAATTATTTTAAAATAAATAACC
1 -ATAAATTATTTTAAAATAATTATAATAAATTATTTTAAAATAAATTATTTTAAAATAAATAACC
1266151 TTAT
65 TTAT
* *
1266155 -TAAATTA-TTTAAAATTATTTTAATAAAT
1 ATAAATTATTTTAAAATAATTATAATAAAT
1266183 AATTATATTT
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
66 19 0.22
67 26 0.31
68 4 0.05
69 36 0.42
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (68 bp):
ATAAATTATTTTAAAATAATTATAATAAATTATTTTAAAATAAATTATTTTAAAATAAATAACCT
TAT
Found at i:1272734 original size:27 final size:26
Alignment explanation
Indices: 1272666--1272735 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
1272656 AGAGATCATA
* *
1272666 GGGTATTTTGGTCATTTTGGAGTTTAG
1 GGGTATTTTGGTTA-TTTGGAGTTCAG
1272693 GGGTATTTTGGTTATTTGAGAGTTCAG
1 GGGTATTTTGGTTATTTG-GAGTTCAG
*
1272720 GGGTATTTTGATTATT
1 GGGTATTTTGGTTATT
1272736 CTATTCAGTC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
26 4 0.10
27 35 0.90
ACGTcount: A:0.17, C:0.03, G:0.31, T:0.49
Consensus pattern (26 bp):
GGGTATTTTGGTTATTTGGAGTTCAG
Found at i:1274632 original size:29 final size:29
Alignment explanation
Indices: 1274577--1274632 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1274567 ACCATTATTA
* * **
1274577 TTTTATTCAATAGTGTTTGACCTTTCATC
1 TTTTACTCAACAGTGTTTGACAGTTCATC
1274606 TTTTACTCAACAGTGTTTGACAGTTCA
1 TTTTACTCAACAGTGTTTGACAGTTCA
1274633 CCTAACTGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.46
Consensus pattern (29 bp):
TTTTACTCAACAGTGTTTGACAGTTCATC
Found at i:1274740 original size:81 final size:81
Alignment explanation
Indices: 1274604--1274772 Score: 230
Period size: 81 Copynumber: 2.1 Consensus size: 81
1274594 TGACCTTTCA
* * * * * * *
1274604 TCTTTTACTCAACAGTGTTTGACAGTTCACCTAACTGGCATAATTGACACCTTTCTGCCAATTGC
1 TCTTTTACTCAACAGTCTTTAACACTTCACCTAACTAGCATAAGTGACACATTTCTACCAATTGC
*
1274669 AAAGTTAGGCCATTAT
66 AAAGTTAGACCATTAT
* * *
1274685 TCTTTTACTCAACGGTCTTTAACCCTTCATCTAACTAGCATAAGTGACACATTTCTACCAATTGC
1 TCTTTTACTCAACAGTCTTTAACACTTCACCTAACTAGCATAAGTGACACATTTCTACCAATTGC
*
1274750 ACAGTTAGACCATTAT
66 AAAGTTAGACCATTAT
1274766 TCTTTTA
1 TCTTTTA
1274773 TTTTGGACTA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAACAGTCTTTAACACTTCACCTAACTAGCATAAGTGACACATTTCTACCAATTGC
AAAGTTAGACCATTAT
Found at i:1275048 original size:55 final size:55
Alignment explanation
Indices: 1274911--1275475 Score: 635
Period size: 55 Copynumber: 10.3 Consensus size: 55
1274901 TTTATTAAGA
* * * *
1274911 TGCACACGTAGTGCCTATACAG-TATTTCATCAACTCATGATGGATT-TCGTGG-GT
1 TGCACACATAGTGCCTATACGGTTA-TTCATCAACTCATGATGAATTCT-GTGGATT
* * *
1274965 TGCACACATCA-TGCATGTATGGTTATTCATCAACTCATGATGAATTCTGTGGATT
1 TGCACACAT-AGTGCCTATACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* *
1275020 TGCACACATAGTGCCTATACGATTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * **
1275075 TGTACACGTAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCATGGATT
1 TGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* *
1275130 TGCACACATAGTGCCTGTACGGTTATTCATTAACTCATGATGAATT-TCGTGGATT
1 TGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCT-GTGGATT
* * ** * * *
1275185 TGCACACATAGTGCATGTATTGTTATTCATAAACTCATGATAAATTTTGTGGATT
1 TGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * *
1275240 TGCACACATAGTGCCTGTACGGTTATTCATCGACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* *
1275295 TGCACACATAGTGCCTGTATGGTTATTCATCAACTCATGATGAATTCTGTGGATT
1 TGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * * * **
1275350 TGCACACATAGTGCTTATACGGTTATTCATCCACAT-AGGATGAATTCCGT-GAAA
1 TGCACACATAGTGCCTATACGGTTATTCATCAAC-TCATGATGAATTCTGTGGATT
* * * * * * * *
1275404 TGCACACTTAGTGTCGAAACGGTTATTCATCCACAT-AGGATGAACTCTGTGGA-A
1 TGCACACATAGTGCCTATACGGTTATTCATCAAC-TCATGATGAATTCTGTGGATT
*
1275458 TGCACACTTAGTGCCTAT
1 TGCACACATAGTGCCTAT
1275476 TTGGTAATCA
Statistics
Matches: 446, Mismatches: 56, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
54 101 0.23
55 343 0.77
56 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (55 bp):
TGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
Found at i:1275429 original size:54 final size:54
Alignment explanation
Indices: 1275368--1275470 Score: 179
Period size: 54 Copynumber: 1.9 Consensus size: 54
1275358 TAGTGCTTAT
*
1275368 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGTCGAA
1 ACGGTTATTCATCCACATAGGATGAACTCCGTGAAATGCACACTTAGTGTCGAA
* *
1275422 ACGGTTATTCATCCACATAGGATGAACTCTGTGGAATGCACACTTAGTG
1 ACGGTTATTCATCCACATAGGATGAACTCCGTGAAATGCACACTTAGTG
1275471 CCTATTTGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (54 bp):
ACGGTTATTCATCCACATAGGATGAACTCCGTGAAATGCACACTTAGTGTCGAA
Found at i:1275934 original size:22 final size:20
Alignment explanation
Indices: 1275887--1275944 Score: 80
Period size: 22 Copynumber: 2.8 Consensus size: 20
1275877 CGATGTTTCC
*
1275887 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCATACCA
*
1275907 TGGTATCGATACTACCATACTA
1 TGGTATCGATAC--CCATACCA
1275929 TGGTATCGATACCCAT
1 TGGTATCGATACCCAT
1275945 TCGATATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.47
22 18 0.53
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (20 bp):
TGGTATCGATACCCATACCA
Found at i:1275993 original size:93 final size:94
Alignment explanation
Indices: 1275819--1276015 Score: 272
Period size: 93 Copynumber: 2.1 Consensus size: 94
1275809 ACCCTGATAC
* * * * *
1275819 CGATACTTCTATACTATGGTACCGATACCCCTTTCCGATATCGATACCAATTTAGGTTCGATGTT
1 CGATACTACCATACTATGGTACCGATACCCCATTCCGATATCGATACCAATTTAGCTTCGATGAT
*
1275884 TCCTGGTATCGATACCCTTACCATGGTAT
66 GCCTGGTATCGATACCCTTACCATGGTAT
* * *
1275913 CGATACTACCATACTATGGTATCGATA-CCCATT-CGATATTGATATCAATTTTAGCTTCGATGA
1 CGATACTACCATACTATGGTACCGATACCCCATTCCGATATCGATACCAA-TTTAGCTTCGATGA
*
1275976 TGCTTGGTATCGATACCCTTACCATGGTAT
65 TGCCTGGTATCGATACCCTTACCATGGTAT
*
1276006 CGATATTACC
1 CGATACTACC
1276016 TCGTCGGTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
92 13 0.14
93 54 0.59
94 24 0.26
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (94 bp):
CGATACTACCATACTATGGTACCGATACCCCATTCCGATATCGATACCAATTTAGCTTCGATGAT
GCCTGGTATCGATACCCTTACCATGGTAT
Found at i:1276061 original size:93 final size:93
Alignment explanation
Indices: 1275854--1276036 Score: 230
Period size: 93 Copynumber: 2.0 Consensus size: 93
1275844 TACCCCTTTC
* * * * * *
1275854 CGATATCGATACCAAT-TTAGGTTCGATGTTTCCTGGTATCGATACCCTTACCATGGTATCGATA
1 CGATATTGATATCAATCTTAGCTTCGATGATGCTTGGTATCGATACCCTTACCATGGTATCGATA
* *
1275918 CTACCATACTATGGTATCGATACCCATT
66 CTACCATACTACGGTATCGATACCAATT
*
1275946 CGATATTGATATCAATTTTAGCTTCGATGATGCTTGGTATCGATACCCTTACCATGGTATCGATA
1 CGATATTGATATCAATCTTAGCTTCGATGATGCTTGGTATCGATACCCTTACCATGGTATCGATA
* *
1276011 TTACC-T-CGT-CGGTATCGATACTAATT
66 CTACCATAC-TACGGTATCGATACCAATT
1276037 GAATAAGTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
91 15 0.19
92 16 0.20
93 48 0.61
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.36
Consensus pattern (93 bp):
CGATATTGATATCAATCTTAGCTTCGATGATGCTTGGTATCGATACCCTTACCATGGTATCGATA
CTACCATACTACGGTATCGATACCAATT
Found at i:1285065 original size:5 final size:5
Alignment explanation
Indices: 1285057--1285101 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
1285047 TTTCATTCCA
* *
1285057 TTTAT TTTAT TTTAC TTTAT TATAT GTTTAAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT -TTT-AT TTTAT TTTAT TTT
1285102 TCAATATACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 27 0.79
6 5 0.15
7 2 0.06
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:1290567 original size:39 final size:38
Alignment explanation
Indices: 1290540--1290619 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 38
1290530 GTTTTTCCCT
*
1290540 TATGCACAAAG-AAATTGAGCCTACAGTAAGGACTTACCC
1 TATGCACAAAGCAAA-GGAGCCTACAGTAA-GACTTACCC
*
1290579 TATGCACAAAGCAAAGGAGCCTACGGTAAGGACTTACCC
1 TATGCACAAAGCAAAGGAGCCTACAGTAA-GACTTACCC
1290618 TA
1 TA
1290620 GTCGAAGTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 35 0.92
40 3 0.08
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.19
Consensus pattern (38 bp):
TATGCACAAAGCAAAGGAGCCTACAGTAAGACTTACCC
Found at i:1306001 original size:23 final size:22
Alignment explanation
Indices: 1305963--1306018 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
1305953 CTTGAGTTTT
1305963 TGGTCAAAGTCAAAGT-GAACAC
1 TGGTCAAAGTCAAAGTCG-ACAC
*
1305985 TGGTCAAAGGTCAAAGTCGACTC
1 TGGTCAAA-GTCAAAGTCGACAC
1306008 TGGTC-AAGTCA
1 TGGTCAAAGTCA
1306019 GTAATCAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 4 0.13
22 10 0.32
23 16 0.52
24 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (22 bp):
TGGTCAAAGTCAAAGTCGACAC
Found at i:1306067 original size:20 final size:20
Alignment explanation
Indices: 1306040--1306091 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1306030 GTCAGAGTAT
*
1306040 TTCGAGTTGACTCAGACTGG
1 TTCGAGTTGACTCAGACTGA
* * *
1306060 TTCTAGTTGACTCGGTCTGA
1 TTCGAGTTGACTCAGACTGA
1306080 TTCGAGTTGACT
1 TTCGAGTTGACT
1306092 TGGACTAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (20 bp):
TTCGAGTTGACTCAGACTGA
Found at i:1307664 original size:367 final size:367
Alignment explanation
Indices: 1306955--1308060 Score: 1731
Period size: 367 Copynumber: 3.0 Consensus size: 367
1306945 AAGTTAAATT
* * ** * *
1306955 TTATATTTATTGTTTTATGATTTTTCATTAAAGGAAAAAGGGTAAATTCCCTATAACTCATTGTT
1 TTATAATTATTGTTTTATGATTTGTGGTTAAAGG-AAAAGGGTAAATTCCCTATAAGTCATTGGT
* *
1307020 CTCTTGAAAAATTCATCTTTTAACCTCCAACCTTTTCATCAAAATTTAATTTAGTCCCCTCAAGA
65 CTCTTGAAAAATTCATCTTTTAACCTCCAACGTTTTCATCAAAATTCAATTTAGTCCCCTCAAGA
*
1307085 ACATTTTAGAAAATTTTAACCCTAACTTCAGGTGTA--ACACTATCATTGACTATTCTT-ACTAT
130 ACATTTTAGAAAATTTTAACCCCAACTTCAGG-GTATGACACTATCATTGACTATT-TTGACTAT
*
1307147 GATTATCGATCTAAATATAGTTCTCACAATTCAAATATTATCATTAAAAT-TTATATATTTATAT
193 GATTATCGATCTAAATATAGTTCTCACAATTCAAATATTATCATT-AACTCTTATAT-TTTATAT
* * *
1307211 GATT-AATTGGTTATATTTGAATTTGCGAAGAAAATTTGAATTTAATAGAGAATCAAAAATAGGC
256 GATTAAATTGGTTAGATTGGAATTTGTGAAGAAAATTTGAATTTAATAGAGAA-CAAAAATAGGC
*
1307275 TATATGGTTTTATTGAAAGTAACATGAGTGGTATACATAAGGGTTCTA
320 TATATGGTTTTATTGAAAGTAACATGAGTGGTGTACATAAGGGTTCTA
*
1307323 TTATAATTATTGTTTTATGATTTGTGGTTAAAGGAAAAGGGTAAATTCCCCATAAGTCATTGGTC
1 TTATAATTATTGTTTTATGATTTGTGGTTAAAGGAAAAGGGTAAATTCCCTATAAGTCATTGGTC
*
1307388 TCTTGAAAAATTCATCTTTTAACCTCCAACGTTTTCATCAAAATTCAATTTAGTCCCCTAAAGAA
66 TCTTGAAAAATTCATCTTTTAACCTCCAACGTTTTCATCAAAATTCAATTTAGTCCCCTCAAGAA
* *
1307453 -GTTTTAGAAAATTGTAACCCCAACTTCAGGGTATGACACTATCATTGACTATTTTGACTATGAT
131 CATTTTAGAAAATTTTAACCCCAACTTCAGGGTATGACACTATCATTGACTATTTTGACTATGAT
* *
1307517 CATCGATCTAAATATAGTTCGCACAATTCAAATATTATCATTAACTCTTATATTTTATATGATTA
196 TATCGATCTAAATATAGTTCTCACAATTCAAATATTATCATTAACTCTTATATTTTATATGATTA
*
1307582 AATTTGTTAGATTGGAATTTGTGAAGAAAATTTGAATTTAATAGAGAACAAAAAATAGGCTATAT
261 AATTGGTTAGATTGGAATTTGTGAAGAAAATTTGAATTTAATAGAGAAC-AAAAATAGGCTATAT
* *
1307647 AGTTTTATTGGAAGTAACATGAGTGGTGTACATAAGGGTTCTA
325 GGTTTTATTGAAAGTAACATGAGTGGTGTACATAAGGGTTCTA
* *
1307690 TTATAATTATTGTTTTATGATTTGTGGTTAAAGGAAAAGGGTAAATTCCCTATAAGTCACTGGTA
1 TTATAATTATTGTTTTATGATTTGTGGTTAAAGGAAAAGGGTAAATTCCCTATAAGTCATTGGTC
** *
1307755 TCTTGAAAAATTCATCTTTTAACCTCCATTGTTTTCATCAAAATTCAATTTAGT-CACTCAAGAA
66 TCTTGAAAAATTCATCTTTTAACCTCCAACGTTTTCATCAAAATTCAATTTAGTCCCCTCAAGAA
* * *
1307819 CTTTTTAGAAAATTTTAACCCCAACTTCAGGGTGTGACACTATCATTGACTATTCTGACTATGAT
131 CATTTTAGAAAATTTTAACCCCAACTTCAGGGTATGACACTATCATTGACTATTTTGACTATGAT
* * * * *
1307884 TATCGGTCTAAATATAGTTATCACATTTCAAATATTATCATTAACACTTATATTTTAGATGATTA
196 TATCGATCTAAATATAGTTCTCACAATTCAAATATTATCATTAACTCTTATATTTTATATGATTA
* *
1307949 AATTGGTTAGATTGGAATTTTTGAAGAAAATTTGAATTTAATACAGAACCAAAAATAGGCTATAT
261 AATTGGTTAGATTGGAATTTGTGAAGAAAATTTGAATTTAATAGAGAA-CAAAAATAGGCTATAT
* *
1308014 GGTTTTATTGAAAGTTACATGAGTCGTGTACATAAGGGTTCTA
325 GGTTTTATTGAAAGTAACATGAGTGGTGTACATAAGGGTTCTA
1308057 TTAT
1 TTAT
1308061 TGTTGGGCCT
Statistics
Matches: 682, Mismatches: 48, Indels: 17
0.91 0.06 0.02
Matches are distributed among these distances:
365 3 0.00
366 52 0.08
367 596 0.87
368 31 0.05
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.39
Consensus pattern (367 bp):
TTATAATTATTGTTTTATGATTTGTGGTTAAAGGAAAAGGGTAAATTCCCTATAAGTCATTGGTC
TCTTGAAAAATTCATCTTTTAACCTCCAACGTTTTCATCAAAATTCAATTTAGTCCCCTCAAGAA
CATTTTAGAAAATTTTAACCCCAACTTCAGGGTATGACACTATCATTGACTATTTTGACTATGAT
TATCGATCTAAATATAGTTCTCACAATTCAAATATTATCATTAACTCTTATATTTTATATGATTA
AATTGGTTAGATTGGAATTTGTGAAGAAAATTTGAATTTAATAGAGAACAAAAATAGGCTATATG
GTTTTATTGAAAGTAACATGAGTGGTGTACATAAGGGTTCTA
Found at i:1309968 original size:16 final size:16
Alignment explanation
Indices: 1309944--1309976 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1309934 AGAGAAGATT
1309944 GAAGAGGAAGCAATTG
1 GAAGAGGAAGCAATTG
*
1309960 GAAGTGGAAGCAATTG
1 GAAGAGGAAGCAATTG
1309976 G
1 G
1309977 TAGGAGCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.39, T:0.15
Consensus pattern (16 bp):
GAAGAGGAAGCAATTG
Found at i:1314297 original size:26 final size:26
Alignment explanation
Indices: 1314226--1314298 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
1314216 AGTGTATATA
* *
1314226 GTGGGCATGACCTTATGTGCATTACG
1 GTGGGCACGACCTTATGTGTATTACG
* *
1314252 ATGGCCACGACCTTATGTGTATTACG
1 GTGGGCACGACCTTATGTGTATTACG
1314278 GTGGGCACGACCTTATGTGTA
1 GTGGGCACGACCTTATGTGTA
1314299 AGCCCTACGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (26 bp):
GTGGGCACGACCTTATGTGTATTACG
Found at i:1317598 original size:16 final size:17
Alignment explanation
Indices: 1317577--1317615 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1317567 GCAATGGGGG
*
1317577 AAAATTTTGAA-GGGAA
1 AAAATTTTGAATGAGAA
1317593 AAAATTTTTGAATGAGAA
1 AAAA-TTTTGAATGAGAA
1317611 AAAAT
1 AAAAT
1317616 AATGCATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 8 0.40
ACGTcount: A:0.54, C:0.00, G:0.18, T:0.28
Consensus pattern (17 bp):
AAAATTTTGAATGAGAA
Found at i:1317603 original size:17 final size:18
Alignment explanation
Indices: 1317577--1317615 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1317567 GCAATGGGGG
*
1317577 AAAA-TTTTGAA-GGGAA
1 AAAATTTTTGAATGAGAA
1317593 AAAATTTTTGAATGAGAA
1 AAAATTTTTGAATGAGAA
1317611 AAAAT
1 AAAAT
1317616 AATGCATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.54, C:0.00, G:0.18, T:0.28
Consensus pattern (18 bp):
AAAATTTTTGAATGAGAA
Found at i:1353446 original size:29 final size:30
Alignment explanation
Indices: 1353378--1353479 Score: 188
Period size: 30 Copynumber: 3.4 Consensus size: 30
1353368 TCCGAAGGAC
1353378 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1353408 CTATCCAGAGGTCATAAAGATCCTC-GTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1353437 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1353467 CTATCCATAGGTC
1 CTATCCAGAGGTC
1353480 CCGAAGAACC
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 29 0.41
30 41 0.59
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1353496 original size:30 final size:30
Alignment explanation
Indices: 1353378--1353506 Score: 116
Period size: 30 Copynumber: 4.3 Consensus size: 30
1353368 TCCGAAGGAC
* * * *
1353378 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCACAAAGAACCTAGGTAA
* * * *
1353408 CTATCCAGAGGTCATAAAGATCCT-CGTAA
1 CTATCCATAGGTCACAAAGAACCTAGGTAA
* * * *
1353437 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCACAAAGAACCTAGGTAA
* *
1353467 CTATCCATAGGTCCCGAAGAACCTAGGTAAA
1 CTATCCATAGGTCACAAAGAACCTAGGT-AA
1353498 CTATCCATA
1 CTATCCATA
1353507 TGTTCCTTAG
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
29 28 0.31
30 50 0.56
31 11 0.12
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (30 bp):
CTATCCATAGGTCACAAAGAACCTAGGTAA
Found at i:1354612 original size:24 final size:20
Alignment explanation
Indices: 1354559--1354635 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 20
1354549 ATTCTCTTGA
1354559 AGTGCATCGATGCATTCAAC
1 AGTGCATCGATGCATTCAAC
*
1354579 AGTGCATCGATGCATTCGTTAGC
1 AGTGCATCGATGCATTC---AAC
* *
1354602 ATGTGCATCGATGCAGT-ACC
1 A-GTGCATCGATGCATTCAAC
*
1354622 CGTGCATCGATGCA
1 AGTGCATCGATGCA
1354636 CAAATCACCT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
19 13 0.27
20 19 0.39
23 3 0.06
24 14 0.29
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (20 bp):
AGTGCATCGATGCATTCAAC
Found at i:1354672 original size:63 final size:64
Alignment explanation
Indices: 1354605--1354726 Score: 149
Period size: 63 Copynumber: 1.9 Consensus size: 64
1354595 CGTTAGCATG
* * *
1354605 TGCATCGATGCAGTACC-CGTGCATCGATGCACAAATCACCTTCGATGTTT-CATTTTAAGGGGA
1 TGCATCGATGCAAT-CCTCATGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGGGGA
* * * **
1354668 TGCATCGATGTAATCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCCATTTTAA
1 TGCATCGATGCAATCCTCATGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAA
1354727 TAGGTGCATC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
62 2 0.04
63 39 0.80
64 8 0.16
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (64 bp):
TGCATCGATGCAATCCTCATGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGGGGA
Found at i:1358013 original size:21 final size:20
Alignment explanation
Indices: 1357975--1358013 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1357965 TTAATTTTGG
* *
1357975 TAAAATAAAGGGATAAAATT
1 TAAAATAAAAGGAAAAAATT
1357995 TAAAATTAAAAGGAAAAAA
1 TAAAA-TAAAAGGAAAAAA
1358014 AAAGGAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.21
Consensus pattern (20 bp):
TAAAATAAAAGGAAAAAATT
Found at i:1358503 original size:19 final size:18
Alignment explanation
Indices: 1358455--1358505 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
1358445 ATTATAACTC
*
1358455 AAAGTTAATTTAAGTAAAAA
1 AAAGTTAATTT--TTAAAAA
1358475 AAAGTTAATTTTTAAAATA
1 AAAGTTAATTTTTAAAA-A
1358494 AAA-TTGAATTTT
1 AAAGTT-AATTTT
1358506 ACTCAATTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.25
19 10 0.36
20 11 0.39
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
AAAGTTAATTTTTAAAAA
Found at i:1359379 original size:222 final size:225
Alignment explanation
Indices: 1358984--1359453 Score: 783
Period size: 222 Copynumber: 2.1 Consensus size: 225
1358974 TTAAAGTATC
* *
1358984 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTATTATTACCTTTGGTT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTATTATTA-CTTTGGTT
1359049 AATATTGTTAAATTTAAATTCTAATAATATTTTATAAAATATCAAAACAATCAATAATTTTGTGT
65 AATATTGTTAAATTTAAATTCTAATAATATTTTATAAAATATCAAAACAATCAATAATTTTGTGT
*
1359114 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAA
130 GTAAATGAAATTATTAAATTAACATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAA
*
1359179 ACGTAAATTACATAACTTTAAAAAAAATATA
195 ACATAAATTACATAACTTTAAAAAAAATATA
*
1359210 TATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTA-TA-TTTGGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATA-TTATTATTACTTTGGT
*
1359273 T-A-ATTGTTAAATTTAAATTCT-A-AATAATTTTATAAAATATCAAAA-AATCAAATAATTTTT
64 TAATATTGTTAAATTTAAATTCTAATAAT-ATTTTATAAAATATCAAAACAATC-AATAATTTTG
1359333 TGTGTAAATGAAATTATTAAATTAACATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATT
127 TGTGTAAATGAAATTATTAAATTAACATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATT
*
1359398 GAAACATAAATTACATAACTTTAAAAAAAGTATA
192 GAAACATAAATTACATAACTTTAAAAAAAATATA
1359432 TATCATTTTTATAAAAGTGTCC
1 TATCATTTTTATAAAAGTGTCC
1359454 TACGTAAAAA
Statistics
Matches: 232, Mismatches: 8, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
221 7 0.03
222 146 0.63
223 19 0.08
224 1 0.00
225 7 0.03
226 36 0.16
227 10 0.04
228 6 0.03
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.39
Consensus pattern (225 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTATTATTACTTTGGTTA
ATATTGTTAAATTTAAATTCTAATAATATTTTATAAAATATCAAAACAATCAATAATTTTGTGTG
TAAATGAAATTATTAAATTAACATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAA
CATAAATTACATAACTTTAAAAAAAATATA
Found at i:1359847 original size:179 final size:180
Alignment explanation
Indices: 1359524--1359991 Score: 642
Period size: 180 Copynumber: 2.6 Consensus size: 180
1359514 CGATCCAAAT
* * * * *
1359524 AAAAAATGTGTCGATCCAAAACG--ATACATGTAAAACTATGACAAAACCGGTATAGAAATGAT-
1 AAAAAATGTATCGATCCAAAACGATATACAGGTAAAAATATGATAAAACCGGT-TACAAATGATA
* * * * *
1359586 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
65 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
1359651 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTT-
130 ATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
*
1359701 TAAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTTACAAATGATA
1 AAAAAATGTATCGATCCAAAACGATATA-CAGGTAAAAATATGATAAAACCGGTTACAAATGATA
* *
1359766 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
65 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** * *
1359830 ATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTTTCGATACTTTA
130 ATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
* * *
1359881 AAAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACC-GATATCAAAATGA
1 AAAAAATGTATCGATCCAAAACGATAT-ACAGGTAAAAATATGATAAAACCGGTTA-C-AAATGA
*
1359945 TAAAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
63 TAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
1359992 CGTAAGTACG
Statistics
Matches: 259, Mismatches: 24, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
177 21 0.08
179 77 0.30
180 109 0.42
181 52 0.20
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (180 bp):
AAAAAATGTATCGATCCAAAACGATATACAGGTAAAAATATGATAAAACCGGTTACAAATGATAA
AACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCA
TGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
Found at i:1360246 original size:46 final size:46
Alignment explanation
Indices: 1360191--1360293 Score: 197
Period size: 46 Copynumber: 2.2 Consensus size: 46
1360181 CGAAGCATAA
*
1360191 TTGTTGCTGCATTTCAGAAGGCGTTTCTAAAGCGAAGTTTGTTTGT
1 TTGTTGCTGCATTTCAGAAGGCATTTCTAAAGCGAAGTTTGTTTGT
1360237 TTGTTGCTGCATTTCAGAAGGCATTTCTAAAGCGAAGTTTGTTTGT
1 TTGTTGCTGCATTTCAGAAGGCATTTCTAAAGCGAAGTTTGTTTGT
1360283 TTGTTGCTGCA
1 TTGTTGCTGCA
1360294 GTCGAATCGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (46 bp):
TTGTTGCTGCATTTCAGAAGGCATTTCTAAAGCGAAGTTTGTTTGT
Found at i:1362135 original size:21 final size:21
Alignment explanation
Indices: 1362111--1362154 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1362101 AAGACAATCA
1362111 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1362132 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1362153 AG
1 AG
1362155 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1362230 original size:33 final size:33
Alignment explanation
Indices: 1362188--1362253 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1362178 AAATAGATGG
*
1362188 AGTGGTGAAAGAAGTAGAGGTGTTGAGAGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGAGGTGA
* * *
1362221 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGAGGTGA
1362254 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGAGGTGA
Found at i:1364065 original size:19 final size:19
Alignment explanation
Indices: 1364041--1364089 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1364031 AATGTAGGGT
1364041 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1364060 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1364079 TATTTTTGTAT
1 TAATTTTGTAT
1364090 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1364806 original size:198 final size:197
Alignment explanation
Indices: 1364208--1364973 Score: 1414
Period size: 196 Copynumber: 3.9 Consensus size: 197
1364198 CAATATGGCC
*
1364208 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
1364273 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
64 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
1364338 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
129 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
1364403 TGGA
194 TGGA
1364407 AACAGGGTGCAACCATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAAACATCGAACCC
1 AACAGGGTGCAACCATAAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAAACATCGAACCC
1364471 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
1364536 ATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
131 ATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
1364601 GA
196 GA
1364603 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAAACATCGAACC
* *
1364668 CAAAAGTATAATGTAATATGTAATATTTCAATCTAACCGATACAAGTATACCGGTTTTATGAGAG
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* *
1364733 AATATGTCTAAATAATGTGTCGACACT-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAT
130 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
1364797 GGAA
195 GG-A
*
1364801 AACAGGGTGCACCCATAAAGTGTCGATCCTATAT-AAAAGTGTCGATCCCAAAAACATCGAACCC
1 AACAGGGTGCAACCATAAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAAACATCGAACCC
1364865 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
1364930 ATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATA
131 ATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATA
1364974 CTAATTTAAA
Statistics
Matches: 555, Mismatches: 9, Indels: 9
0.97 0.02 0.02
Matches are distributed among these distances:
196 301 0.54
197 72 0.13
198 153 0.28
199 29 0.05
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (197 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAAACATCGAACCC
AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
ATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
GA
Found at i:1364937 original size:394 final size:394
Alignment explanation
Indices: 1364208--1364973 Score: 1430
Period size: 394 Copynumber: 1.9 Consensus size: 394
1364198 CAATATGGCC
1364208 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
1364273 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATATTTCAATCTAACCGATACAAGTATACCGGTTTTATGAGA
* *
1364338 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAA
1364403 TGGAAACAGGGTGCAACCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAAACATCGAA
196 TGGAAACAGGGTGCAACCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAAACATCGAA
1364468 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
261 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
1364533 AGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGA
326 AGAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGA
1364598 ATGGA
390 ATGGA
*
1364603 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1364667 CCAAAAGTATAATGTAATATGTAATATTTCAATCTAACCGATACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATATTTCAATCTAACCGATACAAGTATACCGGTTTTATGAGA
1364732 GAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAA
*
1364796 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCC-TATATAAAAGTGTCGATCCCAAAAACATCG
196 TGG-AAACAGGGTGCAACCATAAAGTGTCGATCCATATA-AAAAGTGTCGATCCCAAAAACATCG
1364860 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
259 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
1364925 AGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
324 AGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
1364974 CTAATTTAAA
Statistics
Matches: 363, Mismatches: 6, Indels: 6
0.97 0.02 0.02
Matches are distributed among these distances:
393 59 0.16
394 243 0.67
395 61 0.17
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (394 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATATTTCAATCTAACCGATACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAA
TGGAAACAGGGTGCAACCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAAACATCGAA
CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
AGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
TGGA
Found at i:1366463 original size:6 final size:6
Alignment explanation
Indices: 1366439--1366530 Score: 76
Period size: 6 Copynumber: 15.3 Consensus size: 6
1366429 AGCGGTCGCA
* * * * * *
1366439 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * * * *
1366487 GACGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
1366531 TGATCCAAAC
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.38, C:0.08, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:1366489 original size:36 final size:36
Alignment explanation
Indices: 1366442--1366518 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
1366432 GGTCGCAGAA
*
1366442 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* *
1366478 GATGAAGCTGACGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
1366514 GATGA
1 GATGA
1366519 TGATGAAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.09, G:0.34, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:1366522 original size:9 final size:9
Alignment explanation
Indices: 1366454--1366534 Score: 81
Period size: 9 Copynumber: 9.0 Consensus size: 9
1366444 TGAAGCTGAC
*
1366454 GATGAAGAT
1 GATGATGAT
*
1366463 GACGATGAT
1 GATGATGAT
*
1366472 GATGACGAT
1 GATGATGAT
* * *
1366481 GAAGCTGAC
1 GATGATGAT
*
1366490 GATGAAGAT
1 GATGATGAT
*
1366499 GATGACGAT
1 GATGATGAT
1366508 GATGATGAT
1 GATGATGAT
*
1366517 GATGATGAA
1 GATGATGAT
1366526 GATGATGAT
1 GATGATGAT
1366535 CCAAACAAGT
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.23
Consensus pattern (9 bp):
GATGATGAT
Found at i:1366534 original size:12 final size:12
Alignment explanation
Indices: 1366442--1366530 Score: 97
Period size: 12 Copynumber: 7.4 Consensus size: 12
1366432 GGTCGCAGAA
*
1366442 GATGAAGCTGAC
1 GATGAAGATGAC
1366454 GATGAAGATGAC
1 GATGAAGATGAC
*
1366466 GATGATGATGAC
1 GATGAAGATGAC
*
1366478 GATGAAGCTGAC
1 GATGAAGATGAC
*
1366490 GATGAAGATGAT
1 GATGAAGATGAC
* * *
1366502 GACGATGATGAT
1 GATGAAGATGAC
* *
1366514 GATGATGATGAA
1 GATGAAGATGAC
1366526 GATGA
1 GATGA
1366531 TGATCCAAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 67 1.00
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:1367760 original size:16 final size:16
Alignment explanation
Indices: 1367728--1367761 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1367718 TATCCACAAC
* *
1367728 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
1367744 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
1367760 AA
1 AA
1367762 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:1368154 original size:23 final size:23
Alignment explanation
Indices: 1368123--1368186 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1368113 ATAGGTAAAA
*
1368123 ATATGATGTAATAGGTAGAGCTT
1 ATATAATGTAATAGGTAGAGCTT
** *
1368146 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGAGCTT
1368169 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1368187 TGGTCATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGAGCTT
Found at i:1368534 original size:22 final size:22
Alignment explanation
Indices: 1368490--1368534 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1368480 ATTACATATC
*
1368490 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
1368512 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
1368534 T
1 T
1368535 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:1368586 original size:23 final size:23
Alignment explanation
Indices: 1368560--1368624 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
1368550 AAATATGATG
1368560 TAATAGGTAGCGCTTATATAATA
1 TAATAGGTAGCGCTTATATAATA
* * *
1368583 TAATAGGTATCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATA
* *
1368606 TAATAGGTAGTGGTTATAT
1 TAATAGGTAGCGCTTATAT
1368625 TGTAAAGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATA
Found at i:1368628 original size:21 final size:22
Alignment explanation
Indices: 1368552--1368629 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
1368542 ATAGGTAAAA
*
1368552 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGTGCTT
* *
1368575 ATATAATATAATAGGTA-TCGTTT
1 ATAT-ATGTAATAGGTAGT-GCTT
*
1368598 ATATAATGTAATAGGTAGTGGTT
1 ATAT-ATGTAATAGGTAGTGCTT
1368621 ATAT-TGTAA
1 ATATATGTAA
1368630 AGTATCTATC
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
21 5 0.11
23 41 0.87
24 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
ATATATGTAATAGGTAGTGCTT
Found at i:1369010 original size:431 final size:431
Alignment explanation
Indices: 1367920--1369830 Score: 3616
Period size: 431 Copynumber: 4.4 Consensus size: 431
1367910 GTTAATGTTG
* * *
1367920 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
1367984 ATGAAATTATTAAATTAATATTGTACGTGGAAAACATGAAACACTA-TT-AAAAAAATTGAAACA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTGAAACA
*
1368047 TAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
130 TAAATTACATATC-TTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
*
1368112 AATAGGTAAAAATATGATGTAATAGGTAGAGCTTATATAATGTAATAGGTATCGTTTATATAATG
194 AATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
* * *
1368177 TAATAGGTAGTGGTCATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTCTTTCAC
259 TAATAGGTAGTGGTTATATTGTAAAGTACCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCAC
1368242 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
324 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
1368307 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
389 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
1368350 TTAAATT-AAAATTC-TAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1368413 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
*
1368478 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAA
131 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
1368543 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATATAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
1368608 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTACCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
*
1368673 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAATAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
1368738 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
1368779 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1368844 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
1368909 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
1368974 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
1369039 ATAGGTAGTGGTTATATTGTAAAGTACCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTACCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
1369104 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
1369169 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
1369210 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
1369275 ATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACATACTTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
1369340 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
1369405 TAGATAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
1369470 ATAGGTAGTGGTTATATTGTAAAGTACCTATCCTTTTTATAAAAGTTTCTATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTACCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
1369535 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
1369600 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
1369641 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
1369706 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTTAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
1369771 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
1369831 CATATTATAA
Statistics
Matches: 1457, Mismatches: 20, Indels: 7
0.98 0.01 0.00
Matches are distributed among these distances:
428 2 0.00
429 381 0.26
430 47 0.03
431 1027 0.70
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (431 bp):
TTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
AAATTACATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTACCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:1369014 original size:23 final size:23
Alignment explanation
Indices: 1368983--1369055 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1368973 ATAGGTAAAA
*
1368983 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1369006 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1369029 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1369052 ATAT
1 ATAT
1369056 TGTAAAGTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1369445 original size:23 final size:23
Alignment explanation
Indices: 1369414--1369486 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1369404 ATAGATAAAA
*
1369414 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1369437 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1369460 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1369483 ATAT
1 ATAT
1369487 TGTAAAGTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1370142 original size:183 final size:182
Alignment explanation
Indices: 1369867--1370359 Score: 905
Period size: 183 Copynumber: 2.7 Consensus size: 182
1369857 GCAATGCTAT
1369867 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
1369932 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCAATACATTGTCAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
*
1369997 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
1370050 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1370115 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
1370180 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
1370233 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1370298 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
1370360 GTAATTTTAA
Statistics
Matches: 302, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
183 298 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:1372854 original size:25 final size:25
Alignment explanation
Indices: 1372826--1372889 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
1372816 TTATCATTAA
1372826 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
***
1372851 ATTTAGGTATGT-TGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
1372875 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
1372890 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 20 0.62
25 12 0.38
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:1373272 original size:23 final size:23
Alignment explanation
Indices: 1373241--1373313 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1373231 ATAGGTAAAA
*
1373241 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1373264 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1373287 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1373310 ATAT
1 ATAT
1373314 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1373617 original size:24 final size:25
Alignment explanation
Indices: 1373585--1373633 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
1373575 AAATCAATTA
*
1373585 AACATTGTTGT-GGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
1373609 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
1373634 GAAAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:1374040 original size:18 final size:18
Alignment explanation
Indices: 1374019--1374055 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1374009 GTAATTGGAG
1374019 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1374037 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1374055 T
1 T
1374056 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1374063 original size:24 final size:24
Alignment explanation
Indices: 1374011--1374057 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1374001 TTTCATATGT
* *
1374011 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
1374035 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
1374058 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:1374333 original size:35 final size:35
Alignment explanation
Indices: 1374253--1374319 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
1374243 TAACAAATAG
* * *
1374253 CAACTAAAATCATAAGTCCGAAATGCTTCTGAGTA
1 CAACCAAAATCATAAGTCCGAAATACTTCCGAGTA
*
1374288 CAACCCAAATCATAAGTCCGAAATACTTCCGA
1 CAACCAAAATCATAAGTCCGAAATACTTCCGA
1374320 TGCTCATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.22
Consensus pattern (35 bp):
CAACCAAAATCATAAGTCCGAAATACTTCCGAGTA
Found at i:1374368 original size:39 final size:39
Alignment explanation
Indices: 1374325--1374411 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
1374315 TCCGATGCTC
* *
1374325 ATCAAAATCCAAAGCTCATATGGTGCGAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
1374364 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
1374403 ATCAAAATC
1 ATCAAAATC
1374412 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:1374862 original size:23 final size:23
Alignment explanation
Indices: 1374831--1374891 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
1374821 ATAGGTAAAA
*
1374831 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1374854 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
1374877 ATATAATGTAATAGG
1 ATATAATGTAATAGG
1374892 CAGTGGTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1374901 original size:23 final size:23
Alignment explanation
Indices: 1374831--1374903 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1374821 ATAGGTAAAA
* *
1374831 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1374854 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
* *
1374877 ATATAATGTAATAGGCAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1374900 ATAT
1 ATAT
1374904 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1375334 original size:23 final size:23
Alignment explanation
Indices: 1375262--1375325 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
1375252 ATAGGTAAAA
*
1375262 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1375285 ATATAATGTAATAAGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
1375308 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1375326 TGGATATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1375719 original size:23 final size:23
Alignment explanation
Indices: 1375688--1375760 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1375678 ATAGGTAAAA
*
1375688 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1375711 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1375734 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1375757 ATAT
1 ATAT
1375761 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1376150 original size:23 final size:23
Alignment explanation
Indices: 1376119--1376191 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1376109 ATATGTAAAA
*
1376119 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1376142 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1376165 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1376188 ATAT
1 ATAT
1376192 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1376355 original size:432 final size:430
Alignment explanation
Indices: 1374629--1376543 Score: 3525
Period size: 431 Copynumber: 4.5 Consensus size: 430
1374619 GTTAATGTTG
* *
1374629 TTAAATT-TAAATTCTAAATATTATTTTACAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
* *
1374693 ATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
1374758 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
1374823 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
* *
1374888 TAGGCAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
1374953 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
1375018 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
1375058 TTAAATTAAAAATTGTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1375123 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA-TTGAAACAT
*
1375188 AAATTACATAACTTTAAAAGAAGTATCGATCCCTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
1375253 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTAGCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
*
1375318 ATAGGTAGTGGATATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
1375383 TGGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
1375448 CGTCTAATGATTTA--TTTTACGTTACG--ATATATTATTA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
* *
1375485 TTAAATTAAAAATTTTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
1375550 ATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
*
1375615 AATTGCATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
1375680 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
1375745 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
1375810 GGAAAACATTAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
1375875 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
1375915 TTAAATTAAAAATTGTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1375980 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA-TTGAAACAT
1376045 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
1376110 TATGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
* *
1376175 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAACTTTCCATACTTTTTTTCACT
260 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTTCACT
*
1376240 ATGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
324 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
1376305 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
389 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
1376347 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
* *
1376412 ATGAAATTATTAAGTTAATATTGTAGGTGGAAAACATGAAACATTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
1376477 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
1376542 TA
195 TA
1376544 TAATGTAATA
Statistics
Matches: 1441, Mismatches: 36, Indels: 15
0.97 0.02 0.01
Matches are distributed among these distances:
426 276 0.19
427 128 0.09
428 12 0.01
429 19 0.01
430 235 0.16
431 464 0.32
432 300 0.21
433 7 0.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:1377109 original size:22 final size:22
Alignment explanation
Indices: 1377084--1377125 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
1377074 GGTCATCAGG
1377084 TCATCCGGGAAAGGTCGCCAGA
1 TCATCCGGGAAAGGTCGCCAGA
1377106 TCATCCGGGAAAGGTCGCCA
1 TCATCCGGGAAAGGTCGCCA
1377126 AGTCCTCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.31, T:0.14
Consensus pattern (22 bp):
TCATCCGGGAAAGGTCGCCAGA
Found at i:1379417 original size:15 final size:14
Alignment explanation
Indices: 1379397--1379439 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
1379387 CGTGTTTTCT
1379397 TTTTTTGCTTCTTCC
1 TTTTTTG-TTCTTCC
*
1379412 TTTTTTGTTTCCTCC
1 TTTTTTG-TTCTTCC
1379427 TTTTTTGTTCTTC
1 TTTTTTGTTCTTC
1379440 GAATGCTTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.00, C:0.23, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTTTTGTTCTTCC
Found at i:1379852 original size:16 final size:16
Alignment explanation
Indices: 1379831--1379921 Score: 80
Period size: 16 Copynumber: 5.8 Consensus size: 16
1379821 CAAATAGTTG
* *
1379831 TAATAAATATTAATAT
1 TAATAAATAATAATAA
1379847 TAATAAATAATAATAA
1 TAATAAATAATAATAA
1379863 TAAT-AATAATAATAA
1 TAATAAATAATAATAA
* **
1379878 TATTCCTATAAT-ATAA
1 TAAT-AAATAATAATAA
*
1379894 TAAT-AATAATAATTA
1 TAATAAATAATAATAA
*
1379909 TTATAATATAATA
1 TAATAA-ATAATA
1379922 TTTATATCCC
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
14 5 0.08
15 20 0.32
16 26 0.42
17 11 0.18
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAAATAATAATAA
Found at i:1379860 original size:3 final size:3
Alignment explanation
Indices: 1379831--1379921 Score: 80
Period size: 3 Copynumber: 30.7 Consensus size: 3
1379821 CAAATAGTTG
* *
1379831 TAA TAAA TAT TAA TAT TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * *
1379878 TAT TCC T-A TAA T-A TAA TAA TAA TAA TAA TTA TTA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1379922 TTTATATCCC
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
2 5 0.07
3 62 0.85
4 6 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:1379919 original size:31 final size:30
Alignment explanation
Indices: 1379831--1379922 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 30
1379821 CAAATAGTTG
*
1379831 TAATAAATATTAATATTAATAA-ATAATAATAA
1 TAAT-AATAATAATATT-ATAATATAAT-ATAA
* **
1379863 TAATAATAATAATAATATTCCTATAATATAA
1 TAATAATAATAATATTA-TAATATAATATAA
1379894 TAATAATAATAATTATTATAATATAATAT
1 TAATAATAATAA-TATTATAATATAATAT
1379923 TTATATCCCG
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
30 1 0.02
31 36 0.72
32 13 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
TAATAATAATAATATTATAATATAATATAA
Found at i:1380418 original size:54 final size:55
Alignment explanation
Indices: 1380093--1380547 Score: 613
Period size: 55 Copynumber: 8.4 Consensus size: 55
1380083 CTTCGACCAG
* * * * *
1380093 CGGGTTCGTTCCCTCTTGCTTCAGGGAG--TACAACTCGAGCAATCTTCTGCCTA
1 CGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* * * *
1380146 CGAGTTCGCTCCCTCTTGCTTCAGGAAG--TAGAACTCGAACAATCTTCTGCCTA
1 CGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* * *
1380199 CGGGTTCTCTCCCTCTTTTCTTTAGGGAGTA-AGAACTCGAGCAATCTTCT-CTCAA
1 CGGGTTCGCTCCCTC-TTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGC-CTA
**
1380254 CGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAA
1 CGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* *
1380309 CGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACCCGAAC-ATCTTCTTCCTA
1 CGGGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAACAATCTTCTGCCTA
*
1380364 CGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAC-ATCTTCTACCTA
1 CGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* *
1380418 CGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAACGATCTTCTTCCTA
1 CGGGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAACAATCTTCTGCCTA
* * *
1380474 CGGGTTTGCTCCCTCTTTCTTTAGGGAGTA-GGAACTCGAACAATCTTCTACCTA
1 CGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
1380528 CGGGTTCGCTCCCTCTTTCT
1 CGGGTTCGCTCCCTCTTTCT
1380548 GTTGAGTTAA
Statistics
Matches: 366, Mismatches: 27, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
53 61 0.17
54 118 0.32
55 135 0.37
56 52 0.14
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.33
Consensus pattern (55 bp):
CGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCCTA
Done.