Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007992.1 Hibiscus syriacus cultivar Beakdansim tig00110442_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: 1314873
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:603193 original size:17 final size:16
Alignment explanation
Indices: 603162--603192 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
603152 TTTTTCCTGT
*
603162 TTTTTCTTTCTTTTTA
1 TTTTTCCTTCTTTTTA
603178 TTTTTCCTTCTTTTT
1 TTTTTCCTTCTTTTT
603193 TCCTTCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTCCTTCTTTTTA
Found at i:603280 original size:6 final size:6
Alignment explanation
Indices: 603229--603302 Score: 53
Period size: 6 Copynumber: 11.8 Consensus size: 6
603219 TTTTTTCCTT
* *
603229 TTTTTC TTTTTCC TTTATC TTTCTTC TTCTTTC --TTAC TTTTTC TTTTTC
1 TTTTTC TTTTT-C TTTTTC TTT-TTC TT-TTTC TTTTTC TTTTTC TTTTTC
* *
603278 TTTCTTAT TTTTTC CTTTTC TTTTT
1 TTT-TT-C TTTTTC TTTTTC TTTTT
603303 AGTAACAGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
4 3 0.06
6 30 0.57
7 16 0.30
8 4 0.08
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:603291 original size:10 final size:9
Alignment explanation
Indices: 603151--603301 Score: 74
Period size: 10 Copynumber: 15.8 Consensus size: 9
603141 TTCACTTTGG
*
603151 TTTTTTCCT
1 TTTTTTTCT
*
603160 GTTTTTTCT
1 TTTTTTTCT
*
603169 TTCTTTTTAT
1 TT-TTTTTCT
*
603179 TTTTCCTTCT
1 TTTT-TTTCT
603189 TTTTTCCTTC-
1 TTTTT--TTCT
*
603199 TTTTTTCCT
1 TTTTTTTCT
*
603208 TCTTTTTTCC
1 T-TTTTTTCT
*
603218 TTTTTTTCC
1 TTTTTTTCT
603227 TTTTTTTC-
1 TTTTTTTCT
*
603235 -TTTTTCCT
1 TTTTTTTCT
*
603243 TTATCTTTCT
1 TT-TTTTTCT
*
603253 TCTTCTTTCT
1 T-TTTTTTCT
*
603263 TACTTTTTCT
1 T-TTTTTTCT
603273 TTTTCTTTCT
1 TTTT-TTTCT
603283 TATTTTTTCCT
1 T-TTTTTT-CT
603294 TTTCTTTT
1 TTT-TTTT
603302 TAGTAACAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
7 6 0.05
8 2 0.02
9 30 0.27
10 59 0.53
11 14 0.13
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.75
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:603695 original size:18 final size:18
Alignment explanation
Indices: 603672--603706 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
603662 TGGCAATCTT
603672 ATAAACAATAA-AAAAATA
1 ATAAACAA-AATAAAAATA
603690 ATAAACAAAATAAAAAT
1 ATAAACAAAATAAAAAT
603707 GCTTCCACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAAACAAAATAAAAATA
Found at i:603990 original size:15 final size:15
Alignment explanation
Indices: 603970--603998 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
603960 TCTATTTCAT
603970 TTTTTCTATTTTTTA
1 TTTTTCTATTTTTTA
603985 TTTTTCTATTTTTT
1 TTTTTCTATTTTTT
603999 CCCATTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCTATTTTTTA
Found at i:614329 original size:26 final size:28
Alignment explanation
Indices: 614274--614340 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 28
614264 TTTCCTTGGA
614274 TTTCTTTCTTTTTGAATTTTTTCTTTTTCT
1 TTTCTTTCTTTTTGAATTTTTTC--TTTCT
614304 TTTCTTT-TTTTCTGAA-TTTTTC-TTCT
1 TTTCTTTCTTTT-TGAATTTTTTCTTTCT
*
614330 TTT-TGTCTTTT
1 TTTCTTTCTTTT
614341 CTTTATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 2 0.06
26 11 0.32
29 10 0.29
30 11 0.32
ACGTcount: A:0.06, C:0.13, G:0.04, T:0.76
Consensus pattern (28 bp):
TTTCTTTCTTTTTGAATTTTTTCTTTCT
Found at i:617158 original size:20 final size:21
Alignment explanation
Indices: 617121--617159 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
617111 GATGATCTTG
*
617121 ATGAAGGATGTTGATGATGAA
1 ATGAAGGATGGTGATGATGAA
*
617142 ATGAA-GATGGTGGTGATG
1 ATGAAGGATGGTGATGATG
617160 TTGTATCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.28
Consensus pattern (21 bp):
ATGAAGGATGGTGATGATGAA
Found at i:617533 original size:19 final size:20
Alignment explanation
Indices: 617495--617545 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
617485 TGAAACCCTT
*
617495 TGAAAATATATGATTTTTAA
1 TGAAAATACATGATTTTTAA
617515 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
617534 TGAAGATACATG
1 TGAAAATACATG
617546 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:618538 original size:20 final size:19
Alignment explanation
Indices: 618501--618539 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
618491 AAGTAAAGAT
**
618501 GTGAAAACATATGTTATGC
1 GTGAAAACATATAATATGC
618520 GTGAAAATCATATAATATGC
1 GTGAAAA-CATATAATATGC
618540 AAGTGAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (19 bp):
GTGAAAACATATAATATGC
Found at i:620786 original size:29 final size:26
Alignment explanation
Indices: 620721--620790 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 26
620711 CTTGGCTTGC
620721 TTTCTCTTTTTCTTTTATTTTCTTCT
1 TTTCTCTTTTTCTTTTATTTTCTTCT
*
620747 TTTCT-TCTTTTCTGATTTTTTTCTCTTCT
1 TTTCTCT-TTTTCT--TTTATTT-TCTTCT
*
620776 TTTGTCTTTTTCTTT
1 TTTCTCTTTTTCTTT
620791 CTCTTTGCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
25 1 0.03
26 11 0.30
27 2 0.05
28 6 0.16
29 16 0.43
30 1 0.03
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.76
Consensus pattern (26 bp):
TTTCTCTTTTTCTTTTATTTTCTTCT
Found at i:621534 original size:19 final size:20
Alignment explanation
Indices: 621493--621535 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
621483 GAAACCCCTT
*
621493 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
621513 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
621532 TGAA
1 TGAA
621536 GACACATGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:621542 original size:19 final size:20
Alignment explanation
Indices: 621493--621543 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
621483 GAAACCCCTT
* *
621493 TGAAAATACATGATTTTTGA
1 TGAAAACACATGATTTTTAA
*
621513 TGAAAATACATGA-TTTTAA
1 TGAAAACACATGATTTTTAA
*
621532 TGAAGACACATG
1 TGAAAACACATG
621544 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAACACATGATTTTTAA
Found at i:622567 original size:20 final size:19
Alignment explanation
Indices: 622530--622568 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
622520 AAGTAAAGAT
**
622530 GTGAAAACATATGTTATGC
1 GTGAAAACATATAATATGC
622549 GTGAAAATCATATAATATGC
1 GTGAAAA-CATATAATATGC
622569 AAGTGAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (19 bp):
GTGAAAACATATAATATGC
Found at i:623038 original size:46 final size:46
Alignment explanation
Indices: 622988--623153 Score: 226
Period size: 46 Copynumber: 3.6 Consensus size: 46
622978 TATGGTCGCT
** * *
622988 TTTCATGCATTAATACATCCGTTCATGCATTTT-GATCATGGAATCC
1 TTTCATGCCCTAATACATCCGTTCATGCATTTTAG-TTATGGCATCC
**
623034 TTTCATGCCCTAATACATCATTTCATGCATTTTAGTTATGGCATCC
1 TTTCATGCCCTAATACATCCGTTCATGCATTTTAGTTATGGCATCC
* * *
623080 TTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCC
1 TTTCATGCCCTAATACATCCGTTCATGCATTTTAGTTATGGCATCC
*
623126 TTTCATGCCCTAATGCATCCGTTCATGC
1 TTTCATGCCCTAATACATCCGTTCATGC
623154 CTTAATGCAT
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 107 0.99
47 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (46 bp):
TTTCATGCCCTAATACATCCGTTCATGCATTTTAGTTATGGCATCC
Found at i:623085 original size:26 final size:26
Alignment explanation
Indices: 623049--623133 Score: 110
Period size: 26 Copynumber: 3.5 Consensus size: 26
623039 TGCCCTAATA
*
623049 CATCATTTCATGCATTTTAGTTATGG
1 CATCCTTTCATGCATTTTAGTTATGG
*
623075 CATCCTTTCATGC--CTTA---AT-G
1 CATCCTTTCATGCATTTTAGTTATGG
623095 CATCCTTTCATGCATTTTAGTTATGG
1 CATCCTTTCATGCATTTTAGTTATGG
623121 CATCCTTTCATGC
1 CATCCTTTCATGC
623134 CCTAATGCAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
20 14 0.28
21 2 0.04
22 3 0.06
24 3 0.06
25 2 0.04
26 26 0.52
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.44
Consensus pattern (26 bp):
CATCCTTTCATGCATTTTAGTTATGG
Found at i:623099 original size:20 final size:20
Alignment explanation
Indices: 623074--623259 Score: 192
Period size: 20 Copynumber: 8.7 Consensus size: 20
623064 TTTAGTTATG
623074 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
623094 GCATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
*
623119 GGCATCCTTTCATGCCCTAAT
1 -GCATCCTTTCATGCCTTAAT
*
623140 GCATCCGTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
623160 GCATCCGTTCATGCCTTTTAATTAT
1 GCATCCTTTCATGCC--TT-A--AT
623185 GCCATCCTTTCATGCCTTAAT
1 G-CATCCTTTCATGCCTTAAT
623206 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
623226 GCATCCTATCATGCCCTAAT
1 GCATCCTTTCATGCCTTAAT
* *
623246 GCATTCGTTCATGC
1 GCATCCTTTCATGC
623260 ATTTTAATTA
Statistics
Matches: 143, Mismatches: 11, Indels: 24
0.80 0.06 0.13
Matches are distributed among these distances:
20 95 0.66
21 5 0.03
22 5 0.03
23 2 0.01
24 4 0.03
25 5 0.03
26 27 0.19
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:623106 original size:66 final size:60
Alignment explanation
Indices: 623030--623259 Score: 181
Period size: 66 Copynumber: 3.5 Consensus size: 60
623020 TGATCATGGA
* *
623030 ATCCTTTCATGCCCTAATACATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG
1 ATCCTTTCATGCCCTAATACATCCTTTCATGC--CTTA---AT-GCATCCTTTCATGCCTTAATG
623095 C
60 C
** * * *
623096 ATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCCTAATGCATCCGTTCATGCCTTAATG
1 ATCCTTTCATGC--CCTA---AT-ACATCCTTTCATGCCTTAATGCATCCTTTCATGCCTTAATG
623161 C
60 C
* *
623162 ATCCGTTCATGCCTTTTAATTATGCCATCCTTTCATGCCTTAATGCATCCTTTCATGCCTTAATG
1 ATCCTTTCATGCC--CTAA-TA---CATCCTTTCATGCCTTAATGCATCCTTTCATGCCTTAATG
623227 C
60 C
* * * *
623228 ATCCTATCATGCCCTAATGCATTCGTTCATGC
1 ATCCTTTCATGCCCTAATACATCCTTTCATGC
623260 ATTTTAATTA
Statistics
Matches: 134, Mismatches: 18, Indels: 30
0.74 0.10 0.16
Matches are distributed among these distances:
60 11 0.08
63 2 0.01
64 4 0.03
66 97 0.72
67 2 0.01
68 2 0.01
70 2 0.01
71 2 0.01
72 12 0.09
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.40
Consensus pattern (60 bp):
ATCCTTTCATGCCCTAATACATCCTTTCATGCCTTAATGCATCCTTTCATGCCTTAATGC
Found at i:623226 original size:86 final size:86
Alignment explanation
Indices: 623120--623288 Score: 277
Period size: 86 Copynumber: 2.0 Consensus size: 86
623110 TTTAGTTATG
* *
623120 GCATCCTTTCATGCCCTAATGCATCCGT-TCATGCCTTAATGCATCCGTTCATGCCTTTTAATTA
1 GCATCCTTTCATGCCCTAATGCATCC-TATCATGCCCTAATGCATCCGTTCATGCATTTTAATTA
623184 TGCCATCCTTTCATGCCTTAAT
65 TGCCATCCTTTCATGCCTTAAT
* *
623206 GCATCCTTTCATGCCTTAATGCATCCTATCATGCCCTAATGCATTCGTTCATGCATTTTAATTAT
1 GCATCCTTTCATGCCCTAATGCATCCTATCATGCCCTAATGCATCCGTTCATGCATTTTAATTAT
*
623271 GGCATCCTTTCATGCCTT
66 GCCATCCTTTCATGCCTT
623289 CGTTCCTCCG
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 1 0.01
86 76 0.99
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (86 bp):
GCATCCTTTCATGCCCTAATGCATCCTATCATGCCCTAATGCATCCGTTCATGCATTTTAATTAT
GCCATCCTTTCATGCCTTAAT
Found at i:623301 original size:46 final size:46
Alignment explanation
Indices: 623140--623318 Score: 190
Period size: 46 Copynumber: 4.0 Consensus size: 46
623130 ATGCCCTAAT
* *
623140 GCATCCGTTCATGCCTTAATGCATCCGTTCATGCCTTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATG
* * *
623186 CCATCCTTTCATGCCTTAATGCATCCTTTCATGC--CTT-A--AT-
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATG
* * *
623226 GCATCCTATCATGCCCTAATGCATTCGTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATG
** * * * *
623272 GCATCCTTTCATGCCTTCGTTCCTCCGTTCATGCATTATAAGTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATG
623318 G
1 G
623319 ATTCGGTTTA
Statistics
Matches: 108, Mismatches: 19, Indels: 12
0.78 0.14 0.09
Matches are distributed among these distances:
40 29 0.27
41 2 0.02
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
46 69 0.64
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.39
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATG
Found at i:626419 original size:40 final size:40
Alignment explanation
Indices: 626364--626445 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
626354 TACAGGTTTA
* *
626364 TAATACATTTCGGTGTATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCGGTGTATATGATGGGCACAACCTTATGTG
*
626404 TAATACACTTCGGTGTATATGATGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGATGGGCACAACCTTATGTG
626444 TA
1 TA
626446 GCACTACGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGATGGGCACAACCTTATGTG
Found at i:638638 original size:27 final size:25
Alignment explanation
Indices: 638578--638638 Score: 59
Period size: 27 Copynumber: 2.3 Consensus size: 25
638568 AAAGAAATGT
* *
638578 AAAGATAGAAGAAATGATTTAAGGA
1 AAAGAAAGAAGAAATGATTTAAGAA
* *
638603 TATGAAAAGAAGATAATGATTTAAGAAA
1 AAAG-AAAGAAGA-AATGATTTAAG-AA
638631 AAAGAAAG
1 AAAGAAAG
638639 GAAAATCAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
25 2 0.07
26 7 0.26
27 15 0.56
28 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.20
Consensus pattern (25 bp):
AAAGAAAGAAGAAATGATTTAAGAA
Found at i:639739 original size:50 final size:51
Alignment explanation
Indices: 639675--639773 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 51
639665 ATGAATCAAC
* *
639675 CTCCCATTGGTCGAATGGTGATATGTTTGTTCATATTCGTGCCAAAGTCAT
1 CTCCCATTGGTCGAATGGTGATATGATTGATCATATTCGTGCCAAAGTCAT
* * * *
639726 CTCCC-TTTGTCGAATGGTGATGTGATTGATCATCTTGGTGCCAAAGTC
1 CTCCCATTGGTCGAATGGTGATATGATTGATCATATTCGTGCCAAAGTC
639774 TTCATGTGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 37 0.88
51 5 0.12
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (51 bp):
CTCCCATTGGTCGAATGGTGATATGATTGATCATATTCGTGCCAAAGTCAT
Found at i:642204 original size:14 final size:14
Alignment explanation
Indices: 642185--642223 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
642175 AATTTAGTCT
642185 GAGTCAACCCGACC
1 GAGTCAACCCGACC
* *
642199 GAGTCAACTCGTCC
1 GAGTCAACCCGACC
*
642213 GTGTCAACCCG
1 GAGTCAACCCG
642224 TTGACTTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (14 bp):
GAGTCAACCCGACC
Found at i:643348 original size:20 final size:20
Alignment explanation
Indices: 643323--643364 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
643313 CCAGACTTGT
*
643323 TTGGAAGATCTGTAAATCGG
1 TTGGAAGATCTGAAAATCGG
*
643343 TTGGAAGGTCTGAAAATCGG
1 TTGGAAGATCTGAAAATCGG
643363 TT
1 TT
643365 ACTAATCCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.31
Consensus pattern (20 bp):
TTGGAAGATCTGAAAATCGG
Found at i:643561 original size:2 final size:2
Alignment explanation
Indices: 643554--643592 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
643544 ATGAGAATTG
643554 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
643593 GCAATTATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:647015 original size:55 final size:55
Alignment explanation
Indices: 646192--647018 Score: 1140
Period size: 55 Copynumber: 15.1 Consensus size: 55
646182 ACCATTCATT
* * * *
646192 GTGGATGTGCGCACATAGTGCATGTACGATTATTCATCAACTCATGATGAATTCT
1 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
* * *
646247 GTGGATTTACACACATAGTGCATGTACGGTTATTCATCAACTCATGACGAATTTC
1 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
*
646302 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATTATGAATTCC
1 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
* *
646357 GTGGATTTGCACACATCA-TGCCTGTATGGTTATTCATCAACTCATGATGAATTCC
1 GTGGATTTGCACACAT-AGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
* * *
646412 GTGGATTTGCACACATAGTGCATGTATGGTTATTCATTAACTCATGATGAATTCT
1 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
* **
646467 GTGGATTTGCACACATTGTGCATGTACGGTTATTCATCAACTCATGATGAATTAT
1 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
** * * **
646522 GTGGATTTGCACACATAGTGTTTGTACAGTTATTCATCAACTCGTGATGAATTAT
1 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
* * * **
646577 GTGGATTTGCACACATAGTGCTTGTACGGTTATTCGTCAACTCATGACGAATTTT
1 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
* **
646632 GTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTT
1 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
* * *
646687 GTGGATTTTCACACATCGTGCATGTATGGTTATTCATCAACTCATGATGAATTCC
1 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
*
646742 GTGGATTTGCACACATAGTGTC-TGTACGGTTATTCATCAACACATGATGAATTCC
1 GTGGATTTGCACACATAGTG-CATGTACGGTTATTCATCAACTCATGATGAATTCC
* * ** * *
646797 GTGGATTTGCACACATCGTACCCGTATGGTTATTCATCTACTCATGATGAATTCC
1 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
* * * **
646852 GTGGATTTGCACACATAGTGCTTGTA-AGTTATTCATCATCTCATGATGAATTAT
1 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
* * *
646906 GTGGATTTGCACACATAGTGCCTGTATGGTTATTCATTAACTCATGATGAATTCC
1 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
* * *
646961 GTGGATTTGCACACATCGTGCCTGTACGGTTATTCATCCACGT-ATGATGAATTCC
1 GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAAC-TCATGATGAATTCC
647016 GTG
1 GTG
647019 AAATGCACAC
Statistics
Matches: 696, Mismatches: 70, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
54 50 0.07
55 643 0.92
56 3 0.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (55 bp):
GTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCC
Found at i:647480 original size:20 final size:21
Alignment explanation
Indices: 647455--647506 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
647445 GTTATGAAAT
* *
647455 GGTATCGATACCTTCCCTTC-
1 GGTATCGATACCTACCCTCCA
647475 GGTATCGATA-CTACCCTCCA
1 GGTATCGATACCTACCCTCCA
647495 GGTATCGATACC
1 GGTATCGATACC
647507 GATTGAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 7 0.25
20 20 0.71
21 1 0.04
ACGTcount: A:0.21, C:0.33, G:0.17, T:0.29
Consensus pattern (21 bp):
GGTATCGATACCTACCCTCCA
Found at i:648965 original size:24 final size:24
Alignment explanation
Indices: 648933--649022 Score: 83
Period size: 24 Copynumber: 3.8 Consensus size: 24
648923 TAACAGAGAT
648933 ATCAGAACAGAAATCAGAGCATAA
1 ATCAGAACAGAAATCAGAGCATAA
* * *
648957 ATCATAACAGAATTCAGATCA-AA
1 ATCAGAACAGAAATCAGAGCATAA
* * * *
648980 TATCATAATAGAATTCAGTGCATAA
1 -ATCAGAACAGAAATCAGAGCATAA
* *
649005 ATTAGAACATAAATCAGA
1 ATCAGAACAGAAATCAGA
649023 TAAAACATTC
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 2 0.04
24 48 0.92
25 2 0.04
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.22
Consensus pattern (24 bp):
ATCAGAACAGAAATCAGAGCATAA
Found at i:654527 original size:8 final size:7
Alignment explanation
Indices: 654493--654526 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
654483 AGAGGAAAAC
654493 AAAACGAA
1 AAAAC-AA
654501 AAAAGCAA
1 AAAA-CAA
654509 AAAACAA
1 AAAACAA
654516 AAAACAA
1 AAAACAA
654523 AAAA
1 AAAA
654527 AAAGGTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 14 0.56
8 10 0.40
9 1 0.04
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (7 bp):
AAAACAA
Found at i:656678 original size:89 final size:88
Alignment explanation
Indices: 656567--656735 Score: 295
Period size: 89 Copynumber: 1.9 Consensus size: 88
656557 TCCCGAATAT
*
656567 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCC-AATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGATTAG
656631 GGTAACTTGGATATAAGAAGATTA
65 GGTAACTTGGATATAAGAAGATTA
656655 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
*
656720 GGTAACTTGGCTATAA
65 GGTAACTTGGATATAA
656736 AAGGGTGTGT
Statistics
Matches: 77, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
88 10 0.13
89 67 0.87
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.38
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGG
GTAACTTGGATATAAGAAGATTA
Found at i:657783 original size:23 final size:24
Alignment explanation
Indices: 657757--657801 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
657747 TCTTTAAAAT
657757 TTATATATTTA-TTTATT-TTATCC
1 TTATAT-TTTATTTTATTCTTATCC
*
657780 TTATCTTTTATTTTATTCTTAT
1 TTATATTTTATTTTATTCTTAT
657802 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 11 0.58
24 4 0.21
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (24 bp):
TTATATTTTATTTTATTCTTATCC
Found at i:657791 original size:18 final size:18
Alignment explanation
Indices: 657768--657811 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
657758 TATATATTTA
*
657768 TTTATTTTATCCTTATCT
1 TTTATTTTATCCTTATAT
*
657786 TTTATTTTATTCTTATAT
1 TTTATTTTATCCTTATAT
657804 TTTATTTT
1 TTTATTTT
657812 TAAAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTTTATCCTTATAT
Found at i:659749 original size:2 final size:2
Alignment explanation
Indices: 659742--659785 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
659732 CTAATATTTA
659742 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
659784 AT
1 AT
659786 TGTTGAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:664683 original size:81 final size:81
Alignment explanation
Indices: 664582--665323 Score: 988
Period size: 81 Copynumber: 9.1 Consensus size: 81
664572 AAGTATTTAG
* * * * * *
664582 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATAATTGACAC-CTTCTTGCCAAATA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTC-TGCCAAATG
* *
664646 CATAGCTATGG-TATTAA
65 CACAGCTA-GGCCATTAA
*
664663 TCTTTCACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
664728 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
664744 TCTTTTACTCAAAGGTATTTAACATTTCATC-AACTAGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
* *
664808 ACAACTAGGCAATTAA
66 ACAGCTAGGCCATTAA
*
664824 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
*
664889 ATAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * **
664905 TATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
664970 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
664986 TATTTTACTCAAAGGTATTTTACCTTTCTTCTAACTGGCATAATTGACATC-TTTCTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CATTTCTGCCAAATG
* *
665050 TACAGCTATGCCATTAA
65 CACAGCTAGGCCATTAA
* * * **
665067 TCTTTTACTCAAATGTATTTAACCTTTCATCTAACTGCCATAATTGACATATTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
*
665132 AAAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
665148 TCTTTTACTTAAGGGTATTTAACCTTTCATATAACTGGAATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
665213 ACAGCTAGGCCATTAATA
66 ACAGCTAGGCCATT-A-A
* * *
665231 TTTTACTCTTTACTCAAAGGTATTTAACCTTTCATATTACTGGCATAATTGACACATTTCTGTCA
1 ---T-CT-TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCA
* *
665296 AATGCATAGCTAGGACATTAA
61 AATGCACAGCTAGGCCATTAA
665317 TCTTTTA
1 TCTTTTA
665324 TTTTAGAGTA
Statistics
Matches: 587, Mismatches: 62, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
80 76 0.13
81 428 0.73
82 7 0.01
83 2 0.00
86 2 0.00
87 3 0.01
88 69 0.12
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
ACAGCTAGGCCATTAA
Found at i:665300 original size:88 final size:88
Alignment explanation
Indices: 665151--665323 Score: 274
Period size: 88 Copynumber: 2.0 Consensus size: 88
665141 CCATTAATCT
* *
665151 TTTACTTAAGGGTATTTAACCTTTCATATAACTGGAATAATTGACACATTTCTGCCAAATGCACA
1 TTTACTCAAAGGTATTTAACCTTTCATATAACTGGAATAATTGACACATTTCTGCCAAATGCACA
*
665216 GCTAGGCCATTAATATTTTACTC
66 GCTAGGACATTAATATTTTACTC
* * * *
665239 TTTACTCAAAGGTATTTAACCTTTCATATTACTGGCATAATTGACACATTTCTGTCAAATGCATA
1 TTTACTCAAAGGTATTTAACCTTTCATATAACTGGAATAATTGACACATTTCTGCCAAATGCACA
*
665304 GCTAGGACATTAATCTTTTA
66 GCTAGGACATTAATATTTTA
665324 TTTTAGAGTA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (88 bp):
TTTACTCAAAGGTATTTAACCTTTCATATAACTGGAATAATTGACACATTTCTGCCAAATGCACA
GCTAGGACATTAATATTTTACTC
Found at i:670714 original size:81 final size:81
Alignment explanation
Indices: 670585--671310 Score: 1074
Period size: 81 Copynumber: 9.0 Consensus size: 81
670575 TCTTTTAACA
* * * * *
670585 AAAGGCATTTAGCCTTTCATCTAACTTGCATAATTGACACCTTCCTGCCAAATACACAGCTAGGC
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
*
670650 TATTAATCTTTTACTC
66 CATTAATCTTTTACTC
* * *
670666 AAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACATTTCTGCCAAATGCACAGCCAGGC
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
*
670731 CATTAATCGTTTACTC
66 CATTAATCTTTTACTC
** **
670747 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTGAAATGCACATATAGGC
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
670812 CATTAATCTTTTACTC
66 CATTAATCTTTTACTC
* * * ** *
670828 GAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTTCCAAATGCATTGTTAGGC
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
*
670893 CATTAATCGTTTACTC
66 CATTAATCTTTTACTC
* * * * *
670909 AAAGGTGTTTAACATTTCATCTAACTGGCATAATTGACACCTTTCTGTCAGATGCATAGCTAGGC
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
670974 CATTAATCTTTTACTC
66 CATTAATCTTTTACTC
* *
670990 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCATAGCTAGGC
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
671055 CATTAATCTTTTACTC
66 CATTAATCTTTTACTC
* * * *
671071 AAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATACACAGCTAGGT
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
671136 CATTAATCTTTTACTC
66 CATTAATCTTTTACTC
* * *
671152 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTTCCAAATGCACAACTAGGC
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
*
671217 CATTAATCGTTTACTC
66 CATTAATCTTTTACTC
* * * * * *
671233 AAAGGTGTTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGACAAATGCACAACTAGAC
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
671298 CATTAATCTTTTA
66 CATTAATCTTTTA
671311 TTTTATAATA
Statistics
Matches: 586, Mismatches: 59, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 586 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (81 bp):
AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
CATTAATCTTTTACTC
Found at i:679427 original size:19 final size:19
Alignment explanation
Indices: 679405--679451 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
679395 TCTTTTCCTT
*
679405 TCTTCTTTTCTTATTTTTC
1 TCTTCTTTTCTGATTTTTC
*
679424 TCTTCTTTTCTGATTTTTG
1 TCTTCTTTTCTGATTTTTC
679443 TCTTCTTTT
1 TCTTCTTTT
679452 TGCACTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.72
Consensus pattern (19 bp):
TCTTCTTTTCTGATTTTTC
Found at i:686580 original size:3 final size:3
Alignment explanation
Indices: 686572--686639 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
686562 CGAAACTATC
686572 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
686620 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
686640 AATGTAAAGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:688593 original size:14 final size:14
Alignment explanation
Indices: 688570--688599 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
688560 TAAATTTATC
*
688570 TTAATTTCTTGAAT
1 TTAATCTCTTGAAT
688584 TTAATCTCTTGAAT
1 TTAATCTCTTGAAT
688598 TT
1 TT
688600 TTTTTAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.57
Consensus pattern (14 bp):
TTAATCTCTTGAAT
Found at i:692587 original size:243 final size:241
Alignment explanation
Indices: 692002--692915 Score: 788
Period size: 241 Copynumber: 3.8 Consensus size: 241
691992 GTTAAGTCGA
* * *
692002 TTTTGGGCATTCTTCGAGTCCAATATCCTTTGTCGTGAAGTTGAAATTTAACTCT-AA-ACCTTG
1 TTTTGGTC-TTCTTCTAGTCCAATATCCTTTGTCATGAAGTTGAAATTTAACT-TGAAGACCTTG
* * * * *
692065 GCTGGAAAATAACTTATCGGTGTTGAGTTAAGTTATGTTGTAGATGGATCCTCCATTGCG-GATT
64 GTTGGAAAATAACTCATCGTTGTTGAGTTAAGTTATGTTGTGGAT-GATCCTCCATTACGAG-TT
* ** * * * * * *
692129 AAGTTAAT-CTTAGATGACTCAAGCTTGATGTCCTTTATCGTAAAGTTAAAATCTGAC-CGAAAA
127 AAGTCAATCCCGA-ATGACTCGAGCTTGATATCCTTCATCGTGAAGTTGAAATCTAACTCG-AAA
* * * * * *
692192 TCTTGGCTGGAGAATATCCCCTCGTTGTTGAGTTAGGCTAAATTGCAGAT-AGT
190 TCTAGGCTGGAAAATAGCTCATCGTTGTTGAGTTAAGCTAAATTGCAG-TCA-T
* * * * * * *
692245 TTTTGTTCTTCTTCTAGTCCAATATCCCATCGT-A--AAGTTGAAACTTGACTTGAAGATCTTGA
1 TTTTGGTCTTCTTCTAGTCCAATAT-CCTTTGTCATGAAGTTGAAATTTAACTTGAAGACCTTGG
* * * *
692307 TTGGAAAATAGCTCCTCGCTGTTGAGTTAAGTTATGTTGTGGATGACTCCTTCATTACGAGTTAA
65 TTGGAAAATAACTCATCGTTGTTGAGTTAAGTTATGTTGTGGATGA-TCCTCCATTACGAGTTAA
* * * * *
692372 GTCAATCCCGAATGACTCGAGCTTAATATTCTTCGTCATGAAGTTGAATTCTAACTCGAAATCTA
129 GTCAATCCCGAATGACTCGAGCTTGATATCCTTCATCGTGAAGTTGAAATCTAACTCGAAATCTA
* * * ** *
692437 AGATGGAAAATAGCTCTTCGTTGTTGAGTTAAGCTAAATTAAAGTCAA
194 GGCTGGAAAATAGCTCATCGTTGTTGAGTTAAGCTAAATTGCAGTCAT
* * *
692485 TTTTGAGTCTTTTTATAGTCCAATATCCTTTGTCATGAAGTTGAAATTTGACTTGAAGACCTTGG
1 TTTTG-GTCTTCTTCTAGTCCAATATCCTTTGTCATGAAGTTGAAATTTAACTTGAAGACCTTGG
* * **
692550 TTGGAAAATAACTCCTTGTTGTTGAGTTAAGTTATGTTGTGGATGATTTGTCCATTACGAGTTAA
65 TTGGAAAATAACTCATCGTTGTTGAGTTAAGTTATGTTGTGGATGA-TCCTCCATTACGAGTTAA
* * * * * *
692615 GTCGATCCCGAATGACTTGAGCTTGATATCCTCCATCGTGAATTTGAAATCTAACTCAAAATCTG
129 GTCAATCCCGAATGACTCGAGCTTGATATCCTTCATCGTGAAGTTGAAATCTAACTCGAAATCTA
* ** * *
692680 GGCTGAAAAATAGCTCATATTTGTTAAGTTAAGCT-AATCGCAGTCGAT
194 GGCTGGAAAATAGCTCATCGTTGTTGAGTTAAGCTAAATTGCAGTC-AT
** * * * * *
692728 TTTTGGTCTTCTTCTAGTATAATATCATTTATCATGAAGATGATATTTAACTTGAAGACATTGGT
1 TTTTGGTCTTCTTCTAGTCCAATATCCTTTGTCATGAAGTTGAAATTTAACTTGAAGACCTTGGT
* * ** ** * * * * *
692793 TGG-AAATAGCTCATTGTCATTGAGTTAAACTATGTAGTGGATGAATCCTTCATCATGAAGTTAC
66 TGGAAAATAACTCATCGTTGTTGAGTTAAGTTATGTTGTGGATG-ATCCTCCATTACG-AGTTAA
*** * *** * *
692857 GTCAATATTGAATGTTCTCTGAGCCCAATATCTTTCTTCGTGAAGTTGAAATCTAACTC
129 GTCAATCCCGAATG-ACTC-GAGCTTGATATCCTTCATCGTGAAGTTGAAATCTAACTC
692916 AAAAAATCTG
Statistics
Matches: 538, Mismatches: 116, Indels: 33
0.78 0.17 0.05
Matches are distributed among these distances:
239 1 0.00
240 29 0.05
241 195 0.36
242 97 0.18
243 184 0.34
244 32 0.06
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (241 bp):
TTTTGGTCTTCTTCTAGTCCAATATCCTTTGTCATGAAGTTGAAATTTAACTTGAAGACCTTGGT
TGGAAAATAACTCATCGTTGTTGAGTTAAGTTATGTTGTGGATGATCCTCCATTACGAGTTAAGT
CAATCCCGAATGACTCGAGCTTGATATCCTTCATCGTGAAGTTGAAATCTAACTCGAAATCTAGG
CTGGAAAATAGCTCATCGTTGTTGAGTTAAGCTAAATTGCAGTCAT
Found at i:694912 original size:22 final size:22
Alignment explanation
Indices: 694895--694961 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
694885 CTCGTATAAA
694895 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
694917 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
694939 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
694961 T
1 T
694962 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:695231 original size:30 final size:31
Alignment explanation
Indices: 695181--695240 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
695171 TAGACATAGT
*
695181 ATTTCCATAACTTTAACACATAG-GCATATC
1 ATTTACATAACTTTAACACATAGTGCATATC
* *
695211 ATTTACATACCTTTATCACATAGTGCATAT
1 ATTTACATAACTTTAACACATAGTGCATAT
695241 AACTTTTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATAACTTTAACACATAGTGCATATC
Found at i:695727 original size:66 final size:67
Alignment explanation
Indices: 695603--695752 Score: 196
Period size: 66 Copynumber: 2.2 Consensus size: 67
695593 TTTTTTCATG
* * *
695603 GGGGAATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGTATCGGTT-CCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTAGAAATTCAT-TACGA
695668 TG-A
64 TGAA
** * * *
695671 GGGGTATCGGTTCCCCCCCT-GGGGTATCGATTCCCCTCTTGCATTCTAGAAATTCATTTCGTTG
1 GGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTAGAAATTCATTACGATG
695735 AA
66 AA
695737 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
695753 TTGAATGGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
65 5 0.07
66 49 0.67
67 8 0.11
68 11 0.15
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.29
Consensus pattern (67 bp):
GGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTAGAAATTCATTACGATG
AA
Found at i:695762 original size:21 final size:21
Alignment explanation
Indices: 695732--695774 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
695722 ATTCATTTCG
* *
695732 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
695753 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
695774 T
1 T
695775 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:701823 original size:22 final size:22
Alignment explanation
Indices: 701806--701872 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
701796 CTCGTATAAA
701806 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
701828 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
701850 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
701872 T
1 T
701873 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:702142 original size:30 final size:31
Alignment explanation
Indices: 702092--702151 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
702082 TAGACATAGT
*
702092 ATTTCCATAACTTTAACACATAG-GCATATC
1 ATTTACATAACTTTAACACATAGTGCATATC
* *
702122 ATTTACATACCTTTATCACATAGTGCATAT
1 ATTTACATAACTTTAACACATAGTGCATAT
702152 AACTTTTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATAACTTTAACACATAGTGCATATC
Found at i:702632 original size:68 final size:67
Alignment explanation
Indices: 702513--702665 Score: 216
Period size: 68 Copynumber: 2.3 Consensus size: 67
702503 TTTTTTTCAT
* *
702513 GGGGGAATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACG
1 GGGGGTATCGGTT-CCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCAT-TACG
702578 ATGA
64 ATGA
** * * *
702582 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCTTGCATTCTGGAAATTCATTTCGTT
1 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATTACGAT
702647 GA
66 GA
*
702649 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
702666 TTGAATGGGT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
67 22 0.29
68 42 0.55
69 12 0.16
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATTACGAT
GA
Found at i:702675 original size:21 final size:21
Alignment explanation
Indices: 702645--702687 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
702635 ATTCATTTCG
* *
702645 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
702666 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
702687 T
1 T
702688 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:707687 original size:37 final size:36
Alignment explanation
Indices: 707550--707934 Score: 304
Period size: 36 Copynumber: 10.5 Consensus size: 36
707540 AATGGTTTTT
*
707550 GAAAATACGTATATAATATATAGTTTTTAACACATTTTA
1 GAAAATA--TATATAATATATAGTTTTTAAAACA-TTTA
* *
707589 -AAAATACATATAATATATAGTTTTTAAAACATTTTG
1 GAAAATATATATAATATATAGTTTTTAAAACA-TTTA
*
707625 GAAAA-CTATATAATATATAGTTTTTAAAACATTTCA
1 GAAAATATATATAATATATAGTTTTTAAAACATTT-A
* * * *
707661 GCAAATATGTATAATATATAGATTTTAAAATCATTTT
1 GAAAATATATATAATATATAGTTTTTAAAA-CATTTA
* *
707698 GAAAACT-TATATAATATATAGTTTTGAAAACATTTT
1 GAAAA-TATATATAATATATAGTTTTTAAAACATTTA
* * * *
707734 GAAAACATTTACATATTATATAGTTTTTAAAAAAACATTTT
1 G-AAA-ATATATATAATATATAGTTTTT---AAAACATTTA
*
707775 G-AAA-ATATATAATATATAGTTTTTTAAAACATTTTT
1 GAAAATATATATAATATATAG-TTTTTAAAACA-TTTA
* ** * *
707811 GAATATATATATTGTACAT-GTTTTTAAAACATTTTT
1 GAAAATATATATAATATATAGTTTTTAAAACA-TTTA
* * *
707847 GAAAACATATATAATATATAATTTTTAAAACATTTT
1 GAAAATATATATAATATATAGTTTTTAAAACATTTA
* * * *
707883 GGAAATTTATATATTATAT-GTTTTTGAAAATATTT-
1 GAAAATATATATAATATATAGTTTTT-AAAACATTTA
*
707918 --CAATATATATAATATAT
1 GAAAATATATATAATATAT
707935 TGTTATTATT
Statistics
Matches: 289, Mismatches: 40, Indels: 40
0.78 0.11 0.11
Matches are distributed among these distances:
33 14 0.05
35 14 0.05
36 124 0.43
37 79 0.27
38 45 0.16
39 2 0.01
41 11 0.04
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (36 bp):
GAAAATATATATAATATATAGTTTTTAAAACATTTA
Found at i:707735 original size:11 final size:11
Alignment explanation
Indices: 707719--707743 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
707709 TAATATATAG
707719 TTTTGAAAACA
1 TTTTGAAAACA
707730 TTTTGAAAACA
1 TTTTGAAAACA
707741 TTT
1 TTT
707744 ACATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:707894 original size:74 final size:73
Alignment explanation
Indices: 707545--707917 Score: 384
Period size: 73 Copynumber: 5.0 Consensus size: 73
707535 TTGCAAATGG
* * * * *
707545 TTTTTGAAAATACGTATATAATATATAGTTTTTAACACATTTTAAAAATACATATAATATATAGT
1 TTTTTG-AAA-ACATATATAATATATAGTTTTTAAAACATTTTGAAAATATATATATTATATAGT
707610 TTTTAAAACA
64 TTTTAAAACA
* * * * * *
707620 TTTTGGAAAAC-TATATAATATATAGTTTTTAAAACATTTCAGCAAATATGTATAATATATAGAT
1 TTTTTGAAAACATATATAATATATAGTTTTTAAAACATTT-TGAAAATATATATATTATATAGTT
707684 TTTAAAATCA
65 TTTAAAA-CA
* * * *
707694 -TTTTGAAAACTTATATAATATATAGTTTTGAAAACATTTTGAAAACATTTACATATTATATAGT
1 TTTTTGAAAACATATATAATATATAGTTTTTAAAACATTTTG-AAA-ATATATATATTATATAGT
707758 TTTTAAAAAAACA
64 TTTT---AAAACA
* *
707771 -TTTTG-AAA-ATATATAATATATAGTTTTTTAAAACATTTTTG--AATATATATATTGTACATG
1 TTTTTGAAAACATATATAATATATAG-TTTTTAAAACA-TTTTGAAAATATATATATTATATA-G
707831 TTTTTAAAACA
63 TTTTTAAAACA
* * *
707842 TTTTTGAAAACATATATAATATATAATTTTTAAAACATTTTGGAAATTTATATATTATAT-GTTT
1 TTTTTGAAAACATATATAATATATAGTTTTTAAAACATTTTGAAAATATATATATTATATAGTTT
*
707906 TTGAAAATA
66 TT-AAAACA
707915 TTT
1 TTT
707918 CAATATATAT
Statistics
Matches: 253, Mismatches: 28, Indels: 36
0.80 0.09 0.11
Matches are distributed among these distances:
71 6 0.02
72 43 0.17
73 71 0.28
74 68 0.27
75 36 0.14
76 13 0.05
77 12 0.05
78 4 0.02
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (73 bp):
TTTTTGAAAACATATATAATATATAGTTTTTAAAACATTTTGAAAATATATATATTATATAGTTT
TTAAAACA
Found at i:707947 original size:7 final size:7
Alignment explanation
Indices: 707937--707990 Score: 54
Period size: 7 Copynumber: 7.3 Consensus size: 7
707927 TAATATATTG
707937 TTATTAT
1 TTATTAT
707944 TTATTATT
1 TTATTA-T
707952 ATTATTAT
1 -TTATTAT
*
707960 TTATAAT
1 TTATTAT
707967 TTATTTAT
1 TTA-TTAT
*
707975 TTCTTAT
1 TTATTAT
*
707982 TTCTTAT
1 TTATTAT
707989 TT
1 TT
707991 TTTGTTTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 28 0.68
8 7 0.17
9 6 0.15
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (7 bp):
TTATTAT
Found at i:707956 original size:16 final size:16
Alignment explanation
Indices: 707932--707963 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
707922 ATATATAATA
*
707932 TATTGTTATTATTTAT
1 TATTATTATTATTTAT
707948 TATTATTATTATTTAT
1 TATTATTATTATTTAT
707964 AATTTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTATTATTATTTAT
Found at i:709888 original size:3 final size:3
Alignment explanation
Indices: 709880--709905 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
709870 ATATGTAACC
709880 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
709906 ATATATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:728068 original size:10 final size:10
Alignment explanation
Indices: 728046--728079 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
728036 TACTTGGCCT
728046 AAAGATGAAAA
1 AAAGAT-AAAA
728057 AAAGATAAAA
1 AAAGATAAAA
728067 AAAGAATAAAA
1 AAAG-ATAAAA
728078 AA
1 AA
728080 TTAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (10 bp):
AAAGATAAAA
Found at i:728085 original size:28 final size:26
Alignment explanation
Indices: 728054--728152 Score: 85
Period size: 27 Copynumber: 3.6 Consensus size: 26
728044 CTAAAGATGA
728054 AAAAAAGATAAAAAAAGAATAAA-AAAT
1 AAAAAA-ATAAAAAAAGAA-AAAGAAAT
*
728081 TAAAAAATAAAAAGCAAGAAAAAGAAAT
1 AAAAAAATAAAAA--AAGAAAAAGAAAT
* * *
728109 AAAAGAATAAAGAAAAGAAGAATAAA-
1 AAAAAAATAAA-AAAAGAAAAAGAAAT
728135 AAGAAAAATAAATAAAAG
1 AA-AAAAATAAA-AAAAG
728153 GGGGTTCAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
26 9 0.15
27 31 0.52
28 18 0.30
29 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.11, T:0.10
Consensus pattern (26 bp):
AAAAAAATAAAAAAAGAAAAAGAAAT
Found at i:728093 original size:27 final size:25
Alignment explanation
Indices: 728054--728152 Score: 74
Period size: 28 Copynumber: 3.6 Consensus size: 25
728044 CTAAAGATGA
*
728054 AAAAAAGATAAAAAAAGAATAAAAAATT
1 AAAAAATA-AAAAAAAGAA-AAAAAA-T
*
728082 AAAAAATAAAAAGCAAGAAAAAGAAAT
1 AAAAAATAAAAA-AAAGAAAAA-AAAT
*
728109 AAAAGAATAAAGAAAAGAAGAATAAAA-
1 AAAA-AATAAAAAAAAGAA-AA-AAAAT
*
728136 AGAAAAATAAATAAAAG
1 A-AAAAATAAAAAAAAG
728153 GGGGTTCAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
27 29 0.48
28 30 0.50
29 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.11, T:0.10
Consensus pattern (25 bp):
AAAAAATAAAAAAAAGAAAAAAAAT
Found at i:728129 original size:15 final size:15
Alignment explanation
Indices: 728090--728134 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
728080 TTAAAAAATA
728090 AAAAGCAAGAA-AAAG
1 AAAAG-AAGAATAAAG
*
728105 AAATAAAAGAATAAAG
1 AAA-AGAAGAATAAAG
728121 AAAAGAAGAATAAA
1 AAAAGAAGAATAAA
728135 AAGAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.07
Consensus pattern (15 bp):
AAAAGAAGAATAAAG
Found at i:728133 original size:43 final size:43
Alignment explanation
Indices: 728055--728137 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
728045 TAAAGATGAA
728055 AAAAAGATAAAAAAAGAATAAAAAATTAAAAAATAAAAAGCAAG
1 AAAAAGATAAAAAAAGAATAAAAAA-TAAAAAATAAAAAGCAAG
* *
728099 AAAAAGA-AATAAAAGAATAAAGAAA-AGAAGAATAAAAAG
1 AAAAAGATAAAAAAAGAATAAA-AAATA-AAAAATAAAAAG
728138 AAAAATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
42 1 0.03
43 24 0.69
44 10 0.29
ACGTcount: A:0.77, C:0.01, G:0.12, T:0.10
Consensus pattern (43 bp):
AAAAAGATAAAAAAAGAATAAAAAATAAAAAATAAAAAGCAAG
Found at i:728150 original size:16 final size:15
Alignment explanation
Indices: 728065--728151 Score: 59
Period size: 17 Copynumber: 5.3 Consensus size: 15
728055 AAAAAGATAA
728065 AAAAAGAATAAAAAATT
1 AAAAAGAA-AAAAAA-T
*
728082 AAAAA-ATAAAAAGCAAG
1 AAAAAGA-AAAAA--AAT
* *
728099 AAAAAGAAATAAAAG
1 AAAAAGAAAAAAAAT
728114 AATAAAGAAAAGAAGAAT
1 AA-AAAGAAAA-AA-AAT
728132 AAAAAGAAAAATAAAT
1 AAAAAGAAAAA-AAAT
728148 AAAA
1 AAAA
728152 GGGGGTTCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
15 5 0.09
16 20 0.34
17 26 0.45
18 7 0.12
ACGTcount: A:0.78, C:0.01, G:0.10, T:0.10
Consensus pattern (15 bp):
AAAAAGAAAAAAAAT
Found at i:738595 original size:18 final size:18
Alignment explanation
Indices: 738572--738749 Score: 239
Period size: 18 Copynumber: 9.9 Consensus size: 18
738562 ACGTAGAATT
*
738572 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
738590 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
* * *
738608 TGTCTCGAAGGACCATTT
1 TGTCCCGAAGGACCACTA
*
738626 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
738644 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
738662 TATCCCGAAGGACCATTA
1 TGTCCCGAAGGACCACTA
*
738680 TGTCCCAAAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
738698 TGTCCCGAAAGACCATTA
1 TGTCCCGAAGGACCACTA
*
738716 TGTCCCGAAGGATCACTA
1 TGTCCCGAAGGACCACTA
*
738734 TGTCCCAAAGGACCAC
1 TGTCCCGAAGGACCAC
738750 GTAGACCCTC
Statistics
Matches: 137, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 137 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:750463 original size:136 final size:137
Alignment explanation
Indices: 750217--750480 Score: 354
Period size: 136 Copynumber: 1.9 Consensus size: 137
750207 GTCATAGGTG
* ** *
750217 CATTTCGACATAAATTGTATATGATGGTTATCGATCGATTTTGTGTAATGCACAATGTTGCATTT
1 CATTTCGACATAAATTGTATATAAAAGTTATCCATCGATTTTGTGTAATGCACAATGTTGCATTT
* * * * *
750282 TCGTATGAGTAATATGTGTACTTTCGGTACTAGATGTGCAACCATGGTATTCATAATGAGTTTTT
66 TCGTATCAATAATATATGTACTTTCGGCACTAGATGTGCAACCATGGAATTCATAATGAGTTTTT
750347 GAATAAC
131 GAATAAC
* * *
750354 CATTTCGACATACAATTGTATATAAAAG-TATCCATTGATTTTGTTTAATGCA-TATGTTGCATT
1 CATTTCGACATA-AATTGTATATAAAAGTTATCCATCGATTTTGTGTAATGCACAATGTTGCATT
* * *
750417 TTCGTATCAATATTATATGTACTTTTGGCACTATGA-GTGCATCCATGGAATTCATAATGAGTTT
65 TTCGTATCAATAATATATGTACTTTCGGCACTA-GATGTGCAACCATGGAATTCATAATGAGTTT
750481 GAGAATTTCC
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
136 63 0.57
137 35 0.32
138 12 0.11
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (137 bp):
CATTTCGACATAAATTGTATATAAAAGTTATCCATCGATTTTGTGTAATGCACAATGTTGCATTT
TCGTATCAATAATATATGTACTTTCGGCACTAGATGTGCAACCATGGAATTCATAATGAGTTTTT
GAATAAC
Found at i:755827 original size:26 final size:26
Alignment explanation
Indices: 755797--755849 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
755787 TGACCCAAGA
755797 ATATCATCAAGCTCAGGAATGATTGG
1 ATATCATCAAGCTCAGGAATGATTGG
* * * *
755823 ATATCCTCGAGCTCTGTAATGATTGG
1 ATATCATCAAGCTCAGGAATGATTGG
755849 A
1 A
755850 ATAAAACTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (26 bp):
ATATCATCAAGCTCAGGAATGATTGG
Found at i:756916 original size:47 final size:48
Alignment explanation
Indices: 756862--756965 Score: 124
Period size: 47 Copynumber: 2.2 Consensus size: 48
756852 AAATATTTTA
756862 TCTGATTTCCGA-CTTGAATTCTGTTCTGATA-CATGACCTGAATTCT-T
1 TCTGATTTCCGATC-TGAATTCTGTTCTGATATC-TGACCTGAATTCTGT
* * **
756909 TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCCGATCTGAATTCTGTTCTGATATCTGACCTGAATTCTGT
*
756957 TTTGATTTC
1 TCTGATTTC
756966 TGATATCTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
47 38 0.78
48 11 0.22
ACGTcount: A:0.17, C:0.18, G:0.16, T:0.48
Consensus pattern (48 bp):
TCTGATTTCCGATCTGAATTCTGTTCTGATATCTGACCTGAATTCTGT
Found at i:756966 original size:12 final size:12
Alignment explanation
Indices: 756899--756967 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
756889 GATACATGAC
*
756899 CTGAATTCT-TT
1 CTGATTTCTGTT
*
756910 CTGATTTCTGAT
1 CTGATTTCTGTT
756922 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
*
756934 CTGATATCTGTT
1 CTGATTTCTGTT
*
756946 CTGAATTCTGTT
1 CTGATTTCTGTT
*
756958 TTGATTTCTG
1 CTGATTTCTG
756968 ATATCTCCGT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
11 10 0.21
12 35 0.74
13 2 0.04
ACGTcount: A:0.14, C:0.16, G:0.17, T:0.52
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:756967 original size:24 final size:24
Alignment explanation
Indices: 756862--756969 Score: 114
Period size: 24 Copynumber: 4.5 Consensus size: 24
756852 AAATATTTTA
*
756862 TCTGATTTCCGA-CTTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTCTGT
* *
756886 TCTGA-TACATGACCTGAATTCT-T
1 TCTGATTTC-TGATCTGAATTCTGT
*
756909 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
* *
756933 TCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
756957 TTTGATTTCTGAT
1 TCTGATTTCTGAT
756970 ATCTCCGTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
23 19 0.28
24 49 0.71
25 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:760599 original size:26 final size:26
Alignment explanation
Indices: 760569--760621 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
760559 TGACCCAAGA
760569 ATATCATCAAGCTCAGGAATGATTGG
1 ATATCATCAAGCTCAGGAATGATTGG
* * * *
760595 ATATCCTCGAGCTCTGTAATGATTGG
1 ATATCATCAAGCTCAGGAATGATTGG
760621 A
1 A
760622 ATAAAACTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (26 bp):
ATATCATCAAGCTCAGGAATGATTGG
Found at i:761671 original size:47 final size:48
Alignment explanation
Indices: 761617--761720 Score: 122
Period size: 47 Copynumber: 2.2 Consensus size: 48
761607 AAATATTTTA
*
761617 TCTGATTTCCGACTTGAATTTTGTTCTGATA-CATGACCTGAATTCT-T
1 TCTGATTTCCGACTTGAATTCTGTTCTGATATC-TGACCTGAATTCTAT
* * * **
761664 TCTGATTTCTGATTTGGATTCTGTTCTGATATCTGTTCTGAATTCTAT
1 TCTGATTTCCGACTTGAATTCTGTTCTGATATCTGACCTGAATTCTAT
*
761712 TTTGATTTC
1 TCTGATTTC
761721 TGATATCTCC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
47 38 0.79
48 10 0.21
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.50
Consensus pattern (48 bp):
TCTGATTTCCGACTTGAATTCTGTTCTGATATCTGACCTGAATTCTAT
Found at i:761692 original size:24 final size:24
Alignment explanation
Indices: 761654--761724 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
761644 GATACATGAC
761654 CTGAATTCTTTCTGATTTCTGATT
1 CTGAATTCTTTCTGATTTCTGATT
* *
761678 -TGGATTCTGTTCTGATATCTG-TT
1 CTGAATTCT-TTCTGATTTCTGATT
*
761701 CTGAATTCTATTTTGATTTCTGAT
1 CTGAATTCT-TTCTGATTTCTGAT
761725 ATCTCCGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 9 0.24
24 28 0.74
25 1 0.03
ACGTcount: A:0.17, C:0.14, G:0.15, T:0.54
Consensus pattern (24 bp):
CTGAATTCTTTCTGATTTCTGATT
Found at i:764671 original size:55 final size:55
Alignment explanation
Indices: 764577--764860 Score: 365
Period size: 55 Copynumber: 5.1 Consensus size: 55
764567 ACCAATACGA
* * * * *
764577 AAATTTATACACTTAGTATGAATTTCCT-AGTTTTGCACATAAAGTGCCCATACAT
1 AAATTCATCCACTTAGTATGAATTTCTTAAG-TTTACACATAAAGTGCCCATACAG
** * * * *
764632 AAATTTGTCAACTTAGTATGAACTACTTAAGTTTACACATAAAGTGCCCATACGG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACAG
*
764687 AAATTCATCCATTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAC-G
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACAG
* * * *
764741 AAAATTTATCCACTTAGTATGAATTTCTTAAGTTTACAGATAAAGTGCACATACGG
1 -AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACAG
* *
764797 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACAAAAAAGTGCCCATACGG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACAC-ATAAAGTGCCCATACAG
764853 AAATTCAT
1 AAATTCAT
764861 AAACAACTTA
Statistics
Matches: 202, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
54 1 0.00
55 175 0.87
56 26 0.13
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (55 bp):
AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACAG
Found at i:764710 original size:110 final size:110
Alignment explanation
Indices: 764571--764857 Score: 407
Period size: 110 Copynumber: 2.6 Consensus size: 110
764561 CCCACTACCA
* * * * *
764571 ATACGAAAATTTATACACTTAGTATGAATTTCCT-AGTTTTGCACATAAAGTGCCCATAC-ATAA
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAG-TTTACACATAAAGTGCCCATACGA-AA
* *
764634 ATTTGTCAACTTAGTATGAACTACTTAAGTTTACACATAAAGTGCCC
64 ATTTATCAACTTAGTATGAACTACTTAAGTTTACACATAAAGTGCAC
*
764681 ATACGGAAATTCATCCATTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGAAAAT
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGAAAAT
* * * *
764746 TTATCCACTTAGTATGAATTTCTTAAGTTTACAGATAAAGTGCAC
66 TTATCAACTTAGTATGAACTACTTAAGTTTACACATAAAGTGCAC
* *
764791 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACAAAAAAGTGCCCATACGGAAA
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACAC-ATAAAGTGCCCATACGAAAA
764856 TT
65 TT
764858 CATAAACAAC
Statistics
Matches: 159, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
110 136 0.86
111 23 0.14
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (110 bp):
ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGAAAAT
TTATCAACTTAGTATGAACTACTTAAGTTTACACATAAAGTGCAC
Found at i:766524 original size:24 final size:24
Alignment explanation
Indices: 766495--766559 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
766485 AATAGTGTTG
* *
766495 CATAGAATTGCACATATAGTGCCA
1 CATAGAATTGCACACAAAGTGCCA
*
766519 CGTAGAATTGCACACAAAGTGCCA
1 CATAGAATTGCACACAAAGTGCCA
*
766543 CATAGAA-TGTACACAAA
1 CATAGAATTGCACACAAA
766560 CGTACCATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 9 0.25
24 27 0.75
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.20
Consensus pattern (24 bp):
CATAGAATTGCACACAAAGTGCCA
Found at i:767612 original size:2 final size:2
Alignment explanation
Indices: 767605--767629 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
767595 TCGCTCTTTA
767605 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 A
767630 ATTAGTAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:769323 original size:80 final size:80
Alignment explanation
Indices: 769094--770501 Score: 1662
Period size: 80 Copynumber: 17.3 Consensus size: 80
769084 ATGTGTCATC
* * * * * *
769094 GAGCTGAATGGAATCGAACTCGAAGGTCTTTGACGACAGATAACCCTTGTCGCCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAGCCCTTCTTGCCTTGAGCTATGC
*
769159 TGTAAATGATGTGCCTTT
63 TGCAAATGATGTGCCTTT
* ** *
769177 GAGCTGAGCGTAATCGAACTTAAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAGCCCTTCTTGCCTTGAGCTATG
* * *
769242 CTACAAATAATATGCCTTT
62 CTGCAAATGATGTGCCTTT
* *
769261 CAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGC
* *
769326 ATATGATGCGCCTTT
66 AAATGATGTGCCTTT
* * * * *
769341 GAGCTGAGTGTAATTGAACTCGAAGGTCTATGGAAGATAGCTCTTCTTGCCTTGAGCTATGCTAC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGC
769406 AAATGATGTGCCTTT
66 AAATGATGTGCCTTT
* * * *
769421 GAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAGCCCTTCTTGCCTTGAGCAATACTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGC
* *
769486 ATATGATGCGCCTTT
66 AAATGATGTGCCTTT
* * * *
769501 GAGCTGAGTGTAATTGAACTCGAATGTCTTTGGCAGATATCCCTTCTTGCCTTGAGCTATGTTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGC
*
769566 AAATGATGTGTCTTT
66 AAATGATGTGCCTTT
* *
769581 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGTTGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGC
*
769646 AAATGATATGCCTTT
66 AAATGATGTGCCTTT
* * *
769661 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAGCCATTCTTGCCTTGAGCTAAGCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGC
** *
769726 AAATGATACGCATTT
66 AAATGATGTGCCTTT
*
769741 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGCCCTTCTTGCCTTGAGCTATGCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGC
*
769806 AAATGATGTACCTTT
66 AAATGATGTGCCTTT
* * * ** * *
769821 GAGCTGAGTGTAATCAAACTCGGAGGTCTTTGGCATATAGCATTTCTTGCCTTTAGCTATGCTAC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGC
769886 AAATGATGTGCCTTT
66 AAATGATGTGCCTTT
* *
769901 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAAATAGCCCTTCTTGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAGCCCTTCTTGCCTTGAGCTATG
*
769966 TTGCAAATGATGTGCCTTT
62 CTGCAAATGATGTGCCTTT
** * * **
769985 GAGCTGAGTGTAATTAAACTCAAAGGTCTTTGGCAGATAACCCTTCTTATCTTGAGCTATGCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGC
770050 AAATGATGTGCCTTT
66 AAATGATGTGCCTTT
* * * *
770065 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAGCCCTTCTTGCCTTGAGCTATGC
*
770130 TGTAAATGATGTGCCTTT
63 TGCAAATGATGTGCCTTT
* * *
770148 GAGATGA--GT-AT-----TCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTTGTCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAGCCCTTCTTGCCTTGAGCTATG
* * *
770205 CTTCAAATTATGTGCCTCT
62 CTGCAAATGATGTGCCTTT
* *** * * * *
770224 GAGCTGAGTGCAATCGAACTCGAAGGTCTTTTTTTATAGATAACCCTTCTAGCCTTGAGTTCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTC---TTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGC
* *
770289 TGTAAATGATGTGTCTTT
63 TGCAAATGATGTGCCTTT
* * * *
770307 GAGCTGAGTGTAATCGAACTCGATGGTCTTTTATTAGTAGATAACCCTTCTTGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAGCCCTTCTTGCCTTGAGCTATG
*
770372 CTGCAAATGATGTTCCTTT
62 CTGCAAATGATGTGCCTTT
* * *
770391 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATAGTCCTTCCTGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAGCCCTTCTTGCCTTGAGCTATG
* **
770456 TTGCAAATGATGCACCTTT
62 CTGCAAATGATGTGCCTTT
770475 GAGCTGAGTGTAATCGAACTCGAAGGT
1 GAGCTGAGTGTAATCGAACTCGAAGGT
770502 ATTTTGTTGA
Statistics
Matches: 1151, Mismatches: 150, Indels: 47
0.85 0.11 0.03
Matches are distributed among these distances:
75 9 0.01
76 45 0.04
77 1 0.00
78 2 0.00
79 5 0.00
80 650 0.56
81 4 0.00
82 1 0.00
83 140 0.12
84 289 0.25
85 1 0.00
86 1 0.00
87 3 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (80 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGC
AAATGATGTGCCTTT
Found at i:770218 original size:76 final size:75
Alignment explanation
Indices: 770084--770315 Score: 214
Period size: 76 Copynumber: 3.0 Consensus size: 75
770074 GTAATCGAAC
* *
770084 TCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTG
1 TCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGATGTGCCTCTG
770149 AGATGAGTAT
66 AGATGAGTAT
* * * * *
770159 TCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTTGTCTTGAGTTATGCTT-CAAATTATGTGCCTC
1 TCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATG-TTGCAAATGATGTGCCTC
*
770223 TGAGCTGAGTGCAAT
64 TGAGATGAGT---AT
* * * * * * *
770238 CGAACTCGAAGGTCTTTTTTTATAGATAACCCTTCTAGCCTTGAGTTCTGCTGTAAATGATGTGT
1 -----TCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGATGTGC
* *
770303 CTTTGAGCTGAGT
61 CTCTGAGATGAGT
770316 GTAATCGAAC
Statistics
Matches: 125, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
75 9 0.07
76 53 0.42
77 2 0.02
79 2 0.02
82 1 0.01
83 49 0.39
84 9 0.07
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (75 bp):
TCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGATGTGCCTCTG
AGATGAGTAT
Found at i:771496 original size:95 final size:95
Alignment explanation
Indices: 771283--771535 Score: 321
Period size: 95 Copynumber: 2.7 Consensus size: 95
771273 GTCTAGCTGG
* **
771283 ATCCATAAAGCCGGTGTGTTTAACCAATTGCTCTAGAGGGACAACTCAA--TATCGTTGTAGATA
1 ATCCATAAAGCCGGAGTGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCT-TTATTGT--ATA
*
771346 TTATAATCACCTTTATCAGGCTAGTTGAATATT
63 TTATAATCACCTTTATCAGGCTAGATGAATATT
* **
771379 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGCCGGAGTGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
* *
771444 TAATCACCTTTATTAGGCTAGATGAATCTT
66 TAATCACCTTTATCAGGCTAGATGAATATT
* * * * * * *
771474 ATTCATAAAGCTGGAGTGTTTAACCAATTTCTTTAGAAGGATAGCTCAAGCTTTATTGTATA
1 ATCCATAAAGCCGGAGTGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATA
771536 CATAAAATAT
Statistics
Matches: 137, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
95 85 0.62
96 46 0.34
97 5 0.04
98 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (95 bp):
ATCCATAAAGCCGGAGTGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATCACCTTTATCAGGCTAGATGAATATT
Found at i:773800 original size:14 final size:14
Alignment explanation
Indices: 773780--773844 Score: 76
Period size: 14 Copynumber: 4.6 Consensus size: 14
773770 TAAAGAAAAC
773780 AAATAAAATAAAGA
1 AAATAAAATAAAGA
*
773794 GAATAAAATAAAGAA
1 AAATAAAATAAAG-A
* *
773809 AAATGAAATAAATA
1 AAATAAAATAAAGA
* *
773823 AAATGAGATAAAGA
1 AAATAAAATAAAGA
773837 AAATAAAA
1 AAATAAAA
773845 AAATATATAG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
14 31 0.74
15 11 0.26
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (14 bp):
AAATAAAATAAAGA
Found at i:773804 original size:19 final size:18
Alignment explanation
Indices: 773780--773826 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
773770 TAAAGAAAAC
773780 AAATAAAATAAA-GAGAAT
1 AAATAAAATAAATGA-AAT
*
773798 AAAATAAAGAAAAATGAAAT
1 -AAATAAA-ATAAATGAAAT
773818 AAATAAAAT
1 AAATAAAAT
773827 GAGATAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 1 0.04
19 14 0.58
20 7 0.29
21 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (18 bp):
AAATAAAATAAATGAAAT
Found at i:773818 original size:29 final size:29
Alignment explanation
Indices: 773780--773844 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
773770 TAAAGAAAAC
*
773780 AAATAAAATAAAGAGAATAAAATAAAGAA
1 AAATAAAATAAAGAAAATAAAATAAAGAA
* * * *
773809 AAATGAAATAAATAAAATGAGATAAAG-A
1 AAATAAAATAAAGAAAATAAAATAAAGAA
773837 AAATAAAA
1 AAATAAAA
773845 AAATATATAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (29 bp):
AAATAAAATAAAGAAAATAAAATAAAGAA
Found at i:774272 original size:2 final size:2
Alignment explanation
Indices: 774265--774293 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
774255 AAATATACAC
774265 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
774294 AACATTAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:774354 original size:11 final size:11
Alignment explanation
Indices: 774338--774496 Score: 53
Period size: 11 Copynumber: 13.5 Consensus size: 11
774328 TAATAAGATG
774338 TAAAATAAAAA
1 TAAAATAAAAA
*
774349 TAAAATAAGCAA
1 TAAAATAA-AAA
774361 -AAAAT--AAA
1 TAAAATAAAAA
**
774369 TAAAATAAGCCA
1 TAAAATAA-AAA
774381 -AAAATAATAAA
1 TAAAATAA-AAA
*
774392 -ATAATAAAAGGA
1 TAAAATAAAA--A
774404 TTAAAAT-AAAA
1 -TAAAATAAAAA
774415 TAAAAATAAAAAA
1 T-AAAAT-AAAAA
*
774428 TATATATAACAACGTA
1 TA-AAATAA-AA---A
774444 TAAAAATAAAAA
1 T-AAAATAAAAA
*
774456 -AATAATAGGAAA
1 TAA-AATA-AAAA
774468 TAAAATAAAAA
1 TAAAATAAAAA
774479 TAAAATGAACAAA
1 TAAAAT-AA-AAA
774492 TAAAA
1 TAAAA
774497 ATAAGAAAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 44
0.66 0.08 0.26
Matches are distributed among these distances:
8 2 0.02
9 5 0.04
10 5 0.04
11 46 0.41
12 17 0.15
13 23 0.21
14 4 0.04
15 2 0.02
16 7 0.06
17 1 0.01
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.19
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:774389 original size:19 final size:20
Alignment explanation
Indices: 774346--774395 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
774336 TGTAAAATAA
774346 AAATAAAATAAGCAAAAAAT
1 AAATAAAATAAGCAAAAAAT
*
774366 AAATAAAATAAGCCAAAAAT
1 AAATAAAATAAGCAAAAAAT
774386 -AATAAAATAA
1 AAATAAAATAA
774396 TAAAAGGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.16
Consensus pattern (20 bp):
AAATAAAATAAGCAAAAAAT
Found at i:774422 original size:6 final size:6
Alignment explanation
Indices: 774406--774500 Score: 54
Period size: 6 Copynumber: 15.2 Consensus size: 6
774396 TAAAAGGATT
* *
774406 AAAAT- AAAATA AAAATAA AAAATA TATATA ACAACGTATA AAAATA AAAA-A
1 AAAATA AAAATA AAAAT-A AAAATA AAAATA A-AA---ATA AAAATA AAAATA
* *
774457 ATAATA GGAAAT- AAAATA AAAAT- AAAATGA ACAAATA AAAATA A
1 AAAATA -AAAATA AAAATA AAAATA AAAAT-A A-AAATA AAAATA A
774501 GAAAAAGAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
5 18 0.26
6 29 0.41
7 13 0.19
8 4 0.06
9 2 0.03
10 4 0.06
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:774470 original size:24 final size:23
Alignment explanation
Indices: 774412--774512 Score: 78
Period size: 29 Copynumber: 4.0 Consensus size: 23
774402 GATTAAAATA
774412 AAATAAAAATAAAAAATATATATAAC
1 AAATAAAAATAAAAAA-A-A-ATAAC
**
774438 AACGTATAAAAATAAAAAAATAATAGG
1 AA---ATAAAAATAAAAAAA-AATAAC
774465 AAAT-AAAATAAAAATAAAATGAAC
1 AAATAAAAATAAAAA-AAAAT-AAC
774489 AAATAAAAATAAGAAAAAGAATAA
1 AAATAAAAATAA-AAAAA-AATAA
774513 TAAAAGGACT
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
23 13 0.21
24 9 0.14
25 11 0.17
26 8 0.13
27 5 0.08
28 3 0.05
29 14 0.22
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (23 bp):
AAATAAAAATAAAAAAAAATAAC
Found at i:775532 original size:16 final size:16
Alignment explanation
Indices: 775489--775537 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 16
775479 GGCCTAAAAA
*
775489 ATAGAATGTAAATAAAT
1 ATAGAAT-TATATAAAT
775506 ATA-AA-TATATAAAT
1 ATAGAATTATATAAAT
*
775520 GTAGAATTATAT-AAT
1 ATAGAATTATATAAAT
775535 ATA
1 ATA
775538 ATTTGTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
14 10 0.37
15 7 0.26
16 7 0.26
17 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (16 bp):
ATAGAATTATATAAAT
Found at i:776416 original size:36 final size:36
Alignment explanation
Indices: 776369--776476 Score: 128
Period size: 36 Copynumber: 3.0 Consensus size: 36
776359 TATAAAAAGC
*
776369 TAGTTGTCCTTGTCTACACGTACTCTCAGCTACCAG
1 TAGTTGTCCTTGTCTACACGTACTCTCAGCTGCCAG
* * *
776405 TAGTTGTCCTTGTCTGA-ACGTGCTTTCAGTTGCCAG
1 TAGTTGTCCTTGTCT-ACACGTACTCTCAGCTGCCAG
* * * *
776441 TAGATATTCTTGTCTTCACGTACTCTCAGCTGCCAG
1 TAGTTGTCCTTGTCTACACGTACTCTCAGCTGCCAG
776477 CCACCTAGGA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
36 58 0.98
37 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (36 bp):
TAGTTGTCCTTGTCTACACGTACTCTCAGCTGCCAG
Found at i:782133 original size:59 final size:59
Alignment explanation
Indices: 782039--782173 Score: 216
Period size: 59 Copynumber: 2.3 Consensus size: 59
782029 ACTCAGACGA
* * *
782039 CACCTAGGAGGGAACAAAAAGCTAGTTGTCATTGTCTTCACATACTCTCAGCTGCCAAC
1 CACCTAGGAGGGACCAAAAAGCCAGTTGTCATTGTCTTCACATACTCTCAACTGCCAAC
* *
782098 CACCTAGGAGGGACCAAAAAGCCAGTTGTCCTTGTCTTCACATACTCTCAACTGCCAGC
1 CACCTAGGAGGGACCAAAAAGCCAGTTGTCATTGTCTTCACATACTCTCAACTGCCAAC
782157 CACCTAGGAGGGGACCA
1 CACCTAGGA-GGGACCA
782174 CTGCCAACTT
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
59 63 0.90
60 7 0.10
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (59 bp):
CACCTAGGAGGGACCAAAAAGCCAGTTGTCATTGTCTTCACATACTCTCAACTGCCAAC
Found at i:784178 original size:104 final size:104
Alignment explanation
Indices: 784063--784279 Score: 326
Period size: 104 Copynumber: 2.1 Consensus size: 104
784053 CTTATAATTT
*
784063 ATTTTTCTTCTAATACTTGTATAAATGTCCAATTGTTTGTTAATATTTTTTCTAACATTTGTTAT
1 ATTTTT-TTCTAATACTTGTATAAATGTCCAATTGTTTGTCAATATTTTTTCTAACATTTGTTAT
* * * *
784128 TAAGGGTTCAATTGTCTCAATATTTATTATCAGGGGCCTA
65 CAAGGGTCCAATTGTCTCAATACTTATTATCAAGGGCCTA
* * *
784168 ATTTTTTTCTAATATTTGTATAAATGTCTATTTGTTTGTCAATATTTTTTCTAACATTTGTTATC
1 ATTTTTTTCTAATACTTGTATAAATGTCCAATTGTTTGTCAATATTTTTTCTAACATTTGTTATC
* * *
784233 GAGGGTCCAATTGTCTCAATACTTATTATTAATGGCCTA
66 AAGGGTCCAATTGTCTCAATACTTATTATCAAGGGCCTA
784272 ATTTTTTT
1 ATTTTTTT
784280 AATATTTGCT
Statistics
Matches: 101, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
104 95 0.94
105 6 0.06
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.51
Consensus pattern (104 bp):
ATTTTTTTCTAATACTTGTATAAATGTCCAATTGTTTGTCAATATTTTTTCTAACATTTGTTATC
AAGGGTCCAATTGTCTCAATACTTATTATCAAGGGCCTA
Found at i:784717 original size:40 final size:41
Alignment explanation
Indices: 784493--785018 Score: 322
Period size: 41 Copynumber: 12.8 Consensus size: 41
784483 CAAAATGGTA
* * * *
784493 ACTTTAGCGGCGTTTTTATACAAAAAC-CTCGCGATAGAATAGT
1 ACTTTAGTGGCGTTTTTATAC--AAACGC-CGCTATAGACTTGT
* * * * * *
784536 ACTTTAGCGGTGTTTTTATACAAATGCCGCAATA-AGTT-C
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGT
** * * * * *
784575 ACACATAGTGGCATTTTT-TCAACAAACGTCGCGATAGAGTAGT
1 AC-TTTAGTGGCGTTTTTAT--ACAAACGCCGCTATAGACTTGT
** *
784618 ACTTTAGCAGCGTTTTTATA-AAATCGCCGCTAAAGA--TGCTT
1 ACTTTAGTGGCGTTTTTATACAAA-CGCCGCTATAGACTTG--T
*
784659 ATTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGT
* *** *
784700 AC-TTAGTGGCATTTTTATACAAATATCGCTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGT
* * * *
784740 ACTTTAGTGGCGTTTGTGTTTACAAACGTCGTTATAGACTCGT
1 ACTTTAGTGGCGTTT-T-TATACAAACGCCGCTATAGACTTGT
* * * * **
784783 ACGTTAGTGGCATTTTTATACAAACGCCGTTAAAGGTTTGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGT
* * **
784824 ACTTTAGTGGTGTGTTTATACAAACATCGCTA-AGACTCT-T
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT-TGT
* * * * * *
784864 ATTTTAGTGGCATTTTTATATAAAAGCTGCTAAAGACTTGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGT
* * *
784905 ACTTTAGTGGCATTTTT-TATAAACGCTGCTATAGACTCTTGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA--CTTGT
* * **
784947 --TTTAGTGGCGTTTTCTATAAAAACGCCGCTAAAGACACGT
1 ACTTTAGTGGCGTTTT-TATACAAACGCCGCTATAGACTTGT
** *
784987 GTTTTAGTGACGTTTTTATACAAACGCCGCTA
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTA
785019 AAGAATCATA
Statistics
Matches: 381, Mismatches: 77, Indels: 52
0.75 0.15 0.10
Matches are distributed among these distances:
39 4 0.01
40 110 0.29
41 156 0.41
42 52 0.14
43 59 0.15
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (41 bp):
ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGT
Found at i:784751 original size:81 final size:81
Alignment explanation
Indices: 784630--785018 Score: 324
Period size: 81 Copynumber: 4.8 Consensus size: 81
784620 TTTAGCAGCG
* * *
784630 TTTTTATA-AAATCGCCGCTAAAGA-TGCTTATTTTAGTGGCGTTTTTATACAAACGCCGCTATA
1 TTTTTATACAAA-CACCGCTAAAGACT-CGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATA
784693 GACTTGTACTTAGTGGCA
64 GACTTGTACTTAGTGGCA
* * * * * *
784711 TTTTTATACAAATATCGCTATAGACTCGTACTTTAGTGGCGTTTGTGTTTACAAACGTCGTTATA
1 TTTTTATACAAACACCGCTAAAGACTCGTACTTTAGTGGCGTTT-T-TATACAAACGCCGCTATA
*
784776 GACTCGTACGTTAGTGGCA
64 GACTTGTAC-TTAGTGGCA
* * ** * * * **
784795 TTTTTATACAAACGCCGTTAAAGGTTTGTACTTTAGTGGTGTGTTTATACAAACATCGCTA-AGA
1 TTTTTATACAAACACCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA
*
784859 CTCT-TATTTTAGTGGCA
66 CT-TGTA-CTTAGTGGCA
* * * * * *
784876 TTTTTATATAAA-AGCTGCTAAAGACTTGTACTTTAGTGGCATTTTT-TATAAACGCTGCTATAG
1 TTTTTATACAAACA-CCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAG
* *
784939 ACTCTTGT-TTTAGTGGCG
65 A--CTTGTACTTAGTGGCA
* * * ** *
784957 TTTTCTATAAAAACGCCGCTAAAGACACGTGTTTTAGTGACGTTTTTATACAAACGCCGCTA
1 TTTT-TATACAAACACCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTA
785019 AAGAATCATA
Statistics
Matches: 243, Mismatches: 50, Indels: 28
0.76 0.16 0.09
Matches are distributed among these distances:
80 10 0.04
81 100 0.41
82 51 0.21
83 39 0.16
84 43 0.18
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (81 bp):
TTTTTATACAAACACCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA
CTTGTACTTAGTGGCA
Found at i:788075 original size:42 final size:42
Alignment explanation
Indices: 788013--788252 Score: 248
Period size: 42 Copynumber: 5.6 Consensus size: 42
788003 GGTAATTAGT
*
788013 GGCGTTTGTATCCAAAAACGCCACTATAGATATGACCTTTTGC
1 GGCGTTTGT-TCCAAAAACGCCGCTATAGATATGACCTTTTGC
* * * *
788056 GGCGTTTGTTTCAAAAACGCCGCTATAGATACGATCTTTTGT
1 GGCGTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTTGC
* * * *
788098 GGCGGTTGTTTCAAAAACTCCGCTATAGATCTTGACCTTTTGC
1 GGCGTTTGTTCCAAAAACGCCGCTATAGAT-ATGACCTTTTGC
* * * * *
788141 GGCGTTTGTTCC-AAAATGTCGCTATAGAGCACGACCTTTTAC
1 GGCGTTTGTTCCAAAAACGCCGCTATAGA-TATGACCTTTTGC
* * * *
788183 GACCTTTGTTCCAAAAATGCCGCTATAGATATCGACTTTTTGC
1 GGCGTTTGTTCCAAAAACGCCGCTATAGATAT-GACCTTTTGC
** *
788226 GAAGTTTGTTCCAAAAACACCGCTATA
1 GGCGTTTGTTCCAAAAACGCCGCTATA
788253 TATCTTGGCC
Statistics
Matches: 162, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
42 89 0.55
43 73 0.45
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (42 bp):
GGCGTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTTGC
Found at i:788156 original size:85 final size:85
Alignment explanation
Indices: 788011--788252 Score: 256
Period size: 85 Copynumber: 2.8 Consensus size: 85
788001 AAGGTAATTA
* * * *
788011 GTGGCGTTTGTATCCAAAAACGCCACTATAGATATGACCTTTTGCGGCGTTTGTTTCAAAAACGC
1 GTGGCGTTTGT-TCCAAAAACTCCGCTATAGATTTGACCTTTTGCGGCGTTTGTTCCAAAAACGC
* *
788076 CGCTATAGA-TACGATCTTTT
65 CGCTATAGAGCACGACCTTTT
* * * *
788096 GTGGCGGTTGTTTCAAAAACTCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTCC-AAAATGT
1 GTGGCGTTTGTTCCAAAAACTCCGCTATAGAT-TTGACCTTTTGCGGCGTTTGTTCCAAAAACGC
788160 CGCTATAGAGCACGACCTTTT
65 CGCTATAGAGCACGACCTTTT
** * * * * ** *
788181 ACGACCTTTGTTCCAAAAA-TGCCGCTATAGATATCGACTTTTTGCGAAGTTTGTTCCAAAAACA
1 GTGGCGTTTGTTCCAAAAACT-CCGCTATAGAT-TTGACCTTTTGCGGCGTTTGTTCCAAAAACG
788245 CCGCTATA
64 CCGCTATA
788253 TATCTTGGCC
Statistics
Matches: 129, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
84 33 0.26
85 85 0.66
86 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (85 bp):
GTGGCGTTTGTTCCAAAAACTCCGCTATAGATTTGACCTTTTGCGGCGTTTGTTCCAAAAACGCC
GCTATAGAGCACGACCTTTT
Found at i:788740 original size:38 final size:36
Alignment explanation
Indices: 788705--788774 Score: 104
Period size: 37 Copynumber: 1.9 Consensus size: 36
788695 TACAAATTGT
*
788705 AAAATATTTATATATTTTCTTTTAAAAAATTAAATTC
1 AAAATATTTATATAATTT-TTTTAAAAAATTAAATTC
* *
788742 ATAATATTTATATAATTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTTTTAAAAAATTAAA
788775 AATATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 14 0.47
37 16 0.53
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (36 bp):
AAAATATTTATATAATTTTTTTAAAAAATTAAATTC
Found at i:790553 original size:2 final size:2
Alignment explanation
Indices: 790542--790578 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
790532 GTATAAACAT
790542 GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
790579 TGACTTTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:791154 original size:22 final size:22
Alignment explanation
Indices: 791129--791172 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
791119 CAATATATAA
791129 TTAAAATAAAAAAAATTAAATT
1 TTAAAATAAAAAAAATTAAATT
* * *
791151 TTAAAGTTAAAGAAATTAAATT
1 TTAAAATAAAAAAAATTAAATT
791173 AAGAGTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (22 bp):
TTAAAATAAAAAAAATTAAATT
Found at i:798935 original size:59 final size:56
Alignment explanation
Indices: 798827--798945 Score: 157
Period size: 59 Copynumber: 2.1 Consensus size: 56
798817 CAACAGGCTA
* * *
798827 CATATTCGGGATTGCACTAAAGTATTAGTGCATATGGTGGGCACAACCTTATGTGT
1 CATATTCGGGACTACACTAAAGTATTAGTGCAGATGGTGGGCACAACCTTATGTGT
* * *
798883 CATATTTGGGACTACACTAAAGTATAACTAGTGCAGATGGTGGGCCCGACCTTATGTGT
1 CATATTCGGGACTACACTAAAGTAT---TAGTGCAGATGGTGGGCACAACCTTATGTGT
798942 CATA
1 CATA
798946 CGGTGCATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
56 22 0.41
59 32 0.59
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (56 bp):
CATATTCGGGACTACACTAAAGTATTAGTGCAGATGGTGGGCACAACCTTATGTGT
Found at i:804202 original size:18 final size:18
Alignment explanation
Indices: 804179--804213 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
804169 ATCGGTTCCA
*
804179 ACCCGACCTGACCCGTTT
1 ACCCGACCCGACCCGTTT
804197 ACCCGACCCGACCCGTT
1 ACCCGACCCGACCCGTT
804214 GACCGATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.49, G:0.17, T:0.17
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTT
Found at i:804903 original size:36 final size:36
Alignment explanation
Indices: 804856--804924 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
804846 AGTTCTGGAA
804856 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
804892 TTAAGTGATAAAAGAATCAGCCATGGATATGTA
1 TTAAGTGATAAAAGAATCAGCCATGGATATGTA
804925 AATTATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.28
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
Found at i:806757 original size:48 final size:48
Alignment explanation
Indices: 806701--806807 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 48
806691 ATATTTTATC
*
806701 TGATTTCTGA-CTTGAATTCTGTTCTGATACATGACCTGAATTCTGTTA
1 TGATTTCTGATC-TGAATTATGTTCTGATACATGACCTGAATTCTGTTA
* * ** *
806749 TGATTTCTGATCTGGATTATGTTCTGATATATGTTCTGAATTCTGTTT
1 TGATTTCTGATCTGAATTATGTTCTGATACATGACCTGAATTCTGTTA
*
806797 TGATTTATGAT
1 TGATTTCTGAT
806808 ATCTCCGTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 50 0.98
49 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.49
Consensus pattern (48 bp):
TGATTTCTGATCTGAATTATGTTCTGATACATGACCTGAATTCTGTTA
Found at i:806786 original size:24 final size:24
Alignment explanation
Indices: 806713--806805 Score: 69
Period size: 24 Copynumber: 3.9 Consensus size: 24
806703 ATTTCTGACT
* * **
806713 TGAATTCTGTTCTGATACATGACC
1 TGAATTATGTTCTGATATATGTTC
* * * * *
806737 TGAATTCTGTTATGATTTCTGATC
1 TGAATTATGTTCTGATATATGTTC
*
806761 TGGATTATGTTCTGATATATGTTC
1 TGAATTATGTTCTGATATATGTTC
* * *
806785 TGAATTCTGTTTTGATTTATG
1 TGAATTATGTTCTGATATATG
806806 ATATCTCCGT
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (24 bp):
TGAATTATGTTCTGATATATGTTC
Found at i:806795 original size:12 final size:12
Alignment explanation
Indices: 806713--806795 Score: 53
Period size: 12 Copynumber: 6.9 Consensus size: 12
806703 ATTTCTGACT
806713 TGAATTCTGTTC
1 TGAATTCTGTTC
* **
806725 TG-ATACATGACC
1 TGAATTC-TGTTC
*
806737 TGAATTCTGTTA
1 TGAATTCTGTTC
* *
806749 TGATTTCTGATC
1 TGAATTCTGTTC
* *
806761 TGGATTATGTTC
1 TGAATTCTGTTC
*
806773 TG-ATATATGTTC
1 TGAAT-TCTGTTC
806785 TGAATTCTGTT
1 TGAATTCTGTT
806796 TTGATTTATG
Statistics
Matches: 52, Mismatches: 15, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
11 5 0.10
12 42 0.81
13 5 0.10
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:808797 original size:31 final size:29
Alignment explanation
Indices: 808759--808865 Score: 82
Period size: 31 Copynumber: 3.7 Consensus size: 29
808749 TAAGGTAGCA
808759 TCTTGGGGCCTGAGAGCCTACCTAAGAAAGT
1 TCTTGGGGCCT-AGAGCCTACC-AAGAAAGT
808790 TCTTGGGGCCT--A--C--CCAAGAAAGT
1 TCTTGGGGCCTAGAGCCTACCAAGAAAGT
* * *
808813 TCTTGGGGCCACAGGGCCTACCCAAGAAAGA
1 TCTTGGGGCC-TAGAGCCTA-CCAAGAAAGT
* *
808844 TCTCGGGGTCTTAGAGCCTACC
1 TCTTGGGG-CCTAGAGCCTACC
808866 CAAGGGTTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
23 18 0.30
24 2 0.03
26 1 0.02
28 2 0.03
30 2 0.03
31 34 0.57
32 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.28, T:0.21
Consensus pattern (29 bp):
TCTTGGGGCCTAGAGCCTACCAAGAAAGT
Found at i:808808 original size:23 final size:23
Alignment explanation
Indices: 808774--808822 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
808764 GGGCCTGAGA
*
808774 GCCTACCTAAGAAAGTTCTTGGG
1 GCCTACCCAAGAAAGTTCTTGGG
808797 GCCTACCCAAGAAAGTTCTTGGG
1 GCCTACCCAAGAAAGTTCTTGGG
808820 GCC
1 GCC
808823 ACAGGGCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
GCCTACCCAAGAAAGTTCTTGGG
Found at i:808866 original size:31 final size:31
Alignment explanation
Indices: 808797--808869 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
808787 AGTTCTTGGG
* * *
808797 GCCTACCCAAGAAAGTTCTTGGGGCCACAGG
1 GCCTACCCAAGAAAGATCTCGGGGCCACAGA
* **
808828 GCCTACCCAAGAAAGATCTCGGGGTCTTAGA
1 GCCTACCCAAGAAAGATCTCGGGGCCACAGA
808859 GCCTACCCAAG
1 GCCTACCCAAG
808870 GGTTACCTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.16
Consensus pattern (31 bp):
GCCTACCCAAGAAAGATCTCGGGGCCACAGA
Found at i:809578 original size:16 final size:16
Alignment explanation
Indices: 809537--809576 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
809527 ATAAAATATA
809537 TGACTTTTCAAAAATTT
1 TGACTTTTCAAAAA-TT
*
809554 TAACTTTTCAAAAA-T
1 TGACTTTTCAAAAATT
809569 TGACTTTT
1 TGACTTTT
809577 TCGATCAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
17 13 0.62
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.47
Consensus pattern (16 bp):
TGACTTTTCAAAAATT
Found at i:809603 original size:22 final size:22
Alignment explanation
Indices: 809577--809628 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
809567 ATTGACTTTT
*
809577 TCGATCAAAGTGAACAGTCAGA
1 TCGATCAAAGTCAACAGTCAGA
* * *
809599 TCGATTAAAGTCAACGGTCTGA
1 TCGATCAAAGTCAACAGTCAGA
*
809621 CCGATCAA
1 TCGATCAA
809629 TGGTTTGGGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (22 bp):
TCGATCAAAGTCAACAGTCAGA
Found at i:809655 original size:20 final size:20
Alignment explanation
Indices: 809630--809689 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
809620 ACCGATCAAT
809630 GGTTTGGGTCAGGTCAACTC
1 GGTTTGGGTCAGGTCAACTC
809650 GGTTTGGGTCAGGTCAACTC
1 GGTTTGGGTCAGGTCAACTC
*
809670 GGTTTGGTTCAGGTCAACTC
1 GGTTTGGGTCAGGTCAACTC
809690 AGTTCGATTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.15, C:0.20, G:0.33, T:0.32
Consensus pattern (20 bp):
GGTTTGGGTCAGGTCAACTC
Found at i:823672 original size:16 final size:16
Alignment explanation
Indices: 823647--823677 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
823637 ATGATACTCA
*
823647 AACAATGATCAAAATG
1 AACAAAGATCAAAATG
823663 AACAAAGATCAAAAT
1 AACAAAGATCAAAAT
823678 AGCCATAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.13, G:0.10, T:0.16
Consensus pattern (16 bp):
AACAAAGATCAAAATG
Found at i:824812 original size:13 final size:13
Alignment explanation
Indices: 824791--824821 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
824781 ATAAATTAGT
*
824791 TAATTAATAATAA
1 TAATAAATAATAA
824804 TAATAAATAATAA
1 TAATAAATAATAA
824817 TAATA
1 TAATA
824822 TTTATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAATAAATAATAA
Found at i:824949 original size:17 final size:17
Alignment explanation
Indices: 824927--824990 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
824917 AGACAACAAG
824927 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
* * *
824944 TTCTTCTCTCTTGTTGGATGAG
1 TTCTTCTC-ATT-AT-GA--AC
824966 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
824983 TTCTTCTC
1 TTCTTCTC
824991 TCTTGTTGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 17 0.47
18 2 0.06
19 3 0.08
20 3 0.08
21 2 0.06
22 9 0.25
ACGTcount: A:0.16, C:0.23, G:0.11, T:0.50
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:824968 original size:39 final size:39
Alignment explanation
Indices: 824925--825026 Score: 188
Period size: 39 Copynumber: 2.6 Consensus size: 39
824915 AAAGACAACA
824925 AGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATG
1 AGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATG
824964 AGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATG
1 AGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATG
*
825003 AGTTATTCTCATTATGAAC-TCTTC
1 AGTTCTTCTCATTATGAACTTCTTC
825027 ACTGAAAATG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
38 5 0.08
39 57 0.92
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.48
Consensus pattern (39 bp):
AGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATG
Found at i:824972 original size:22 final size:22
Alignment explanation
Indices: 824944--825012 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
824934 CATTATGAAC
824944 TTCTTCTCTCTTGTTGGATGAG
1 TTCTTCTCTCTTGTTGGATGAG
* * *
824966 TTCTTCTC-ATT-AT-GA--AC
1 TTCTTCTCTCTTGTTGGATGAG
824983 TTCTTCTCTCTTGTTGGATGAG
1 TTCTTCTCTCTTGTTGGATGAG
*
825005 TTATTCTC
1 TTCTTCTC
825013 ATTATGAACT
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
17 9 0.26
18 2 0.06
19 3 0.09
20 3 0.09
21 2 0.06
22 16 0.46
ACGTcount: A:0.13, C:0.20, G:0.16, T:0.51
Consensus pattern (22 bp):
TTCTTCTCTCTTGTTGGATGAG
Found at i:825289 original size:105 final size:105
Alignment explanation
Indices: 825180--825469 Score: 490
Period size: 105 Copynumber: 2.8 Consensus size: 105
825170 TGCGGTGGAC
* *
825180 TTGAAAAGAATAAGTTTTTCTCATTATGAACTTTCTCCTTTAAGACGAGTTCTTCTTATTATGAA
1 TTGAAAAGAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAAGACGAGTTCTTCTTATTATGAA
*
825245 CTCTTTTGGAAATGTTGGTTCACCTCATTCTATGGTGAAT
66 CTCTTTTGGAAATGTTGGTTCACCTCATTATATGGTGAAT
* * *
825285 TTGAAAGGAGCAAGTTCTCCTCATTATGAACTTTCTCCTTTAAGACGAGTTCTTCTTATTATGAA
1 TTGAAAAGAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAAGACGAGTTCTTCTTATTATGAA
*
825350 CTCTTTTGGAAATGTTGGTTCACCTCATTATGTGGTGAAT
66 CTCTTTTGGAAATGTTGGTTCACCTCATTATATGGTGAAT
* *
825390 TTGAAAAGAACAAGTTCTTCTCATTATGAACTTTCTCCTTTATGACGAGTTCTTCTCATTATGAA
1 TTGAAAAGAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAAGACGAGTTCTTCTTATTATGAA
*
825455 CTCTTCTGGAAATGT
66 CTCTTTTGGAAATGT
825470 CAATCCCTCA
Statistics
Matches: 172, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 172 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (105 bp):
TTGAAAAGAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAAGACGAGTTCTTCTTATTATGAA
CTCTTTTGGAAATGTTGGTTCACCTCATTATATGGTGAAT
Found at i:825461 original size:16 final size:16
Alignment explanation
Indices: 825405--825461 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
825395 AAGAACAAGT
825405 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
* *
825421 T-TTCTCCTTTATGACGAGT
1 TCTTCT-CATTATGA--A-C
825440 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
825456 TCTTCT
1 TCTTCT
825462 GGAAATGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 4 0.12
16 14 0.44
17 1 0.03
18 1 0.03
19 8 0.25
20 4 0.12
ACGTcount: A:0.19, C:0.25, G:0.09, T:0.47
Consensus pattern (16 bp):
TCTTCTCATTATGAAC
Found at i:826476 original size:8 final size:8
Alignment explanation
Indices: 826463--826507 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
826453 TATTTCTCTC
826463 TTCATTTT
1 TTCATTTT
826471 TTCA---T
1 TTCATTTT
826476 TTC-TTTT
1 TTCATTTT
826483 TTCATTTT
1 TTCATTTT
826491 TTCATTTTT
1 TTCA-TTTT
826500 TTCATTTT
1 TTCATTTT
826508 CCTTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
5 4 0.12
7 4 0.12
8 16 0.50
9 8 0.25
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (8 bp):
TTCATTTT
Found at i:826477 original size:20 final size:20
Alignment explanation
Indices: 826454--826497 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
826444 AAACCCTCAT
826454 ATTTCTCTCTTCATTTTTTC
1 ATTTCTCTCTTCATTTTTTC
* *
826474 ATTTCTTTTTTCATTTTTTC
1 ATTTCTCTCTTCATTTTTTC
826494 ATTT
1 ATTT
826498 TTTTCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTCTCTCTTCATTTTTTC
Found at i:826499 original size:9 final size:9
Alignment explanation
Indices: 826479--826507 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
826469 TTTTCATTTC
826479 TTTTTTCA-
1 TTTTTTCAT
826487 TTTTTTCAT
1 TTTTTTCAT
826496 TTTTTTCAT
1 TTTTTTCAT
826505 TTT
1 TTT
826508 CCTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:826516 original size:26 final size:25
Alignment explanation
Indices: 826487--826540 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
826477 TCTTTTTTCA
* * *
826487 TTTTTTCATTTTTTTCATTT-TCCTT
1 TTTTTTTATCTTTTT-ATTTGTCCCT
826512 TTTTTTTATCTTTTTATTTGTCCCT
1 TTTTTTTATCTTTTTATTTGTCCCT
826537 TTTT
1 TTTT
826541 CCTTCAAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (25 bp):
TTTTTTTATCTTTTTATTTGTCCCT
Found at i:830024 original size:22 final size:22
Alignment explanation
Indices: 829999--830057 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
829989 GCATTGACCG
829999 TTGACCGGCGTTGACCAGAACT
1 TTGACCGGCGTTGACCAGAACT
**
830021 TTGACCACCGTTGACCAGAACT
1 TTGACCGGCGTTGACCAGAACT
*
830043 TTAACCGGCGTTGAC
1 TTGACCGGCGTTGAC
830058 TGACCGTTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (22 bp):
TTGACCGGCGTTGACCAGAACT
Found at i:832359 original size:24 final size:24
Alignment explanation
Indices: 832327--832372 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
832317 TAATGTTTTA
* *
832327 TCTGATTTCTGATTTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
832351 TCTGATTTCTGATCTGAATTCT
1 TCTGATTTCTGATCTGAATTCT
832373 TATATGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.52
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Done.