Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 79 of 199
Found at i:23802543 original size:49 final size:49
Alignment explanation
Indices: 23802450--23802545 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
23802440 ACTATTTAAT
* * *
23802450 ATTTTACCCTCCCGGATGGCCCAACAACGATAGTTTTTACAATTTTTAC
1 ATTTTACCATCCCGGATGGCCCAACAACGATAGTTTTCAAAATTTTTAC
* * *
23802499 ATTTTACCATCTCGGGTGGCCCATCAACGAT-GATTTTCAAAATTTTT
1 ATTTTACCATCCCGGATGGCCCAACAACGATAG-TTTTCAAAATTTTT
23802546 CTTATTCCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 1 0.03
49 39 0.98
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (49 bp):
ATTTTACCATCCCGGATGGCCCAACAACGATAGTTTTCAAAATTTTTAC
Found at i:23803182 original size:193 final size:193
Alignment explanation
Indices: 23802808--23803185 Score: 580
Period size: 192 Copynumber: 1.9 Consensus size: 193
23802798 ACTAAGACCA
*
23802808 ATTCACAGTTTCGACATTCAACACTGTCACACAATTCAATTCAATCCGATCCTCTATCTCGATAT
1 ATTCACAATTTCGACATTCAACACTGTCACACAATTCAATTCAATCCGA--C-CTATCTCGATAT
* * * *
23802873 CAATATCAATCACACCAATTCAATTCATACAATCATTATATACTCACCTCAATATTCAATGTGCA
63 CAATATCAATCACACCAATTCAATTCATACAACCATTATATACTCACCTCAACATTAAATATGCA
*
23802938 ATTAACATGTATATACAAACAATTAAATCGATCCCAAATCATAAAAGTACAAACCGATGGCTTGA
128 ATTAACATGTACATACAAACAATTAAATCGATCCCAAATCATAAAAGTACAAACCGATGGCTTGA
23803003 T
193 T
* ** *
23803004 ATTCACAATTTTGACATTCTGCACTGTCACACAATTTAATTCAATCC-A-CTATCTCGATATTCA
1 ATTCACAATTTCGACATTCAACACTGTCACACAATTCAATTCAATCCGACCTATCTCGATA-TCA
*
23803067 ATATCAATCACACCAGTTCAATTCATACAACCATTATATACTCACCTCAACATTAAATCATGCAA
65 ATATCAATCACACCAATTCAATTCATACAACCATTATATACTCACCTCAACATTAAAT-ATGCAA
* *
23803132 TTAACATGTACATGCAAACAATTAAATCGATTCCAAATCATAAAAGTACAAACC
129 TTAACATGTACATACAAACAATTAAATCGATCCCAAATCATAAAAGTACAAACC
23803186 AGGGTCTTGT
Statistics
Matches: 167, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
191 11 0.07
192 57 0.34
193 56 0.34
195 1 0.01
196 42 0.25
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.30
Consensus pattern (193 bp):
ATTCACAATTTCGACATTCAACACTGTCACACAATTCAATTCAATCCGACCTATCTCGATATCAA
TATCAATCACACCAATTCAATTCATACAACCATTATATACTCACCTCAACATTAAATATGCAATT
AACATGTACATACAAACAATTAAATCGATCCCAAATCATAAAAGTACAAACCGATGGCTTGAT
Found at i:23804163 original size:14 final size:14
Alignment explanation
Indices: 23804144--23804313 Score: 153
Period size: 14 Copynumber: 12.1 Consensus size: 14
23804134 GACATTCTGT
*
23804144 ATCTATGAATCCAC
1 ATCTATGAATCCGC
*
23804158 ATCTATGAATCCGT
1 ATCTATGAATCCGC
*
23804172 ATCTATGAATTCGC
1 ATCTATGAATCCGC
* *
23804186 ATATATGAATCCAC
1 ATCTATGAATCCGC
* *
23804200 ATCTATAAATCCAC
1 ATCTATGAATCCGC
* *
23804214 ATGTATGAATTCGC
1 ATCTATGAATCCGC
* * *
23804228 ATTTATAAATCTGC
1 ATCTATGAATCCGC
* *
23804242 ATGTATGAATCTGC
1 ATCTATGAATCCGC
*
23804256 ATCTATGAATCCAC
1 ATCTATGAATCCGC
* *
23804270 A-CGTATGGATCCGT
1 ATC-TATGAATCCGC
* *
23804284 ATCTATGAATTCAC
1 ATCTATGAATCCGC
23804298 ATCTATGAATCCGC
1 ATCTATGAATCCGC
23804312 AT
1 AT
23804314 GTGAGAGTTC
Statistics
Matches: 123, Mismatches: 31, Indels: 4
0.78 0.20 0.03
Matches are distributed among these distances:
13 1 0.01
14 121 0.98
15 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (14 bp):
ATCTATGAATCCGC
Found at i:23804173 original size:28 final size:28
Alignment explanation
Indices: 23804144--23804313 Score: 171
Period size: 28 Copynumber: 6.1 Consensus size: 28
23804134 GACATTCTGT
*
23804144 ATCTATGAATCCACATCTATGAATCCGT
1 ATCTATGAATCCACATCTATGAATCCGC
* * * *
23804172 ATCTATGAATTCGCATATATGAATCCAC
1 ATCTATGAATCCACATCTATGAATCCGC
* * *
23804200 ATCTATAAATCCACATGTATGAATTCGC
1 ATCTATGAATCCACATCTATGAATCCGC
* * ** * *
23804228 ATTTATAAATCTGCATGTATGAATCTGC
1 ATCTATGAATCCACATCTATGAATCCGC
* *
23804256 ATCTATGAATCCACA-CGTATGGATCCGT
1 ATCTATGAATCCACATC-TATGAATCCGC
*
23804284 ATCTATGAATTCACATCTATGAATCCGC
1 ATCTATGAATCCACATCTATGAATCCGC
23804312 AT
1 AT
23804314 GTGAGAGTTC
Statistics
Matches: 113, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
28 112 0.99
29 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (28 bp):
ATCTATGAATCCACATCTATGAATCCGC
Found at i:23805175 original size:14 final size:15
Alignment explanation
Indices: 23805156--23805185 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23805146 TAATTCAATG
23805156 TTTA-TTTAAAATTT
1 TTTATTTTAAAATTT
23805170 TTTATTTTAAAATTT
1 TTTATTTTAAAATTT
23805185 T
1 T
23805186 ACGTGCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTATTTTAAAATTT
Found at i:23814805 original size:16 final size:16
Alignment explanation
Indices: 23814781--23814811 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23814771 AAATACCTCA
23814781 GTTTAGGTCAATTTTC
1 GTTTAGGTCAATTTTC
*
23814797 GTTTTGGTCAATTTT
1 GTTTAGGTCAATTTT
23814812 TTTTACTCAA
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:0.16, C:0.10, G:0.19, T:0.55
Consensus pattern (16 bp):
GTTTAGGTCAATTTTC
Found at i:23817556 original size:19 final size:20
Alignment explanation
Indices: 23817519--23817556 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23817509 TTTCATTCTA
**
23817519 TTTTTTTATCATTTCTTGGT
1 TTTTTTTATCATTGATTGGT
23817539 TTTTTTTATC-TTGATTGG
1 TTTTTTTATCATTGATTGG
23817557 GTTTATAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.11, C:0.08, G:0.13, T:0.68
Consensus pattern (20 bp):
TTTTTTTATCATTGATTGGT
Found at i:23820149 original size:44 final size:44
Alignment explanation
Indices: 23820086--23820175 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
23820076 AGTTTTAGAG
23820086 TAAGAATTTGATGTTGTCATAGAAGGAAACAATGTTCATCATGT
1 TAAGAATTTGATGTTGTCATAGAAGGAAACAATGTTCATCATGT
23820130 TAAGAATTTGATGTTGTCATAGAAGGAAACAATGTTCATCATGT
1 TAAGAATTTGATGTTGTCATAGAAGGAAACAATGTTCATCATGT
23820174 TA
1 TA
23820176 TTAAACATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (44 bp):
TAAGAATTTGATGTTGTCATAGAAGGAAACAATGTTCATCATGT
Found at i:23820171 original size:22 final size:22
Alignment explanation
Indices: 23820102--23820171 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
23820092 TTTGATGTTG
23820102 TCATAGAAGGAAACAATGTTCA
1 TCATAGAAGGAAACAATGTTCA
*** *
23820124 TCAT-GTTAA-GAATTTGATGTT-G
1 TCATAG--AAGGAA-ACAATGTTCA
23820146 TCATAGAAGGAAACAATGTTCA
1 TCATAGAAGGAAACAATGTTCA
23820168 TCAT
1 TCAT
23820172 GTTATTAAAC
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
21 8 0.24
22 18 0.53
23 8 0.24
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (22 bp):
TCATAGAAGGAAACAATGTTCA
Found at i:23820264 original size:30 final size:30
Alignment explanation
Indices: 23820218--23820275 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
23820208 TTCGAGCTTT
23820218 GGGGAAAAAGTGTAATTATGTAAAAGTTTA
1 GGGGAAAAAGTGTAATTATGTAAAAGTTTA
* * *
23820248 GGGGCAAAATTGTAATTTTGTAAAAGTT
1 GGGGAAAAAGTGTAATTATGTAAAAGTT
23820276 AGATTCAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.26, T:0.33
Consensus pattern (30 bp):
GGGGAAAAAGTGTAATTATGTAAAAGTTTA
Found at i:23820745 original size:50 final size:50
Alignment explanation
Indices: 23820617--23820908 Score: 255
Period size: 50 Copynumber: 5.7 Consensus size: 50
23820607 GGGAATGCGA
*
23820617 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* * * * *
23820673 TCCTAGGTAAGACCATGCCTGGGACATGGCGTTGGCACCGGGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * **
23820723 TCCAATGTAAGACCATGTCTGGGACATGGCGTTGGCACTAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * **
23820773 TCCCCTGTAAGACCATGTCTGGGACATAGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * ** * **
23820823 TCCCATGTAAGACCATATCTGAGATATGACATTGGCA--GTACAACAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
* *
23820872 TCCCATGTAAGACCATGTCTGGGATATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
23820909 TGTTATTATC
Statistics
Matches: 196, Mismatches: 39, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
48 1 0.01
49 37 0.19
50 122 0.62
53 2 0.01
55 1 0.01
56 33 0.17
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:23822965 original size:24 final size:24
Alignment explanation
Indices: 23822933--23822982 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
23822923 TGTTATTGAG
23822933 TATGAACGTGAATTTTTTAGACTC
1 TATGAACGTGAATTTTTTAGACTC
23822957 TATGAACGTGAATTTTTTAGACTC
1 TATGAACGTGAATTTTTTAGACTC
23822981 TA
1 TA
23822983 CAAGTGTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (24 bp):
TATGAACGTGAATTTTTTAGACTC
Found at i:23827020 original size:50 final size:50
Alignment explanation
Indices: 23826965--23827143 Score: 241
Period size: 50 Copynumber: 3.6 Consensus size: 50
23826955 CATTGAGATT
* * *
23826965 ATGAGAGGTCCTAGGTAAGACCATGTCTGGGACATGGCGTTGGCACCGGG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
*
23827015 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * * * *
23827065 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATAGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * *
23827115 ATGAGAACTCCCATGTAAGACCATATCTG
1 ATGAGAGGTCCCACGTAAGACCATGTCTG
23827144 AGATATGACA
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 115 1.00
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:23827096 original size:100 final size:103
Alignment explanation
Indices: 23826917--23827143 Score: 271
Period size: 100 Copynumber: 2.2 Consensus size: 103
23826907 GGGAATGAGA
* * * *
23826917 TCCCATGTAAGACCATGTTTGGGACATGGCATGGGCATCATTGAGATTATGAGAGGTCCTAGGTA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCA-CGAG--TATGAGAGGTCCCACGTA
* * * * **
23826982 AGACCATGTCTGGGACATGGCGTTGGCACCGGGATGAGAGG
63 AGACCATGTCTGGGACATAGCATGGGCACCGAGATGAGAAC
* * *
23827023 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CGAG-ATGAGAGGTCCCCCGTAAGA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCACGAGTATGAGAGGTCCCACGTAAGA
*
23827085 CCATGTCTGGGACATAGCATGGGCACCGATATGAGAAC
66 CCATGTCTGGGACATAGCATGGGCACCGAGATGAGAAC
*
23827123 TCCCATGTAAGACCATATCTG
1 TCCCATGTAAGACCATGTCTG
23827144 AGATATGACA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
100 68 0.64
103 3 0.03
105 1 0.01
106 34 0.32
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (103 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCACGAGTATGAGAGGTCCCACGTAAGA
CCATGTCTGGGACATAGCATGGGCACCGAGATGAGAAC
Found at i:23840472 original size:24 final size:24
Alignment explanation
Indices: 23840445--23840497 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
23840435 AGAAATATTA
23840445 AATAAAACTAAAAAAGATAA-ATAT
1 AATAAAACTAAAAAAGATAATA-AT
* * *
23840469 AATAAAAGTAATAATGATAATAAT
1 AATAAAACTAAAAAAGATAATAAT
23840493 AATAA
1 AATAA
23840498 TAGTAGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.25
Consensus pattern (24 bp):
AATAAAACTAAAAAAGATAATAAT
Found at i:23840548 original size:13 final size:13
Alignment explanation
Indices: 23840530--23840554 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23840520 AGATTATATA
23840530 AAATAAAATAAAC
1 AAATAAAATAAAC
23840543 AAATAAAATAAA
1 AAATAAAATAAA
23840555 TGTATTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATAAAATAAAC
Found at i:23841360 original size:19 final size:20
Alignment explanation
Indices: 23841336--23841375 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23841326 AAATTTCGAA
23841336 ATGAAA-AAAAGAAAAAAAT
1 ATGAAATAAAAGAAAAAAAT
* *
23841355 ATGAAATAGAATAAAAAAAT
1 ATGAAATAAAAGAAAAAAAT
23841375 A
1 A
23841376 AAATGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (20 bp):
ATGAAATAAAAGAAAAAAAT
Found at i:23841365 original size:17 final size:17
Alignment explanation
Indices: 23841340--23841389 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
23841330 TTCGAAATGA
* *
23841340 AAAAAAGAAAAAAATAT
1 AAAATAGAAAAAAAAAT
*
23841357 GAAATAGAATAAAAAAAT
1 AAAATAGAA-AAAAAAAT
23841375 AAAAT-GAAAAAAAAA
1 AAAATAGAAAAAAAAA
23841390 CTTAAAGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 7 0.25
17 10 0.36
18 11 0.39
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (17 bp):
AAAATAGAAAAAAAAAT
Found at i:23841379 original size:18 final size:17
Alignment explanation
Indices: 23841347--23841389 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 17
23841337 TGAAAAAAAG
23841347 AAAAAAATATGAAATAGAA
1 AAAAAAATA-GAAAT-GAA
23841366 TAAAAAAATA-AAATGAA
1 -AAAAAAATAGAAATGAA
23841383 AAAAAAA
1 AAAAAAA
23841390 CTTAAAGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.30
17 3 0.13
18 4 0.17
20 9 0.39
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (17 bp):
AAAAAAATAGAAATGAA
Found at i:23842323 original size:44 final size:44
Alignment explanation
Indices: 23842275--23842394 Score: 154
Period size: 44 Copynumber: 2.7 Consensus size: 44
23842265 TCATCGTTTT
* *
23842275 AATTTGCTCCACTGCTACTTCAGGGAGATATGATTAATA-GCTTC
1 AATTTGCTCCACTGCAACTTCAGGGAGATAAGATTAATATG-TTC
**
23842319 AATTTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATGTTC
1 AATTTGCTCCACTGCAACTTCAGGGAGATAAGATTAATATGTTC
* *
23842363 AACCTAG-TCCACTGCAACTTCAGGGAGATAAG
1 AA-TTTGCTCCACTGCAACTTCAGGGAGATAAG
23842395 GTTTGTTATC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
44 65 0.96
45 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
AATTTGCTCCACTGCAACTTCAGGGAGATAAGATTAATATGTTC
Found at i:23842530 original size:36 final size:36
Alignment explanation
Indices: 23842479--23842553 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
23842469 TGTTCCACTG
* * *
23842479 TAACGCCAGGGAGATAAGATTCACTGTCTTCAGCTT
1 TAACGCCAGGAAGATAAGATTCACTGCCTTCAACTT
*
23842515 TAACGCCAGGAAGATAAGATTCGCTGCCTTCAACTT
1 TAACGCCAGGAAGATAAGATTCACTGCCTTCAACTT
23842551 TAA
1 TAA
23842554 TCTGCTCCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (36 bp):
TAACGCCAGGAAGATAAGATTCACTGCCTTCAACTT
Found at i:23842581 original size:138 final size:135
Alignment explanation
Indices: 23842415--23843260 Score: 713
Period size: 138 Copynumber: 6.5 Consensus size: 135
23842405 TTCAGTCTTG
* * * *
23842415 ATCTGCTCCGCTACAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
1 ATCTGCTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * *
23842480 AACGCCAGGGAGATAAGATTCACTGTCTTCAGCTTTAACGCCAGGAAGATAAGATTCGCTGCCTT
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAA-GCCAGG-AGATAAGATTC-CTGCCTT
*
23842545 CAACTTTA
128 CAGCTTTA
* *
23842553 ATCTGCTCCACTGCAATGCTAGGGAAACAAGATTTGCAACCTTTAGCTTTAATCTGTTCCACTGT
1 ATCTGCTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * * *
23842618 AACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCC----------ACTCC--ACTTCAG
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAAGCCAGGAGATAAGATTCCTGCCTTCAG
23842671 CTTTA
131 CTTTA
* ** * * * * * *
23842676 ATATATTCTACTGCAAAGCTAGGGAAACAAAATTCGCTACCTTTAGTTTTAATCTGTTTCACTGC
1 ATCTGCTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * * **
23842741 AAAGCC-AGAGAAACAAGATTCTCTATCTTCAGCTTTAATGCCAGGGAGATAAGATTCACTGCCT
66 AACGCCAAG-GAGATAAGATTCGCTGCCTTCAGCTTTAA-GCCA-GGAGATAAGATTC-CTGCCT
23842805 TCAGCTTTA
127 TCAGCTTTA
* * * * * *
23842814 ATCTGCTACGCTGCAATGCTAAGGAAACAAGATTCGCCACCTTTAGCTTTAACCTATTCCACTGT
1 ATCTGCTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * * * * *
23842879 AACGCCAATGAGATAGGATCCGCTGCCTTCAGCTTTAATCC---------G-CTCC--ACTTCAA
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAAGCCAGGAGATAAGATTCCTGCCTTCAG
23842932 CTTTA
131 CTTTA
** * * *
23842937 ATCTATTCCACTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAACTTTAATCTGTTCCACTGC
1 ATCTGCTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * ** * * *
23843002 AAAGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAATTCCAGGGAGATAAAATTCGCTACCTT
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAA-GCCA-GGAGATAAGATTC-CTGCCTT
*
23843067 TAGCTTTA
128 CAGCTTTA
* * * *
23843075 ATCTGCTCCGCTGCAATGCCAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTGCACTGT
1 ATCTGCTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * * *
23843140 AACGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCC---------G-CTCC--ACTTCAG
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAAGCCAGGAGATAAGATTCCTGCCTTCAG
23843193 CTTTA
131 CTTTA
** * *
23843198 ATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACT
1 ATCTGCTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACT
23843261 ACAAAGCCAG
Statistics
Matches: 563, Mismatches: 113, Indels: 79
0.75 0.15 0.10
Matches are distributed among these distances:
122 2 0.00
123 252 0.45
124 5 0.01
125 3 0.01
126 7 0.01
127 1 0.00
135 5 0.01
136 2 0.00
137 7 0.01
138 278 0.49
139 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (135 bp):
ATCTGCTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAAGCCAGGAGATAAGATTCCTGCCTTCAG
CTTTA
Found at i:23842601 original size:87 final size:87
Alignment explanation
Indices: 23842429--23842604 Score: 192
Period size: 87 Copynumber: 2.0 Consensus size: 87
23842419 GCTCCGCTAC
* * * * * *
23842429 AACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAACGCCAGGGAGAT
1 AACGCCAGGGAAACAAGATTCGCTACCTTCAACTTTAATCTGCTCCACTGCAACGCCAGGGAAAC
***
23842494 AAGATTCACTGTCTTCAGCTTT
66 AAGATTCACAACCTTCAGCTTT
* * * *
23842516 AACGCCA-GGAAGATAAGATTCGCTGCCTTCAACTTTAATCTGCTCCACTGCAATGCTAGGGAAA
1 AACGCCAGGGAA-ACAAGATTCGCTACCTTCAACTTTAATCTGCTCCACTGCAACGCCAGGGAAA
** *
23842580 CAAGATTTGCAACCTTTAGCTTT
65 CAAGATTCACAACCTTCAGCTTT
23842603 AA
1 AA
23842605 TCTGTTCCAC
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
86 4 0.06
87 68 0.94
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (87 bp):
AACGCCAGGGAAACAAGATTCGCTACCTTCAACTTTAATCTGCTCCACTGCAACGCCAGGGAAAC
AAGATTCACAACCTTCAGCTTT
Found at i:23842652 original size:51 final size:51
Alignment explanation
Indices: 23842526--23842666 Score: 138
Period size: 51 Copynumber: 2.8 Consensus size: 51
23842516 AACGCCAGGA
* ** * *
23842526 AGATAAGATTCGCTGCCTTCAACTTTAATCTGCTCCACTGCAATGCTAGGG
1 AGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACACCAAGG
* * * ** * * *
23842577 AAACAAGATTTGCAACCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGG
1 AGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACACCAAGG
* **
23842628 AGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACT
1 AGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
23842667 TCAGCTTTAA
Statistics
Matches: 67, Mismatches: 23, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (51 bp):
AGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACACCAAGG
Found at i:23842761 original size:123 final size:123
Alignment explanation
Indices: 23842542--23843284 Score: 646
Period size: 123 Copynumber: 5.8 Consensus size: 123
23842532 GATTCGCTGC
* ** * *
23842542 CTTCAACTTTAATCTGCTCCACTGCAATGCTAGGGAAACAAGATTTGCAACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
* * * *
23842607 TGTTCCACTGTAACA-CCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCA
66 TGTTCCACTGCAA-AGCCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATCCACTCCA
* * * * *
23842665 CTTCAGCTTTAATATATTCTACTGCAAAGCTAGGGAAACAAAATTCGCTACCTTTAGTTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
* * * *
23842730 TGTTTCACTGCAAAGCC-AGAGAAACAAGATTCTCTATCTTCAGCTTTAATGCCAGGGAGATAAG
66 TGTTCCACTGCAAAGCCAAG-GAAATAAGATTCGCTACCTTCAGCTTTAAT-CC-----------
* *
23842794 ATTCACTGC
118 ACTC-C--A
** * * * * *
23842803 CTTCAGCTTTAATCTGCTACGCTGCAATGCTAAGGAAACAAGATTCGCCACCTTTAGCTTTAACC
1 CTTCAGCTTTAATCTATTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
* * * * * * * * *
23842868 TATTCCACTGTAACGCCAATGAGATAGGATCCGCTGCCTTCAGCTTTAATCCGCTCCA
66 TGTTCCACTGCAAAGCCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATCCACTCCA
* * *
23842926 CTTCAACTTTAATCTATTCCACTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAACTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
* *
23842991 TGTTCCACTGCAAAGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAATTCCAGGGAGATAAAA
66 TGTTCCACTGCAAAGCCAAGGAAATAAGATTCGCTACCTTCAGCTTTAA-TCC-----------A
*
23843056 TTCGCTA
119 CTC-C-A
* ** * * *
23843063 CCTTTAGCTTTAATCTGCTCCGCTGCAATGCCAGAGAAACAAGATTCGCTACCTTTAGCTTTAAT
1 -CTTCAGCTTTAATCTATTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAAT
* * * * * *
23843128 CTGTTGCACTGTAACGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCTCCA
65 CTGTTCCACTGCAAAGCCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATCCACTCCA
* *
23843187 CTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
* *
23843252 TGTTCCACTACAAAGCC-AGAGAAATAAAATTCG
66 TGTTCCACTGCAAAGCCAAG-GAAATAAGATTCG
23843285 TTGTCTTCAG
Statistics
Matches: 486, Mismatches: 100, Indels: 68
0.74 0.15 0.10
Matches are distributed among these distances:
122 5 0.01
123 268 0.55
124 6 0.01
125 2 0.00
126 4 0.01
135 5 0.01
136 2 0.00
137 6 0.01
138 187 0.38
139 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (123 bp):
CTTCAGCTTTAATCTATTCCACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
TGTTCCACTGCAAAGCCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATCCACTCCA
Found at i:23842921 original size:20 final size:21
Alignment explanation
Indices: 23842896--23842939 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
23842886 ATGAGATAGG
* *
23842896 ATCCGCTGC-CTTCAGCTTTA
1 ATCCGCTCCACTTCAACTTTA
23842916 ATCCGCTCCACTTCAACTTTA
1 ATCCGCTCCACTTCAACTTTA
23842937 ATC
1 ATC
23842940 TATTCCACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.20, C:0.36, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCCGCTCCACTTCAACTTTA
Found at i:23843012 original size:51 final size:51
Alignment explanation
Indices: 23842926--23843040 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 51
23842916 ATCCGCTCCA
* *
23842926 CTTCAACTTTAATCTATTCCACTGCAACGCTAGGGAAACAAGATTCGCTAC
1 CTTCAACTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTAC
* * * *
23842977 CTTTAACTTTAATCTGTTCCACTGCAAAGCCAGGGAAATAAGATTCGCTAT
1 CTTCAACTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTAC
*
23843028 CTTCAGCTTTAAT
1 CTTCAACTTTAAT
23843041 TCCAGGGAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (51 bp):
CTTCAACTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTAC
Found at i:23843059 original size:36 final size:36
Alignment explanation
Indices: 23843006--23843076 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
23842996 CACTGCAAAG
* *
23843006 CCAGGGAAATAAGATTCGCTATCTTCAGCTTTAATT
1 CCAGGGAAATAAAATTCGCTACCTTCAGCTTTAATT
* *
23843042 CCAGGGAGATAAAATTCGCTACCTTTAGCTTTAAT
1 CCAGGGAAATAAAATTCGCTACCTTCAGCTTTAAT
23843077 CTGCTCCGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (36 bp):
CCAGGGAAATAAAATTCGCTACCTTCAGCTTTAATT
Found at i:23843107 original size:87 final size:87
Alignment explanation
Indices: 23842968--23843127 Score: 248
Period size: 87 Copynumber: 1.8 Consensus size: 87
23842958 GGGAAACAAG
* * * *
23842968 ATTCGCTACCTTTAACTTTAATCTGTTCCACTGCAAAGCCAGGGAAATAAGATTCGCTATCTTCA
1 ATTCGCTACCTTTAACTTTAATCTGCTCCACTGCAAAGCCAGAGAAACAAGATTCGCTACCTTCA
23843033 GCTTTAATTCCAGGGAGATAAA
66 GCTTTAATTCCAGGGAGATAAA
* * * *
23843055 ATTCGCTACCTTTAGCTTTAATCTGCTCCGCTGCAATGCCAGAGAAACAAGATTCGCTACCTTTA
1 ATTCGCTACCTTTAACTTTAATCTGCTCCACTGCAAAGCCAGAGAAACAAGATTCGCTACCTTCA
23843120 GCTTTAAT
66 GCTTTAAT
23843128 CTGTTGCACT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 65 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (87 bp):
ATTCGCTACCTTTAACTTTAATCTGCTCCACTGCAAAGCCAGAGAAACAAGATTCGCTACCTTCA
GCTTTAATTCCAGGGAGATAAA
Found at i:23843160 original size:51 final size:50
Alignment explanation
Indices: 23843046--23843188 Score: 169
Period size: 51 Copynumber: 2.8 Consensus size: 50
23843036 TTAATTCCAG
* * *
23843046 GGAGATAAAATTCGCTACCTTTAGCTTTAATCTGCTCCGCTGCAATGCCA
1 GGAGATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCACTGCAACGCCA
* * * * *
23843096 GAGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTGCACTGTAACGCCAA
1 G-GAGATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCACTGCAACGCC-A
* * *
23843148 GGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCTCCACT
1 GGAGATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCACT
23843189 TCAGCTTTAA
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
50 1 0.01
51 73 0.96
52 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (50 bp):
GGAGATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCACTGCAACGCCA
Found at i:23843207 original size:21 final size:21
Alignment explanation
Indices: 23843166--23843209 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
23843156 GATTCGCTAC
*
23843166 CTTCAGCTTTAATCCGCTCCA
1 CTTCAGCTTTAATCCACTCCA
* *
23843187 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCCACTCCA
23843208 CT
1 CT
23843210 GCAACGCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (21 bp):
CTTCAGCTTTAATCCACTCCA
Found at i:23843236 original size:72 final size:72
Alignment explanation
Indices: 23843119--23843260 Score: 194
Period size: 72 Copynumber: 2.0 Consensus size: 72
23843109 CGCTACCTTT
* * * * * *
23843119 AGCTTTAATCTGTTGCACTGTAACGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCT
1 AGCTTTAATCTATTCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTCAGCTTTAATCCGCT
23843184 CCACTTC
66 CCACTTC
* * * *
23843191 AGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTT
1 AGCTTTAATCTATTCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTCAGCTTTAATCCGCT
23843256 CCACT
66 CCACT
23843261 ACAAAGCCAG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (72 bp):
AGCTTTAATCTATTCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTCAGCTTTAATCCGCT
CCACTTC
Found at i:23843294 original size:261 final size:261
Alignment explanation
Indices: 23842428--23843296 Score: 1308
Period size: 261 Copynumber: 3.3 Consensus size: 261
23842418 TGCTCCGCTA
* * * *
23842428 CAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAACGCCAGGGAGA
1 CAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGAGAAA
* * * * *
23842493 TAAGATTCACTGTCTTCAGCTTTAACGCCAGGAAGATAAGATTCGCTGCCTTCAACTTTAATCTG
66 TAAGATTCGCTATCTTCAGCTTTAATGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTG
* * * *
23842558 CTCCACTGCAATGCTAGGGAAACAAGATTTGCAACCTTTAGCTTTAATCTGTTCCACTGTAACAC
131 CTCCGCTGCAATGCTAGAGAAACAAGATTCGCAACCTTTAGCTTTAATCTGTTCCACTGTAACGC
* * *
23842623 CAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACTTCAGCTTTAATATATTCTACT
196 CAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACT
23842688 G
261 G
* * * * *
23842689 CAAAGCTAGGGAAACAAAATTCGCTACCTTTAGTTTTAATCTGTTTCACTGCAAAGCCAGAGAAA
1 CAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGAGAAA
* * *
23842754 CAAGATTCTCTATCTTCAGCTTTAATGCCAGGGAGATAAGATTCACTGCCTTCAGCTTTAATCTG
66 TAAGATTCGCTATCTTCAGCTTTAATGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTG
* * * *
23842819 CTACGCTGCAATGCTA-AGGAAACAAGATTCGCCACCTTTAGCTTTAACCTATTCCACTGTAACG
131 CTCCGCTGCAATGCTAGA-GAAACAAGATTCGCAACCTTTAGCTTTAATCTGTTCCACTGTAACG
* * *
23842883 CCAATGAGATAGGATCCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAACTTTAATCTATTCCAC
195 CCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCAC
23842948 TG
260 TG
* * *
23842950 CAACGCTAGGGAAACAAGATTCGCTACCTTTAACTTTAATCTGTTCCACTGCAAAGCCAGGGAAA
1 CAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGAGAAA
* * * *
23843015 TAAGATTCGCTATCTTCAGCTTTAATTCCAGGGAGATAAAATTCGCTACCTTTAGCTTTAATCTG
66 TAAGATTCGCTATCTTCAGCTTTAATGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTG
* * *
23843080 CTCCGCTGCAATGCCAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTGCACTGTAACGC
131 CTCCGCTGCAATGCTAGAGAAACAAGATTCGCAACCTTTAGCTTTAATCTGTTCCACTGTAACGC
*
23843145 CAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACT
196 CAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACT
23843210 G
261 G
*
23843211 CAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAGAAA
1 CAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGAGAAA
* * *
23843276 TAAAATTCGTTGTCTTCAGCT
66 TAAGATTCGCTATCTTCAGCT
23843297 GCTCCACTGC
Statistics
Matches: 546, Mismatches: 60, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
261 545 1.00
262 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (261 bp):
CAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGAGAAA
TAAGATTCGCTATCTTCAGCTTTAATGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTG
CTCCGCTGCAATGCTAGAGAAACAAGATTCGCAACCTTTAGCTTTAATCTGTTCCACTGTAACGC
CAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACT
G
Found at i:23844628 original size:5 final size:5
Alignment explanation
Indices: 23844618--23844661 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
23844608 GGTCTCTCCT
*
23844618 TTTTC TTTTC TTTTC TTTT- TTTTC TTCTC TTTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTT
23844662 TTCATCATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.11
5 27 0.77
6 4 0.11
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:23846366 original size:3 final size:3
Alignment explanation
Indices: 23846350--23846391 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
23846340 AAAGATAAAT
* * *
23846350 ATA ATA ACA GTA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23846392 GTAGAAATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:23846510 original size:4 final size:4
Alignment explanation
Indices: 23846501--23846526 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
23846491 TTTTTGTAAT
23846501 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
23846527 AACAATTATA
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:23848370 original size:12 final size:12
Alignment explanation
Indices: 23848353--23848395 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
23848343 CCTGCATTTT
*
23848353 ATTTTTATATCA
1 ATTTTTATATAA
*
23848365 ATTTTTTTATAA
1 ATTTTTATATAA
*
23848377 ATTTTTTAAATAA
1 A-TTTTTATATAA
23848390 ATTTTT
1 ATTTTT
23848396 TCACTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
ATTTTTATATAA
Found at i:23848382 original size:13 final size:13
Alignment explanation
Indices: 23848354--23848396 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
23848344 CTGCATTTTA
* *
23848354 TTTTTATATCAAT
1 TTTTTAAATAAAT
*
23848367 TTTTT-TATAAAT
1 TTTTTAAATAAAT
23848379 TTTTTAAATAAAT
1 TTTTTAAATAAAT
23848392 TTTTT
1 TTTTT
23848397 CACTTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTTAAATAAAT
Found at i:23859150 original size:22 final size:21
Alignment explanation
Indices: 23859108--23859152 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
23859098 AAGTTTGAGT
*
23859108 GAGAAATTAAGAGGGAATTGA
1 GAGAAATTAAGAGAGAATTGA
* *
23859129 GAGAAATTTGAGAGAGATTTGA
1 GAGAAA-TTAAGAGAGAATTGA
23859151 GA
1 GA
23859153 TTGTGAGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (21 bp):
GAGAAATTAAGAGAGAATTGA
Found at i:23859161 original size:19 final size:19
Alignment explanation
Indices: 23859137--23859174 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23859127 GAGAGAAATT
*
23859137 TGAGAGAGATTTGAGATTG
1 TGAGAGAGAGTTGAGATTG
23859156 TGAGAGAGAGTTGAGATTG
1 TGAGAGAGAGTTGAGATTG
23859175 AATTGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.29
Consensus pattern (19 bp):
TGAGAGAGAGTTGAGATTG
Found at i:23860066 original size:2 final size:2
Alignment explanation
Indices: 23860059--23860091 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23860049 GAATGTTACA
23860059 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 A
23860092 AAGAATTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23860663 original size:9 final size:9
Alignment explanation
Indices: 23860643--23860709 Score: 91
Period size: 9 Copynumber: 7.4 Consensus size: 9
23860633 TTTGGTTAAA
*
23860643 AATTCACCG
1 AATTAACCG
*
23860652 AATTAACTG
1 AATTAACCG
23860661 AATTAACCG
1 AATTAACCG
*
23860670 AATTATCCG
1 AATTAACCG
23860679 AATTAACCG
1 AATTAACCG
23860688 AATT-ACCTG
1 AATTAACC-G
23860697 AATTAACCG
1 AATTAACCG
23860706 AATT
1 AATT
23860710 GAATCACTGC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
8 3 0.06
9 45 0.88
10 3 0.06
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:23862321 original size:7 final size:7
Alignment explanation
Indices: 23862311--23862337 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
23862301 AAATTTTGAA
23862311 GAAAATT
1 GAAAATT
23862318 GAAAATT
1 GAAAATT
23862325 GAAAATT
1 GAAAATT
23862332 GAAAAT
1 GAAAAT
23862338 AAATTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GAAAATT
Found at i:23862377 original size:24 final size:24
Alignment explanation
Indices: 23862340--23862393 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 24
23862330 TTGAAAATAA
23862340 ATTAT-AAAATTCAATATATATAT
1 ATTATAAAAATTCAATATATATAT
23862363 ATTATAAAAATTCAATATATATAT
1 ATTATAAAAATTCAATATATATAT
23862387 ATATATA
1 AT-TATA
23862394 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 5 0.17
24 20 0.69
25 4 0.14
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTATAAAAATTCAATATATATAT
Found at i:23862382 original size:2 final size:2
Alignment explanation
Indices: 23862377--23862404 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23862367 TAAAAATTCA
23862377 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
23862405 TTAAAAGTAG
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:23868666 original size:52 final size:51
Alignment explanation
Indices: 23868582--23868720 Score: 180
Period size: 52 Copynumber: 2.7 Consensus size: 51
23868572 TCAGATAAGG
** *
23868582 AAATAGAATTTAATTA--TTATTTAAAAGAGTTTTAGGTAAATAG-TAATT
1 AAATAGAATTTAATTATTTTATTTAAAAGAGTTTTAAATAAAAAGATAATT
23868630 AGAATAGAATTTAATTATTGTTATTTAAAAGAGTTTTAAATAAAAAGATAATT
1 A-AATAGAATTTAATTATT-TTATTTAAAAGAGTTTTAAATAAAAAGATAATT
23868683 AAATAGAATTTAA--ATTATTATTTAAAAGAGGTTTTAAA
1 AAATAGAATTTAATTATT-TTATTTAAAAGA-GTTTTAAA
23868721 ATTCAAGATA
Statistics
Matches: 81, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
48 1 0.01
49 15 0.19
50 15 0.19
51 8 0.10
52 36 0.44
53 6 0.07
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (51 bp):
AAATAGAATTTAATTATTTTATTTAAAAGAGTTTTAAATAAAAAGATAATT
Found at i:23873924 original size:664 final size:661
Alignment explanation
Indices: 23872642--23873977 Score: 1826
Period size: 664 Copynumber: 2.0 Consensus size: 661
23872632 TAATTTCAAC
* *
23872642 GTATTTATTAATAATTCTTTCAAAAATCGTGGGCAATTAAGAAGGCAAAGTTTGAAACACTTGAC
1 GTATTTATTAATAATTCTTTCAAAAATCGTAGGCAATTAAGAAGGCAAAGTTTGAAACACTTAAC
* * * *
23872707 ACGTGTAGTGTTAAATTATACTATGTAAGTTAAGTTATATACATGTGAGAAATGAGTTCTGATGG
66 AC--GTA-TGTTAAATTACACTATGTAAGTAAAGTTATATACATGTGAGAAATGAGTTCTAAGGG
* *
23872772 GGTTCTTCTTTCTTCTTCCTCTTCCTTAAGTGGTATTTACTAAAATCTTCCTTAAGTCTAAATGT
128 GGTTCTTCTTTCTTCTTCCTCTTCCTTAAGTGGTATTTACTAAAATCTTCCTTAAGCCGAAATGT
* * * **
23872837 ATCCTACATCGATGATCTAGAGGCCATGGTTCTTTTATGATTAGTAGTTACTTTACACCAGGCTA
193 ATCCTACATCGATGAGCTAGAGGCAATGGTTCTTTTATGATCAGTAGTTACTTTACACCAGAATA
* * * * * **
23872902 AGTATTTTGCCTCTGCATGTTAAATACTGAATAAGCAAATATGTATTAGGTAATTTGACAGTGAG
258 AGTATTTAGCCTCTGCATATTAAATACTGAATAAGCAAATATATATTACGTAATTGGACAGCAAG
* * ** * *
23872967 ATTGTAAGTATAGGGTTTTTGAGGATTGTCAATGATTGAAATGATAAGTAATTTGTATGTACAAA
323 ACTGTAAGTATAAGGTTTTACAGGATTGTCAAGGATTGAAATGATAAGTAATCTGTATGTACAAA
* * *
23873032 TTATTAATGGTGAAATTATGTTTCTAAGCAGTTGTTGCTACTGATTCATGATGATATCTGGATCT
388 GTATTAATGCTGAAATTATGTTTCTAAGCAGTGGTTGCTACTGATTCATGATGATATCTGGATCT
* * * * **
23873097 GGAGTTTTGAATTGTAGTAGGTGAGAATCAGGTGAATTCCTATGCTGACTCATGCAAGTATATTG
453 AGAGCTTTAAACTACAGTAGGTGAGAATCAGGTGAATTCCTATGCTGACTCATGCAAGTATATTG
* * * *
23873162 TTTATACTGAAGCACATCTGTAGGAAAATTGATTAAACTATGAATCAGAAACCATGAAAAGTATA
518 TTTATACCGAAGCACATCTATAAGAAAATTGATCAAACTATGAATCAGAAACCATGAAAAGTATA
* *
23873227 GTATGAAAATGATATGTATGTGACTACATGAATGATTTCTAAAGAAAATTTATGAGCATATGAAT
583 GTATGAAAATAATATGTATGTGACTACATGAATGATTTCTAAAGAAAATCTATGAGCATATGAAT
23873292 GTTTGTTGAAGATA
648 GTTTGTTGAAGATA
* * *
23873306 GTATTTATTAATAATTCTCTTGAAAACT-GTAGGCCATTAAGAAGGC-AAGTTATGAAACACTTA
1 GTATTTATTAATAATTCT-TTCAAAAATCGTAGGCAATTAAGAAGGCAAAGTT-TGAAACACTTA
** *
23873369 ACAC-T-TGTTAAATTACACTATGTAAGTAAAGTTATATATGTGTGAGAGATGAGTTCTAAGGGG
64 ACACGTATGTTAAATTACACTATGTAAGTAAAGTTATATACATGTGAGAAATGAGTTCTAAGGGG
* * *
23873432 GTTCTTCTTTCTTTTTCCTCTTCCTTAAGTGGTATTTACTGAAATCTTCCTTAAGCCGGAATGTA
129 GTTCTTCTTTCTTCTTCCTCTTCCTTAAGTGGTATTTACTAAAATCTTCCTTAAGCCGAAATGTA
* * *
23873497 TTCTACATC-AGTGAGCTAGAGGCAATGGTTCTTTTATGATCAGTAGTTACTTTGCATCAGAATA
194 TCCTACATCGA-TGAGCTAGAGGCAATGGTTCTTTTATGATCAGTAGTTACTTTACACCAGAATA
* * *
23873561 AGTATTTCAG-CTCTGCATATTAAGTACTGAATGAA-CAAATCTATATTTCGTAATTGGACAGCA
258 AGTATTT-AGCCTCTGCATATTAAATACTGAAT-AAGCAAATATATATTACGTAATTGGACAGCA
*
23873624 AGACTGTAAGTTTAAGGTTTCTACATGGAATTGTCAAGGATTGAAATGATAAGTAATCTGTATGT
321 AGACTGTAAGTATAAGGTTT-TACA-GG-ATTGTCAAGGATTGAAATGATAAGTAATCTGTATGT
** * * * * *
23873689 ACAAGAGTATTAATGCTGAAATTATGTTTCTAAGTTGTGGTTGTTATTGGCTT-GTTATGGATAT
383 ACAA-AGTATTAATGCTGAAATTATGTTTCTAAGCAGTGGTTGCTACT-GATTCATGAT-GATAT
* *
23873753 TTGGATCTAGAGCTTTAAACTACAGTAGGTGAGAATCAGGTGAGTTCCTATGCTGACTCATGCAA
445 CTGGATCTAGAGCTTTAAACTACAGTAGGTGAGAATCAGGTGAATTCCTATGCTGACTCATGCAA
*
23873818 GTATATTGTTTATACCGAAGCACATTTATAAGAAAATTGATCAAACTATGAATTC-GAAACCATG
510 GTATATTGTTTATACCGAAGCACATCTATAAGAAAATTGATCAAACTATGAA-TCAGAAACCATG
*
23873882 AAAAGTATAGTATGAAAATAATATGTATGTGACTACATGAATGATTTCTAAGGAAAATCTATGAG
574 AAAAGTATAGTATGAAAATAATATGTATGTGACTACATGAATGATTTCTAAAGAAAATCTATGAG
** * *
23873947 TGTATGAATGTTTTTTGATGATA
639 CATATGAATGTTTGTTGAAGATA
23873970 GTATTTAT
1 GTATTTAT
23873978 GTTTAGTATG
Statistics
Matches: 588, Mismatches: 72, Indels: 24
0.86 0.11 0.04
Matches are distributed among these distances:
658 1 0.00
659 230 0.39
660 5 0.01
661 3 0.01
662 38 0.06
663 44 0.07
664 258 0.44
665 9 0.02
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (661 bp):
GTATTTATTAATAATTCTTTCAAAAATCGTAGGCAATTAAGAAGGCAAAGTTTGAAACACTTAAC
ACGTATGTTAAATTACACTATGTAAGTAAAGTTATATACATGTGAGAAATGAGTTCTAAGGGGGT
TCTTCTTTCTTCTTCCTCTTCCTTAAGTGGTATTTACTAAAATCTTCCTTAAGCCGAAATGTATC
CTACATCGATGAGCTAGAGGCAATGGTTCTTTTATGATCAGTAGTTACTTTACACCAGAATAAGT
ATTTAGCCTCTGCATATTAAATACTGAATAAGCAAATATATATTACGTAATTGGACAGCAAGACT
GTAAGTATAAGGTTTTACAGGATTGTCAAGGATTGAAATGATAAGTAATCTGTATGTACAAAGTA
TTAATGCTGAAATTATGTTTCTAAGCAGTGGTTGCTACTGATTCATGATGATATCTGGATCTAGA
GCTTTAAACTACAGTAGGTGAGAATCAGGTGAATTCCTATGCTGACTCATGCAAGTATATTGTTT
ATACCGAAGCACATCTATAAGAAAATTGATCAAACTATGAATCAGAAACCATGAAAAGTATAGTA
TGAAAATAATATGTATGTGACTACATGAATGATTTCTAAAGAAAATCTATGAGCATATGAATGTT
TGTTGAAGATA
Found at i:23874422 original size:27 final size:27
Alignment explanation
Indices: 23874390--23874442 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
23874380 GACAACTAAG
23874390 AAATAGCCTTTGTGG-AGAACTCTAAAA
1 AAATAGCCTTTGTGGCA-AACTCTAAAA
*
23874417 AAATAGCTTTTGTGGCAAACTCTAAA
1 AAATAGCCTTTGTGGCAAACTCTAAA
23874443 GAATAGCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (27 bp):
AAATAGCCTTTGTGGCAAACTCTAAAA
Found at i:23874426 original size:26 final size:25
Alignment explanation
Indices: 23874385--23874450 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 25
23874375 AAAACGACAA
*
23874385 CTAAGAAATAGCCTTTGTGG-AGAACT
1 CTAAAAAATAG-CTTTGTGGCA-AACT
23874411 CTAAAAAAATAGCTTTTGTGGCAAACT
1 CT-AAAAAATAGC-TTTGTGGCAAACT
*
23874438 CTAAAGAATAGCT
1 CTAAAAAATAGCT
23874451 ATTATGGTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
25 1 0.03
26 12 0.34
27 21 0.60
28 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (25 bp):
CTAAAAAATAGCTTTGTGGCAAACT
Found at i:23879044 original size:12 final size:13
Alignment explanation
Indices: 23879002--23879045 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
23878992 AAATTCATTT
23879002 TTTTTATATAATA
1 TTTTTATATAATA
*
23879015 TTTTTATAAATATA
1 TTTTTATATA-ATA
*
23879029 TTTTTACATAAT-
1 TTTTTATATAATA
23879041 TTTTT
1 TTTTT
23879046 CACCTAATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 5 0.19
13 11 0.41
14 11 0.41
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTTATATAATA
Found at i:23887603 original size:15 final size:14
Alignment explanation
Indices: 23887585--23887638 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
23887575 AATCATCAAT
23887585 AAAAAAAGAAAATCA
1 AAAAAAAGAAAA-CA
* *
23887600 AAAAAATGAAAAGA
1 AAAAAAAGAAAACA
*
23887614 AAAAAGAAAAAAAC-
1 AAAAA-AAGAAAACA
23887628 AAAAAAAGAAA
1 AAAAAAAGAAA
23887639 GAAAAATAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
13 5 0.16
14 11 0.34
15 16 0.50
ACGTcount: A:0.83, C:0.04, G:0.09, T:0.04
Consensus pattern (14 bp):
AAAAAAAGAAAACA
Found at i:23887616 original size:27 final size:25
Alignment explanation
Indices: 23887586--23887700 Score: 85
Period size: 25 Copynumber: 4.4 Consensus size: 25
23887576 ATCATCAATA
*
23887586 AAAAAAGAAAATCAAAAAAATGAAAAG
1 AAAAAAGAAAAACAAAAAAA-G-AAAG
23887613 AAAAAAGAAAAAAACAAAAAAAGAAAG
1 AAAAAAG--AAAAACAAAAAAAGAAAG
*
23887640 AAAAATAGAAAAA-AAGAAAAGAGAA-
1 AAAAA-AGAAAAACAAAAAAAGA-AAG
** *
23887665 AAAAATTAAAATCAAAATGAAA-AAAG
1 AAAAAAGAAAAACAAAA--AAAGAAAG
23887691 -AAAAAGAAAA
1 AAAAAAGAAAA
23887701 GAAAAGGAGA
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
24 4 0.06
25 26 0.36
26 8 0.11
27 19 0.26
28 3 0.04
29 12 0.17
ACGTcount: A:0.80, C:0.03, G:0.11, T:0.06
Consensus pattern (25 bp):
AAAAAAGAAAAACAAAAAAAGAAAG
Found at i:23887616 original size:28 final size:26
Alignment explanation
Indices: 23887585--23887695 Score: 86
Period size: 28 Copynumber: 4.2 Consensus size: 26
23887575 AATCATCAAT
*
23887585 AAAAAAAGAAAATCAAAAAAATGAAAAG
1 AAAAAAAGAAAAACAAAAAAA-G-AAAG
*
23887613 AAAAAAGAAAAAAACAAAAAAAGAAAG
1 AAAAAA-AGAAAAACAAAAAAAGAAAG
* *
23887640 AAAAATAGAAAAA-AAGAAAAG--AG
1 AAAAAAAGAAAAACAAAAAAAGAAAG
* *
23887663 AAAAAAATTAAAATCAAAATGAAA-AAAG
1 AAAAAAA-GAAAAACAAAA--AAAGAAAG
23887691 AAAAA
1 AAAAA
23887696 GAAAAGAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
23 8 0.12
24 4 0.06
25 10 0.15
26 6 0.09
27 12 0.18
28 14 0.21
29 13 0.19
ACGTcount: A:0.80, C:0.03, G:0.11, T:0.06
Consensus pattern (26 bp):
AAAAAAAGAAAAACAAAAAAAGAAAG
Found at i:23887668 original size:36 final size:33
Alignment explanation
Indices: 23887587--23887706 Score: 95
Period size: 36 Copynumber: 3.5 Consensus size: 33
23887577 TCATCAATAA
23887587 AAAAAGAAAATCAAAA-AAATG-AAAA-GAAAAAAG
1 AAAAAGAAAA--AAAAGAAA-GAAAAATGAAAAAAG
*
23887620 AAAAAAACAAAAAAAGAAAGAAAAATAGAAAAAAAG
1 AAAAAGA-AAAAAAAGAAAGAAAAAT-G-AAAAAAG
**
23887656 AAAAGAGAAAAAAATTA-AAATCAAAATGAAAAAAG
1 AAAA-AGAAAAAAA--AGAAAGAAAAATGAAAAAAG
23887691 AAAAAGAAAAGAAAAG
1 AAAAAGAAAA-AAAAG
23887707 GAGAGGCCAA
Statistics
Matches: 72, Mismatches: 4, Indels: 21
0.74 0.04 0.22
Matches are distributed among these distances:
32 5 0.07
33 14 0.19
34 9 0.12
35 15 0.21
36 18 0.25
37 10 0.14
38 1 0.01
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (33 bp):
AAAAAGAAAAAAAAGAAAGAAAAATGAAAAAAG
Found at i:23887693 original size:43 final size:41
Alignment explanation
Indices: 23887601--23887702 Score: 104
Period size: 43 Copynumber: 2.5 Consensus size: 41
23887591 AGAAAATCAA
*
23887601 AAAAAT-G-AAAAGAAAAAAGAAAAAAACAAAAAAAGAAAG
1 AAAAATAGAAAAAGAAAAGAGAAAAAAACAAAAAAAGAAAG
* * *
23887640 AAAAATAGAAAAAAAGAAAAGAGAAAAAAATTAAAATCAA-AATG
1 AAAAATAG--AAAAAGAAAAGAGAAAAAAA-CAAAA-AAAGAAAG
23887684 AAAAA-AGAAAAAGAAAAGA
1 AAAAATAGAAAAAGAAAAGA
23887703 AAAGGAGAGG
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
39 6 0.11
40 1 0.02
41 12 0.23
43 20 0.38
44 12 0.23
45 2 0.04
ACGTcount: A:0.79, C:0.02, G:0.13, T:0.06
Consensus pattern (41 bp):
AAAAATAGAAAAAGAAAAGAGAAAAAAACAAAAAAAGAAAG
Found at i:23891058 original size:23 final size:23
Alignment explanation
Indices: 23891032--23891107 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
23891022 ATAAGTGCCA
23891032 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
23891055 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
23891078 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
23891101 CACTGAT
1 CACTGAT
23891108 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:23891207 original size:8 final size:8
Alignment explanation
Indices: 23891194--23891222 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
23891184 ACCCGGGACT
23891194 CACTGTAA
1 CACTGTAA
23891202 CACTGTAA
1 CACTGTAA
23891210 CACTGTAA
1 CACTGTAA
23891218 CACTG
1 CACTG
23891223 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:23891353 original size:18 final size:17
Alignment explanation
Indices: 23891327--23891365 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
23891317 ATTTTCCTTC
23891327 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
23891344 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
23891362 CACA
1 CACA
23891366 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:23892621 original size:44 final size:44
Alignment explanation
Indices: 23892568--23893768 Score: 435
Period size: 44 Copynumber: 27.5 Consensus size: 44
23892558 GAAGGTGGTG
* *
23892568 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* * * * * * * *
23892612 AATCCTATCTCCCTAAAGTTGTAGTAGAGCGGATTCAA-ATAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* * * ** * * *
23892655 AGATCTTATCTCTCTAAAGTTGCAGTAGAGTGGATCGTA-TCA--
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* * * * ** * *
23892697 AGTCTTATCTCCTTGAGGTTGCAGCGGAGCAGA-CCAAGAAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* * * * **
23892740 AAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACATGAAGATGGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGACAGT
* * * * *
23892786 GAATCTTATCTTCCTG-AGTTTGTAGTGGAGCAGGTTAAAGCCAGT
1 -AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGACAGT
* * * * *
23892831 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTCAA-ATAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* ** ** * * *
23892874 AGATCTTATCTCTCTGAAGTTGCAGCAGAGTGGATCGCA-TCAG-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* * ** * *
23892917 -GTCTTATCTCCCT-AAGGTTGCAGCGGAGCAGA-CCAAGAAAGC
1 AATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGACAGT
* * * * **
23892959 AAGTCTTATCCCCCTGAAGTTGCAGTGGGGAAGAATGAAGATGGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* * *
23893004 GAATCTTATCTTCCTG-AGTTTGCAGTGGAG-ATTATTGAAGCCAGT
1 -AATCTTATCTCCCTGAAG-TTGCAGTGGAGCA-GATTGAAGACAGT
* * * * * *
23893049 AATCCTATCTCCCTGAAGTGGCAGTGGTGC-GAATTCAA-ATAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAGACAGT
* * * * * * *
23893092 AGATCTTATCTCTCTGAAGTAGCAGTAGAGCGGATCGCA-TCAG-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* * * * ** * *
23893135 -GTCTTATCTCCTTGAAGTTACAGCGGAGCAGA-CCAAGAAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* * * *
23893177 AAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATAGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
** *
23893222 GAATCTTATCTCCCTG-AGTTTATAGTGGAGCAGATTGAAGCCAGT
1 -AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGACAGT
* * * * *
23893267 AATCCTATCTCCCTGAAGTGGCAGTGGAGC-GAATTCAA-ATAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAGACAGT
* * * * * * *
23893310 AGATCTTATCTCTCTGAAGTTGCAGTAGAACGGATCGCA-TCAG-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* * * * ** * *
23893353 -GTCTAATCTCCCTGAGGTTGCAGCGGAGCAGA-CCAAGAAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* * * * * **
23893395 AAGTCTTATCCCCCTGAAGTTGTAGT-GAGGCAGACTAAAAATGGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGATTGAAGACAGT
* * *
23893440 GAATCTTATCTCTCT-AAGTTTGCAGTGGAGCACATTGAAGCCAGT
1 -AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGACAGT
* * * * * *
23893485 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTCAA-ATAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* *** ** * * *
23893528 AGATCTTATCTCTCTGAAGTTGCACCAGAGTGGATCGCA-TCA--
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* * * ** ** *
23893570 AGTCTTATCTCCCTTAGGTTGCAGCAGAGCAGA-CCAAGA-AGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* * * **
23893612 AAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
*
23893657 GAATCTTATCTTCCTG-AGTTTGCAGTGGAGCAGATTG-AGACCAGT
1 -AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGA-CAGT
* * ** * * *
23893702 AATCCTATCTCCTTGAAGTTATAGTGGAGCGGATT-AAAACAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
* *
23893745 AGATCTTATCTCTCTGAGGTTGCA
1 A-ATCTTATCTCCCTGAAGTTGCA
23893769 CTAGAGTAGA
Statistics
Matches: 831, Mismatches: 266, Indels: 120
0.68 0.22 0.10
Matches are distributed among these distances:
40 13 0.02
41 127 0.15
42 3 0.00
43 48 0.06
44 445 0.54
45 154 0.19
46 39 0.05
47 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT
Found at i:23893107 original size:218 final size:218
Alignment explanation
Indices: 23892558--23893793 Score: 1820
Period size: 218 Copynumber: 5.7 Consensus size: 218
23892548 AGAGCAGATC
* * *
23892558 GAAGGTGGTGAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
* * * * * *
23892623 CCTAAAGTTGTAGTAGAGCGGATTCAAATAATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTGG
66 CCTGAAGTTGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTGG
* * * *
23892688 ATCGTATCAAGTCTTATCTCCTTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
131 ATCGCATCAGGTCTTATCTCCCTAAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
*
23892753 CTGAAGTTGTAGTGGGGCAGACAT
196 CTGAAGTTGCAGTGGGGCAGAC-T
* * *
23892777 GAAGATGGTGAATCTTATCTTCCTGAGTTTGTAGTGGAGCAGGTTAAAGCCAGTAATCCTATCTC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
*
23892842 CCTGAAGTTACAGTGGAGC-AGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTG
66 CCTGAAGTTGCAGTGGAGCGA-ATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTG
23892906 GATCGCATCAGGTCTTATCTCCCTAAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCC
130 GATCGCATCAGGTCTTATCTCCCTAAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCC
* *
23892971 CCTGAAGTTGCAGTGGGGAAGAAT
195 CCTGAAGTTGCAGTGGGGCAGACT
*
23892995 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAG-ATTATTGAAGCCAGTAATCCTATCT
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCA-GATTGAAGCCAGTAATCCTATCT
* * * * *
23893059 CCCTGAAGTGGCAGTGGTGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTAGCAGTAGAGCG
65 CCCTGAAGTTGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTG
* *
23893124 GATCGCATCAGGTCTTATCTCCTTGAA-GTTACAGCGGAGCAGACCAAGAAAGCAAGTCTTATCC
130 GATCGCATCAGGTCTTATCTCCCT-AAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCC
23893188 CCCTGAAGTTGCAGTGGGGCAGACT
194 CCCTGAAGTTGCAGTGGGGCAGACT
* * **
23893213 GAAGATAGTGAATCTTATCTCCCTGAGTTTATAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
* * **
23893278 CCTGAAGTGGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAACGG
66 CCTGAAGTTGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTGG
* *
23893343 ATCGCATCAGGTCTAATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
131 ATCGCATCAGGTCTTATCTCCCTAAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
* *
23893408 CTGAAGTTGTAGTGAGGCAGACT
196 CTGAAGTTGCAGTGGGGCAGACT
* * * *
23893431 AAAAATGGTGAATCTTATC-TCTCTAAGTTTGCAGTGGAGCACATTGAAGCCAGTAATCCTATCT
1 GAAGATGGTGAATCTTATCTTC-CTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCT
* * *
23893495 CCCTGAAGTTGTAGTGGAGCGGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCACCAGAGTG
65 CCCTGAAGTTGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTG
* * *
23893560 GATCGCATCAAGTCTTATCTCCCTTAGGTTGCAGCAGAGCAGACCAAG-AAGCAAGTCTTATCCC
130 GATCGCATCAGGTCTTATCTCCCTAAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCC
23893624 CCTGAAGTTGCAGTGGGGCAGACT
195 CCTGAAGTTGCAGTGGGGCAGACT
23893648 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTG-AGACCAGTAATCCTATCT
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAG-CCAGTAATCCTATCT
* ** * * * *
23893712 CCTTGAAGTTATAGTGGAGCGGATTAAAACAATAGATCTTATCTCTCTGAGGTTGCA-CTAGAGT
65 CCCTGAAGTTGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGC-AGAGT
* * *
23893776 AGATTGCATCAGATCTTA
129 GGATCGCATCAGGTCTTA
23893794 CTTCCCAGAC
Statistics
Matches: 925, Mismatches: 82, Indels: 22
0.90 0.08 0.02
Matches are distributed among these distances:
216 3 0.00
217 166 0.18
218 556 0.60
219 200 0.22
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (218 bp):
GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
CCTGAAGTTGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTGG
ATCGCATCAGGTCTTATCTCCCTAAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
CTGAAGTTGCAGTGGGGCAGACT
Found at i:23894957 original size:21 final size:20
Alignment explanation
Indices: 23894928--23894978 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
23894918 TTTAATTTTT
*
23894928 ATTTATGTTTACTGCCTATTTA
1 ATTT-TGTTTACT-CCAATTTA
*
23894950 ATTTTGTTTTACTTCAATTTA
1 ATTTTG-TTTACTCCAATTTA
23894971 ATTTTGTT
1 ATTTTGTT
23894979 CCATTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 2 0.08
21 14 0.54
22 10 0.38
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.61
Consensus pattern (20 bp):
ATTTTGTTTACTCCAATTTA
Found at i:23895238 original size:24 final size:22
Alignment explanation
Indices: 23895195--23895254 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 22
23895185 AATATTATTT
23895195 AAATTTATCATGCATCATAGTTTA
1 AAATTTATCAT--ATCATAGTTTA
*
23895219 AAATTTATCATATACTATAGTTTT
1 AAATTTATCATAT-C-ATAGTTTA
*
23895243 AAACTTATCATA
1 AAATTTATCATA
23895255 GATTATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 29 0.91
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
AAATTTATCATATCATAGTTTA
Found at i:23899317 original size:20 final size:20
Alignment explanation
Indices: 23899292--23899329 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23899282 ATTACAAACC
23899292 ACTTGTATCGATACAAGTGG
1 ACTTGTATCGATACAAGTGG
* *
23899312 ACTTGTGTCGATAGAAGT
1 ACTTGTATCGATACAAGT
23899330 ATTGAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (20 bp):
ACTTGTATCGATACAAGTGG
Found at i:23902601 original size:50 final size:50
Alignment explanation
Indices: 23902528--23902625 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
23902518 TGAAAGAATC
* * * *
23902528 ATATCGTGTAAGATCATAGCTGGTGGGCTATGGCGTCATATGGAAAGACA
1 ATATCGTGTAAGACCATAACTGGTGGACTATGGCATCATATGGAAAGACA
*
23902578 ATATCGTGTAAGACCATAACTGGTGGATTATGGCATCATATGGAAAGA
1 ATATCGTGTAAGACCATAACTGGTGGACTATGGCATCATATGGAAAGA
23902626 TCTAAAGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.27
Consensus pattern (50 bp):
ATATCGTGTAAGACCATAACTGGTGGACTATGGCATCATATGGAAAGACA
Found at i:23902837 original size:29 final size:29
Alignment explanation
Indices: 23902805--23902904 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
23902795 AAAAGGATGT
*
23902805 CTTTGTGGCAAAAATCTGGAAAGGGAAGC
1 CTTTGTGGCAAATATCTGGAAAGGGAAGC
* ** *
23902834 CTTTGTGGCAAGTA-CTGAATGAAAATGATGC
1 CTTTGTGGCAAATATCTG---GAAAGGGAAGC
* *
23902865 ATTTGTGGCAAATATCTGGAAAGGAAAGC
1 CTTTGTGGCAAATATCTGGAAAGGGAAGC
23902894 CTTTGTGGCAA
1 CTTTGTGGCAA
23902905 GTACTGAATG
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
28 3 0.05
29 29 0.53
31 20 0.36
32 3 0.05
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (29 bp):
CTTTGTGGCAAATATCTGGAAAGGGAAGC
Found at i:23902931 original size:32 final size:31
Alignment explanation
Indices: 23902761--23902928 Score: 114
Period size: 31 Copynumber: 5.5 Consensus size: 31
23902751 GGCAAATCTT
* * * *
23902761 TGGAAATGAAAGCCTTTATGGCGAGTACTAAA
1 TGGAAA-GGAAGCCTTTGTGGCAAGTACTGAA
* * * * * *
23902793 TGAAAAGGATGTCTTTGTGGCAA-AAAT--C
1 TGGAAAGGAAGCCTTTGTGGCAAGTACTGAA
23902821 TGGAAAGGGAAGCCTTTGTGGCAAGTACTGAA
1 TGGAAA-GGAAGCCTTTGTGGCAAGTACTGAA
* * * * * *
23902853 TGAAAATGATGCATTTGTGGCAAATA-T--C
1 TGGAAAGGAAGCCTTTGTGGCAAGTACTGAA
23902881 TGGAAAGGAAAGCCTTTGTGGCAAGTACTGAA
1 TGGAAAGG-AAGCCTTTGTGGCAAGTACTGAA
*
23902913 TGGAAAGGATGCCTTT
1 TGGAAAGGAAGCCTTT
23902929 TGTAGAAAAA
Statistics
Matches: 100, Mismatches: 28, Indels: 17
0.69 0.19 0.12
Matches are distributed among these distances:
28 11 0.11
29 30 0.30
30 6 0.06
31 35 0.35
32 18 0.18
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (31 bp):
TGGAAAGGAAGCCTTTGTGGCAAGTACTGAA
Found at i:23902997 original size:121 final size:120
Alignment explanation
Indices: 23902747--23903048 Score: 349
Period size: 121 Copynumber: 2.5 Consensus size: 120
23902737 TTGAAAGACT
* * * * * *
23902747 TTGTGGCAAATCTTTGGAAATGAAAGCCTTTATGGCGAGTACTAAATGAAAAGGATGTCTTTGTG
1 TTGTGGCAAATATTTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGCCTTTGTA
* * * *
23902812 GCAAAAATCTGGAAAGGGAAGCCTTTGTGGCAAGTACTGAATGAAAATGATGCAT
66 GCAAAAATCTGGAAAGGAAAGCCTTTATGGCAAGTACTGAATGAAAATGACGCAC
* * *
23902867 TTGTGGCAAATATCTGGAAAGGAAAGCCTTTGTGGCAAGTACTGAATGGAAAGGATGCCTTTTGT
1 TTGTGGCAAATATTTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGCC-TTTGT
* ** * *
23902932 AG-AAAAACTCTTGAAAGGAAAGCCTTTATGGTGAGTAGTGAATGAAAATGACGCCC
65 AGCAAAAA-TCTGGAAAGGAAAGCCTTTATGGCAAGTACTGAATGAAAATGACGCAC
* * * * *
23902988 TTGTGGCAAA-ACTTTGGAAAGGAAAGTCTTTGGGGTGAGTACTGAAT-AAAAAGACGCCTTT
1 TTGTGGCAAATA-TTTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGCCTTT
23903049 ATGGTAGATT
Statistics
Matches: 153, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
119 3 0.02
120 65 0.42
121 85 0.56
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (120 bp):
TTGTGGCAAATATTTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGCCTTTGTA
GCAAAAATCTGGAAAGGAAAGCCTTTATGGCAAGTACTGAATGAAAATGACGCAC
Found at i:23903025 original size:60 final size:60
Alignment explanation
Indices: 23902745--23903048 Score: 317
Period size: 60 Copynumber: 5.1 Consensus size: 60
23902735 AATTGAAAGA
* * * * *
23902745 CTTTGTGGCAAATCTTTGGAAATGAAAGCCTTTATGGCGAGTACTAAATGAAAAGGATGT
1 CTTTGTGGCAAAACTTTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGC
* * * * *
23902805 CTTTGTGGCAAAAATCTGGAAAGGGAAGCCTTTGTGGCAAGTACTGAATGAAAATGATGC
1 CTTTGTGGCAAAACTTTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGC
* * * *
23902865 ATTTGTGGCAAATA-TCTGGAAAGGAAAGCCTTTGTGGCAAGTACTGAATGGAAAGGATGC
1 CTTTGTGGCAAA-ACTTTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGC
* * * * * * *
23902925 CTTTTGTAGAAAAACTCTT-GAAAGGAAAGCCTTTATGGTGAGTAGTGAATGAAAATGACGC
1 C-TTTGTGGCAAAACT-TTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGC
* * * * * *
23902986 CCTTGTGGCAAAACTTTGGAAAGGAAAGTCTTTGGGGTGAGTACTGAAT-AAAAAGACGC
1 CTTTGTGGCAAAACTTTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGC
23903045 CTTT
1 CTTT
23903049 ATGGTAGATT
Statistics
Matches: 205, Mismatches: 34, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
59 14 0.07
60 143 0.70
61 47 0.23
62 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (60 bp):
CTTTGTGGCAAAACTTTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGC
Found at i:23914522 original size:127 final size:128
Alignment explanation
Indices: 23914351--23914607 Score: 498
Period size: 127 Copynumber: 2.0 Consensus size: 128
23914341 AGGGTCCATA
23914351 AGTGTATGTTAATTATAAATCAATTTTTTTATTTATAATTATTCTTGAATAGTGTTTCTATGTAA
1 AGTGTATGTTAATTATAAATCAATTTTTTTATTTATAATTATTCTTGAATAGTGTTTCTATGTAA
*
23914416 TGCTAAAGGTTTAATATCTCATTGTAATACTCTGTAACCCTAACCTGGTGACAGTCACTTGTT
66 GGCTAAAGGTTTAATATCTCATTGTAATACTCTGTAACCCTAACCTGGTGACAGTCACTTGTT
23914479 AGTGTATGTTAATTATAAATC-ATTTTTTTATTTATAATTATTCTTGAATAGTGTTTCTATGTAA
1 AGTGTATGTTAATTATAAATCAATTTTTTTATTTATAATTATTCTTGAATAGTGTTTCTATGTAA
23914543 GGCTAAAGGTTTAATATCTCATTGTAATACTCTGTAACCCTAACCTGGTGACAGTCACTTGTT
66 GGCTAAAGGTTTAATATCTCATTGTAATACTCTGTAACCCTAACCTGGTGACAGTCACTTGTT
23914606 AG
1 AG
23914608 GGGTGTTACA
Statistics
Matches: 128, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
127 107 0.84
128 21 0.16
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (128 bp):
AGTGTATGTTAATTATAAATCAATTTTTTTATTTATAATTATTCTTGAATAGTGTTTCTATGTAA
GGCTAAAGGTTTAATATCTCATTGTAATACTCTGTAACCCTAACCTGGTGACAGTCACTTGTT
Found at i:23934031 original size:27 final size:27
Alignment explanation
Indices: 23933993--23934047 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
23933983 TGCTTTATGA
*
23933993 TTGTGTTTATTCTCGGAATTGTTAAAG
1 TTGTGTTTATTCTCAGAATTGTTAAAG
23934020 TTGTGTTTATTCTCAGAATTGTTAAAG
1 TTGTGTTTATTCTCAGAATTGTTAAAG
23934047 T
1 T
23934048 GCTTAGTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (27 bp):
TTGTGTTTATTCTCAGAATTGTTAAAG
Found at i:23935183 original size:14 final size:15
Alignment explanation
Indices: 23935164--23935193 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23935154 AACTAGAGGT
23935164 AAAGTCC-AAAGTCC
1 AAAGTCCAAAAGTCC
23935178 AAAGTCCAAAAGTCC
1 AAAGTCCAAAAGTCC
23935193 A
1 A
23935194 CAAACCACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (15 bp):
AAAGTCCAAAAGTCC
Found at i:23935191 original size:8 final size:7
Alignment explanation
Indices: 23935164--23935193 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
23935154 AACTAGAGGT
23935164 AAAGTCC
1 AAAGTCC
23935171 AAAGTCC
1 AAAGTCC
23935178 AAAGTCC
1 AAAGTCC
23935185 AAAAGTCC
1 -AAAGTCC
23935193 A
1 A
23935194 CAAACCACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAGTCC
Found at i:23939530 original size:30 final size:30
Alignment explanation
Indices: 23939475--23939539 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
23939465 TTAAATTTTA
23939475 TTATTAAAATAAAATTATAATATTAAATAAT
1 TTATTAAAATAAAATTATAATATT-AATAAT
* * * *
23939506 TTATTGAAAT-AATTTATTATATTAATAGT
1 TTATTAAAATAAAATTATAATATTAATAAT
23939535 TTATT
1 TTATT
23939540 TTTTATAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 10 0.33
30 11 0.37
31 9 0.30
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
TTATTAAAATAAAATTATAATATTAATAAT
Found at i:23939531 original size:13 final size:13
Alignment explanation
Indices: 23939495--23939523 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23939485 AAAATTATAA
23939495 TATT-AAATAATT
1 TATTGAAATAATT
23939507 TATTGAAATAATT
1 TATTGAAATAATT
23939520 TATT
1 TATT
23939524 ATATTAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (13 bp):
TATTGAAATAATT
Found at i:23942103 original size:3 final size:3
Alignment explanation
Indices: 23942097--23942127 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23942087 TCTTAGCAAG
23942097 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC A
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC A
23942128 ACAACAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:23949127 original size:20 final size:20
Alignment explanation
Indices: 23949092--23949140 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
23949082 ATCATGGTCT
*
23949092 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
23949111 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
23949131 TTGCTTACTT
1 TTGCTTACTT
23949141 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:23949407 original size:49 final size:50
Alignment explanation
Indices: 23949350--23949582 Score: 168
Period size: 50 Copynumber: 4.6 Consensus size: 50
23949340 ATGACAAAGC
* * *
23949350 CATATCCCAGACATGGTCTTACATGGGATGTT-TCCTGT-ATTGCCAATGA
1 CATATCCCAGACATGGTCTTACATGGGA-GTTCTCATATCAGTGCCAATGA
* * * *
23949399 CATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCTATGC
1 CATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTGCCAATGA
* * *** * * *
23949449 CATGTCCCAGACATGGTCTTACAAGGGACCCCTCATCTCGGTGCCAACT-C
1 CATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTGCCAA-TGA
* * * * *
23949499 CATGTCCCAAACATGGTCTTACATGGG-GCCTCTCATAACCTCAATAATGCCAATGG
1 CATATCCCAGACATGGTCTTACATGGGAG-TTCTCAT-A--TC---AGTGCCAATGA
*
23949555 CATGTCCCAGACATGGTCTTACATGGGA
1 CATATCCCAGACATGGTCTTACATGGGA
23949583 TCTCATTCCC
Statistics
Matches: 148, Mismatches: 24, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
48 3 0.02
49 31 0.21
50 78 0.53
51 1 0.01
53 2 0.01
55 1 0.01
56 32 0.22
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (50 bp):
CATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTGCCAATGA
Found at i:23949469 original size:50 final size:50
Alignment explanation
Indices: 23949348--23949525 Score: 182
Period size: 50 Copynumber: 3.6 Consensus size: 50
23949338 ACATGACAAA
* * **
23949348 GCCATATCCCAGACATGGTCTTACATGGGATGTT-TCCTGT-ATTGCCAAT
1 GCCATATCCCAGACATGGTCTTACATGGGA-GTTCTCATATCGGTGCCAAT
* * *
23949397 GACATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCTAT
1 GCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAAT
* * *** *
23949447 GCCATGTCCCAGACATGGTCTTACAAGGGACCCCTCATCTCGGTGCCAACT
1 GCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAA-T
* *
23949498 -CCATGTCCCAAACATGGTCTTACATGGG
1 GCCATATCCCAGACATGGTCTTACATGGG
23949526 GCCTCTCATA
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.03
49 32 0.30
50 72 0.67
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
GCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAAT
Found at i:23957548 original size:21 final size:21
Alignment explanation
Indices: 23957522--23957564 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
23957512 TCAGATTCAA
*
23957522 ATCATACTTGGCATATAACAT
1 ATCATACTTAGCATATAACAT
23957543 ATCATACTTAGCATATAACAT
1 ATCATACTTAGCATATAACAT
23957564 A
1 A
23957565 CAAATCATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (21 bp):
ATCATACTTAGCATATAACAT
Found at i:23963972 original size:50 final size:48
Alignment explanation
Indices: 23963844--23964030 Score: 167
Period size: 50 Copynumber: 3.8 Consensus size: 48
23963834 GATAATAACA
* * * * **
23963844 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATATTTCCTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-TCTCATTTGG
* * *
23963893 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TTCTCAT-TTGG
* *** * *
23963943 TGCCCATGCCATGTCCCAGACATGGTCTTAGGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TTCTCAT-TTGG
** *
23963993 TGCCAACACCATGTCCCAGACATTGTCTTACATGGGAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
23964031 CTCTTTACCC
Statistics
Matches: 108, Mismatches: 28, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
49 37 0.34
50 71 0.66
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTCTCATTTGG
Found at i:23967230 original size:22 final size:22
Alignment explanation
Indices: 23967205--23967350 Score: 96
Period size: 22 Copynumber: 6.6 Consensus size: 22
23967195 ACCATAGTAG
*
23967205 AGAGCACCGTAGTGCTAAACAA
1 AGAGCACCGAAGTGCTAAACAA
* * *
23967227 AGAGAACTGAAGTTCTAAA-AA
1 AGAGCACCGAAGTGCTAAACAA
* * * *
23967248 GAGAGCACTGAAGTGTTTATCAA
1 -AGAGCACCGAAGTGCTAAACAA
* * * *
23967271 TGAGTACCAAAGTACTAAACAA
1 AGAGCACCGAAGTGCTAAACAA
* *
23967293 AGAGCACCGAAGTGCTGAACAG
1 AGAGCACCGAAGTGCTAAACAA
* * * * *
23967315 GGAGTACCAAAGTACTGAACAA
1 AGAGCACCGAAGTGCTAAACAA
*
23967337 AGAGCACCAAAGTG
1 AGAGCACCGAAGTG
23967351 TTGAATAGAA
Statistics
Matches: 91, Mismatches: 31, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
21 2 0.02
22 87 0.96
23 2 0.02
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (22 bp):
AGAGCACCGAAGTGCTAAACAA
Found at i:23967289 original size:44 final size:44
Alignment explanation
Indices: 23967203--23967355 Score: 130
Period size: 44 Copynumber: 3.5 Consensus size: 44
23967193 GCACCATAGT
* * * * ** *
23967203 AGAGAGCACCGTAGTGCTAAACAAAGAGAACTGAAGTTCTAAAA
1 AGAGAGCACCGAAGTGCTGAACAAGGAGTACCAAAGTACTAAAA
* * * * *
23967247 AGAGAGCACTGAAGTGTTTATCAATGAGTACCAAAGTACTAAACA
1 AGAGAGCACCGAAGTGCTGAACAAGGAGTACCAAAGTACTAAA-A
* *
23967292 A-AGAGCACCGAAGTGCTGAACAGGGAGTACCAAAGTACTGAACA
1 AGAGAGCACCGAAGTGCTGAACAAGGAGTACCAAAGTACT-AAAA
* *
23967336 A-AGAGCACCAAAGTGTTGAA
1 AGAGAGCACCGAAGTGCTGAA
23967356 TAGAAAGCAC
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
44 84 0.95
45 4 0.05
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (44 bp):
AGAGAGCACCGAAGTGCTGAACAAGGAGTACCAAAGTACTAAAA
Found at i:23967355 original size:22 final size:22
Alignment explanation
Indices: 23967276--23967372 Score: 88
Period size: 22 Copynumber: 4.4 Consensus size: 22
23967266 ATCAATGAGT
* *
23967276 ACCAAAGTACTAAACAAAGAGC
1 ACCAAAGTGCTGAACAAAGAGC
* ** *
23967298 ACCGAAGTGCTGAACAGGGAGT
1 ACCAAAGTGCTGAACAAAGAGC
*
23967320 ACCAAAGTACTGAACAAAGAGC
1 ACCAAAGTGCTGAACAAAGAGC
* *
23967342 ACCAAAGTGTTGAATAGAA-AGC
1 ACCAAAGTGCTGAACA-AAGAGC
*
23967364 ACAAAAGTG
1 ACCAAAGTG
23967373 TTAAACCCGT
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
22 57 0.97
23 2 0.03
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (22 bp):
ACCAAAGTGCTGAACAAAGAGC
Found at i:23967371 original size:44 final size:44
Alignment explanation
Indices: 23967279--23967371 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
23967269 AATGAGTACC
* ** * *
23967279 AAAGTACTAAACAAAGAGCACCGAAGTGCTGAACAGGGAGTACC
1 AAAGTACTAAACAAAGAGCACCAAAGTGCTGAACAGAAAGCACA
* * *
23967323 AAAGTACTGAACAAAGAGCACCAAAGTGTTGAATAGAAAGCACA
1 AAAGTACTAAACAAAGAGCACCAAAGTGCTGAACAGAAAGCACA
23967367 AAAGT
1 AAAGT
23967372 GTTAAACCCG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.13
Consensus pattern (44 bp):
AAAGTACTAAACAAAGAGCACCAAAGTGCTGAACAGAAAGCACA
Found at i:23970786 original size:11 final size:11
Alignment explanation
Indices: 23970759--23970805 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
23970749 TTGTTTTATG
23970759 TTTTAAC-ATA
1 TTTTAACAATA
23970769 TTTTAACAATA
1 TTTTAACAATA
* *
23970780 ATTTAACATTA
1 TTTTAACAATA
23970791 TTTTAACATATA
1 TTTTAACA-ATA
23970803 TTT
1 TTT
23970806 CTCTTAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 7 0.23
11 19 0.61
12 5 0.16
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (11 bp):
TTTTAACAATA
Found at i:23975690 original size:5 final size:5
Alignment explanation
Indices: 23975680--23975727 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
23975670 TGTACTTGTT
* *
23975680 TTTTC TTTTC TTTTC TTTT- TATTA TTTTC TTTTTC TTTT- TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTT
23975728 ATAACAGTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 7 0.19
5 25 0.68
6 5 0.14
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:23979291 original size:27 final size:27
Alignment explanation
Indices: 23979241--23979293 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
23979231 TAACATCTCA
* **
23979241 ACCATTTGGATTTTTGTTGAGACCAAT
1 ACCATTTGGATTGTCATTGAGACCAAT
*
23979268 ACCATTTGGATTGTCATTGGGACCAA
1 ACCATTTGGATTGTCATTGAGACCAA
23979294 GATCGTTCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (27 bp):
ACCATTTGGATTGTCATTGAGACCAAT
Found at i:23982652 original size:22 final size:24
Alignment explanation
Indices: 23982617--23982660 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
23982607 ATTGAATCCA
*
23982617 ATTTTGAACAAG-AAATAAAAAAT
1 ATTTTGAAAAAGAAAATAAAAAAT
23982640 ATTTT-AAAAAGAAAATAAAAA
1 ATTTTGAAAAAGAAAATAAAAA
23982661 CTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (24 bp):
ATTTTGAAAAAGAAAATAAAAAAT
Found at i:23990016 original size:17 final size:17
Alignment explanation
Indices: 23989990--23990028 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
23989980 AACCTATACT
*
23989990 AAAAATGAAAAGA-AAA
1 AAAAAGGAAAAGAGAAA
23990006 AGAAAAGGAAAAGAGAAA
1 A-AAAAGGAAAAGAGAAA
23990024 AAAAA
1 AAAAA
23990029 CTTAACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.75
18 4 0.20
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAAGGAAAAGAGAAA
Found at i:23992012 original size:11 final size:10
Alignment explanation
Indices: 23991986--23992024 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
23991976 ACAAGGAAAT
23991986 TTTTTTTGAA
1 TTTTTTTGAA
*
23991996 TATTTTTGAA
1 TTTTTTTGAA
23992006 GTTTTTTTGAA
1 -TTTTTTTGAA
23992017 TTCTTTTT
1 TT-TTTTT
23992025 TTTTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 11 0.44
11 14 0.56
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:23992771 original size:12 final size:12
Alignment explanation
Indices: 23992739--23992773 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
23992729 CATCTAACTT
23992739 TACTCCTATTCC
1 TACTCCTATTCC
* *
23992751 TAATTCTATTCC
1 TACTCCTATTCC
23992763 TACTCCTATTC
1 TACTCCTATTC
23992774 TTATGTCAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.20, C:0.34, G:0.00, T:0.46
Consensus pattern (12 bp):
TACTCCTATTCC
Found at i:23994334 original size:11 final size:11
Alignment explanation
Indices: 23994314--23994352 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
23994304 AACTTAAACT
23994314 AAAAATGAAAAG
1 AAAAA-GAAAAG
23994326 AAAAAGAAAAG
1 AAAAAGAAAAG
*
23994337 GAAAAGAGAAAG
1 AAAAAGA-AAAG
23994349 AAAA
1 AAAA
23994353 CATAACATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 12 0.50
12 12 0.50
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:23994340 original size:17 final size:17
Alignment explanation
Indices: 23994315--23994352 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
23994305 ACTTAAACTA
*
23994315 AAAATGAAAAGAAAAAG
1 AAAAGGAAAAGAAAAAG
*
23994332 AAAAGGAAAAGAGAAAG
1 AAAAGGAAAAGAAAAAG
23994349 AAAA
1 AAAA
23994353 CATAACATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
AAAAGGAAAAGAAAAAG
Found at i:23999678 original size:17 final size:17
Alignment explanation
Indices: 23999656--23999691 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
23999646 TCTTTTTATC
23999656 GTTGTATGTCCAATTTT
1 GTTGTATGTCCAATTTT
23999673 GTTGTATGTCCAATTTT
1 GTTGTATGTCCAATTTT
23999690 GT
1 GT
23999692 GGCATCTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.19, T:0.53
Consensus pattern (17 bp):
GTTGTATGTCCAATTTT
Found at i:24024884 original size:44 final size:44
Alignment explanation
Indices: 24024834--24025385 Score: 283
Period size: 44 Copynumber: 12.7 Consensus size: 44
24024824 TAACAGATCG
24024834 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AGGCA
*
24024878 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAGA-GGCA
* * * * *
24024923 AATCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AGGCA
* * * * * *
24024968 A-TCCTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAA-A-CCTC
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAGGC-A
* * * * *
24025010 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCA-TCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AGGCA
*
24025051 AGTCTTATCT-CCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACTAAAGA-GGCA
* * * * *
24025095 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCGACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AGGCA
* * ** * * *
24025140 A-TCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAA-A-CCTC
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAGGC-A
* * * * * *
24025182 AGATCTTATCTCTCTGAAGTTACAG-AGAGCAGA-T--CGCA-TCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AGGCA
** * *
24025223 AGTCTTATCTCCCTGAAGTTGCAGTATAGTAGACT-AAGTAAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG--AGGCA
* *
24025268 AGTCTTATC-CTCCTGAAGTTGCGGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAGA-GGCA
* * * * *
24025313 AATCTTATCT-CCTCAAAGTTGCAGTGGAGCAGATTAAAGCCGACA
1 AGTCTTATCTCCCT-GAAGTTGCAGTGGAGCAGACTAAAG-AGGCA
* * *
24025358 A-TCCTATCTCCCTAAAGTTTCAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
24025386 TGGATTAAAA
Statistics
Matches: 400, Mismatches: 67, Indels: 82
0.73 0.12 0.15
Matches are distributed among these distances:
39 14 0.04
40 33 0.08
41 13 0.03
42 10 0.03
43 18 0.05
44 170 0.43
45 132 0.33
46 10 0.03
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAGGCA
Found at i:24024984 original size:89 final size:87
Alignment explanation
Indices: 24024836--24025164 Score: 357
Period size: 89 Copynumber: 3.8 Consensus size: 87
24024826 ACAGATCGAG
* ** * *
24024836 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCCGACAA-TCCTAT-CTCCTGAAGTTGCA
24024901 GTGAGGCAGACTGAAGATGGCAAA
64 GTGAGGCAGACTGAAGATGGCAAA
*
24024925 TCATATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGCCGACAATCCTATCTCC-TGAAGTTGCA
* * *** *
24024990 GT-AGAGCAGA-TTAAAACCTCAGA
64 GTGAG-GCAGACTGAAGATGGCAAA
* * * * *
24025013 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CG-C-ATCTAGTCTTATCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCCGA-C-AATCCTATCTCCTGAAGTTGCA
24025073 GTGAGGCAGACTGAAGATGGCAAA
64 GTGAGGCAGACTGAAGATGGCAAA
* *
24025097 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGCCGACAATCCTATCT-CCTGAAGTTGCA
24025162 GTG
64 GTG
24025165 GAGTGGATTA
Statistics
Matches: 195, Mismatches: 31, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
82 1 0.01
83 19 0.10
84 40 0.21
85 7 0.04
86 2 0.01
87 7 0.04
88 42 0.22
89 69 0.35
90 8 0.04
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCCGACAATCCTATCTCCTGAAGTTGCAGT
GAGGCAGACTGAAGATGGCAAA
Found at i:24025125 original size:128 final size:128
Alignment explanation
Indices: 24024928--24025468 Score: 314
Period size: 128 Copynumber: 4.2 Consensus size: 128
24024918 TGGCAAATCA
* * * *
24024928 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCTTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACGACAATCCTATCTCCCTGAAGTTACAGTA
* * *
24024993 GAGCAGATTAAAACC-TCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCT
66 GAGCAGATTAAAACCGACA-ATCCTATCTCCCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCT
* * * *
24025056 TATCT-CCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTACAG
1 TATCTCCCTGAAGTTGCAGTGGA-GCAGACTAAAGACGAC-AATCCTATCTCCCTGAAGTTACAG
* * * * ** *** *
24025119 TGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCTCAG
64 TAGAGCAGATTAAAACCGACAATCCTATCTCCCTGAAGTTGCAG-AGAGCAGA-TCGCATCT-AG
24025184 ATCT
126 -TCT
* * * * * * *
24025188 TATCTCTCTGAAGTTACAG-AGAGCAGA-T--CG-C-ATCTAGTCTTATCTCCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACGA-C-AATCCTATCTCCCTGAAGTTACAG
* * * * * * * *
24025247 TATAGTAGACTAAGTAA-AG-CAAGTCTTATC-CTCCTGAAGTTGCGGTGAGGCAGA-CTGAAGA
64 TAGAGCAGATTAA--AACCGACAA-TCCTATCTC-CCTGAAGTTGCAGAGA-GCAGATC-G--CA
* *
24025308 TGGCAAATCT
121 T--CTAGTCT
* * * * *
24025318 TATCT-CCTCAAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTTCAGT
1 TATCTCCCT-GAAGTTGCAGTGGAGCAGACTAAAGACGACAATCCTATCTCCCTGAAGTTACAGT
* ** * *
24025382 GGAGTGGATTAAAA---AC--T--TATGTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCT
65 AGAGCAGATTAAAACCGACAATCCTATCTCCCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCT
*
24025439 TATCTGCCTGAAGTTGCAGTGGAGCAGACT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT
24025469 GGCAGATCAA
Statistics
Matches: 313, Mismatches: 69, Indels: 69
0.69 0.15 0.15
Matches are distributed among these distances:
121 29 0.09
122 3 0.01
123 2 0.01
125 6 0.02
126 19 0.06
127 26 0.08
128 100 0.32
129 31 0.10
130 22 0.07
131 12 0.04
132 17 0.05
133 13 0.04
134 30 0.10
135 2 0.01
136 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (128 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACGACAATCCTATCTCCCTGAAGTTACAGTA
GAGCAGATTAAAACCGACAATCCTATCTCCCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCT
Found at i:24025127 original size:172 final size:172
Alignment explanation
Indices: 24024878--24025247 Score: 650
Period size: 172 Copynumber: 2.1 Consensus size: 172
24024868 TAAGTAGGCA
24024878 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCATATCTCCCTGAAGTT
1 AGTCTTAT-CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCATATCTCCCTGAAGTT
* *
24024943 GCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAACC
65 ACAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACC
*
24025008 TCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
130 TCAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
*
24025051 AGTCTTATCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTA
1 AGTCTTATCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCATATCTCCCTGAAGTTA
* * **
24025116 CAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCT
66 CAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCT
24025181 CAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
131 CAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
24025223 AGTCTTATCTCCCTGAAGTTGCAGT
1 AGTCTTATCT-CCTGAAGTTGCAGT
24025248 ATAGTAGACT
Statistics
Matches: 188, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
172 166 0.88
173 22 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (172 bp):
AGTCTTATCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCATATCTCCCTGAAGTTA
CAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCT
CAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
Found at i:24025314 original size:218 final size:210
Alignment explanation
Indices: 24025051--24025458 Score: 649
Period size: 218 Copynumber: 1.9 Consensus size: 210
24025041 GATCGCATCT
*
24025051 AGTCTTATCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCC-CTGAAGTT
1 AGTCTTATCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCTC-AAAGTT
*
24025115 ACAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGT-AGTGGAGTGGATTAAAAC
65 ACAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTT-TCAGTGGAGTGGATT-AAA-
24025179 CTCAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTG
127 ---A-A-CTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTG
24025244 CAGTATAGTAGACTAAGTAAAGCA
187 CAGTATAGTAGACTAAGTAAAGCA
*
24025268 AGTCTTATCCTCCTGAAGTTGCGGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCTCAAAGTT
1 AGTCTTAT-CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCTCAAAGTT
*
24025333 GCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTTCAGTGGAGTGGATTAAAAAC
65 ACAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTTCAGTGGAGTGGATTAAAAAC
* * *
24025398 TTATGTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTGCCTGAAGTTGCAGT
130 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT
24025459 GGAGCAGACT
Statistics
Matches: 181, Mismatches: 7, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
211 59 0.33
212 1 0.01
213 1 0.01
217 12 0.07
218 107 0.59
219 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (210 bp):
AGTCTTATCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCTCAAAGTTA
CAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTTCAGTGGAGTGGATTAAAAACT
TATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTATAGT
AGACTAAGTAAAGCA
Found at i:24026886 original size:24 final size:24
Alignment explanation
Indices: 24026836--24026887 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
24026826 TTTCATTTTC
* *
24026836 TTTATTTTTTTATTAATTAGTTTT
1 TTTATTTTTTTATTAATTAATTAT
*
24026860 TTTATATTTTTT-TTATTTAATTAT
1 TTTAT-TTTTTTATTAATTAATTAT
24026884 TTTA
1 TTTA
24026888 AAAAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTATTTTTTTATTAATTAATTAT
Found at i:24026978 original size:23 final size:23
Alignment explanation
Indices: 24026946--24027005 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
24026936 TTGTAGTATA
* *
24026946 ATATAATTTTTTTATTTATATGT
1 ATATATTTTTTTTATCTATATGT
*
24026969 A-ATTATTTTTTTGATCTATATGT
1 ATA-TATTTTTTTTATCTATATGT
*
24026992 ATATATTTATTTTA
1 ATATATTTTTTTTA
24027006 GTATACATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.03
23 28 0.93
24 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (23 bp):
ATATATTTTTTTTATCTATATGT
Found at i:24036019 original size:17 final size:17
Alignment explanation
Indices: 24035997--24036030 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24035987 GTTTACTTAG
24035997 AAGAATCAAATATAATT
1 AAGAATCAAATATAATT
24036014 AAGAATCAAATATAATT
1 AAGAATCAAATATAATT
24036031 CAATGTTACG
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:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AAGAATCAAATATAATT
Found at i:24039802 original size:84 final size:86
Alignment explanation
Indices: 24039618--24039823 Score: 233
Period size: 84 Copynumber: 2.4 Consensus size: 86
24039608 GATTATCGGC
* * * *
24039618 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAAATTTGCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTAG-CATCGTCAGTCTGCCTCACTGCAA
*
24039683 CTTCAGAAGGATAAGACTTGCT
65 CTTCAGAAGGATAAGACTAGCT
* * * *
24039705 TACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-AT-GTGA-TCTG-CTCTCTGCA
1 T--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGCATCGTCAGTCTGCCTCACTGCA
*
24039766 ACTTCAG-AGAGATAAGACCTAAGGT
64 ACTTCAGAAG-GATAAGA-CT-AGCT
24039791 TTTAATCTGCTCCACTGCAACTTCAGGGAGATA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATA
24039824 GGATTATCGG
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
83 2 0.02
84 53 0.51
85 6 0.06
86 5 0.05
87 3 0.03
89 34 0.33
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (86 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGCATCGTCAGTCTGCCTCACTGCAAC
TTCAGAAGGATAAGACTAGCT
Found at i:24039814 original size:44 final size:43
Alignment explanation
Indices: 24039490--24039865 Score: 216
Period size: 44 Copynumber: 8.7 Consensus size: 43
24039480 TAACTTCAAC
* *
24039490 TTTAGTCTGCTCCACTGTC-ACTTCAGGGAGATAAGACT-A-GA
1 TTTAATCTGCTCCACTG-CAACTTCAGGGAGATAAGACTAAGGT
*** * * ** *
24039531 TGCGATATGCT-CTCTGCAACTTCAGAAAGATAATATCTAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTAAGGT
* * ** * * *
24039574 TTTAATCCGCTCCACTGCAGCTTCAGGGAGATGGGATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-AGGT
* * ** *
24039618 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAA-AATTTGCCAT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAG--GT
* * * * *
24039662 CTTCAGTCTGC-CTCACTGCAACTTCA-GAAGGATAAGACT-TGCT
1 -TTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTAAGGT
* *
24039705 TACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-A-GA
1 T--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAGGT
* * * *
24039748 TGTGATCTGCT-CTCTGCAACTTCAGAGAGATAAGACCTAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTAAGGT
* * * *
24039791 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-AGGT
* *
24039835 TCTAATCTGCTCCGCTGCAACTTCAGGGAGA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGA
24039866 CAAGGCTTGG
Statistics
Matches: 252, Mismatches: 62, Indels: 39
0.71 0.18 0.11
Matches are distributed among these distances:
39 1 0.00
40 40 0.16
41 17 0.07
42 4 0.02
43 25 0.10
44 133 0.53
45 30 0.12
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAGGT
Found at i:24068785 original size:23 final size:23
Alignment explanation
Indices: 24068766--24068831 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
24068756 TATTTTAGGT
* *
24068766 TTATCATTATTTTAAGTTTATCA
1 TTATCATTATTTTAAATTTAGCA
* * *
24068789 TTATTATTATTTTAAATTTACCC
1 TTATCATTATTTTAAATTTAGCA
*
24068812 TTAAT-ATTATTTTAACTTTA
1 TT-ATCATTATTTTAAATTTA
24068832 TTATCTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 35 0.95
24 2 0.05
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATCATTATTTTAAATTTAGCA
Found at i:24068802 original size:17 final size:17
Alignment explanation
Indices: 24068754--24068793 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
24068744 ATCGTATATT
*
24068754 ATTATTTTAGGTTTATC
1 ATTATTTTAAGTTTATC
24068771 ATTATTTTAAGTTTATC
1 ATTATTTTAAGTTTATC
24068788 ATTATT
1 ATTATT
24068794 ATTATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (17 bp):
ATTATTTTAAGTTTATC
Found at i:24068867 original size:23 final size:23
Alignment explanation
Indices: 24068841--24068895 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
24068831 ATTATCTATT
24068841 ATTATTTTTTAAAATTATCATGA-
1 ATTATTTTTTAAAATTATCAT-AC
* * *
24068864 ATTATTATTTGAATTTATCATAC
1 ATTATTTTTTAAAATTATCATAC
24068887 ATTATTTTT
1 ATTATTTTT
24068896 ATGTAAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (23 bp):
ATTATTTTTTAAAATTATCATAC
Found at i:24068870 original size:50 final size:45
Alignment explanation
Indices: 24068771--24068884 Score: 120
Period size: 49 Copynumber: 2.4 Consensus size: 45
24068761 TAGGTTTATC
* * *
24068771 ATTATTTTAAGTTTATCATTATTATTATTTTAAATTTACCCTTAAT
1 ATTATTTTAA-TTTATCATTATTATTATTTTAAAATTACCATGAAT
* *
24068817 ATTATTTTAACTTTATTATCTATTATTATTTTTTAAAATTATCATGAATT
1 ATTATTTTAA-TTTATCAT-TATTATTA--TTTTAAAATTACCATGAA-T
*
24068867 ATTATTTGAATTTATCAT
1 ATTATTTTAATTTATCAT
24068885 ACATTATTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
46 17 0.30
47 8 0.14
49 21 0.38
50 10 0.18
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (45 bp):
ATTATTTTAATTTATCATTATTATTATTTTAAAATTACCATGAAT
Found at i:24081576 original size:26 final size:26
Alignment explanation
Indices: 24081547--24081690 Score: 123
Period size: 26 Copynumber: 5.5 Consensus size: 26
24081537 ACTGAGACTA
* *
24081547 AGCACTTCGGTGCAAAACTATAATTG
1 AGCACTTCGGTGCAATACTATAACTG
** *
24081573 AGCACTTCGGTGTGATACTATGAATTG
1 AGCACTTCGGTGCAATACTAT-AACTG
* *
24081600 AGCTA-TTCGATGCGATACTA-AGACTG
1 AGC-ACTTCGGTGCAATACTATA-ACTG
* * *
24081626 AGCACTTCGGTGCAAAACTGTAACTA
1 AGCACTTCGGTGCAATACTATAACTG
*
24081652 AGCAGTTCGGTGCAATACTATGTAA-TG
1 AGCACTTCGGTGCAATACTA--TAACTG
24081679 AGCACTTCGGTG
1 AGCACTTCGGTG
24081691 TGATACTGAG
Statistics
Matches: 95, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
25 2 0.02
26 55 0.58
27 34 0.36
28 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (26 bp):
AGCACTTCGGTGCAATACTATAACTG
Found at i:24081634 original size:79 final size:79
Alignment explanation
Indices: 24081536--24081739 Score: 250
Period size: 79 Copynumber: 2.6 Consensus size: 79
24081526 TAATGTGCAC
* * **
24081536 TACTGAGACTAAGCACTTCGGTGCAAAACTATAATTGAGCACTTCGGTGTGATACTATG-AATTG
1 TACTGAGACTAAGCACTTCGGTGCAAAACTGTAACTGAGCACTTCGGTGCAATACTATGTAA-TG
24081600 AGCTA-TTCGATGCGA
65 AGC-ACTTCGATGCGA
* * * *
24081615 TACTAAGACTGAGCACTTCGGTGCAAAACTGTAACTAAGCAGTTCGGTGCAATACTATGTAATGA
1 TACTGAGACTAAGCACTTCGGTGCAAAACTGTAACTGAGCACTTCGGTGCAATACTATGTAATGA
* *
24081680 GCACTTCGGTGTGA
66 GCACTTCGATGCGA
* * **
24081694 TACTGAGACTAAGCATTTCAGTGTTAAACTGTAACTGAGCACTTCG
1 TACTGAGACTAAGCACTTCGGTGCAAAACTGTAACTGAGCACTTCG
24081740 ATACGATATT
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 1 0.01
79 102 0.97
80 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (79 bp):
TACTGAGACTAAGCACTTCGGTGCAAAACTGTAACTGAGCACTTCGGTGCAATACTATGTAATGA
GCACTTCGATGCGA
Found at i:24081705 original size:53 final size:51
Alignment explanation
Indices: 24081536--24081710 Score: 160
Period size: 53 Copynumber: 3.3 Consensus size: 51
24081526 TAATGTGCAC
*
24081536 TACTGAGACTAAGCACTTCGGTGCAAAACTA-TAATTGAGCACTTCGGTGTGA
1 TACTGAGACTAAGCA-TTCGGTGCAATACTAGTAA-TGAGCACTTCGGTGTGA
* * * * * **
24081588 TACT-ATGAATTGAGCTATTCGATGCGATACTAAG-ACTGAGCACTTCGGTGCAA
1 TACTGA-G-ACTAAGC-ATTCGGTGCAATACT-AGTAATGAGCACTTCGGTGTGA
*
24081641 AACTGTA-ACTAAGCAGTTCGGTGCAATACTATGTAATGAGCACTTCGGTGTGA
1 TACTG-AGACTAAGCA-TTCGGTGCAATACTA-GTAATGAGCACTTCGGTGTGA
24081694 TACTGAGACTAAGCATT
1 TACTGAGACTAAGCATT
24081711 TCAGTGTTAA
Statistics
Matches: 95, Mismatches: 17, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
51 3 0.03
52 26 0.27
53 62 0.65
54 3 0.03
55 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (51 bp):
TACTGAGACTAAGCATTCGGTGCAATACTAGTAATGAGCACTTCGGTGTGA
Found at i:24081762 original size:79 final size:79
Alignment explanation
Indices: 24081536--24081776 Score: 245
Period size: 79 Copynumber: 3.1 Consensus size: 79
24081526 TAATGTGCAC
* * * * *
24081536 TACTGAGACTAAGCACTTCGGTGCAAAACTATAATTGAGCACTTCGGTGTGATACTATGAATTGA
1 TACTGAGACTAAGCACTTCGGTGCAAAACTGTAACTGAGCACTTCGGTGCGATATTGTGAATTGA
* *
24081601 GCTA-TTCGATGCGA
66 GC-ACTTCGGTGTGA
* * * * *
24081615 TACTAAGACTGAGCACTTCGGTGCAAAACTGTAACTAAGCAGTTCGGTGCAATACTATGT-AA-T
1 TACTGAGACTAAGCACTTCGGTGCAAAACTGTAACTGAGCACTTCGGTGCGATA-T-TGTGAATT
24081678 GAGCACTTCGGTGTGA
64 GAGCACTTCGGTGTGA
* * ** * * *
24081694 TACTGAGACTAAGCATTTCAGTGTTAAACTGTAACTGAGCACTTCGATACGATATTGTGAATTAA
1 TACTGAGACTAAGCACTTCGGTGCAAAACTGTAACTGAGCACTTCGGTGCGATATTGTGAATTGA
* *
24081759 GCACTTTGGTGTAA
66 GCACTTCGGTGTGA
24081773 TACT
1 TACT
24081777 ATGATTGTGC
Statistics
Matches: 131, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
77 3 0.02
78 4 0.03
79 120 0.92
80 2 0.02
81 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (79 bp):
TACTGAGACTAAGCACTTCGGTGCAAAACTGTAACTGAGCACTTCGGTGCGATATTGTGAATTGA
GCACTTCGGTGTGA
Found at i:24084917 original size:52 final size:52
Alignment explanation
Indices: 24084858--24084982 Score: 146
Period size: 53 Copynumber: 2.4 Consensus size: 52
24084848 AGTGCATAGG
* *
24084858 GACATTTTCTCATTTCAAATACATGAGCATGGACGATTTTCAAATGCATAAA
1 GACATTTTCTCATTTCAAATACATCAGCATGGACGATTTTCAAATACATAAA
* * * *
24084910 GATATTTTTTTTCA-TTCAAATAGATCAGCATGGACGATTTTCAAATACATGAA
1 GACA--TTTTCTCATTTCAAATACATCAGCATGGACGATTTTCAAATACATAAA
*
24084963 GACAATTTCTC-TATTCAAAT
1 GACATTTTCTCAT-TTCAAAT
24084983 TGGACTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
51 5 0.08
52 10 0.17
53 38 0.63
54 7 0.12
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (52 bp):
GACATTTTCTCATTTCAAATACATCAGCATGGACGATTTTCAAATACATAAA
Found at i:24084940 original size:53 final size:54
Alignment explanation
Indices: 24084862--24084964 Score: 154
Period size: 53 Copynumber: 1.9 Consensus size: 54
24084852 CATAGGGACA
* *
24084862 TTTTCTCATTTCAAATACATGAGCATGGACGATTTTCAAATGCATAAAGATATT
1 TTTTCTCATTTCAAATACATCAGCATGGACGATTTTCAAATACATAAAGATATT
* * *
24084916 TTTTTTCA-TTCAAATAGATCAGCATGGACGATTTTCAAATACATGAAGA
1 TTTTCTCATTTCAAATACATCAGCATGGACGATTTTCAAATACATAAAGA
24084965 CAATTTCTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 37 0.84
54 7 0.16
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (54 bp):
TTTTCTCATTTCAAATACATCAGCATGGACGATTTTCAAATACATAAAGATATT
Found at i:24086659 original size:41 final size:41
Alignment explanation
Indices: 24086561--24086678 Score: 148
Period size: 41 Copynumber: 2.9 Consensus size: 41
24086551 CAGCAATTAG
* * * * *
24086561 CCTGCTAGACGTAAAGCCCGAAACATTTCACCAGCATCAAT
1 CCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATCAAT
24086602 CCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATCAAGT
1 CCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATCAA-T
* * *
24086644 -CTGCTAGACATAAAGTTTGAATTATTTCACTGGCA
1 CCTGCTAGACATAAAGTCTGAAATATTTCACCGGCA
24086679 ATAAATCTGA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 67 0.99
42 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (41 bp):
CCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATCAAT
Found at i:24093348 original size:24 final size:24
Alignment explanation
Indices: 24093321--24093367 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
24093311 TCTCATGTTT
*
24093321 ATATA-ATATATATTAACAGTTCGC
1 ATATACATATAT-TTAACAATTCGC
*
24093345 ATATACATGTATTTAACAATTCG
1 ATATACATATATTTAACAATTCG
24093368 TAGAGTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (24 bp):
ATATACATATATTTAACAATTCGC
Found at i:24101974 original size:57 final size:60
Alignment explanation
Indices: 24101878--24102025 Score: 205
Period size: 57 Copynumber: 2.5 Consensus size: 60
24101868 ACCCTAATTC
* * *
24101878 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
*
24101936 -GATCACTCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGGAGGGCTATATC--GATA
24101997 GGATCACCCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTTT
24102026 ACCATCAATT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
56 6 0.08
57 44 0.56
60 1 0.01
61 1 0.01
62 20 0.26
63 6 0.08
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
Found at i:24103161 original size:20 final size:24
Alignment explanation
Indices: 24103117--24103162 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
24103107 CCCTTATTCC
24103117 CTTTCTCTATAGTATTTCCTATCA
1 CTTTCTCTATAGTATTTCCTATCA
24103141 CTTTCTCT-TA-T-TTTCCT-TCA
1 CTTTCTCTATAGTATTTCCTATCA
24103161 CT
1 CT
24103163 AACATATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 6 0.27
22 1 0.05
23 2 0.09
24 8 0.36
ACGTcount: A:0.15, C:0.28, G:0.02, T:0.54
Consensus pattern (24 bp):
CTTTCTCTATAGTATTTCCTATCA
Found at i:24108026 original size:13 final size:13
Alignment explanation
Indices: 24108000--24108030 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
24107990 ATCAGCATTT
24108000 AATTAATTTTAAA
1 AATTAATTTTAAA
24108013 AATT-ATTTTAAA
1 AATTAATTTTAAA
24108025 AATTAA
1 AATTAA
24108031 AAATTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AATTAATTTTAAA
Found at i:24116367 original size:11 final size:11
Alignment explanation
Indices: 24116344--24116383 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
24116334 AACTAATCAT
24116344 CTCTCATATTTC
1 CTCTCA-ATTTC
24116356 CTCTCAATTTC
1 CTCTCAATTTC
24116367 CTCTCAATTTC
1 CTCTCAATTTC
24116378 CT-TCAA
1 CTCTCAA
24116384 AAATTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.14
11 18 0.64
12 6 0.21
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Done.