Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008152.1 Hibiscus syriacus cultivar Beakdansim tig00110718_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: 877984
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 4 of 5
Found at i:569709 original size:17 final size:16
Alignment explanation
Indices: 569684--569746 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 16
569674 TAGAAAAGAG
*
569684 AAAAGAAGGAAAAAAA
1 AAAAAAAGGAAAAAAA
**
569700 AAAGAAAAGGAAAAAGG
1 AAA-AAAAGGAAAAAAA
*
569717 AAAAAAAGAAAAAAAGA
1 AAAAAAAGGAAAAAA-A
569734 AAAAAAAGGAAAA
1 AAAAAAAGGAAAA
569747 TAAATTAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.34
17 25 0.66
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAAAGGAAAAAAA
Found at i:569720 original size:33 final size:34
Alignment explanation
Indices: 569677--569746 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
569667 CATTCATTAG
* *
569677 AAAAGAGAAAAGAAGGAAAAAAA-AAAGAAAAGGA
1 AAAAGAGAAAA-AAAGAAAAAAAGAAAAAAAAGGA
569711 AAAAG-GAAAAAAAGAAAAAAAGAAAAAAAAGGA
1 AAAAGAGAAAAAAAGAAAAAAAGAAAAAAAAGGA
569744 AAA
1 AAA
569747 TAAATTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 10 0.30
33 18 0.55
34 5 0.15
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (34 bp):
AAAAGAGAAAAAAAGAAAAAAAGAAAAAAAAGGA
Found at i:569739 original size:8 final size:8
Alignment explanation
Indices: 569677--569739 Score: 65
Period size: 8 Copynumber: 7.8 Consensus size: 8
569667 CATTCATTAG
*
569677 AAAAGAGA
1 AAAAAAGA
*
569685 AAAGAAGGA
1 AAA-AAAGA
569694 AAAAAA-A
1 AAAAAAGA
*
569701 AAGAAAAGG
1 AA-AAAAGA
*
569710 AAAAAGGA
1 AAAAAAGA
569718 AAAAAAGA
1 AAAAAAGA
569726 AAAAAAGA
1 AAAAAAGA
569734 AAAAAA
1 AAAAAA
569740 AGGAAAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
7 3 0.07
8 34 0.76
9 8 0.18
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:573173 original size:124 final size:123
Alignment explanation
Indices: 573007--573499 Score: 483
Period size: 124 Copynumber: 3.9 Consensus size: 123
572997 ATGCAACCCT
** * * * * *
573007 TGGATTTCAACTTCATGACGAAGAATATCTAATTCTAGGCTCAACTTTACGACGAAGGGGTCATC
1 TGGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACGACGAAGGGGCCATC
*
573072 CATGATTTCAACTTCACGACGAAGGATATCGTGTCCACCAGCAACATTCATCTTTAGA
66 CATAATTTCAACTTCACGACGAAGGATATCGTGTCCACCAGCAACATTCATCTTTAGA
*
573130 TGGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCAC-AGCGAAGGGGCTT
1 T-GGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACGA-CGAAGGGG---
* * * **
573194 CCCAGTTTCATTCAGAGCTAATTTCAACTTCACGACGAAGGACATTG-GACTCGAAATAGCAACA
61 -CCA---TC---C--A--TAATTTCAACTTCACGACGAAGGATATCGTG--TC-CACCAGCAAC-
* * **
573258 ATGCAACCCT---
111 ATTCATCTTTAGA
* *
573268 TGGATTTCAACTTCACAACGAAAGATATCCAATTCAAGGCTCAACTTCACGACGAAGGGGCCACC
1 TGGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACGACGAAGGGGCCATC
** * *
573333 CACGATTTCAACTTCACGACGAAGAATATCGTGTCCACCAACAACATTCATCTTTAGA
66 CATAATTTCAACTTCACGACGAAGGATATCGTGTCCACCAGCAACATTCATCTTTAGA
* * *
573391 TTGGATTTCAACTTCACAACGAATGATATCCAATTCGAGGCTTAACTTCACGACGAAGGGGCCAT
1 -TGGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACGACGAAGGGGCCAT
* * * *
573456 TCATAATATCAAGTTCACGACGAAGGATAGCGTGTCCACCAGCA
65 CCATAATTTCAACTTCACGACGAAGGATATCGTGTCCACCAGCA
573500 GTAATGTATC
Statistics
Matches: 298, Mismatches: 46, Indels: 51
0.75 0.12 0.13
Matches are distributed among these distances:
120 6 0.02
121 6 0.02
122 2 0.01
123 26 0.09
124 147 0.49
125 1 0.00
127 1 0.00
128 2 0.01
130 1 0.00
131 2 0.01
133 3 0.01
134 1 0.00
136 1 0.00
137 56 0.19
138 28 0.09
139 2 0.01
140 7 0.02
141 6 0.02
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (123 bp):
TGGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACGACGAAGGGGCCATC
CATAATTTCAACTTCACGACGAAGGATATCGTGTCCACCAGCAACATTCATCTTTAGA
Found at i:573342 original size:261 final size:261
Alignment explanation
Indices: 572871--573452 Score: 952
Period size: 261 Copynumber: 2.2 Consensus size: 261
572861 CAGCAACATT
*
572871 GGATTTCAACTTCACAACGAAGGATATCCAATTTAAAGCTCAACTTCACAGCGAAGGGGCTTCCC
1 GGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGCTTCCC
* *
572936 AGTTTCATTCAGAGCTAATTTCAACTTCACGGCGAAGGATATTGGACTCGAAACAACAACAATGC
66 AGTTTCATTCAGAGCTAATTTCAACTTCACGACGAAGGACATTGGACTCGAAACAACAACAATGC
** * * *
573001 AACCCTTGGATTTCAACTTCATGACGAAGAATATCTAATTCTAGGCTCAACTTTACGACGAAGGG
131 AACCCTTGGATTTCAACTTCACAACGAAGAATATCCAATTCAAGGCTCAACTTCACGACGAAGGG
* * * * *
573066 GTCATCCATGATTTCAACTTCACGACGAAGGATATCGTGTCCACCAGCAACATTCATCTTTAGAT
196 GCCACCCACGATTTCAACTTCACGACGAAGAATATCGTGTCCACCAACAACATTCATCTTTAGAT
573131 G
261 G
573132 GGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGCTTCCC
1 GGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGCTTCCC
* *
573197 AGTTTCATTCAGAGCTAATTTCAACTTCACGACGAAGGACATTGGACTCGAAATAGCAACAATGC
66 AGTTTCATTCAGAGCTAATTTCAACTTCACGACGAAGGACATTGGACTCGAAACAACAACAATGC
573262 AACCCTTGGATTTCAACTTCACAACGAA-AGATATCCAATTCAAGGCTCAACTTCACGACGAAGG
131 AACCCTTGGATTTCAACTTCACAACGAAGA-ATATCCAATTCAAGGCTCAACTTCACGACGAAGG
573326 GGCCACCCACGATTTCAACTTCACGACGAAGAATATCGTGTCCACCAACAACATTCATCTTTAGA
195 GGCCACCCACGATTTCAACTTCACGACGAAGAATATCGTGTCCACCAACAACATTCATCTTTAGA
*
573391 TT
260 TG
* * * *
573393 GGATTTCAACTTCACAACGAATGATATCCAATTCGAGGCTTAACTTCAC-GACGAAGGGGC
1 GGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAG-CGAAGGGGC
573453 CATTCATAAT
Statistics
Matches: 299, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
260 2 0.01
261 297 0.99
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (261 bp):
GGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGCTTCCC
AGTTTCATTCAGAGCTAATTTCAACTTCACGACGAAGGACATTGGACTCGAAACAACAACAATGC
AACCCTTGGATTTCAACTTCACAACGAAGAATATCCAATTCAAGGCTCAACTTCACGACGAAGGG
GCCACCCACGATTTCAACTTCACGACGAAGAATATCGTGTCCACCAACAACATTCATCTTTAGAT
G
Found at i:573711 original size:137 final size:137
Alignment explanation
Indices: 573548--573795 Score: 417
Period size: 137 Copynumber: 1.8 Consensus size: 137
573538 TCGTGTCCAT
* * *
573548 CAACCTCATTCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCA-TGTTATCTTAAATATCTT
1 CAACATCATTCTTAGATAGCCAGATGTCCTCATCACAAAGGAA-CAGTGTTATCTCAAATATCTT
* *
573612 TAAAGATGTCCAGACGTCCTCATCACAAAGGAACAATGTCATCCACCGATCAGAACTCCTTATCA
65 TAAAGATGGCCAGACGTCCTCATCACAAAGGAACAATGTCATACACCGATCAGAACTCCTTATCA
573677 CAAAGGAG
130 CAAAGGAG
573685 CAACATCATTCTTAGATAGCCAGATGTCCTCATCACAAAGGAACAGTGTTATCTCAAATATCTTT
1 CAACATCATTCTTAGATAGCCAGATGTCCTCATCACAAAGGAACAGTGTTATCTCAAATATCTTT
* *
573750 AAAGATGGCCAGATGTCCTCATCACGAAGGAACAATGTCATACACC
66 AAAGATGGCCAGACGTCCTCATCACAAAGGAACAATGTCATACACC
573796 AGTTGGATCT
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
136 2 0.02
137 101 0.98
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (137 bp):
CAACATCATTCTTAGATAGCCAGATGTCCTCATCACAAAGGAACAGTGTTATCTCAAATATCTTT
AAAGATGGCCAGACGTCCTCATCACAAAGGAACAATGTCATACACCGATCAGAACTCCTTATCAC
AAAGGAG
Found at i:574532 original size:19 final size:19
Alignment explanation
Indices: 574510--574546 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
574500 ATAGTGGTCG
* *
574510 GAATAGTTACCGGTGGTGT
1 GAATAGTAACCGGCGGTGT
574529 GAATAGTAACCGGCGGTG
1 GAATAGTAACCGGCGGTG
574547 GCTGGTGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.14, G:0.38, T:0.24
Consensus pattern (19 bp):
GAATAGTAACCGGCGGTGT
Found at i:576945 original size:48 final size:48
Alignment explanation
Indices: 576868--576964 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
576858 ACATTGAGTA
*
576868 TTGATATCGGCCTACATCCGACCCAATCATCTCGTTATTTCTGTCTCT
1 TTGATATCGGCCTACATCCGACCCAATCATCCCGTTATTTCTGTCTCT
* * ** * *
576916 TTGATATCGGCCTACGTCTGGTCCGATCATCCCGTTATTTGTGTCTCT
1 TTGATATCGGCCTACATCCGACCCAATCATCCCGTTATTTCTGTCTCT
576964 T
1 T
576965 CTCCTGTTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.15, C:0.29, G:0.16, T:0.39
Consensus pattern (48 bp):
TTGATATCGGCCTACATCCGACCCAATCATCCCGTTATTTCTGTCTCT
Found at i:579851 original size:19 final size:22
Alignment explanation
Indices: 579810--579851 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
579800 TTTCTGCTCG
*
579810 GGTTCCTCCCTGTATTTCGAAT
1 GGTTCCTCCCTGTATTACGAAT
579832 GGTTCC-CCCTGT-TTAC-AAT
1 GGTTCCTCCCTGTATTACGAAT
579851 G
1 G
579852 CTTTTCCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 6 0.32
22 6 0.32
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (22 bp):
GGTTCCTCCCTGTATTACGAAT
Found at i:580402 original size:55 final size:55
Alignment explanation
Indices: 580275--580698 Score: 502
Period size: 55 Copynumber: 7.7 Consensus size: 55
580265 TCAAATGGCA
* * * *
580275 GGTCCGCTCCCTATTCTTTCA-AGGTGTATA-AGACTTGAACAATCTT-ATGAAAAATG
1 GGTCCGCTCCCTATTCATTCAGA-GAGTATAGA-ACTCGAACAATCTTCAT--AAAACG
* * * *
580331 TGTCTGCTCCCTATTCATTCAGGGAGTATA-AGACTCGAATAATCTTCA-ATAAACG
1 GGTCCGCTCCCTATTCATTCAGAGAGTATAGA-ACTCGAACAATCTTCATA-AAACG
* * *
580386 GGTCTGCTCCCTATTCATACAGGGAGTATAGAACTCGAACAATCTTCATAAAACG
1 GGTCCGCTCCCTATTCATTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
*
580441 GGTCCGCTCTCTATTTC-TTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAAACG
1 GGTCCGCTCCCTA-TTCATTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACG
** *
580496 GGTATGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACG
1 GGTCCGCTCCCTATTCATTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
** * *
580551 GGTCCGCTCTTTATTCCTTCAGAGAGTATAGAACTCGAAGAATCTTCATAAAACG
1 GGTCCGCTCCCTATTCATTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
* *
580606 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
1 GGTCCGCTCCCTATTCATTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
* * * *
580661 AGTCCGCTCTCTATTCCTTTAGAGAGTATAGAACTCGA
1 GGTCCGCTCCCTATTCATTCAGAGAGTATAGAACTCGA
580699 TCTTCATAAA
Statistics
Matches: 329, Mismatches: 30, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
54 5 0.02
55 279 0.85
56 44 0.13
57 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (55 bp):
GGTCCGCTCCCTATTCATTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
Found at i:580495 original size:110 final size:109
Alignment explanation
Indices: 580275--580698 Score: 557
Period size: 110 Copynumber: 3.9 Consensus size: 109
580265 TCAAATGGCA
* * * * * * * *
580275 GGTCCGCTCCCTATTCTTTCAAGGTGTATA-AGACTTGAACAATCTT-ATGAAAAATGTGTCTGC
1 GGTCTGCTCCCTATTCATTCAGGGAGTATAGA-ACTCGAACAATCTTCAT--AAAACGGGTCCGC
* * * *
580338 TCCCTATTCATTCAGGGAGTATA-AGACTCGAATAATCTTCAATAAACG
63 TCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAA-AAACG
*
580386 GGTCTGCTCCCTATTCATACAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCT
1 GGTCTGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCT
*
580451 CTATTTCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACG
66 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAA-AAACG
*
580496 GGTATGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCT
1 GGTCTGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCT
* *
580561 TTATTCCTTCAGAGAGTATAGAACTCGAAGAATCTTCATAAAACG
66 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-AAAACG
* * * * *
580606 GGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGCTCT
1 GGTCTGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCT
*
580671 CTATTCCTTTAGAGAGTATAGAACTCGA
66 CTATTCCTTCAGAGAGTATAGAACTCGA
580699 TCTTCATAAA
Statistics
Matches: 281, Mismatches: 28, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
110 238 0.85
111 40 0.14
112 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (109 bp):
GGTCTGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCT
CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAAAACG
Found at i:582061 original size:10 final size:9
Alignment explanation
Indices: 582046--582200 Score: 81
Period size: 10 Copynumber: 16.8 Consensus size: 9
582036 TTTTGAACCC
582046 TCTTTTTATT
1 TCTTTTT-TT
582056 TCTTTTTCTT
1 TCTTTTT-TT
582066 T-TTCTTTTT
1 TCTT-TTTTT
582075 TCTTCTTTTT
1 TCTT-TTTTT
*
582085 TC-ATTTTT
1 TCTTTTTTT
582093 TCATTTTTTT
1 TC-TTTTTTT
*
582103 T-TTATTTT
1 TCTTTTTTT
*
582111 TCATTTTTT
1 TCTTTTTTT
*
582120 TC-TTTTCT
1 TCTTTTTTT
*
582128 TCATTTTTT
1 TCTTTTTTT
*
582137 TC--TTTAT
1 TCTTTTTTT
* *
582144 TCTTTTCTC
1 TCTTTTTTT
582153 TCTTTTTTTT
1 TC-TTTTTTT
582163 TCTTCTTTTCT
1 TCTT-TTTT-T
582174 AT-TTTTTTT
1 -TCTTTTTTT
*
582183 TCATTATTTT
1 TC-TTTTTTT
582193 TCATTTTT
1 TC-TTTTT
582201 CTTCAAGCGA
Statistics
Matches: 115, Mismatches: 16, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
7 6 0.05
8 22 0.19
9 26 0.23
10 57 0.50
11 3 0.03
12 1 0.01
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:582069 original size:12 final size:12
Alignment explanation
Indices: 582054--582184 Score: 67
Period size: 12 Copynumber: 10.3 Consensus size: 12
582044 CCTCTTTTTA
582054 TTTCTTTTTCTT
1 TTTCTTTTTCTT
582066 TTTC-TTTT-TT
1 TTTCTTTTTCTT
*
582076 CTTCTTTTTTCATTT
1 TTTC-TTTTTC--TT
582091 TTTCATTTTT-TT
1 TTTC-TTTTTCTT
*
582103 TTTATTTTTCATT
1 TTTCTTTTTC-TT
*
582116 TTTTTCTTTTCTT
1 TTTCT-TTTTCTT
*
582129 CATT-TTTTTCTT
1 -TTTCTTTTTCTT
582141 TATTCTTTTCTCTCT
1 T-TTCTTTT-TCT-T
582156 TTT-TTTTTCTTCT
1 TTTCTTTTTC-T-T
582169 TTTCTATTTT-TT
1 TTTCT-TTTTCTT
582181 TTTC
1 TTTC
582185 ATTATTTTTC
Statistics
Matches: 96, Mismatches: 7, Indels: 32
0.71 0.05 0.24
Matches are distributed among these distances:
10 5 0.05
11 9 0.09
12 29 0.30
13 24 0.25
14 13 0.14
15 16 0.17
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTCTTTTTCTT
Found at i:582084 original size:17 final size:16
Alignment explanation
Indices: 582064--582183 Score: 98
Period size: 17 Copynumber: 7.1 Consensus size: 16
582054 TTTCTTTTTC
582064 TTTTTCTTTTTTCTTCT
1 TTTTTCTTTTTTCTT-T
582081 TTTTTCATTTTTTCATTT
1 TTTTTC-TTTTTTC-TTT
* *
582099 TTTTTTTATTTTTCATT
1 TTTTTCT-TTTTTCTTT
*
582116 TTTTTCTTTTCTTCATT
1 TTTTTCTTTT-TTCTTT
*
582133 TTTTTCTTTATTCTTT
1 TTTTTCTTTTTTCTTT
* * *
582149 TCTCTCTTTTTTTTTCT
1 TTTTTCTTTTTTCTT-T
582166 TCTTTTCTATTTTT-TTT
1 T-TTTTCT-TTTTTCTTT
582183 T
1 T
582184 CATTATTTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
16 19 0.22
17 34 0.40
18 25 0.29
19 7 0.08
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTT
Found at i:582111 original size:43 final size:44
Alignment explanation
Indices: 582058--582203 Score: 140
Period size: 43 Copynumber: 3.3 Consensus size: 44
582048 TTTTTATTTC
*
582058 TTTTTCTTTTTCTTTTTTCTTCTTTT-TTCATTTTTTCATTTTT
1 TTTTTATTTTTCTTTTTTCTTCTTTTCTTCATTTTTTCATTTTT
*
582101 TTTTTATTTTTCATTTTT-TTCTTTTCTTCATTTTTTTC-TTTATT
1 TTTTTATTTTTCTTTTTTCTTCTTTTCTTCA-TTTTTTCATTT-TT
* * ** *
582145 CTTTTCTCTCTTT-TTTTTTCTTCTTTTCTATTTTTTTTTCA-TTAT
1 -TTTT-TATTTTTCTTTTTTCTTCTTTTCT-TCATTTTTTCATTTTT
*
582190 TTTTCATTTTTCTT
1 TTTTTATTTTTCTT
582204 CAAGCGAAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
42 7 0.08
43 27 0.33
44 15 0.18
45 10 0.12
46 23 0.28
47 1 0.01
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (44 bp):
TTTTTATTTTTCTTTTTTCTTCTTTTCTTCATTTTTTCATTTTT
Found at i:582179 original size:8 final size:7
Alignment explanation
Indices: 582054--582183 Score: 67
Period size: 8 Copynumber: 18.1 Consensus size: 7
582044 CCTCTTTTTA
582054 TTTC-TT
1 TTTCTTT
582060 TTTCTTT
1 TTTCTTT
*
582067 TTCTTTTT
1 TT-TCTTT
582075 TCTTCTTT
1 T-TTCTTT
582083 TTTCATTT
1 TTTC-TTT
*
582091 TTTC-AT
1 TTTCTTT
582097 TTT-TTT
1 TTTCTTT
*
582103 TTT-ATT
1 TTTCTTT
582109 TTTCATTTT
1 TTTC--TTT
582118 TTTCTTT
1 TTTCTTT
582125 TCTTCATTTT
1 T-TTC--TTT
582135 TTTCTTT
1 TTTCTTT
*
582142 ATTCTTT
1 TTTCTTT
* *
582149 TCTC-TC
1 TTTCTTT
582155 TTT-TTT
1 TTTCTTT
582161 TTTCTTCT
1 TTTCTT-T
582169 TTTCTATT
1 TTTCT-TT
582177 TTT-TTT
1 TTTCTTT
582183 T
1 T
582184 CATTATTTTT
Statistics
Matches: 97, Mismatches: 12, Indels: 30
0.70 0.09 0.22
Matches are distributed among these distances:
6 27 0.28
7 25 0.26
8 30 0.31
9 11 0.11
10 4 0.04
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTCTTT
Found at i:582201 original size:75 final size:74
Alignment explanation
Indices: 582058--582205 Score: 187
Period size: 75 Copynumber: 2.0 Consensus size: 74
582048 TTTTTATTTC
* * *
582058 TTTTTCTTTTTCTTTTTTCTTCTTTTTTCATTTTTTCATTTTTTTTTTATTTTTCATTTTTTTCT
1 TTTTTCTTTTTCTTTTCTCTTCTTTTTT-ATTTCTTCATTTTTATTTTATTTTTCATTTTTTTCT
582123 TTTCTTCATT
65 TTTCTTCATT
582133 TTTTTCTTTATTCTTTTCTC-TCTTTTTT-TTTCTTC-TTTTCTATTTT-TTTTTCATTATTTTT
1 TTTTTCTTT-TTCTTTTCTCTTCTTTTTTATTTCTTCATTTT-TATTTTATTTTTCATT-TTTTT
582194 CATTTTTCTTCA
63 C--TTTTCTTCA
582206 AGCGAAATAT
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
72 13 0.20
73 17 0.26
75 26 0.40
76 9 0.14
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (74 bp):
TTTTTCTTTTTCTTTTCTCTTCTTTTTTATTTCTTCATTTTTATTTTATTTTTCATTTTTTTCTT
TTCTTCATT
Found at i:591947 original size:46 final size:46
Alignment explanation
Indices: 591844--591994 Score: 223
Period size: 46 Copynumber: 3.2 Consensus size: 46
591834 CCATGCTTTG
* * *
591844 TTATTCACAAAAATAAATCATAACCACATGATATCTAATTCGCATGC
1 TTATTCAAAAAAATAAA-CCTAACCGCATGATATCTAATTCGCATGC
591891 TTATTC-AAAAAATAAACCTAACCGCATGATATCTAATTCGCATGC
1 TTATTCAAAAAAATAAACCTAACCGCATGATATCTAATTCGCATGC
* *
591936 TTATTCAAAAAAATAAACCTAACCGCATAATATCTAGTTCGCATGC
1 TTATTCAAAAAAATAAACCTAACCGCATGATATCTAATTCGCATGC
591982 ATTTATTCAAAAA
1 --TTATTCAAAAA
591995 CGAAAATAAA
Statistics
Matches: 96, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
45 33 0.34
46 46 0.48
47 6 0.06
48 11 0.11
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (46 bp):
TTATTCAAAAAAATAAACCTAACCGCATGATATCTAATTCGCATGC
Found at i:598996 original size:29 final size:30
Alignment explanation
Indices: 598964--599025 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
598954 AAAAAATAAA
*
598964 TAAGACCTCAAACTTTATAAAA-AACCAAT
1 TAAGACCTCAAACTGTATAAAAGAACCAAT
* * * *
598993 TAAGTCCTCGAACTGTCTAAAAGAATCAAT
1 TAAGACCTCAAACTGTATAAAAGAACCAAT
599023 TAA
1 TAA
599026 CTGTCTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.26
Consensus pattern (30 bp):
TAAGACCTCAAACTGTATAAAAGAACCAAT
Found at i:599029 original size:21 final size:21
Alignment explanation
Indices: 599003--599046 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
598993 TAAGTCCTCG
599003 AACTGTCTAAAAGAATCAATT
1 AACTGTCTAAAAGAATCAATT
599024 AACTGTCTAAAAGAATCAATT
1 AACTGTCTAAAAGAATCAATT
599045 AA
1 AA
599047 GCTCATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.27
Consensus pattern (21 bp):
AACTGTCTAAAAGAATCAATT
Found at i:601723 original size:31 final size:31
Alignment explanation
Indices: 601687--601762 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
601677 TCAAAAAACA
*
601687 TAAGATATGGTCACTTGT-ATTTTTATTAAAT
1 TAAGATATGATCACTT-TCATTTTTATTAAAT
*
601718 TAAGATATGATCACTTTCATTTTTATTTAAT
1 TAAGATATGATCACTTTCATTTTTATTAAAT
* *
601749 TATGATGTGATCAC
1 TAAGATATGATCAC
601763 CCCGAGTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (31 bp):
TAAGATATGATCACTTTCATTTTTATTAAAT
Found at i:602261 original size:39 final size:38
Alignment explanation
Indices: 602157--602262 Score: 106
Period size: 39 Copynumber: 2.7 Consensus size: 38
602147 CATAATCCTC
* *
602157 AAATTATTTCACCCTAACATTCTAAAATCCTAATTTCTT
1 AAATTATTTCA-CATAACATTCTAAATTCCTAATTTCTT
* * * * *
602196 AAATT-TTGACACCATAACGTTATAAATTCTTAATTTTTT
1 AAATTATT-TCA-CATAACATTCTAAATTCCTAATTTCTT
602235 AAATTATTTCACATTAACATTCTAAATT
1 AAATTATTTCACA-TAACATTCTAAATT
602263 ATTTTTTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
38 4 0.07
39 48 0.89
40 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (38 bp):
AAATTATTTCACATAACATTCTAAATTCCTAATTTCTT
Found at i:602576 original size:25 final size:20
Alignment explanation
Indices: 602514--602582 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 20
602504 TTATATATAA
602514 TATAATTTTATATATATTAACT
1 TATAATTTT-T-TATATTAACT
602536 TATAATTTTTTATATTAACT
1 TATAATTTTTTATATTAACT
602556 TATTAAATATATTTTACTATTAACT
1 TA-T-AAT-T-TTTTA-TATTAACT
602581 TA
1 TA
602583 ATTTTAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.29
21 2 0.05
22 12 0.29
23 1 0.02
24 5 0.12
25 10 0.24
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (20 bp):
TATAATTTTTTATATTAACT
Found at i:604749 original size:2 final size:2
Alignment explanation
Indices: 604742--604785 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
604732 AGGATATACT
604742 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
604783 TA T
1 TA T
604786 GTATCCTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:606237 original size:16 final size:16
Alignment explanation
Indices: 606216--606264 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
606206 GGCATAATTA
*
606216 TAATAATAATGAAATG
1 TAATAATGATGAAATG
*
606232 TAATAATGATGACA--
1 TAATAATGATGAAATG
606246 TAATAA-GATGAAATG
1 TAATAATGATGAAATG
606261 TAAT
1 TAAT
606265 GAAATCAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 4 0.14
16 12 0.43
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (16 bp):
TAATAATGATGAAATG
Found at i:606764 original size:30 final size:30
Alignment explanation
Indices: 606730--606792 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
606720 TTATATCGCG
*
606730 TAGACATATTATTTCCATACCTTTATCACA
1 TAGACATATCATTTCCATACCTTTATCACA
606760 TAGACATATCATTTCCATACCTTTATCACA
1 TAGACATATCATTTCCATACCTTTATCACA
606790 TAG
1 TAG
606793 CTCATATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (30 bp):
TAGACATATCATTTCCATACCTTTATCACA
Found at i:613942 original size:23 final size:22
Alignment explanation
Indices: 613914--613993 Score: 99
Period size: 23 Copynumber: 3.6 Consensus size: 22
613904 ACACTAGACA
613914 GTGCATCGATGCATCCCTTGAAT
1 GTGCATCGATGCAT-CCTTGAAT
* * *
613937 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATGCATCCTTGAAT
*
613958 GTGCACCGATGCATTCCTTGAAT
1 GTGCATCGATGCA-TCCTTGAAT
613981 GTGCATCGATGCA
1 GTGCATCGATGCA
613994 CTCTGCTGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
21 17 0.36
23 30 0.64
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:613968 original size:44 final size:43
Alignment explanation
Indices: 613898--613990 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 43
613888 TTAACTATGG
* *
613898 ATCGATACACTAGACAGTGCATCGATGCATCCCTTGAATGTGC
1 ATCGATACACCAGACAGTGCACCGATGCATCCCTTGAATGTGC
*
613941 ATCGATACACCATGA-AGGTGCACCGATGCATTCCTTGAATGTGC
1 ATCGATACACCA-GACA-GTGCACCGATGCATCCCTTGAATGTGC
613985 ATCGAT
1 ATCGAT
613991 GCACTCTGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 12 0.27
44 33 0.73
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (43 bp):
ATCGATACACCAGACAGTGCACCGATGCATCCCTTGAATGTGC
Found at i:615322 original size:14 final size:14
Alignment explanation
Indices: 615303--615374 Score: 79
Period size: 14 Copynumber: 5.7 Consensus size: 14
615293 TATATGTTAG
615303 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
615317 TTTA---T-GTTCA
1 TTTATGTTCGTTCA
615327 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
615341 TTTA---T-GTTCA
1 TTTATGTTCGTTCA
615351 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
*
615365 TTTATATTCG
1 TTTATGTTCG
615375 AACAGAGGGT
Statistics
Matches: 49, Mismatches: 1, Indels: 16
0.74 0.02 0.24
Matches are distributed among these distances:
10 18 0.37
11 2 0.04
13 2 0.04
14 27 0.55
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.58
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:615325 original size:10 final size:10
Alignment explanation
Indices: 615312--615359 Score: 60
Period size: 10 Copynumber: 4.4 Consensus size: 10
615302 GTTTATGTTC
615312 GTTCATTTAT
1 GTTCATTTAT
615322 GTTCATTTATGTT
1 GTTCATTTA---T
615335 CGTTCATTTAT
1 -GTTCATTTAT
615346 GTTCATTTAT
1 GTTCATTTAT
615356 GTTC
1 GTTC
615360 GTTCATTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 23 0.68
11 1 0.03
13 1 0.03
14 9 0.26
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.58
Consensus pattern (10 bp):
GTTCATTTAT
Found at i:615330 original size:24 final size:24
Alignment explanation
Indices: 615285--615369 Score: 136
Period size: 24 Copynumber: 3.5 Consensus size: 24
615275 CTTTTGTGAA
615285 CGTTCGATTATATGTT-AGTTTATGTT
1 CGTTC-ATT-TATGTTCA-TTTATGTT
615311 CGTTCATTTATGTTCATTTATGTT
1 CGTTCATTTATGTTCATTTATGTT
615335 CGTTCATTTATGTTCATTTATGTT
1 CGTTCATTTATGTTCATTTATGTT
615359 CGTTCATTTAT
1 CGTTCATTTAT
615370 ATTCGAACAG
Statistics
Matches: 58, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
24 49 0.84
25 4 0.07
26 5 0.09
ACGTcount: A:0.18, C:0.12, G:0.14, T:0.56
Consensus pattern (24 bp):
CGTTCATTTATGTTCATTTATGTT
Found at i:615672 original size:27 final size:26
Alignment explanation
Indices: 615623--615673 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
615613 TTTGTGTTTG
*
615623 TGTTGTTCGTTTATGTTCATTTATTA
1 TGTTGTTCGTTTATATTCATTTATTA
* *
615649 TGTTCGTTCGTTTGTATTCGTTTAT
1 TGTT-GTTCGTTTATATTCATTTAT
615674 GTTCGTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.61
Consensus pattern (26 bp):
TGTTGTTCGTTTATATTCATTTATTA
Found at i:616257 original size:19 final size:19
Alignment explanation
Indices: 616233--616285 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
616223 CGAATGTGAT
*
616233 TAGTGTACCGATGCACTCC
1 TAGTGTACCGATGCACCCC
616252 TAGTGTACCGATGCACCCC
1 TAGTGTACCGATGCACCCC
616271 TAGTGTACCGATGCA
1 TAGTGTACCGATGCA
616286 ATAAGTCTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (19 bp):
TAGTGTACCGATGCACCCC
Found at i:620896 original size:20 final size:20
Alignment explanation
Indices: 620838--620897 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
620828 TTTGGTTCAC
*
620838 GGAATAAAAGATTACCAAAG
1 GGAATAAAAGATTACCAGAG
620858 GGAATAAAAGATTACCAGAG
1 GGAATAAAAGATTACCAGAG
*
620878 GGAATAAAAGATTATCAGAG
1 GGAATAAAAGATTACCAGAG
620898 AATAGGATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.52, C:0.08, G:0.23, T:0.17
Consensus pattern (20 bp):
GGAATAAAAGATTACCAGAG
Found at i:621640 original size:21 final size:21
Alignment explanation
Indices: 621616--621663 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
621606 CCGCGACAGT
621616 CGCAATAGCGA-CCGCGACGAC
1 CGCAATAG-GACCCGCGACGAC
* *
621637 CGCAATAGTACCCGCGACGGC
1 CGCAATAGGACCCGCGACGAC
621658 CGCAAT
1 CGCAAT
621664 TACGATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.27, C:0.38, G:0.27, T:0.08
Consensus pattern (21 bp):
CGCAATAGGACCCGCGACGAC
Found at i:633803 original size:23 final size:22
Alignment explanation
Indices: 633776--633837 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
633766 TGTGGCATAT
633776 TCTCTGCCTTTATGGCACGTTTA
1 TCTCTGCCTTT-TGGCACGTTTA
* *
633799 TCTCTTCCTTTGTGGCACGTTTT
1 TCTCTGCCTTT-TGGCACGTTTA
* *
633822 TCTATGTCTTTTGGCA
1 TCTCTGCCTTTTGGCA
633838 GATTACGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 5 0.15
23 28 0.85
ACGTcount: A:0.10, C:0.24, G:0.18, T:0.48
Consensus pattern (22 bp):
TCTCTGCCTTTTGGCACGTTTA
Found at i:639794 original size:75 final size:76
Alignment explanation
Indices: 639687--639884 Score: 267
Period size: 75 Copynumber: 2.6 Consensus size: 76
639677 GTTGTACAAG
* * * *
639687 GGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG-C
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
**
639750 AAAACTGTTTA
66 AAAACCATTTA
* *
639761 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGGCC
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
639826 AAAACCATTTA
66 AAAACCATTTA
*
639837 GGGGG-ATCGGTTCCTCCTATGGGGGGGGGAATCGGTTCCCTCTGAGCA
1 GGGGGAATCGGTTCCTCCTAT---GGGGGGAATCGGTTCCCTCCGAGCA
639885 ATCTGTAATT
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
74 17 0.15
75 54 0.49
76 15 0.14
78 24 0.22
ACGTcount: A:0.19, C:0.24, G:0.34, T:0.23
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
AAAACCATTTA
Found at i:642280 original size:21 final size:21
Alignment explanation
Indices: 642254--642293 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
642244 CAGAACCCCA
*
642254 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
642275 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
642294 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:642328 original size:20 final size:21
Alignment explanation
Indices: 642276--642336 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 21
642266 TTCCCCTGTG
642276 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
*
642299 GGGGGAATCGGTTCCCTCAGA
1 GGGGGAATCGGTTCCCTCAAA
*
642320 GGGGG-ATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
642337 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 11 0.31
21 9 0.25
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:648225 original size:76 final size:76
Alignment explanation
Indices: 648096--648307 Score: 277
Period size: 76 Copynumber: 2.8 Consensus size: 76
648086 CCATTGTACA
* * * *
648096 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATT-TCGGAG
**
648160 -CAAAACTGTTT
65 CCAAAACCATTT
*
648171 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATTTCGGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGG-AATTTCGGAG
648236 CCAAAACCATTT
65 CCAAAACCATTT
* * *
648248 AGGGGGG-ATCGGTTCCTCCTATGGGGGGGGAATCGGTTCCCTCTGAGCAATCTGTAATTT
1 AGGGGGGAATCGGTTCCTCCTAT--GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTT
648308 TTGGCTTTGA
Statistics
Matches: 122, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
75 19 0.16
76 50 0.41
77 25 0.20
78 28 0.23
ACGTcount: A:0.19, C:0.23, G:0.33, T:0.25
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTTCGGAGC
CAAAACCATTT
Found at i:648641 original size:5 final size:5
Alignment explanation
Indices: 648631--648656 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
648621 TTAAGGTTTC
648631 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
648657 ATATATGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:659796 original size:15 final size:16
Alignment explanation
Indices: 659759--659789 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
659749 CTCCTATGTT
659759 ACTC-ACCGTTTTGTC
1 ACTCAACCGTTTTGTC
659774 ACTCAACCGTTTTGTC
1 ACTCAACCGTTTTGTC
659790 TCTAACCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.16, C:0.32, G:0.13, T:0.39
Consensus pattern (16 bp):
ACTCAACCGTTTTGTC
Found at i:676368 original size:23 final size:24
Alignment explanation
Indices: 676310--676375 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 24
676300 GTCAACTCAT
*
676310 ATTGTTGACTTTGACCAAACTGTTG
1 ATTGTTGACTTTGACC-AACGGTTG
*
676335 ATCGTTGACTTTGACCAA-GGTTG
1 ATTGTTGACTTTGACCAACGGTTG
*
676358 ATTGTTAACTTTGACCAA
1 ATTGTTGACTTTGACCAA
676376 AAAGTCAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 20 0.54
24 2 0.05
25 15 0.41
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (24 bp):
ATTGTTGACTTTGACCAACGGTTG
Found at i:678241 original size:30 final size:31
Alignment explanation
Indices: 678190--678262 Score: 121
Period size: 30 Copynumber: 2.4 Consensus size: 31
678180 TGTTCCCTTC
*
678190 GGTAGGCTCTGAGGCCCCAAGGTATTATTTG
1 GGTAGGCTCTAAGGCCCCAAGGTATTATTTG
*
678221 GGTATGCTCTAAGG-CCCAAGGTATTATTTG
1 GGTAGGCTCTAAGGCCCCAAGGTATTATTTG
678251 GGTAGGCTCTAA
1 GGTAGGCTCTAA
678263 AACCCACCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 27 0.69
31 12 0.31
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (31 bp):
GGTAGGCTCTAAGGCCCCAAGGTATTATTTG
Found at i:681887 original size:213 final size:215
Alignment explanation
Indices: 681520--681946 Score: 804
Period size: 213 Copynumber: 2.0 Consensus size: 215
681510 ATAAGAGAGG
*
681520 AATTTGTTCCAATTTCTTTTAGGGTAAACTACGTATTTAGTCACCTAACAATCGCTTTGGTTTCA
1 AATTTGTTCCAATTTCTTTTAGGGTAAACTACGTATTTAGTCACCTAACAATCACTTTGGTTTCA
681585 TTTTAGTTATCCAATTGTTTTTTTATTCAAAACCATATCCATAAACATGTAAATGAATCGAACGA
66 TTTTAGTTATCCAATTGTTTTTTTATTCAAAACCATATCCATAAACATGTAAATGAATCGAACGA
681650 ACACAAACGAGAGTATGTTCA-T-GTTCGTTTAACTTTAACCGAACAAACGAACACAAACAACTA
131 ACACAAACGAGAGTATGTTCATTCGTTCGTTTAACTTTAACCGAACAAACGAACACAAACAACTA
681713 AACGAATTAAATTTCTTTTA
196 AACGAATTAAATTTCTTTTA
681733 AATTTGTTCCAATTTCTTTTAGGGTAAACTACGTATTTAGTCACCTAACAATCACTTTGGTTTCA
1 AATTTGTTCCAATTTCTTTTAGGGTAAACTACGTATTTAGTCACCTAACAATCACTTTGGTTTCA
*
681798 TTTTAGTTATCCAATTGTTTTTTTATTCAAAACCATATCCATAAACATGTAAATGAATCGAATGA
66 TTTTAGTTATCCAATTGTTTTTTTATTCAAAACCATATCCATAAACATGTAAATGAATCGAACGA
681863 ACACAAACGAGAGTATGTTCATGTTCGTTCGTTTAACTTTAACCGAACAAACGAACACAAACAAC
131 ACACAAACGAGAGTATGTTCA--TTCGTTCGTTTAACTTTAACCGAACAAACGAACACAAACAAC
681928 TAAACGAATTAAATTTCTT
194 TAAACGAATTAAATTTCTT
681947 GTTTGTGTTC
Statistics
Matches: 208, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
213 149 0.72
216 1 0.00
217 58 0.28
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (215 bp):
AATTTGTTCCAATTTCTTTTAGGGTAAACTACGTATTTAGTCACCTAACAATCACTTTGGTTTCA
TTTTAGTTATCCAATTGTTTTTTTATTCAAAACCATATCCATAAACATGTAAATGAATCGAACGA
ACACAAACGAGAGTATGTTCATTCGTTCGTTTAACTTTAACCGAACAAACGAACACAAACAACTA
AACGAATTAAATTTCTTTTA
Found at i:682586 original size:14 final size:14
Alignment explanation
Indices: 682567--682647 Score: 71
Period size: 14 Copynumber: 6.1 Consensus size: 14
682557 CGAGCCTGGA
*
682567 GAACATAAATGAAT
1 GAACATAAACGAAT
682581 GAACATAAAC-AA-
1 GAACATAAACGAAT
* *
682593 -AA-ATAAACAAAC
1 GAACATAAACGAAT
*
682605 AAACATAAACGAAT
1 GAACATAAACGAAT
* *
682619 GAACATAAATGAAA
1 GAACATAAACGAAT
*
682633 GAACATATACGAAT
1 GAACATAAACGAAT
682647 G
1 G
682648 GATTATCAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
10 6 0.11
11 4 0.07
13 4 0.07
14 40 0.74
ACGTcount: A:0.62, C:0.12, G:0.11, T:0.15
Consensus pattern (14 bp):
GAACATAAACGAAT
Found at i:685664 original size:91 final size:92
Alignment explanation
Indices: 685509--685694 Score: 347
Period size: 91 Copynumber: 2.0 Consensus size: 92
685499 AACCAATATA
685509 TAATCTTAGATATGATTTTAAAAAATATATTGAATGATTAAAACATAATCACAAGAATAAACGGG
1 TAATCTTAGATATGATTTTAAAAAATATATTGAATGATTAAAACATAATCACAAGAATAAACGGG
*
685574 TGACTAAATACTTAGTTTAT-CTTTTT
66 TGACTAAATACTTAGTTTATCCTTTCT
*
685600 TAATCTTAGATATGATTTTAAAAAATATATTGAATGATTAAAACATAATCGCAAGAATAAACGGG
1 TAATCTTAGATATGATTTTAAAAAATATATTGAATGATTAAAACATAATCACAAGAATAAACGGG
685665 TGACTAAATACTTAGTTTATCCTTTCT
66 TGACTAAATACTTAGTTTATCCTTTCT
685692 TAA
1 TAA
685695 CAAGAATTTT
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
91 84 0.91
92 8 0.09
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (92 bp):
TAATCTTAGATATGATTTTAAAAAATATATTGAATGATTAAAACATAATCACAAGAATAAACGGG
TGACTAAATACTTAGTTTATCCTTTCT
Found at i:686223 original size:14 final size:14
Alignment explanation
Indices: 686204--686234 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
686194 TTCGTGAACA
686204 TTCGGTTATGTTCG
1 TTCGGTTATGTTCG
686218 TTCGGTTATGTTCG
1 TTCGGTTATGTTCG
686232 TTC
1 TTC
686235 ATGTTCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.16, G:0.26, T:0.52
Consensus pattern (14 bp):
TTCGGTTATGTTCG
Found at i:687417 original size:16 final size:16
Alignment explanation
Indices: 687396--687426 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
687386 AAAAAATTTA
687396 TTCGTTTATGTTCGTG
1 TTCGTTTATGTTCGTG
687412 TTCGTTTATGTTCGT
1 TTCGTTTATGTTCGT
687427 TTATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TTCGTTTATGTTCGTG
Found at i:692025 original size:15 final size:16
Alignment explanation
Indices: 691991--692029 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
691981 AATTGATATC
691991 AATTTTTCAAATGCTTT
1 AATTTTTCAAAT-CTTT
692008 AATTTTTCAAAT-TTT
1 AATTTTTCAAATCTTT
692023 AATTTTT
1 AATTTTT
692030 GACCTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 10 0.45
17 12 0.55
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (16 bp):
AATTTTTCAAATCTTT
Found at i:695874 original size:3 final size:3
Alignment explanation
Indices: 695849--695896 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
695839 TAAATTTAAC
* *
695849 AAT ATT AAT AAT -AT AAT ATT AAT AAT AAGT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
695893 AAT A
1 AAT A
695897 TATTTTAAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:695881 original size:21 final size:20
Alignment explanation
Indices: 695849--695896 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
695839 TAAATTTAAC
* *
695849 AATATTAATAATATAATATT
1 AATAATAATAATATAATAAT
695869 AATAATAAGTAATATAATAAT
1 AATAATAA-TAATATAATAAT
695890 AATAATA
1 AATAATA
695897 TATTTTAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AATAATAATAATATAATAAT
Found at i:695898 original size:14 final size:15
Alignment explanation
Indices: 695849--695897 Score: 75
Period size: 14 Copynumber: 3.3 Consensus size: 15
695839 TAAATTTAAC
695849 AATATTAATAAT-AT
1 AATATTAATAATAAT
695863 AATATTAATAATAAGT
1 AATATTAATAATAA-T
695879 AATA-TAATAATAAT
1 AATATTAATAATAAT
695893 AATAT
1 AATAT
695898 ATTTTAAGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 17 0.53
15 10 0.31
16 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (15 bp):
AATATTAATAATAAT
Found at i:696363 original size:121 final size:123
Alignment explanation
Indices: 696119--696417 Score: 417
Period size: 121 Copynumber: 2.4 Consensus size: 123
696109 CAAATTGGTT
* * ** * **
696119 TTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTTGAGATGAATGTTTCTGGTGGGCA
1 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATTCAATCTAAAGATGAATGTTACAAGT-GGCA
*
696184 CGATTCCCTTCATCGTGAAGTTGAAACTGTGGATGACCCCTTCATTGTGAAGTTGAGCC
65 CGATTCCCTTCATCGTGAAGTTGAAACAGTGGATGACCCCTTCATTGTGAAGTTGAGCC
*
696243 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATTCAATCTAAAGAGGAATGTTACAAGT-GCAC
1 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATTCAATCTAAAGATGAATGTTACAAGTGGCAC
* * * *
696307 G-TTTCCTTCGTCGTGAAGTTGAAACAGTGGGTTG-CCCCTTCGTTGTGAAGTTGAGCC
66 GATTCCCTTCATCGTGAAGTTGAAACAGT-GGATGACCCCTTCATTGTGAAGTTGAGCC
*
696364 TTGAATTGGATATCATTCGTCGTGAAGTTGAAATAT-AATCTAAAGATGAATGTT
1 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAAT-TCAATCTAAAGATGAATGTT
696418 GCTTCGAGTC
Statistics
Matches: 158, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
121 96 0.61
122 10 0.06
124 52 0.33
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (123 bp):
TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATTCAATCTAAAGATGAATGTTACAAGTGGCAC
GATTCCCTTCATCGTGAAGTTGAAACAGTGGATGACCCCTTCATTGTGAAGTTGAGCC
Found at i:696633 original size:34 final size:34
Alignment explanation
Indices: 696590--696675 Score: 136
Period size: 34 Copynumber: 2.5 Consensus size: 34
696580 GTGGATGACC
696590 CCTTCGTTGTGAAGTTGAGCCTTGACTTGAATAT
1 CCTTCGTTGTGAAGTTGAGCCTTGACTTGAATAT
*
696624 CCTTCGTTGTGAAGTTGAGCCTTGAGTTGAATAT
1 CCTTCGTTGTGAAGTTGAGCCTTGACTTGAATAT
* * *
696658 CATTCATCGTGAAGTTGA
1 CCTTCGTTGTGAAGTTGA
696676 AATCCAAGCT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.37
Consensus pattern (34 bp):
CCTTCGTTGTGAAGTTGAGCCTTGACTTGAATAT
Found at i:696844 original size:274 final size:276
Alignment explanation
Indices: 696343--696915 Score: 828
Period size: 274 Copynumber: 2.1 Consensus size: 276
696333 GTGGGTTGCC
* * * *
696343 CCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATATAATCTAAA
1 CCTTCGTTGTGAAGTTGAGCCTTGAATTGAATATCATTCATCGTGAAGTTGAAATACAAGCT---
* *
696408 GATGAATGTTGCTTCGAGTCCAATATCCTTCACCGTGAAGTTGAAATTGGCTCTGAATAAAACTG
63 -ATG-ATATTGCTTCGAGTCCAATATCATTCACCGTGAAGTTGAAATTGGCTCTGAATAAAACTG
** * *
696473 AGAAGCCCCTTTGCCGTGAAGTTGAGCTTTGAATTGGATATCATTAATCGTGAAGTTGAAATCCA
126 AGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAATTAGATATCATTAATCATGAAGTTGAAATCCA
* * * *
696538 ATCTAGAGTTGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTGAA
191 ATCTAGACTTGACACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGACCCCTTCATTGTGAA
*
696603 GTTGAGCCTTGACTTGAATAT
256 GTTAAGCCTTGACTTGAATAT
* *
696624 CCTTCGTTGTGAAGTTGAGCCTTGAGTTGAATATCATTCATCGTGAAGTTGAAATCCAAGCT-TG
1 CCTTCGTTGTGAAGTTGAGCCTTGAATTGAATATCATTCATCGTGAAGTTGAAATACAAGCTATG
* * * *
696688 -TATTGTTTCGAGTCCAATATCATTCATCGTGAAGTTGAAATTGGCTCTGAATGAAATTG-GAAA
66 ATATTGCTTCGAGTCCAATATCATTCACCGTGAAGTTGAAATTGGCTCTGAATAAAACTGAG-AA
* * *
696751 GCCCCTTCACCGTGAAGTTGAGCTTTGAATTAGATATCCTTCATCATGAAGTTGAAATCCATTCT
130 GCCCCTTCACCGTGAAGTTGAGCTTTGAATTAGATATCATTAATCATGAAGTTGAAATCCAATCT
* *
696816 AGACTTGACACGATATCCTTCTTCGTGAAGTTAAAATCGTGGATGGCCCCTTCATTGTGAAGTTA
195 AGACTTGACACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGACCCCTTCATTGTGAAGTTA
696881 AGCCTTGACTTGAATAT
260 AGCCTTGACTTGAATAT
*
696898 CCTTCGTCGTGAAGTTGA
1 CCTTCGTTGTGAAGTTGA
696916 AATCCAAGCT
Statistics
Matches: 264, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
273 1 0.00
274 205 0.78
276 2 0.01
281 56 0.21
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (276 bp):
CCTTCGTTGTGAAGTTGAGCCTTGAATTGAATATCATTCATCGTGAAGTTGAAATACAAGCTATG
ATATTGCTTCGAGTCCAATATCATTCACCGTGAAGTTGAAATTGGCTCTGAATAAAACTGAGAAG
CCCCTTCACCGTGAAGTTGAGCTTTGAATTAGATATCATTAATCATGAAGTTGAAATCCAATCTA
GACTTGACACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGACCCCTTCATTGTGAAGTTAA
GCCTTGACTTGAATAT
Found at i:696944 original size:240 final size:240
Alignment explanation
Indices: 696624--697137 Score: 823
Period size: 240 Copynumber: 2.1 Consensus size: 240
696614 ACTTGAATAT
*
696624 CCTTCGTTGTGAAGTTGAGCCTTGAGTTGAATATCATTCATCGTGAAGTTGAAATCCAAGCTTGT
1 CCTTCGTTGTGAAGTTGAGCCTTGACTTGAATATCATTCATCGTGAAGTTGAAATCCAAGCTTGT
* * * **
696689 ATTGTTTCGAGTCCAATATCATTCATCGTGAAGTTGAAATTGGCTCTGAATGAAATTGGAAAGCC
66 ATTATTTCGAGTCCAATATCATTCACCGTCAAGTTGAAATTGGCTCCAAATGAAATTGGAAAGCC
* *
696754 CCTTCACCGTGAAGTTGAGCTT-TGAATTAGATATCCTTCATCATGAAGTTGAAATCCATTCTAG
131 CCTTCACCATGAAGTTGAG-TTGTGAATTAGATATCCTTCATCATGAAGTTGAAATCCAATCTAG
*
696818 ACTTGACACGATATCCTTCTTCGTGAAGTTAAAATCGTGGATGGCC
195 ACTTGACACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCC
* * * *
696864 CCTTCATTGTGAAGTTAAGCCTTGACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGT
1 CCTTCGTTGTGAAGTTGAGCCTTGACTTGAATATCATTCATCGTGAAGTTGAAATCCAAGCTTGT
* *
696929 ATTATTTCGAGTCCAATATCCTTCACCGTCAAGTTGAAATTGGCTCCAAATGAAATTGGGAAGCC
66 ATTATTTCGAGTCCAATATCATTCACCGTCAAGTTGAAATTGGCTCCAAATGAAATTGGAAAGCC
* *
696994 CCTTCGCCATGAAGTTGAGTTGTGAATTGGATATCCTTCATCATGAAGTTGAAATCCAATCTAGA
131 CCTTCACCATGAAGTTGAGTTGTGAATTAGATATCCTTCATCATGAAGTTGAAATCCAATCTAGA
* *
697059 GTTGGCACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCC
196 CTTGACACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCC
* *
697104 CCTTCGTTTTGAATTTGAGCCTTGACTTGAATAT
1 CCTTCGTTGTGAAGTTGAGCCTTGACTTGAATAT
697138 TGTCCGCAAA
Statistics
Matches: 250, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
239 2 0.01
240 248 0.99
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (240 bp):
CCTTCGTTGTGAAGTTGAGCCTTGACTTGAATATCATTCATCGTGAAGTTGAAATCCAAGCTTGT
ATTATTTCGAGTCCAATATCATTCACCGTCAAGTTGAAATTGGCTCCAAATGAAATTGGAAAGCC
CCTTCACCATGAAGTTGAGTTGTGAATTAGATATCCTTCATCATGAAGTTGAAATCCAATCTAGA
CTTGACACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCC
Found at i:697334 original size:19 final size:20
Alignment explanation
Indices: 697312--697352 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
697302 TGTTATTTGC
*
697312 AAATGAA-AGTGTTGTGGAA
1 AAATGAAGAATGTTGTGGAA
697331 AAATGAATGAATGTTGTGGAA
1 AAATGAA-GAATGTTGTGGAA
697352 A
1 A
697353 TTATCTGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (20 bp):
AAATGAAGAATGTTGTGGAA
Found at i:722754 original size:44 final size:44
Alignment explanation
Indices: 722710--723176 Score: 267
Period size: 44 Copynumber: 10.7 Consensus size: 44
722700 ATTTTATGAA
* * *
722710 ATTGTAAAAAATTAGAGGCCTTAATTATAAAGGTAGAAACTGAA
1 ATTGTAAAAAATTAGAGGCCTCAATTATAAAGGTAGAAAGTGAG
* * *
722754 ATTG-AAAAAAATATG-GGCCTCAATTATAAAGGTA-TAATTGAG
1 ATTGTAAAAAATTA-GAGGCCTCAATTATAAAGGTAGAAAGTGAG
* ** * * *
722796 ATCG-AAAATTCTTAG-GGACCTCAATTAGAAAGTTAGAAAATGAG
1 ATTGTAAAA-AATTAGAGG-CCTCAATTATAAAGGTAGAAAGTGAG
* *
722840 A-T-TAAAAAAGCTTA-AGGGCCTCAATTATAAAGTTAAAAAAAGTGAG
1 ATTGTAAAAAA--TTAGA-GGCCTCAATTATAAAGGT--AGAAAGTGAG
* * *
722886 A-T-TAAAAAATTAGGGGCTTCAATTATAAAGGTAGAAATTGAG
1 ATTGTAAAAAATTAGAGGCCTCAATTATAAAGGTAGAAAGTGAG
* * *
722928 ATTGAAAAAAAAAATAGAGGCCTTAATTGA-AAAGGTAGAAAGTGAG
1 ATTG--TAAAAAATTAGAGGCCTCAATT-ATAAAGGTAGAAAGTGAG
* * * *
722974 ATTGAAAAAAACTTAAAAGCCTCAATTATAAAGTTA-AAAGTGAG
1 ATTGTAAAAAA-TTAGAGGCCTCAATTATAAAGGTAGAAAGTGAG
* * *
723018 A-T-TACAAAATTAGGGGCCTCAATTATAAAGGTAAAAAAG-G-G
1 ATTGTAAAAAATTAGAGGCCTCAATTATAAAGGT-AGAAAGTGAG
* *** * * *
723059 ATTGAAAAAAAATTAGAGATTTCAATTATAAAGATAAAAAGTTAG
1 ATTG-TAAAAAATTAGAGGCCTCAATTATAAAGGTAGAAAGTGAG
* * * * *
723104 ATTG-AATAATATTAG-GACCACAATTATAAAGGT-GAAAAATAAG
1 ATTGTAA-AAAATTAGAGGCCTCAATTATAAAGGTAG-AAAGTGAG
*
723147 ATT-TAAAAATTTA-AGGACCT-AATTATAAAG
1 ATTGTAAAAAATTAGAGG-CCTCAATTATAAAG
723177 ATGAAAGAAT
Statistics
Matches: 331, Mismatches: 61, Indels: 64
0.73 0.13 0.14
Matches are distributed among these distances:
41 21 0.06
42 48 0.15
43 88 0.27
44 96 0.29
45 24 0.07
46 53 0.16
47 1 0.00
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (44 bp):
ATTGTAAAAAATTAGAGGCCTCAATTATAAAGGTAGAAAGTGAG
Found at i:723021 original size:132 final size:131
Alignment explanation
Indices: 722824--723070 Score: 361
Period size: 132 Copynumber: 1.9 Consensus size: 131
722814 CCTCAATTAG
* * **
722824 AAAGTTAGAAAATGAGATTAAAAAAGCTTAAGGGCCTCAATTATAAAGTTAAAAAAAGTGAGATT
1 AAAGGTAGAAAATGAGATTAAAAAAACTTAAAAGCCTCAATTATAAAGTT--AAAAAGTGAGATT
* **
722889 AAAAAATTAGGGGCTTCAATTATAAAGGTAGAAATTGAGATTGAAAAAAAAAATAGAGGCCTTAA
64 AAAAAATTAGGGGCCTCAATTATAAAGGTA-AAAAAGAGATTGAAAAAAAAAATAGAGGCCTTAA
722954 TTGA
128 TTGA
*
722958 AAAGGTAGAAAGTGAGATTGAAAAAAACTTAAAAGCCTCAATTATAAAGTT-AAAAGTGAGATTA
1 AAAGGTAGAAAATGAGATT-AAAAAAACTTAAAAGCCTCAATTATAAAGTTAAAAAGTGAGATTA
* *
723022 CAAAATTAGGGGCCTCAATTATAAAGGTAAAAAAGGGATTGAAAAAAAA
65 AAAAATTAGGGGCCTCAATTATAAAGGTAAAAAAGAGATTGAAAAAAAA
723071 TTAGAGATTT
Statistics
Matches: 102, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
131 17 0.17
132 40 0.39
134 17 0.17
135 28 0.27
ACGTcount: A:0.51, C:0.06, G:0.19, T:0.23
Consensus pattern (131 bp):
AAAGGTAGAAAATGAGATTAAAAAAACTTAAAAGCCTCAATTATAAAGTTAAAAAGTGAGATTAA
AAAATTAGGGGCCTCAATTATAAAGGTAAAAAAGAGATTGAAAAAAAAAATAGAGGCCTTAATTG
A
Found at i:723155 original size:87 final size:85
Alignment explanation
Indices: 722995--723155 Score: 193
Period size: 87 Copynumber: 1.9 Consensus size: 85
722985 CTTAAAAGCC
* * * *
722995 TCAATTATAAAGTTAAAAGTGAGATTACAAAATTAGGGGCCTCAATTATAAAGGTAAAAAAGGGA
1 TCAATTATAAAGTAAAAAGTGAGATTACAAAATTAGGGACCACAATTATAAAGGTAAAAAAGAGA
723060 TTGAAAAAAAATTAGAGATT
66 TTGAAAAAAAATTAGAGATT
*
723080 TCAATTATAAAGATAAAAAGTTAGATTGA-ATAATATTA-GGACCACAATTATAAAGGTGAAAAA
1 TCAATTATAAAG-TAAAAAGTGAGATT-ACA-AA-ATTAGGGACCACAATTATAAAGGT-AAAAA
*
723143 TA-AGATTTAAAAA
61 -AGAGATTGAAAAA
723156 TTTAAGGACC
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
85 12 0.19
86 13 0.20
87 20 0.31
88 18 0.28
89 1 0.02
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.27
Consensus pattern (85 bp):
TCAATTATAAAGTAAAAAGTGAGATTACAAAATTAGGGACCACAATTATAAAGGTAAAAAAGAGA
TTGAAAAAAAATTAGAGATT
Found at i:723182 original size:42 final size:44
Alignment explanation
Indices: 723081--723182 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 44
723071 TTAGAGATTT
* *
723081 CAATTATAAAGAT-AAAAAGTTAGATTGAATAATATTAGGACCA
1 CAATTATAAAGATGAAAAAGTAAGATTGAAAAATATTAGGACCA
* *
723124 CAATTATAAAGGTGAAAAA-TAAGATTTAAAAAT-TTAAGGACC-
1 CAATTATAAAGATGAAAAAGTAAGATTGAAAAATATT-AGGACCA
*
723166 TAATTATAAAGATGAAA
1 CAATTATAAAGATGAAA
723183 GAATGAGGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
42 17 0.33
43 29 0.57
44 5 0.10
ACGTcount: A:0.53, C:0.06, G:0.14, T:0.27
Consensus pattern (44 bp):
CAATTATAAAGATGAAAAAGTAAGATTGAAAAATATTAGGACCA
Found at i:726704 original size:91 final size:91
Alignment explanation
Indices: 726549--726730 Score: 328
Period size: 91 Copynumber: 2.0 Consensus size: 91
726539 TCCAGAGATG
* *
726549 GTGGATTTGAGGAAATTTTTGCTACCAAGGTTGATAATGCTTCTAGATACGATTATTGCTTTAGG
1 GTGGATTTGAGGAAATGTTTGCTACCAAGATTGATAATGCTTCTAGATACGATTATTGCTTTAGG
*
726614 TATGCATCAATAACATCATTGTTTTT
66 TATGCATCAATAACATCATCGTTTTT
726640 GTGGATTTGAGGAAATGTTTGCTACCAAGATTGATAATGCTTCTAGATACGATTATTGCTTTAGG
1 GTGGATTTGAGGAAATGTTTGCTACCAAGATTGATAATGCTTCTAGATACGATTATTGCTTTAGG
*
726705 TGTGCATCAATAACATCATCGTTTTT
66 TATGCATCAATAACATCATCGTTTTT
726731 CTTTGTTACT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (91 bp):
GTGGATTTGAGGAAATGTTTGCTACCAAGATTGATAATGCTTCTAGATACGATTATTGCTTTAGG
TATGCATCAATAACATCATCGTTTTT
Found at i:733175 original size:25 final size:26
Alignment explanation
Indices: 733145--733197 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
733135 GGACTTATAT
*
733145 TAAGAG-GGATGAATTTTTAAAATTA
1 TAAGAGAGGATGAATTTATAAAATTA
*
733170 TAAGAGATGATGAATTTATAAAATTA
1 TAAGAGAGGATGAATTTATAAAATTA
733196 TA
1 TA
733198 GGGAGGTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (26 bp):
TAAGAGAGGATGAATTTATAAAATTA
Found at i:736039 original size:36 final size:36
Alignment explanation
Indices: 735992--736063 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
735982 CTGATGCGTG
735992 CCCCTGCTGCTTTGAT-GAAGGAGAGGCCAACAACAT
1 CCCCTGCTGCTTTGATAG-AGGAGAGGCCAACAACAT
*
736028 CCCCTGCTGCTTTGATAGAGGAGAGGGCAACAACAT
1 CCCCTGCTGCTTTGATAGAGGAGAGGCCAACAACAT
736064 ACTTCTTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.19
Consensus pattern (36 bp):
CCCCTGCTGCTTTGATAGAGGAGAGGCCAACAACAT
Found at i:737143 original size:6 final size:7
Alignment explanation
Indices: 737125--737153 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
737115 ATATAATAAT
737125 ATTTTTA
1 ATTTTTA
737132 ATTTTTA
1 ATTTTTA
737139 ATTTTTA
1 ATTTTTA
737146 ATTTTTA
1 ATTTTTA
737153 A
1 A
737154 ATCGTGACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
ATTTTTA
Found at i:746680 original size:23 final size:23
Alignment explanation
Indices: 746653--746702 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
746643 ACTTTTGGGG
*
746653 TGAAATGAAATAACTATTTTTCA
1 TGAAAAGAAATAACTATTTTTCA
** *
746676 TGAAAAGACTTAATTATTTTTCA
1 TGAAAAGAAATAACTATTTTTCA
746699 TGAA
1 TGAA
746703 TAGTCATGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (23 bp):
TGAAAAGAAATAACTATTTTTCA
Found at i:747058 original size:31 final size:31
Alignment explanation
Indices: 747020--747084 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
747010 AAGGGGAATG
* * *
747020 GTCCCTAACGTTATCGATCTATTCGATTTTA
1 GTCCCTAACATTATCAATCCATTCGATTTTA
*
747051 GTCCCTAATATTATCAATCCATTCGATTTTA
1 GTCCCTAACATTATCAATCCATTCGATTTTA
747082 GTC
1 GTC
747085 TTTCAGCCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.42
Consensus pattern (31 bp):
GTCCCTAACATTATCAATCCATTCGATTTTA
Found at i:749912 original size:32 final size:32
Alignment explanation
Indices: 749857--749933 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
749847 TTTAAATAGT
* *
749857 TATTATTTTTTATATTAATATATTTATGTAAA
1 TATTATTTTTTATATAAATATATTTATATAAA
*
749889 TA-TATTTTTTAT-TAAAATAATATTTATATAAT
1 TATTATTTTTTATAT-AAAT-ATATTTATATAAA
749921 TATTATTTATTTA
1 TATTATTT-TTTA
749934 GAATTATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
30 1 0.03
31 13 0.34
32 15 0.39
33 5 0.13
34 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (32 bp):
TATTATTTTTTATATAAATATATTTATATAAA
Found at i:751663 original size:21 final size:21
Alignment explanation
Indices: 751633--751680 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
751623 GCAGGGGTAC
* *
751633 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
751654 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
751675 ATGCCA
1 ATGCCA
751681 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:751710 original size:21 final size:21
Alignment explanation
Indices: 751684--751756 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
751674 TATGCCATCT
*
751684 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
751705 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
751726 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
751747 CCGCAGGGTT
1 CCGCAGGGTT
751757 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:752328 original size:33 final size:34
Alignment explanation
Indices: 752269--752365 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
752259 AAATGTTTTT
*
752269 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
752303 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
752336 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
752366 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:752372 original size:34 final size:33
Alignment explanation
Indices: 752267--752372 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
752257 ATAAATGTTT
*
752267 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
752301 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
752333 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
752368 TTAAA
1 TTAAA
752373 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:753163 original size:126 final size:126
Alignment explanation
Indices: 752753--753226 Score: 895
Period size: 124 Copynumber: 3.8 Consensus size: 126
752743 TTTAAGTTAT
* *
752753 TCCCCGATGGACATGAGTGACATAATAGGGCAATGATAATA-TCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
752817 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
752878 TCCCCGAGGGACATGAATGACATAATAGGGCAATGAT-ATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
752942 GCG-CCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
753002 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
753067 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
753128 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAA-G-
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
753191 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
753227 CCGATTATAG
Statistics
Matches: 344, Mismatches: 2, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
124 133 0.39
125 92 0.27
126 119 0.35
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (126 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:753201 original size:250 final size:249
Alignment explanation
Indices: 752753--753226 Score: 905
Period size: 250 Copynumber: 1.9 Consensus size: 249
752743 TTTAAGTTAT
* *
752753 TCCCCGATGGACATGAGTGACATAATAGGGCAATGATAATATCTCTGACGAAATAATGGAAGGCG
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATCTCTGACGAAATAATGGAAGGCG
752818 CGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCC
66 CGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCC
752883 GAGGGACATGAATGACATAATAGGGCAATGATATATTCTCTGACGAAATAATGGAAGGCGCGCCC
131 GAGGGACATGAATGACATAATAGGGCAATGATATATTCTCTGACGAAATAATGGAAGGCGCGCCC
752948 CGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
196 CGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
753002 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATA-TCTCTGACGAAATAATGGAAGGC
753067 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
65 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
753132 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC-C
130 CGAGGGACATGAATGACATAATAGGGCAATGAT-ATATTCTCTGACGAAATAATGGAAGGCGCGC
753196 CCCGGGAACGCGCCTTCACGTGAATAGTGAA
194 CCCGGGAACGCGCCTTCACGTGAATAGTGAA
753227 CCGATTATAG
Statistics
Matches: 221, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
249 39 0.18
250 153 0.69
251 29 0.13
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (249 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATCTCTGACGAAATAATGGAAGGCG
CGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCC
GAGGGACATGAATGACATAATAGGGCAATGATATATTCTCTGACGAAATAATGGAAGGCGCGCCC
CGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:753307 original size:8 final size:8
Alignment explanation
Indices: 753294--753331 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
753284 TCACAATCTT
753294 TCAAATTC
1 TCAAATTC
753302 TCAAATTC
1 TCAAATTC
* *
753310 CCAAACTC
1 TCAAATTC
753318 T-AAATTC
1 TCAAATTC
753325 TCAAATT
1 TCAAATT
753332 TTCTGAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:756342 original size:13 final size:13
Alignment explanation
Indices: 756324--756363 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
756314 TACATAAATA
756324 TATTTAATATAAT
1 TATTTAATATAAT
756337 TATTTAATATAA-
1 TATTTAATATAAT
*
756349 TATTTAATATTAT
1 TATTTAATATAAT
756362 TA
1 TA
756364 GTTATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTTAATATAAT
Found at i:760026 original size:54 final size:54
Alignment explanation
Indices: 759945--760061 Score: 227
Period size: 54 Copynumber: 2.2 Consensus size: 54
759935 ATTGACACCC
759945 TTAAATGA-CAAAATTATTGATACAAAAAGAATTTATCATTTAAAAACAAGATA
1 TTAAATGACCAAAATTATTGATACAAAAAGAATTTATCATTTAAAAACAAGATA
759998 TTAAATGACCAAAATTATTGATACAAAAAGAATTTATCATTTAAAAACAAGATA
1 TTAAATGACCAAAATTATTGATACAAAAAGAATTTATCATTTAAAAACAAGATA
760052 TTAAATGACC
1 TTAAATGACC
760062 TAACTCGTGA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 8 0.13
54 55 0.87
ACGTcount: A:0.53, C:0.09, G:0.08, T:0.30
Consensus pattern (54 bp):
TTAAATGACCAAAATTATTGATACAAAAAGAATTTATCATTTAAAAACAAGATA
Found at i:760773 original size:14 final size:14
Alignment explanation
Indices: 760750--760788 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
760740 TTTAATTAAA
760750 AAAT-AATTAATTT
1 AAATAAATTAATTT
760763 AAATAAATTAATTT
1 AAATAAATTAATTT
*
760777 AATTAGAATTAA
1 AAATA-AATTAA
760789 AATTTATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 13 0.57
15 6 0.26
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
AAATAAATTAATTT
Found at i:761545 original size:19 final size:19
Alignment explanation
Indices: 761521--761566 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
761511 TTGATACGTA
*
761521 AATTTTAGTATTGAT-CATT
1 AATTTTAATATTGATGC-TT
*
761540 AATTTTAATTTTGATGCTT
1 AATTTTAATATTGATGCTT
761559 AATTTTAA
1 AATTTTAA
761567 CTAGCTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (19 bp):
AATTTTAATATTGATGCTT
Found at i:763142 original size:19 final size:18
Alignment explanation
Indices: 763100--763144 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
763090 ATACTCAAAA
763100 TAATATTAATTTATATATT
1 TAATATTAA-TTATATATT
763119 TAATATTAA-TATACTATT
1 TAATATTAATTATA-TATT
763137 TAAATATT
1 T-AATATT
763145 TTTAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
18 5 0.21
19 15 0.62
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATATTAATTATATATT
Found at i:763241 original size:23 final size:23
Alignment explanation
Indices: 763198--763245 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
763188 GTTTTTAGTG
*
763198 TTATAATAATATATTTAATTATA
1 TTATAATAATATATGTAATTATA
763221 TTATAATAATATATGGT-ATTATA
1 TTATAATAATATAT-GTAATTATA
763244 TT
1 TT
763246 TATATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
TTATAATAATATATGTAATTATA
Found at i:763434 original size:20 final size:20
Alignment explanation
Indices: 763379--763441 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
763369 CTAATATAAT
* *
763379 ATTCTTATGTTAATATTATA
1 ATTCTTATATTAATAATATA
*
763399 ATTTTTAATATT-ATAATATA
1 ATTCTT-ATATTAATAATATA
*
763419 ATTCTTATTTTAATAA-ATA
1 ATTCTTATATTAATAATATA
763438 ATTC
1 ATTC
763442 ATAATTGTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 11 0.31
20 21 0.58
21 4 0.11
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTCTTATATTAATAATATA
Found at i:763440 original size:19 final size:20
Alignment explanation
Indices: 763370--763441 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
763360 AAATCTAATC
*
763370 TAATATAAT-ATTCTTATGT
1 TAATATAATAATTCTTATAT
* *
763389 TAATATTATAATTTTTAATAT
1 TAATATAATAATTCTT-ATAT
*
763410 T-ATA-ATATAATTCTTATTT
1 TAATATA-ATAATTCTTATAT
763429 TAATA-AATAATTC
1 TAATATAATAATTC
763442 ATAATTGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 19 0.44
20 20 0.47
21 4 0.09
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (20 bp):
TAATATAATAATTCTTATAT
Found at i:765623 original size:8 final size:8
Alignment explanation
Indices: 765606--765648 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
765596 CCATCGTTAT
*
765606 TAATTATA
1 TAATTTTA
765614 TAATTTTA
1 TAATTTTA
*
765622 TATCTTTTA
1 TA-ATTTTA
*
765631 AAATTTTA
1 TAATTTTA
765639 TAATTTTA
1 TAATTTTA
765647 TA
1 TA
765649 TCCTTTTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
8 23 0.79
9 6 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (8 bp):
TAATTTTA
Found at i:765640 original size:25 final size:26
Alignment explanation
Indices: 765607--765657 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
765597 CATCGTTATT
765607 AATTATATAATTTTATAT-CTTTTAA
1 AATTATATAATTTTATATCCTTTTAA
*
765632 AATTTTATAATTTTATATCCTTTTAA
1 AATTATATAATTTTATATCCTTTTAA
765658 TTTTTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (26 bp):
AATTATATAATTTTATATCCTTTTAA
Found at i:775785 original size:29 final size:29
Alignment explanation
Indices: 775730--775785 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
775720 TAGCTAACCA
**
775730 CTAACCACCTAACAAACTAATTGACTTAG
1 CTAACCACCTAACAAACTAATCCACTTAG
775759 CTAACCAACCTAACAAACTAA-CCACTT
1 CTAACC-ACCTAACAAACTAATCCACTT
775786 TTACATGCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.43, C:0.32, G:0.04, T:0.21
Consensus pattern (29 bp):
CTAACCACCTAACAAACTAATCCACTTAG
Found at i:775956 original size:36 final size:36
Alignment explanation
Indices: 775916--776210 Score: 416
Period size: 36 Copynumber: 8.2 Consensus size: 36
775906 AAAGATGAAC
*
775916 ACTTGAATCGGAAGTGCTGATGCTTCCTCCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
*
775952 ACTTGAATCGGAAGTGCCCATGCTTCCTCCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
*
775988 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTC-
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
* * *
776023 ACTTGAATCGGAAGTGCAGATGCTTTCTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
* * * *
776059 ATTTGAATCGGAAGTGCCGATACTTACTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
* * *
776095 ATTTGAATCGGAAGTGCCGATGCTTACTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
*
776131 ATTTGAATCGGAAGTGCCGATGCTTCC-CTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTC-CCGTTCG
*
776167 ACTTGAATCGGAAGTGCCGATGCTTCC-CTTCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTC-CCGTTCG
776203 ACTTGAAT
1 ACTTGAAT
776211 TGATGCAAAC
Statistics
Matches: 242, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
35 33 0.14
36 209 0.86
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.32
Consensus pattern (36 bp):
ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
Found at i:786683 original size:98 final size:98
Alignment explanation
Indices: 786575--786754 Score: 360
Period size: 98 Copynumber: 1.8 Consensus size: 98
786565 AATTATATTT
786575 TTTTTGGTTATGCTATTTAACTTATAAATAATGGACAATTTTCCTAATGTGATATTATCCCAAAT
1 TTTTTGGTTATGCTATTTAACTTATAAATAATGGACAATTTTCCTAATGTGATATTATCCCAAAT
786640 AAACCTTATTTCTTTAATGTCGGATTCTAATCA
66 AAACCTTATTTCTTTAATGTCGGATTCTAATCA
786673 TTTTTGGTTATGCTATTTAACTTATAAATAATGGACAATTTTCCTAATGTGATATTATCCCAAAT
1 TTTTTGGTTATGCTATTTAACTTATAAATAATGGACAATTTTCCTAATGTGATATTATCCCAAAT
786738 AAACCTTATTTCTTTAA
66 AAACCTTATTTCTTTAA
786755 AACACTCTCC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 82 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.44
Consensus pattern (98 bp):
TTTTTGGTTATGCTATTTAACTTATAAATAATGGACAATTTTCCTAATGTGATATTATCCCAAAT
AAACCTTATTTCTTTAATGTCGGATTCTAATCA
Found at i:790245 original size:30 final size:30
Alignment explanation
Indices: 790188--790246 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
790178 ACAAAATTTA
* * *
790188 TTCGGTTCGGTTAATATTTTCAAAAAAAAG
1 TTCGGTTCGGTTAACATGTTAAAAAAAAAG
790218 TTCGGTTCGGTTAACA-GTTAAAGAAAAAA
1 TTCGGTTCGGTTAACATGTTAAA-AAAAAA
790247 AAAAGTTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (30 bp):
TTCGGTTCGGTTAACATGTTAAAAAAAAAG
Found at i:794143 original size:4 final size:4
Alignment explanation
Indices: 794134--794159 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
794124 TAATAATAAT
794134 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
794160 AGGATAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:794654 original size:47 final size:47
Alignment explanation
Indices: 794602--794694 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
794592 AAATTAATAC
*
794602 AATACAGTTTTTCATTTTTAGATTTAATATTATCGTAATTAAATTAT
1 AATACAGTTTTTCAATTTTAGATTTAATATTATCGTAATTAAATTAT
**
794649 AATACAGTTTTTCAATTTTAGATTTAATATTATTTTAATTAAATTA
1 AATACAGTTTTTCAATTTTAGATTTAATATTATCGTAATTAAATTA
794695 AGACAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (47 bp):
AATACAGTTTTTCAATTTTAGATTTAATATTATCGTAATTAAATTAT
Found at i:795742 original size:17 final size:16
Alignment explanation
Indices: 795720--795791 Score: 74
Period size: 17 Copynumber: 4.4 Consensus size: 16
795710 TGTTTAAGGT
795720 ATATTTTATTATATTTA
1 ATATTTTATT-TATTTA
*
795737 ATATTTAATTTATTTA
1 ATATTTTATTTATTTA
* *
795753 AGTATTTAAATTATTTA
1 A-TATTTTATTTATTTA
* *
795770 ATATTGTATTTAATTA
1 ATATTTTATTTATTTA
795786 AT-TTTT
1 ATATTTT
795792 TTTGCATATA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
15 3 0.06
16 20 0.43
17 24 0.51
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
ATATTTTATTTATTTA
Found at i:797701 original size:65 final size:64
Alignment explanation
Indices: 797611--797755 Score: 175
Period size: 65 Copynumber: 2.2 Consensus size: 64
797601 AAAATAGCCT
*** * * * * * *
797611 GAGTGCATCGATGCATAGCTTGTGCATCGGTGCATTGAATGCATTCGATATTTCTATTT-GTTCA
1 GAGTGCATCGATGCATAGAGAGTGCATCGGTACACTAAATGCATTCGA-AATTCAATTTAATT-A
797675 A
64 A
*
797676 GAGTGCATCGATGCATAGAGAGTGCATCGGTACACTAAATGCATTCGAAATTCAATTTAATTGA
1 GAGTGCATCGATGCATAGAGAGTGCATCGGTACACTAAATGCATTCGAAATTCAATTTAATTAA
797740 GAGTGCATCGATGCAT
1 GAGTGCATCGATGCAT
797756 GGACTAGTAC
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
64 25 0.36
65 44 0.64
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (64 bp):
GAGTGCATCGATGCATAGAGAGTGCATCGGTACACTAAATGCATTCGAAATTCAATTTAATTAA
Found at i:798127 original size:16 final size:16
Alignment explanation
Indices: 798106--798139 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
798096 TCCCCTTACT
798106 TTAACACTTCTCCCCC
1 TTAACACTTCTCCCCC
*
798122 TTAACACTTCTTCCCC
1 TTAACACTTCTCCCCC
798138 TT
1 TT
798140 TTTGTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.44, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAACACTTCTCCCCC
Found at i:800471 original size:44 final size:44
Alignment explanation
Indices: 800390--800486 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
800380 GGCATTGTGC
* *
800390 ATCGATGCACATTCAAGGAGTGAATTGGTGCATCTTCAT-GATGT
1 ATCGATGCACATTCAAGGAGTGAATCGATGCATCTTCATAG-TGT
*
800434 ATCGATGCACATTCAAAGG-GATGCATCGATGCA-CTTCATAGTGT
1 ATCGATGCACATTC-AAGGAG-TGAATCGATGCATCTTCATAGTGT
800478 ATCGATGCA
1 ATCGATGCA
800487 TTATGCACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 33 0.70
45 14 0.30
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGAGTGAATCGATGCATCTTCATAGTGT
Found at i:800483 original size:20 final size:21
Alignment explanation
Indices: 800418--800486 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 21
800408 AGTGAATTGG
800418 TGCATCTTCAT-GATGTATCGA
1 TGCA-CTTCATAGATGTATCGA
* *
800439 TGCACATTCAAAGGGATGCATCGA
1 TGCAC-TTCATA--GATGTATCGA
800463 TGCACTTCATAG-TGTATCGA
1 TGCACTTCATAGATGTATCGA
800483 TGCA
1 TGCA
800487 TTATGCACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
20 12 0.30
21 9 0.22
23 5 0.12
24 14 0.35
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (21 bp):
TGCACTTCATAGATGTATCGA
Found at i:806375 original size:19 final size:19
Alignment explanation
Indices: 806351--806418 Score: 136
Period size: 19 Copynumber: 3.6 Consensus size: 19
806341 TATTTGTTCA
806351 AGAGTGCATCGATGCATAG
1 AGAGTGCATCGATGCATAG
806370 AGAGTGCATCGATGCATAG
1 AGAGTGCATCGATGCATAG
806389 AGAGTGCATCGATGCATAG
1 AGAGTGCATCGATGCATAG
806408 AGAGTGCATCG
1 AGAGTGCATCG
806419 GTACATCTCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.31, C:0.16, G:0.32, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATAG
Found at i:818690 original size:2 final size:2
Alignment explanation
Indices: 818683--818710 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
818673 ACTAAATTTA
818683 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
818711 GCATTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:821807 original size:53 final size:53
Alignment explanation
Indices: 821744--821849 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
821734 CTCCTGCAAA
821744 TATATTCTGAATCATTCGACACACACTAAATTGTATTGTATTCTAATTCTTAT
1 TATATTCTGAATCATTCGACACACACTAAATTGTATTGTATTCTAATTCTTAT
821797 TATATTCTGAATCATTCGACACACACTAAATTGTATTGTATTCTAATTCTTAT
1 TATATTCTGAATCATTCGACACACACTAAATTGTATTGTATTCTAATTCTTAT
821850 GGAAGAAAAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (53 bp):
TATATTCTGAATCATTCGACACACACTAAATTGTATTGTATTCTAATTCTTAT
Found at i:831142 original size:3 final size:3
Alignment explanation
Indices: 831134--831169 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
831124 TTTCATCACT
* *
831134 TTA TTA TTA TTA TTA TTA TTA TCA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
831170 GGGTAAACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:831702 original size:17 final size:17
Alignment explanation
Indices: 831680--831713 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
831670 GATTTTAAAT
831680 TGCTGATTAAATTTTAA
1 TGCTGATTAAATTTTAA
831697 TGCTGATTAAATTTTAA
1 TGCTGATTAAATTTTAA
831714 ATTGCTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
TGCTGATTAAATTTTAA
Found at i:831894 original size:15 final size:16
Alignment explanation
Indices: 831874--831906 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
831864 TGATCCTTAC
831874 ATTTTTT-TAATTTAA
1 ATTTTTTATAATTTAA
*
831889 ATTTTTTATATTTTAA
1 ATTTTTTATAATTTAA
831905 AT
1 AT
831907 ATAATACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTTTATAATTTAA
Found at i:832946 original size:13 final size:14
Alignment explanation
Indices: 832922--832954 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
832912 TAAAATATTC
*
832922 TATTTCAATTTTTG
1 TATTTAAATTTTTG
832936 T-TTTAAATTTTTG
1 TATTTAAATTTTTG
832949 TATTTA
1 TATTTA
832955 TCCATAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (14 bp):
TATTTAAATTTTTG
Found at i:851014 original size:20 final size:20
Alignment explanation
Indices: 850985--851036 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
850975 AGCTCTTTGC
*
850985 GGTGAGTCACCAAACTATGT
1 GGTGACTCACCAAACTATGT
851005 GGTGACTCACCAAACTATGT
1 GGTGACTCACCAAACTATGT
851025 GGTGACTCACCA
1 GGTGACTCACCA
851037 TAAGGCATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (20 bp):
GGTGACTCACCAAACTATGT
Found at i:851350 original size:3 final size:3
Alignment explanation
Indices: 851344--851373 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
851334 ATAATAATAA
851344 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
851374 AAAATAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:851395 original size:17 final size:17
Alignment explanation
Indices: 851373--851411 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
851363 ATTATTATTA
*
851373 TAAAATAATGATAATAG
1 TAAAATAATAATAATAG
*
851390 TAAAATAATAATAATAT
1 TAAAATAATAATAATAG
851407 TAAAA
1 TAAAA
851412 ATATTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (17 bp):
TAAAATAATAATAATAG
Found at i:852112 original size:113 final size:112
Alignment explanation
Indices: 851909--852349 Score: 609
Period size: 113 Copynumber: 3.9 Consensus size: 112
851899 TAGAGTCATG
* * * * *
851909 AAAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTTTTCCTCTTCAGATAAGTTCTTCTCTTT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATT
* * * * *
851974 ATGAACT-TTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAGC
66 ATGAACTCTAC-CTGGCAATGCTGATCCATCAAGTGATGAATTCAAGC
*
852021 AAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCAT
* * *
852086 TATGAACTTTATCTAGCAATGCTGATCCATCAAGTGATGAATTCAAGC
65 TATGAACTCTACCTGGCAATGCTGATCCATCAAGTGATGAATTCAAGC
* *
852134 AAAATGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCAT
** *
852199 TATGAACTCTACCTGGCAATGCCAATCCATCAAGTGATGAATTCGAGC
65 TATGAACTCTACCTGGCAATGCTGATCCATCAAGTGATGAATTCAAGC
* *
852247 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTT-TTCTTCCTCTTCAGATAAATTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTTCCTCTTCAGATAAGTTCTTCTCAT
* *
852311 TATGAACTCTACCTGGC-ATGTTGATCCATCTGAGTGATG
65 TATGAACTCTACCTGGCAATGCTGATCCATC-AAGTGATG
852350 GACCCGAATC
Statistics
Matches: 295, Mismatches: 30, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
111 10 0.03
112 81 0.27
113 200 0.68
114 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (112 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATT
ATGAACTCTACCTGGCAATGCTGATCCATCAAGTGATGAATTCAAGC
Found at i:852737 original size:22 final size:22
Alignment explanation
Indices: 852712--852861 Score: 141
Period size: 22 Copynumber: 7.1 Consensus size: 22
852702 AAATCCAATA
* *
852712 AATCTTTCTTCTTTGAAAAGAG
1 AATCTATCATCTTTGAAAAGAG
*
852734 AATCTATAATCTTTG--AAGAG
1 AATCTATCATCTTTGAAAAGAG
** *
852754 AAAATATCATCTTTGAAGAGAG
1 AATCTATCATCTTTGAAAAGAG
* *
852776 TATCTATCATATTTG--AAGAG
1 AATCTATCATCTTTGAAAAGAG
852796 AATCTATCATCTTTGAAAAGA-
1 AATCTATCATCTTTGAAAAGAG
* * *
852817 AA-ATATCATATTTGAAGAGAG
1 AATCTATCATCTTTGAAAAGAG
* *
852838 AATTTATCATCTTTGAAGAGAG
1 AATCTATCATCTTTGAAAAGAG
852860 AA
1 AA
852862 GATGTAGATA
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
20 49 0.48
21 4 0.04
22 50 0.49
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (22 bp):
AATCTATCATCTTTGAAAAGAG
Found at i:852754 original size:20 final size:20
Alignment explanation
Indices: 852729--852858 Score: 143
Period size: 20 Copynumber: 6.3 Consensus size: 20
852719 CTTCTTTGAA
*
852729 AAGAGAATCTATAATCTTTG
1 AAGAGAATCTATCATCTTTG
**
852749 AAGAGAAAATATCATCTTTG
1 AAGAGAATCTATCATCTTTG
*
852769 AAGAGAGTATCTATCATATTTG
1 AAGAGA--ATCTATCATCTTTG
852791 AAGAGAATCTATCATCTTTG
1 AAGAGAATCTATCATCTTTG
* ** *
852811 AAAAGAAAATATCATATTTG
1 AAGAGAATCTATCATCTTTG
*
852831 AAGAGAGAATTTATCATCTTTG
1 -A-AGAGAATCTATCATCTTTG
852853 AAGAGA
1 AAGAGA
852859 GAAGATGTAG
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
20 57 0.63
21 2 0.02
22 32 0.35
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.32
Consensus pattern (20 bp):
AAGAGAATCTATCATCTTTG
Found at i:852781 original size:42 final size:42
Alignment explanation
Indices: 852721--852861 Score: 169
Period size: 42 Copynumber: 3.4 Consensus size: 42
852711 AAATCTTTCT
* * *
852721 TCTTTGAAAAGAGAATCTATAATCTTTGAAGAGAAAATATCA
1 TCTTTGAAGAGAGAATCTATCATATTTGAAGAGAAAATATCA
* **
852763 TCTTTGAAGAGAGTATCTATCATATTTGAAGAGAATCTATCA
1 TCTTTGAAGAGAGAATCTATCATATTTGAAGAGAAAATATCA
** *
852805 TCTTTGAA-A-AGAAAATATCATATTTGAAGAGAGAATTTATCA
1 TCTTTGAAGAGAGAATCTATCATATTTGAAGAGA-AA-ATATCA
852847 TCTTTGAAGAGAGAA
1 TCTTTGAAGAGAGAA
852862 GATGTAGATA
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 20 0.24
41 2 0.02
42 57 0.68
43 1 0.01
44 4 0.05
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (42 bp):
TCTTTGAAGAGAGAATCTATCATATTTGAAGAGAAAATATCA
Found at i:852831 original size:62 final size:62
Alignment explanation
Indices: 852729--852858 Score: 206
Period size: 62 Copynumber: 2.1 Consensus size: 62
852719 CTTCTTTGAA
* * *
852729 AAGAGAATCTATAATCTTTGAAGAGAAAATATCATCTTTGAAGAGAGTATCTATCATATTTG
1 AAGAGAATCTATAATCTTTGAAAAGAAAATATCATATTTGAAGAGAGAATCTATCATATTTG
* * *
852791 AAGAGAATCTATCATCTTTGAAAAGAAAATATCATATTTGAAGAGAGAATTTATCATCTTTG
1 AAGAGAATCTATAATCTTTGAAAAGAAAATATCATATTTGAAGAGAGAATCTATCATATTTG
852853 AAGAGA
1 AAGAGA
852859 GAAGATGTAG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.32
Consensus pattern (62 bp):
AAGAGAATCTATAATCTTTGAAAAGAAAATATCATATTTGAAGAGAGAATCTATCATATTTG
Found at i:854277 original size:75 final size:74
Alignment explanation
Indices: 854118--854339 Score: 268
Period size: 75 Copynumber: 3.0 Consensus size: 74
854108 ATGTCCTAAC
* * * * *
854118 ATTTGCTGATACAGACGTTCAAAATGCACCAACATTCGTGATTCTGATT-AAAAGGGCTTTCAGT
1 ATTTGCTGATACAAACGTTCAAAATGCATCAATATTC-TGATTCTGATTGAAATGGGCTTTCAGC
854182 ATGCCCCAGT
65 ATGCCCCAGT
* *
854192 ATTTGCTGATACAAATGTTTAAAATG-AGTCAATATTCTTGATTCTGATTGAAATGGGCTTTCAG
1 ATTTGCTGATACAAACGTTCAAAATGCA-TCAATATTC-TGATTCTGATTGAAATGGGCTTTCAG
*
854256 CCTGCCCCAGT
64 CATGCCCCAGT
* * ** * *
854267 ATTTGCTGATAGAAACGTTCAAAATGCATTAATATTCCAACTTCTAATTGAAATGGGCTTTCAAC
1 ATTTGCTGATACAAACGTTCAAAATGCATCAATATTCTGA-TTCTGATTGAAATGGGCTTTCAGC
854332 ATGCCCCA
65 ATGCCCCA
854340 AATATTCATT
Statistics
Matches: 126, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
73 1 0.01
74 42 0.33
75 82 0.65
76 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (74 bp):
ATTTGCTGATACAAACGTTCAAAATGCATCAATATTCTGATTCTGATTGAAATGGGCTTTCAGCA
TGCCCCAGT
Found at i:857661 original size:14 final size:14
Alignment explanation
Indices: 857642--857681 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
857632 TGATTCAAAA
857642 TTTTTCTTCTTTTC
1 TTTTTCTTCTTTTC
857656 TTTTTCTT-TTTTC
1 TTTTTCTTCTTTTC
857669 TCTTTT-TTCTTTT
1 T-TTTTCTTCTTTT
857682 TTTCGATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTCTTCTTTTC
Found at i:857668 original size:7 final size:7
Alignment explanation
Indices: 857642--857683 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 7
857632 TGATTCAAAA
857642 TTTTTCT
1 TTTTTCT
857649 TCTTTTC-
1 T-TTTTCT
857656 TTTTTCTT
1 TTTTTC-T
857664 TTTTCTCT
1 TTTT-TCT
857672 TTTTTCT
1 TTTTTCT
857679 TTTTT
1 TTTTT
857684 TCGATGAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 5 0.16
7 10 0.32
8 14 0.45
9 2 0.06
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:860835 original size:14 final size:15
Alignment explanation
Indices: 860818--860854 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
860808 CAAAGATGCA
860818 AATGCAAATAA-AAC
1 AATGCAAATAATAAC
*
860832 AATGCAAA-AATAAG
1 AATGCAAATAATAAC
860846 AATGCAAAT
1 AATGCAAAT
860855 TGTGCAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.90
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.16
Consensus pattern (15 bp):
AATGCAAATAATAAC
Found at i:860888 original size:7 final size:7
Alignment explanation
Indices: 860878--860918 Score: 50
Period size: 6 Copynumber: 6.0 Consensus size: 7
860868 AGCAAACAAC
860878 AAATGCA
1 AAATGCA
860885 AAATG-A
1 AAATGCA
860891 AAATGCA
1 AAATGCA
*
860898 AAGATGTA
1 AA-ATGCA
860906 AAATGC-
1 AAATGCA
860912 AAATGCA
1 AAATGCA
860919 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 12 0.41
7 11 0.38
8 6 0.21
ACGTcount: A:0.56, C:0.10, G:0.17, T:0.17
Consensus pattern (7 bp):
AAATGCA
Found at i:864625 original size:3 final size:3
Alignment explanation
Indices: 864619--864695 Score: 108
Period size: 3 Copynumber: 27.0 Consensus size: 3
864609 CCTGTTTGTT
*
864619 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA AT- ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
864665 ATA A-A ATA ATA ATA ATA GTA A-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
864696 TTATTAAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 8 0.12
3 58 0.88
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:864693 original size:17 final size:18
Alignment explanation
Indices: 864619--864695 Score: 108
Period size: 17 Copynumber: 4.5 Consensus size: 18
864609 CCTGTTTGTT
864619 ATAATAATAATAATAATA
1 ATAATAATAATAATAATA
864637 ATAAT-ATAATAATAATA
1 ATAATAATAATAATAATA
*
864654 ATAAT-ATAACAATAA-A
1 ATAATAATAATAATAATA
*
864670 ATAATAATAATAGTAA-A
1 ATAATAATAATAATAATA
864687 ATAATAATA
1 ATAATAATA
864696 TTATTAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.11
17 44 0.80
18 5 0.09
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (18 bp):
ATAATAATAATAATAATA
Found at i:865289 original size:21 final size:21
Alignment explanation
Indices: 865258--865396 Score: 111
Period size: 21 Copynumber: 6.8 Consensus size: 21
865248 ATTTTTGTGC
865258 ATAGAGTATCGATACCCCTT-A
1 ATAG-GTATCGATACCCCTTGA
*
865279 TACAGGTATCGATACCCCCTTGA
1 -ATAGGTATCGATA-CCCCTTGA
865302 ATAGGTATCGATACCCCTTGA
1 ATAGGTATCGATACCCCTTGA
*
865323 ATAGGTATCGAT---CTTTGA
1 ATAGGTATCGATACCCCTTGA
865341 AT-GAGTATCGATACCCCCCTT--
1 ATAG-GTATCGATA--CCCCTTGA
*
865362 AT-GGTATCAATACCCCCTT--
1 ATAGGTATCGATA-CCCCTTGA
865381 AT-GGTATCGATACCCC
1 ATAGGTATCGATACCCC
865397 CTGTCAGGTT
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
17 1 0.01
18 19 0.18
19 18 0.17
20 8 0.08
21 32 0.31
22 21 0.20
23 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (21 bp):
ATAGGTATCGATACCCCTTGA
Done.