Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001709.1 Hibiscus syriacus cultivar Beakdansim tig00003435_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1326839
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 8
Found at i:885571 original size:66 final size:67
Alignment explanation
Indices: 885479--885640 Score: 249
Period size: 67 Copynumber: 2.5 Consensus size: 67
885469 AAAATCTTTG
* * *
885479 AGATTGTTTCTTTTG-GA-AAAAATCTTTGAGTTTGTTTATTTGGAAACAAAATTTT-TTTCTCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTATTTGGAAACAAAATTTTGTCTCTCT
885541 TA
66 TA
* *
885543 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTGTCTCTCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTATTTGGAAACAAAATTTTGTCTCTCT
885608 TA
66 TA
*
885610 AGATAATTTCTTTTGAAACAAAAATCTTTGA
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGA
885641 ATCTGTTTCT
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
64 14 0.16
65 1 0.01
66 36 0.40
67 38 0.43
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.46
Consensus pattern (67 bp):
AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTATTTGGAAACAAAATTTTGTCTCTCT
TA
Found at i:886039 original size:40 final size:40
Alignment explanation
Indices: 885976--886055 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
885966 TTGTCTCTCG
885976 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
* * *
886016 AGACAATTTCTTTT-AAAACTACCCACCTTTGAGATTGTTT
1 AGACAACTTCTTTTGAAAA-TACCCACATTTGAGATCGTTT
886056 TTATTAAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
Found at i:886528 original size:35 final size:36
Alignment explanation
Indices: 886462--886536 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
886452 TATTTCTTTG
* *
886462 GAAACAAAATTCACCATCTTTGAATCGGTTTCCCTT
1 GAAACAAAATTAAACATCTTTGAATCGGTTTCCCTT
*
886498 GAAACAAAA-TAAACATCTTTGAGATC-GTTTCTCTT
1 GAAACAAAATTAAACATCTTTGA-ATCGGTTTCCCTT
886533 GAAA
1 GAAA
886537 TGAATTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (36 bp):
GAAACAAAATTAAACATCTTTGAATCGGTTTCCCTT
Found at i:886605 original size:1 final size:1
Alignment explanation
Indices: 886599--886627 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
886589 CGTTTCCCTT
886599 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
886628 CAAATTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:886882 original size:28 final size:28
Alignment explanation
Indices: 886832--886885 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
886822 TCAAAATCCA
* *
886832 ATCTTTGAGTTTGTTTCTATTGAAACAC
1 ATCTTTGAGTTGGTTCCTATTGAAACAC
886860 ATCTTTGAGTTGGTCTCCT-TTGAAAC
1 ATCTTTGAGTTGGT-TCCTATTGAAAC
886886 CATTATCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (28 bp):
ATCTTTGAGTTGGTTCCTATTGAAACAC
Found at i:887048 original size:43 final size:43
Alignment explanation
Indices: 886988--887239 Score: 197
Period size: 43 Copynumber: 5.8 Consensus size: 43
886978 TCATTCCCCG
* *
886988 ACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
* * * * *
887031 ACCAG-CCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATA
* * * * * **
887077 GCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
*
887117 ACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
* * * *
887160 ACCAGCCCTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATA
* * * *
887206 GCCAAGAACTCTTCATCAAGTAGGAGCCGTGTCA
1 ACC-AGACCTCCTCATCACGTAGGAGCCGTGTCA
887240 CCTTTAGACG
Statistics
Matches: 161, Mismatches: 36, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
40 33 0.20
42 1 0.01
43 57 0.35
44 2 0.01
45 6 0.04
46 37 0.23
47 25 0.16
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
Found at i:887132 original size:129 final size:129
Alignment explanation
Indices: 886897--887239 Score: 598
Period size: 129 Copynumber: 2.7 Consensus size: 129
886887 ATTATCCTAG
*
886897 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
886962 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
887026 AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
887091 TCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
* *
887155 AGATAACCAGCCCTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAAGAACTCTTC
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCTTC
* *
887220 ATCAAGTAGGAGCCGTGTCA
65 ATCACGTATGAGCCGTGTCA
887240 CCTTTAGACG
Statistics
Matches: 204, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
128 5 0.02
129 171 0.84
130 28 0.14
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (129 bp):
AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
Found at i:887133 original size:40 final size:40
Alignment explanation
Indices: 886949--887239 Score: 163
Period size: 40 Copynumber: 6.8 Consensus size: 40
886939 CTTTAGATGG
*
886949 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCC-GA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCA-TCCCCAGA
* * **
886989 CCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCATCCCCAG---A
* * * * * *
887032 CCAG-CCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGA
1 CCAGAAC-TCTTCATCACGTAGGAGCCGTGTCATC-CC--CAGA
*
887075 TGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGA
1 ---CCAGAACTCTTCATCACGTAGGAGCCGTGTCATCCCCAGA
* * * **
887118 CCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCATCCCCAG---A
** * * * *
887161 CCAGCCCTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCATC-CC--CAG--A
*
887206 GCCAAGAACTCTTCATCAAGTAGGAGCCGTGTCA
1 -CC-AGAACTCTTCATCACGTAGGAGCCGTGTCA
887240 CCTTTAGACG
Statistics
Matches: 192, Mismatches: 39, Indels: 33
0.73 0.15 0.12
Matches are distributed among these distances:
39 2 0.01
40 64 0.33
42 1 0.01
43 61 0.32
44 2 0.01
45 3 0.02
46 34 0.18
47 25 0.13
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (40 bp):
CCAGAACTCTTCATCACGTAGGAGCCGTGTCATCCCCAGA
Found at i:887452 original size:3 final size:3
Alignment explanation
Indices: 887441--887481 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
887431 TTTTTTATCG
887441 TTA TT- TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
887482 ATTACATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:887469 original size:19 final size:18
Alignment explanation
Indices: 887445--887481 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
887435 TTATCGTTAT
887445 TTTATTATTATTATTATTA
1 TTTATTATTATTA-TATTA
887464 TTTATTATTATTATATTA
1 TTTATTATTATTATATTA
887482 ATTACATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATTATTATTATATTA
Found at i:887491 original size:19 final size:19
Alignment explanation
Indices: 887450--887492 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
887440 GTTATTTTAT
* *
887450 TATTATTATTATTATTTAT
1 TATTATTATTATTAATTAA
887469 TATTATTA-TATTAATTACA
1 TATTATTATTATTAATTA-A
887488 TATTA
1 TATTA
887493 CATATTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTATTATTATTAATTAA
Found at i:887491 original size:22 final size:22
Alignment explanation
Indices: 887446--887492 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
887436 TATCGTTATT
**
887446 TTATTATTATTATTATTATTTA
1 TTATTATTATTATTATTACATA
887468 TTATTATTA-TATTAATTACATA
1 TTATTATTATTATT-ATTACATA
887490 TTA
1 TTA
887493 CATATTTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATTATTATTATTATTACATA
Found at i:894021 original size:30 final size:29
Alignment explanation
Indices: 893981--894047 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
893971 TCATTTGCAC
* * *
893981 AAAAAATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
894011 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
894040 AATAATAT
1 AA-AATAT
894048 ATATCATAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:894233 original size:23 final size:23
Alignment explanation
Indices: 894207--894265 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
894197 AACCACTACC
894207 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
894230 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
894253 TATTACATCATAT
1 TATTACATTATAT
894266 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:894451 original size:30 final size:29
Alignment explanation
Indices: 894410--894476 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
894400 TTATTTGCAC
* * *
894410 AAAAAATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
894440 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
894469 AATAATAT
1 AA-AATAT
894477 ATATCGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:894659 original size:23 final size:23
Alignment explanation
Indices: 894632--894694 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
894622 ATGTAACCAC
894632 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
894655 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
894678 TACCTATTACATCATAT
1 TACCTATTACATTATAT
894695 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:894666 original size:429 final size:429
Alignment explanation
Indices: 893842--894896 Score: 1993
Period size: 429 Copynumber: 2.5 Consensus size: 429
893832 TATTATATTA
*
893842 TATTATATTGAAAGTGTCCATATTTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAA
1 TATTATATTGAAAGTGTCCATA-CTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAA
893907 TTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT
65 TTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT
893972 CATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
129 CATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
894037 AATAATAATATATATCATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
194 AATAATAATATATATCATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
* *
894102 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
259 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAATGAAAAAAGTATGGACACT
894167 TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATA
324 TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATA
894232 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
389 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
894273 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAAT
*
894338 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
894403 TTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
131 TTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
*
894468 TAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
196 TAATAATATATATCATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
894533 TAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAATGAAAAAAGTATGGACACTTT
261 TAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAATGAAAAAAGTATGGACACTTT
* *
894598 TATAAAAAGGATAGACACTTTACAATGTAACCACTACCTATTACATTATATAAACGATACCTATT
326 TATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATATT
894663 ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
* *
894702 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTGCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAAT
894767 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
894832 TTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
131 TTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
894897 CAACATTAAC
Statistics
Matches: 612, Mismatches: 12, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
429 538 0.88
430 52 0.08
431 22 0.04
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (429 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
TAATAATATATATCATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
TAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAATGAAAAAAGTATGGACACTTT
TATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATATT
ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:895170 original size:39 final size:39
Alignment explanation
Indices: 895116--895201 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
895106 CAAGTTGTAG
*
895116 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
895155 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
895194 ATTTTGAT
1 ATTTTGAT
895202 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:895483 original size:18 final size:18
Alignment explanation
Indices: 895460--895496 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
895450 CGAAATATAT
895460 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
895478 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
895496 A
1 A
895497 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:895964 original size:23 final size:23
Alignment explanation
Indices: 895938--895996 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
895928 AACCACTACC
895938 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
895961 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
895984 TATTACATCATAT
1 TATTACATTATAT
895997 GTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:899189 original size:183 final size:181
Alignment explanation
Indices: 898875--899359 Score: 826
Period size: 183 Copynumber: 2.7 Consensus size: 181
898865 ACCGACACTT
* *
898875 TTTTAAATGGTATCGACACATTTTTCTTCCAATTTGGACATAAAGTACCGACACAATATTATAAA
1 TTTTAAAT-GTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAA
* * *
898940 GTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGTTTATTTTACA
65 GTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACA
* *
899005 AAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGATACAA
130 AAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGTCGACAC-A
899058 TTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAA
1 TTTTAAAT-GTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAA
*
899123 GTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTGTATTTATACCGGTTATATTACA
65 GTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACA
* *
899188 AAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACT
130 AAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGTCGACACA
*
899240 TTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAA
1 TTTT-A-AATGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAA
899305 AGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
64 AGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
899360 ATAGCATTGC
Statistics
Matches: 287, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
182 4 0.01
183 280 0.98
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (181 bp):
TTTTAAATGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAG
TGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAA
AATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGTCGACACA
Found at i:900885 original size:12 final size:12
Alignment explanation
Indices: 900868--900922 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
900858 GGATCATCAT
*
900868 CTTCATCGCCAG
1 CTTCATCGTCAG
*
900880 CTTCATCGTCAT
1 CTTCATCGTCAG
* *
900892 CATCATCGTCAT
1 CTTCATCGTCAG
900904 CTTCATCGTCAG
1 CTTCATCGTCAG
900916 CTTCATC
1 CTTCATC
900923 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.18, C:0.36, G:0.11, T:0.35
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:900892 original size:24 final size:24
Alignment explanation
Indices: 900864--900922 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
900854 GTTTGGATCA
900864 TCATCTTCATCGCCAGCTTCATCG
1 TCATCTTCATCGCCAGCTTCATCG
* * *
900888 TCATCATCATCGTCATCTTCATCG
1 TCATCTTCATCGCCAGCTTCATCG
*
900912 TCAGCTTCATC
1 TCATCTTCATC
900923 TTCTGCGACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.19, C:0.36, G:0.10, T:0.36
Consensus pattern (24 bp):
TCATCTTCATCGCCAGCTTCATCG
Found at i:900923 original size:18 final size:18
Alignment explanation
Indices: 900864--900925 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
900854 GTTTGGATCA
*
900864 TCATCTTCATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* * * *
900882 TCATCGTCATCATCATCG
1 TCATCTTCATCGTCAGCT
900900 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
900918 TCATCTTC
1 TCATCTTC
900926 TGCGACCGCT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.18, C:0.35, G:0.10, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:900925 original size:6 final size:6
Alignment explanation
Indices: 900864--900925 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
900854 GTTTGGATCA
* * * * * * *
900864 TCATCT TCATCG CCAGCT TCATCG TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
900912 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
900926 TGCGACCGCT
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.18, C:0.35, G:0.10, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:903122 original size:396 final size:396
Alignment explanation
Indices: 902392--904550 Score: 4033
Period size: 396 Copynumber: 5.4 Consensus size: 396
902382 TTTAAATTAG
902392 TATCGACACAAACTATA-ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
902456 CTTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
902520 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
130 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
902584 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
195 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
902649 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
902714 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
902779 AAAAAAA
390 AAAAAAA
902786 TATCGACACAAACTATA-ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
902850 CTTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
902915 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
130 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
902980 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
195 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
903045 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
903110 GGATCAACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
903175 AAAAAAA
390 AAAAAAA
903182 TATCGACACAAACTATA-ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
903246 CTTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
903311 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTTCATTCATTCTGGAAAA
130 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
903376 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
195 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
903441 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
903506 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTACACCCTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
903571 AAAAAAAA
390 -AAAAAAA
* *
903579 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTATA-TAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
903644 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
903709 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
130 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
903774 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
195 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
903839 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
903904 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
903969 AAAAAAA
390 AAAAAAA
* *
903976 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTTTCTCATAAAACCGGTATA
1 TATCGACACAAACTATA-TAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
904041 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
904106 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
130 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
904171 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
195 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
*
904236 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
904300 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
904365 AAAAAAAA
390 -AAAAAAA
*
904373 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATA-TAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
904438 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
904503 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
129 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
904551 GGCCATATTG
Statistics
Matches: 1738, Mismatches: 19, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
394 105 0.06
395 84 0.05
396 674 0.39
397 449 0.26
398 385 0.22
399 41 0.02
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (396 bp):
TATCGACACAAACTATATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGT
ATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
AAAAAA
Found at i:903138 original size:199 final size:199
Alignment explanation
Indices: 902392--904550 Score: 4036
Period size: 199 Copynumber: 10.9 Consensus size: 199
902382 TTTAAATTAG
*
902392 TATCGACACAAACTATA--ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTATATTA-GTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTAT
*
902455 ACTTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
902519 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
902583 AAAAA
195 AAAAA
902588 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
902653 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
902718 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
902782 AAAA
196 AAAA
*
902786 TATCGACACAAACTATA--ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTATATTA-GTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTAT
*
902849 ACTTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
902914 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
902979 AAAAA
195 AAAAA
902984 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
903049 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
903114 CAACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
903178 AAAA
196 AAAA
*
903182 TATCGACACAAACTATA--ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTATATTA-GTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTAT
*
903245 ACTTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
*
903310 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTTCATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
903375 AAAAA
195 AAAAA
903380 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
903445 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
903510 CGACACTTTTTATATATGGATCGACACTTTATGGGTACACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
903575 AAAA
196 AAAA
*
903579 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
*
903644 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
903709 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
903774 AAAA
196 AAAA
903778 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
903843 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
903908 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
903972 AAAA
196 AAAA
*
903976 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTTTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
904041 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
904106 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
904171 AAAA
196 AAAA
904175 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
*
904240 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
904304 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
904369 AAAA
196 AAAA
904373 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
* * *
904438 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
904503 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
904551 GGCCATATTG
Statistics
Matches: 1922, Mismatches: 26, Indels: 25
0.97 0.01 0.01
Matches are distributed among these distances:
196 19 0.01
197 420 0.22
198 576 0.30
199 844 0.44
200 23 0.01
201 40 0.02
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAA
Found at i:904715 original size:19 final size:19
Alignment explanation
Indices: 904669--904717 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
904659 TTATATTCAC
*
904669 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
904688 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
904707 ATACAAAATTA
1 ATACAAAATTA
904718 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:906545 original size:33 final size:33
Alignment explanation
Indices: 906508--906573 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
906498 CATCTTAATA
*
906508 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
906541 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
906574 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:906632 original size:21 final size:21
Alignment explanation
Indices: 906607--906671 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
906597 CCCCTTATGC
* *
906607 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
906628 CTCTCGAGTTTCTCTACGACT
1 CTCTCAAGTTTCTCTTCGACT
**
906649 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
906670 CT
1 CT
906672 TGATTGTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:908921 original size:17 final size:18
Alignment explanation
Indices: 908899--908941 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
908889 ATATATCCGG
908899 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
908916 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
908936 TATCAT
1 TATCAT
908942 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:908959 original size:20 final size:19
Alignment explanation
Indices: 908904--908950 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
908894 TCCGGTATCA
908904 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
908923 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
908944 TTTTACC
1 TTTTACC
908951 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:909112 original size:20 final size:20
Alignment explanation
Indices: 909085--909131 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
909075 TCCGGTAACG
909085 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
909104 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
909125 TTTTACC
1 TTTTACC
909132 TGGTATATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:909331 original size:182 final size:181
Alignment explanation
Indices: 908871--909344 Score: 707
Period size: 182 Copynumber: 2.6 Consensus size: 181
908861 CGTACTTACG
* * *
908871 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
908936 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
909001 AGGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
909052 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
909117 TATCATATTTTTACCTGGTATATAGTTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTA
66 TATCATATTTTTACCTGTTATATCG-TTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
** *
909182 TAGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * *
909235 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* *
909299 TTATCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
909345 AATTTGGATC
Statistics
Matches: 264, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
181 84 0.32
182 100 0.38
183 79 0.30
184 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:909939 original size:11 final size:11
Alignment explanation
Indices: 909923--909947 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
909913 ATCCGGTAAT
909923 ACCGTATATTA
1 ACCGTATATTA
909934 ACCGTATATTA
1 ACCGTATATTA
909945 ACC
1 ACC
909948 CGCCTTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:911750 original size:2 final size:2
Alignment explanation
Indices: 911743--911790 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
911733 CAATTGTCAA
911743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
911785 AT AT AT
1 AT AT AT
911791 CATGTATGTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:913646 original size:37 final size:37
Alignment explanation
Indices: 913586--913690 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
913576 CCTTTTCGTC
* *
913586 CTACTAGGATTCAAATTCTTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
913623 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
913660 CTACTATAATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
913691 CCACAAGCAC
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:914515 original size:2 final size:2
Alignment explanation
Indices: 914508--914533 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
914498 TATTTTACTC
914508 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
914534 TAATATTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:914571 original size:16 final size:15
Alignment explanation
Indices: 914551--914619 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 15
914541 TCATTTATTT
*
914551 ATTTATTTATTTTTC
1 ATTTTTTTATTTTTC
*
914566 CTTTTATTT-TTTTT-
1 ATTTT-TTTATTTTTC
*
914580 ACTTATTTTTATTCTTC
1 A-TT-TTTTTATTTTTC
914597 ATTTTTTTAATTTTTC
1 ATTTTTTT-ATTTTTC
914613 ATTTTTT
1 ATTTTTT
914620 CCTCTAACAC
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
15 18 0.42
16 24 0.56
17 1 0.02
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (15 bp):
ATTTTTTTATTTTTC
Found at i:919036 original size:16 final size:15
Alignment explanation
Indices: 919010--919080 Score: 67
Period size: 16 Copynumber: 4.7 Consensus size: 15
919000 AGATCCAATC
919010 AAGAACAAAAAAGAA
1 AAGAACAAAAAAGAA
919025 AAGAAGCAAAAAA-ACA
1 AAGAA-CAAAAAAGA-A
*
919041 AAGAA-ACAAAAGAA
1 AAGAACAAAAAAGAA
* *
919055 ACAAAAGAAAAAAG-A
1 A-AGAACAAAAAAGAA
919070 AAGAACAAAAA
1 AAGAACAAAAA
919081 TCAAAAAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
14 15 0.33
15 12 0.26
16 19 0.41
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (15 bp):
AAGAACAAAAAAGAA
Found at i:919038 original size:17 final size:16
Alignment explanation
Indices: 919013--919094 Score: 60
Period size: 16 Copynumber: 4.9 Consensus size: 16
919003 TCCAATCAAG
*
919013 AACAAAAAAGAAAAGA
1 AACAAAAAAAAAAAGA
* *
919029 AGCAAAAAAACAAAGA
1 AACAAAAAAAAAAAGA
919045 AACAAAAGAAACAAAAGA
1 AACAAAA-AAA-AAAAGA
919063 AA-AAAGAAAGAACAAA-A
1 AACAAA-AAA-AA-AAAGA
* *
919080 ATCAAAAAGAAAAAG
1 AACAAAAAAAAAAAG
919095 GGACAAAAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
15 3 0.06
16 21 0.40
17 13 0.25
18 15 0.29
ACGTcount: A:0.78, C:0.09, G:0.12, T:0.01
Consensus pattern (16 bp):
AACAAAAAAAAAAAGA
Found at i:919052 original size:9 final size:9
Alignment explanation
Indices: 919023--919064 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
919013 AACAAAAAAG
*
919023 AAAAGAAGC
1 AAAAGAAAC
919032 AAAA-AAAC
1 AAAAGAAAC
919040 -AAAGAAAC
1 AAAAGAAAC
919048 AAAAGAAAC
1 AAAAGAAAC
919057 AAAAGAAA
1 AAAAGAAA
919065 AAAGAAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 3 0.10
8 7 0.23
9 20 0.67
ACGTcount: A:0.79, C:0.10, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAGAAAC
Found at i:919053 original size:25 final size:26
Alignment explanation
Indices: 919013--919071 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
919003 TCCAATCAAG
* *
919013 AACAAA-AAAGAAAAGAAGCAAAA-A
1 AACAAAGAAACAAAAGAAACAAAAGA
919037 AACAAAGAAACAAAAGAAACAAAAGA
1 AACAAAGAAACAAAAGAAACAAAAGA
919063 AA-AAAGAAA
1 AACAAAGAAA
919072 GAACAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 6 0.19
25 22 0.71
26 3 0.10
ACGTcount: A:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (26 bp):
AACAAAGAAACAAAAGAAACAAAAGA
Found at i:919080 original size:20 final size:19
Alignment explanation
Indices: 919016--919091 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 19
919006 AATCAAGAAC
919016 AAAAAAGAAAAGAAGCAAA-A
1 AAAAAAGAAAA-AAG-AAAGA
*
919036 AAACAAAG-AAACA-AAAGA
1 AAA-AAAGAAAAAAGAAAGA
919054 AACAAAAGAAAAAAGAAAGA
1 AA-AAAAGAAAAAAGAAAGA
**
919074 ACAAAAATCAAAAAGAAA
1 A-AAAAAGAAAAAAGAAA
919092 AAGGGACAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
17 3 0.07
18 7 0.15
19 6 0.13
20 25 0.54
21 5 0.11
ACGTcount: A:0.79, C:0.08, G:0.12, T:0.01
Consensus pattern (19 bp):
AAAAAAGAAAAAAGAAAGA
Found at i:920833 original size:106 final size:106
Alignment explanation
Indices: 920705--921450 Score: 1251
Period size: 106 Copynumber: 7.0 Consensus size: 106
920695 ATATCGTGCC
* * * * *
920705 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
920770 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
920811 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
920876 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
920917 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
920982 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
921023 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTTAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
921088 AATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
921129 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* **
921194 AATTTCAAAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
921235 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
921300 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
921341 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
921406 AATTCCAGAGCCAATTTCAACTTCA-TGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
921447 ACTC
1 ACTC
921451 GGAACAATGC
Statistics
Matches: 604, Mismatches: 35, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
105 1 0.00
106 603 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:922234 original size:37 final size:37
Alignment explanation
Indices: 922183--922285 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
922173 TTTTCGTCCA
*
922183 ACTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
1 ACTAGGATTCAAACTCCTAAAAATAGGATAGAATTCT
* * *
922220 GCTAGGATTCAAACTCCTAAAAATATGATAGAGTTCT
1 ACTAGGATTCAAACTCCTAAAAATAGGATAGAATTCT
* *
922257 ACTATGAATT-AAACTCCTAAAGATAGGAT
1 ACTA-GGATTCAAACTCCTAAAAATAGGAT
922286 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
37 53 0.93
38 4 0.07
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (37 bp):
ACTAGGATTCAAACTCCTAAAAATAGGATAGAATTCT
Found at i:922783 original size:61 final size:63
Alignment explanation
Indices: 922696--922861 Score: 158
Period size: 61 Copynumber: 2.6 Consensus size: 63
922686 CATTATTGTC
* * * *
922696 ATTATATAAATATATACGTATGTTTTTTTAAATGATTTTCAATT-G-ATTTTTTTACACTATA-T
1 ATTAT-TATATATATACATATATTTTTTTAAAT-ATTTTCAATTGGTATTTTTTAACACTATATT
** * * *
922758 ATTATTATATATATACATATATTTTTATTATTTATATTCATTTGGTTATTTTTTAATACTATATT
1 ATTATTATATATATACATATATTTTT-TTAAATATTTTCAATTGG-TATTTTTTAACACTATA-T
922823 T
63 T
* *
922824 ATTATTTATATATATATATATACTTTTTTAAATATTTT
1 ATTA-TTATATATATACATATATTTTTTTAAATATTTT
922862 ACTTATAAGC
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
61 26 0.31
62 10 0.12
64 14 0.17
66 13 0.16
67 20 0.24
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.58
Consensus pattern (63 bp):
ATTATTATATATATACATATATTTTTTTAAATATTTTCAATTGGTATTTTTTAACACTATATT
Found at i:922831 original size:19 final size:19
Alignment explanation
Indices: 922753--922840 Score: 58
Period size: 19 Copynumber: 4.6 Consensus size: 19
922743 TTTTTTACAC
*
922753 TATATAT-TA-TTATATATA
1 TATATATATATTTAT-TATT
* *
922771 TACATATATTTTTATTATT
1 TATATATATATTTATTATT
* *
922790 TATAT-TCATTTGGTTATTTTT
1 TATATAT-ATAT--TTATTATT
922811 TA-ATACTATATTTATTATT
1 TATATA-TATATTTATTATT
922830 TATATATATAT
1 TATATATATAT
922841 ATATACTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
18 7 0.13
19 26 0.47
20 9 0.16
21 12 0.22
22 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (19 bp):
TATATATATATTTATTATT
Found at i:923179 original size:12 final size:12
Alignment explanation
Indices: 923135--923198 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
923125 ATATATAATA
*
923135 TTTCATTTATTTA
1 TTTC-TTTATTTT
*
923148 TTTATTTATTTT
1 TTTCTTTATTTT
**
923160 CCT-TTTATTTT
1 TTTCTTTATTTT
923171 TTTAC-TTATTTT
1 TTT-CTTTATTTT
923183 TATTCTTTATTTT
1 T-TTCTTTATTTT
923196 TTT
1 TTT
923199 TAATTTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
11 9 0.22
12 19 0.46
13 13 0.32
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTCTTTATTTT
Found at i:923181 original size:35 final size:35
Alignment explanation
Indices: 923141--923209 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
923131 AATATTTCAT
923141 TTATTTAT-TTATTTATTTTCCTTTT-ATTTTTTTAC
1 TTATTTATATTATTTATTTT--TTTTAATTTTTTTAC
* *
923176 TTATTTTTATTCTTTATTTTTTTTAATTTTTTTA
1 TTATTTATATTATTTATTTTTTTTAATTTTTTTA
923210 TTTTTTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.13
35 16 0.53
36 10 0.33
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (35 bp):
TTATTTATATTATTTATTTTTTTTAATTTTTTTAC
Found at i:923197 original size:25 final size:24
Alignment explanation
Indices: 923163--923223 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 24
923153 TTATTTTCCT
*
923163 TTTATTTTTTTACTTATTTTTATTC
1 TTTATTTTTTTAATT-TTTTTATTC
*
923188 TTTATTTTTTTTAATTTTTTTATTT
1 TTTA-TTTTTTTAATTTTTTTATTC
923213 TTTCATTTTTT
1 TTT-ATTTTTT
923224 CCTCTAACAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 21 0.66
26 11 0.34
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTATTTTTTTAATTTTTTTATTC
Found at i:923200 original size:9 final size:9
Alignment explanation
Indices: 923152--923215 Score: 53
Period size: 9 Copynumber: 7.1 Consensus size: 9
923142 TATTTATTTA
923152 TTTATTTTCCT
1 TTTATTTT--T
923163 TTTA-TTTT
1 TTTATTTTT
*
923171 TTTACTTATT
1 TTTA-TTTTT
*
923181 TTTA--TTC
1 TTTATTTTT
923188 TTTATTTTT
1 TTTATTTTT
*
923197 TTTAATTTT
1 TTTATTTTT
923206 TTTATTTTT
1 TTTATTTTT
923215 T
1 T
923216 CATTTTTTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
7 5 0.12
8 5 0.12
9 19 0.44
10 10 0.23
11 4 0.09
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTATTTTT
Found at i:923222 original size:9 final size:8
Alignment explanation
Indices: 923140--923223 Score: 64
Period size: 8 Copynumber: 10.2 Consensus size: 8
923130 TAATATTTCA
*
923140 TTTATTTA
1 TTTATTTT
*
923148 TTTATTTA
1 TTTATTTT
**
923156 TTT-TCCT
1 TTTATTTT
923163 TTTATTTT
1 TTTATTTT
923171 TTTACTTATT
1 TTTA-TT-TT
923181 TTTATTCTT
1 TTTATT-TT
923190 TATT-TTTT
1 T-TTATTTT
*
923198 TTAATTTT
1 TTTATTTT
923206 TTTATTTT
1 TTTATTTT
*
923214 TTCATTTT
1 TTTATTTT
923222 TT
1 TT
923224 CCTCTAACAC
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
7 5 0.08
8 40 0.65
9 9 0.15
10 8 0.13
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTATTTT
Found at i:929431 original size:25 final size:23
Alignment explanation
Indices: 929403--929462 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
929393 TAAATTTAAT
* *
929403 TAAAAATAATTAAAACAACCAATAA
1 TAAAAATAAGTAAAA-AAACAA-AA
929428 TAAAAA-ACAGTAAAAAAACAAAA
1 TAAAAATA-AGTAAAAAAACAAAA
929451 TAAAAATAAGTA
1 TAAAAATAAGTA
929463 CAAGGACCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 12 0.39
24 7 0.23
25 12 0.39
ACGTcount: A:0.72, C:0.08, G:0.03, T:0.17
Consensus pattern (23 bp):
TAAAAATAAGTAAAAAAACAAAA
Found at i:931104 original size:39 final size:39
Alignment explanation
Indices: 931061--931459 Score: 602
Period size: 39 Copynumber: 10.3 Consensus size: 39
931051 AGTTTCTTAT
* * * *
931061 AAAATCTTTTGTTTCGAGAGAAACCATATCAAGCGAGAC
1 AAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAC
*
931100 AAAATCTTCTGTTTCGAGGGAAACTATCTCAAGTGAGAC
1 AAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAC
931139 AAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAC
1 AAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAC
* *
931178 AAAATCTTCTATTTCGAGGGAAACTATCTCAAGCGAAAC
1 AAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAC
* * *
931217 AAAATCTTCTGTTTCAAGAGAAACTATCTCAAGCGAGAT
1 AAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAC
* *
931256 AAAATCTTCTGTTTGGAGGGAAACTATCTCAAGCAAGAC
1 AAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAC
* *
931295 AAAATCTTCAGTTTCGAGGGAAACTATCTCAAACGAGAC
1 AAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAC
* *
931334 AAAATCTTCAGTTTCGAGGGAAACTATCTCAAGCGATAC
1 AAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAC
*
931373 AAAATCTTCTGTTTCGAGAGAAACTATCTCAAGCGAGAC
1 AAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAC
* * * *
931412 AAAATCTTTTGTTTCAAGGG-AACTATCTCAAGTGAGAT
1 AAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAC
931450 AAAATCTTCT
1 AAAATCTTCT
931460 TTAAAACAAT
Statistics
Matches: 327, Mismatches: 33, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
38 25 0.08
39 302 0.92
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (39 bp):
AAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAC
Found at i:931581 original size:76 final size:77
Alignment explanation
Indices: 931462--931605 Score: 188
Period size: 76 Copynumber: 1.9 Consensus size: 77
931452 AATCTTCTTT
* * *
931462 AAAACAATCTTGAGTGAAATGAAGTGTCTTCTTTTAAGTAAAAATTGTCTCAAGCGAGAC-AAAT
1 AAAACAATCTTGAGTGAAATGAAATCTCTTCTTTTAAGTAAAAACTGTCTCAAGCGAGACAAAAT
931526 CTTGTTTTAAGA
66 CTTGTTTTAAGA
* *
931538 AAAACAATCTTGAGTGAAAT-AAATCT-TTTTTTTCGAA-TAAAAAACTGTCTCAAGCGAGGCAA
1 AAAACAATCTTGAGTGAAATGAAATCTCTTCTTTT--AAGT-AAAAACTGTCTCAAGCGAGACAA
931600 AATCTT
63 AATCTT
931606 CTGTTTCAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
74 6 0.10
75 5 0.08
76 41 0.69
77 7 0.12
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (77 bp):
AAAACAATCTTGAGTGAAATGAAATCTCTTCTTTTAAGTAAAAACTGTCTCAAGCGAGACAAAAT
CTTGTTTTAAGA
Found at i:931604 original size:41 final size:39
Alignment explanation
Indices: 931509--931650 Score: 96
Period size: 39 Copynumber: 3.7 Consensus size: 39
931499 GTAAAAATTG
* * *
931509 TCTCAAGCGAGAC-AAATC-T-TGTTTTAAGAAAAACAA
1 TCTCAAGCGAGACAAAATCTTCTGTTTCAAAAAAAACTA
** * * * *
931545 TCTTGAGTGA-A-ATAAATCTTTTTTTTCGAATAAAAAACTG
1 TCTCAAGCGAGACA-AAATCTTCTGTTTC-AA-AAAAAACTA
* ***
931585 TCTCAAGCGAGGCAAAATCTTCTGTTTCAAGGGAAACTA
1 TCTCAAGCGAGACAAAATCTTCTGTTTCAAAAAAAACTA
*
931624 TCTCAAGCGAGACAAAATCTTATGTTT
1 TCTCAAGCGAGACAAAATCTTCTGTTT
931651 TAAGCGAAAC
Statistics
Matches: 78, Mismatches: 20, Indels: 13
0.70 0.18 0.12
Matches are distributed among these distances:
35 1 0.01
36 12 0.15
37 1 0.01
38 4 0.05
39 32 0.41
40 15 0.19
41 12 0.15
42 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (39 bp):
TCTCAAGCGAGACAAAATCTTCTGTTTCAAAAAAAACTA
Found at i:931628 original size:39 final size:39
Alignment explanation
Indices: 931579--931660 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 39
931569 TTCGAATAAA
* * * *
931579 AAACTGTCTCAAGCGAGGCAAAATCTTCTGTTTCAAGGG
1 AAACTATCTCAAGCGAGACAAAATCTTATGTTTCAAGCG
*
931618 AAACTATCTCAAGCGAGACAAAATCTTATGTTTTAAGCG
1 AAACTATCTCAAGCGAGACAAAATCTTATGTTTCAAGCG
931657 AAAC
1 AAAC
931661 AACTCTTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.26
Consensus pattern (39 bp):
AAACTATCTCAAGCGAGACAAAATCTTATGTTTCAAGCG
Found at i:931685 original size:60 final size:60
Alignment explanation
Indices: 931607--931720 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
931597 CAAAATCTTC
*
931607 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTATGTTTTAAGCGAAACAACTCT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTATGTTTTAAGAGAAACAACTCT
* * * * * *
931667 TGTTTTAAGTGAAACTATCTCAAGTGAGATAAAATCTTCTGTTTTGAGAGAAAC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTATGTTTTAAGAGAAAC
931721 CATCTCAAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (60 bp):
TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTATGTTTTAAGAGAAACAACTCT
Found at i:931726 original size:39 final size:39
Alignment explanation
Indices: 931667--931745 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
931657 AAACAACTCT
* * *
931667 TGTTTTAAGTGAAACTATCTCAAGTGAGATAAAATCTTC
1 TGTTTTAAGAGAAACCATCTCAAGTGAGATAAAATATTC
*
931706 TGTTTTGAGAGAAACCATCTCAAGTGAGATAAAATATTC
1 TGTTTTAAGAGAAACCATCTCAAGTGAGATAAAATATTC
931745 T
1 T
931746 TTAAAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (39 bp):
TGTTTTAAGAGAAACCATCTCAAGTGAGATAAAATATTC
Found at i:935765 original size:365 final size:365
Alignment explanation
Indices: 935095--935814 Score: 1359
Period size: 365 Copynumber: 2.0 Consensus size: 365
935085 ATTTTTTTCT
935095 TTTTGAAATAACATAATGAACCATAAATTAAACAAGATCGAACTCATAATTTCCAAATATTAAAT
1 TTTTGAAATAACATAATGAACCATAAATTAAACAAGATCGAACTCATAATTTCCAAATATTAAAT
935160 ATAGGGTAACCAACTCGTGGCTCGACTCTCAATTTGTTTTAAAAACAAAAGTCCCCAATGAAGTA
66 ATAGGGTAACCAACTCGTGGCTCGACTCTCAATTTGTTTTAAAAACAAAAGTCCCCAATGAAGTA
* *
935225 GCCAAGCTGTCGACATCGTTTTTCACCCGATGGGGAAAAGATCTATACCGACTCGGGGGTTTTCT
131 GCCAAGCTGTCGACATCGTTTTTCACCCGATGGGGAAAAGACCTATACCGACTCGGGGGTTTTAT
*
935290 CTTTGAAATGATTTTCAAAATGTGAGGAGTCACCACCAATCATTTAAGTTGTGATTAGAACACCG
196 CTTTGAAATGATTTTCAAAATGTGAGGAGTCACCACCAATCATTTAAGGTGTGATTAGAACACCG
* *
935355 TAAAAACCGAGTGATTTTAATAAAGCATTTTATTTTAATAAAATATTGAGTTTTAGGGTCTGCGA
261 TAAAAACCGAGTGATTTTAATAAAGCATTTTATTTTAATAAAATATCGAGTTTTAGGGTCTACGA
*
935420 AAATTCAAAAATCAGGTTCGGGAGTAGGTTCATTATGTTA
326 AAATCCAAAAATCAGGTTCGGGAGTAGGTTCATTATGTTA
935460 TTTTGAAATAACATAATGAACCATAAATTAAACAAGATCGAACTCATAATTTCCAAATATTAAAT
1 TTTTGAAATAACATAATGAACCATAAATTAAACAAGATCGAACTCATAATTTCCAAATATTAAAT
935525 ATAGGGTAACCAACTCGTGGCTCGACTCTCAATTTGTTTTAAAAACAAAAGTCCCCAATGAAGTA
66 ATAGGGTAACCAACTCGTGGCTCGACTCTCAATTTGTTTTAAAAACAAAAGTCCCCAATGAAGTA
935590 GCCAAGCTGTCGACATCGTTTTTCACCCGATGGGGAAAAGACCTATACCGACTCGGGGGTTTTAT
131 GCCAAGCTGTCGACATCGTTTTTCACCCGATGGGGAAAAGACCTATACCGACTCGGGGGTTTTAT
935655 CTTTGAAATGATTTTCAAAATGTGAGGAGTCACCACCAATCATTTAAGGTGTGATTAGAACACCG
196 CTTTGAAATGATTTTCAAAATGTGAGGAGTCACCACCAATCATTTAAGGTGTGATTAGAACACCG
* *
935720 TAAAAACTGGGTGATTTTAATAAAGCATTTTATTTTAATAAAATATCGAGTTTTAGGGTCTACGA
261 TAAAAACCGAGTGATTTTAATAAAGCATTTTATTTTAATAAAATATCGAGTTTTAGGGTCTACGA
*
935785 AAATCCAAAAATCAGGTTCGGGAGTCGGTT
326 AAATCCAAAAATCAGGTTCGGGAGTAGGTT
935815 ACACGTGGGG
Statistics
Matches: 346, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
365 346 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (365 bp):
TTTTGAAATAACATAATGAACCATAAATTAAACAAGATCGAACTCATAATTTCCAAATATTAAAT
ATAGGGTAACCAACTCGTGGCTCGACTCTCAATTTGTTTTAAAAACAAAAGTCCCCAATGAAGTA
GCCAAGCTGTCGACATCGTTTTTCACCCGATGGGGAAAAGACCTATACCGACTCGGGGGTTTTAT
CTTTGAAATGATTTTCAAAATGTGAGGAGTCACCACCAATCATTTAAGGTGTGATTAGAACACCG
TAAAAACCGAGTGATTTTAATAAAGCATTTTATTTTAATAAAATATCGAGTTTTAGGGTCTACGA
AAATCCAAAAATCAGGTTCGGGAGTAGGTTCATTATGTTA
Found at i:937000 original size:29 final size:30
Alignment explanation
Indices: 936930--937001 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
936920 TTATATTGAC
* *
936930 TAAAATGTAAGAAAATAAAAAGTTAGTAGT
1 TAAAATGAAATAAAATAAAAAGTTAGTAGT
* *
936960 TAATATGCAATAAAAT-AAAAGTTAGTAGT
1 TAAAATGAAATAAAATAAAAAGTTAGTAGT
936989 TAGAAAT-AAATAA
1 TA-AAATGAAATAA
937002 CATAGCAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.56
30 16 0.44
ACGTcount: A:0.57, C:0.01, G:0.14, T:0.28
Consensus pattern (30 bp):
TAAAATGAAATAAAATAAAAAGTTAGTAGT
Found at i:942919 original size:2 final size:2
Alignment explanation
Indices: 942912--942936 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
942902 TAATCTCCTT
942912 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
942937 TTAAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:944191 original size:31 final size:32
Alignment explanation
Indices: 944142--944223 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 32
944132 CTTTTTCATT
*
944142 TAAGTACTTAAAGTATTTTTTT-GG-TCAAAA
1 TAAGTACTAAAAGTATTTTTTTGGGATCAAAA
*
944172 TAAGTATCTAAAATTATTTTTTTGGGATCAAAA
1 TAAGTA-CTAAAAGTATTTTTTTGGGATCAAAA
944205 T-AGATAC-ATAAAGTATTTT
1 TAAG-TACTA-AAAGTATTTT
944224 ATGTCAAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
30 6 0.14
31 15 0.34
32 14 0.32
33 9 0.20
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (32 bp):
TAAGTACTAAAAGTATTTTTTTGGGATCAAAA
Found at i:947095 original size:43 final size:43
Alignment explanation
Indices: 947048--947139 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
947038 TCTTATTACC
* * *
947048 ATTAAAGTCTTTATTAAAGTAAAATTCTCTAATTGATTATTTT
1 ATTAAAGTCTTTATTAAAGTAAAATTCTCTAATCGATCACTTT
947091 ATTAAAGTCTTTATTAAAGTAAAATTCTCTAATCGATCACTTT
1 ATTAAAGTCTTTATTAAAGTAAAATTCTCTAATCGATCACTTT
947134 ATTAAA
1 ATTAAA
947140 TTAACTAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.45
Consensus pattern (43 bp):
ATTAAAGTCTTTATTAAAGTAAAATTCTCTAATCGATCACTTT
Found at i:953114 original size:602 final size:602
Alignment explanation
Indices: 951970--953174 Score: 2320
Period size: 602 Copynumber: 2.0 Consensus size: 602
951960 CCAAATGTGG
* *
951970 GCAGTTCGCAAGGAGACATATTTGGAGGCTTTGTATCTTTGGGAAGCAGTGGAAGAGGACTACAT
1 GCAGTTCGCAAGGAGACATATTTAGAGGCTTTGGATCTTTGGGAAGCAGTGGAAGAGGACTACAT
952035 AGTTCCAGAAATTCCAGCCAATCCCACTTTGGCTCAGATCAAAGCACATAAGGAGAAGAAGATGA
66 AGTTCCAGAAATTCCAGCCAATCCCACTTTGGCTCAGATCAAAGCACATAAGGAGAAGAAGATGA
952100 AAAAAGCTAAGGCAAAATCCTGCTTGTTTGCTGCAGTTTCAGCCACCATTTTCACCCGAATTATG
131 AAAAAGCTAAGGCAAAATCCTGCTTGTTTGCTGCAGTTTCAGCCACCATTTTCACCCGAATTATG
952165 TCTCTAAAGTCAACAAATGAGATATGGGATTATCTCAAGGCTGAGTACGAAGGGGATGAGAGAAT
196 TCTCTAAAGTCAACAAATGAGATATGGGATTATCTCAAGGCTGAGTACGAAGGGGATGAGAGAAT
* *
952230 TCGTGGGATGCGGGTGCTGAATTTAGTTCGTGATTTTGAGCTGTAAAAGATGAAGGAAACTGAGA
261 TCGAGGGATGCAGGTGCTGAATTTAGTTCGTGATTTTGAGCTGTAAAAGATGAAGGAAACTGAGA
952295 CAGTCAAGGAGTATGATGAAAGACTTCTTAGCATAGCAAACCGAGTCCGGTTGCTGGGATCATCT
326 CAGTCAAGGAGTATGATGAAAGACTTCTTAGCATAGCAAACCGAGTCCGGTTGCTGGGATCATCT
952360 CTGGCAGACTCGAGGATTATGGAGAAAATCCTTGTAACATTGCCTGAAAAATTTGAGTCTACTGT
391 CTGGCAGACTCGAGGATTATGGAGAAAATCCTTGTAACATTGCCTGAAAAATTTGAGTCTACTGT
*
952425 TACCACCTTGGATAATATCAAGGACTTGTCCAAGATTCCTCTGGCAGAACTCTTGAGTGCCTTGC
456 TACCACCTTGGATAATATCAAGGACTTGTCCAAGATTCCTCTGGAAGAACTCTTGAGTGCCTTGC
* *
952490 AAGCACAAGAGCAGAGGCATGCAATGAGACAAGAAGGAACTATTGAAGGAGCTCTAGCAGCTAAG
521 AAGAACAAGAGCAGAGGCATGCAATGAGACAAGAAGGAACTATTGAAGGAGCTCTAACAGCTAAG
952555 CATCACAATAATGGCAA
586 CATCACAATAATGGCAA
*
952572 GCAGTTCGCAAGGAGACATGTTTAGAGGCTTTGGATCTTTGGGAAGCAGTGGAAGAGGACTACAT
1 GCAGTTCGCAAGGAGACATATTTAGAGGCTTTGGATCTTTGGGAAGCAGTGGAAGAGGACTACAT
952637 AGTTCCAGAAATTCCAGCCAATCCCACTTTGGCTCAGATCAAAGCACATAAGGAGAAGAAGATGA
66 AGTTCCAGAAATTCCAGCCAATCCCACTTTGGCTCAGATCAAAGCACATAAGGAGAAGAAGATGA
952702 AAAAAGCTAAGGCAAAATCCTGCTTGTTTGCTGCAGTTTCAGCCACCATTTTCACCCGAATTATG
131 AAAAAGCTAAGGCAAAATCCTGCTTGTTTGCTGCAGTTTCAGCCACCATTTTCACCCGAATTATG
952767 TCTCTAAAGTCAACAAATGAGATATGGGATTATCTCAAGGCTGAGTACGAAGGGGATGAGAGAAT
196 TCTCTAAAGTCAACAAATGAGATATGGGATTATCTCAAGGCTGAGTACGAAGGGGATGAGAGAAT
*
952832 TCGAGGGATGTAGGTGCTGAATTTAGTTCGTGATTTTGAGCTGTAAAAGATGAAGGAAACTGAGA
261 TCGAGGGATGCAGGTGCTGAATTTAGTTCGTGATTTTGAGCTGTAAAAGATGAAGGAAACTGAGA
952897 CAGTCAAGGAGTATGATGAAAGACTTCTTAGCATAGCAAACCGAGTCCGGTTGCTGGGATCATCT
326 CAGTCAAGGAGTATGATGAAAGACTTCTTAGCATAGCAAACCGAGTCCGGTTGCTGGGATCATCT
*
952962 CTGGCAGACTCGAGGATTGTGGAGAAAATCCTTGTAACATTGCCTGAAAAATTTGAGTCTACTGT
391 CTGGCAGACTCGAGGATTATGGAGAAAATCCTTGTAACATTGCCTGAAAAATTTGAGTCTACTGT
953027 TACCACCTTGGATAATATCAAGGACTTGTCCAAGATTCCTCTGGAAGAACTCTTGAGTGCCTTGC
456 TACCACCTTGGATAATATCAAGGACTTGTCCAAGATTCCTCTGGAAGAACTCTTGAGTGCCTTGC
953092 AAGAACAAGAGCAGAGGCATGCAATGAGACAAGAAGGAACTATTGAAGGAGCTCTAACAGCTAAG
521 AAGAACAAGAGCAGAGGCATGCAATGAGACAAGAAGGAACTATTGAAGGAGCTCTAACAGCTAAG
953157 CATCACAATAATGGCAA
586 CATCACAATAATGGCAA
953174 G
1 G
953175 AATAGGAAGC
Statistics
Matches: 593, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
602 593 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (602 bp):
GCAGTTCGCAAGGAGACATATTTAGAGGCTTTGGATCTTTGGGAAGCAGTGGAAGAGGACTACAT
AGTTCCAGAAATTCCAGCCAATCCCACTTTGGCTCAGATCAAAGCACATAAGGAGAAGAAGATGA
AAAAAGCTAAGGCAAAATCCTGCTTGTTTGCTGCAGTTTCAGCCACCATTTTCACCCGAATTATG
TCTCTAAAGTCAACAAATGAGATATGGGATTATCTCAAGGCTGAGTACGAAGGGGATGAGAGAAT
TCGAGGGATGCAGGTGCTGAATTTAGTTCGTGATTTTGAGCTGTAAAAGATGAAGGAAACTGAGA
CAGTCAAGGAGTATGATGAAAGACTTCTTAGCATAGCAAACCGAGTCCGGTTGCTGGGATCATCT
CTGGCAGACTCGAGGATTATGGAGAAAATCCTTGTAACATTGCCTGAAAAATTTGAGTCTACTGT
TACCACCTTGGATAATATCAAGGACTTGTCCAAGATTCCTCTGGAAGAACTCTTGAGTGCCTTGC
AAGAACAAGAGCAGAGGCATGCAATGAGACAAGAAGGAACTATTGAAGGAGCTCTAACAGCTAAG
CATCACAATAATGGCAA
Found at i:957585 original size:11 final size:12
Alignment explanation
Indices: 957545--957588 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
957535 TATTTAAACG
*
957545 GGTATTGGGCCA
1 GGTATTGGGTCA
*
957557 GGTATTGGGTCG
1 GGTATTGGGTCA
957569 GGTATTGGGTC-
1 GGTATTGGGTCA
957580 GGTATTGGG
1 GGTATTGGG
957589 CTGGGAATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.11, C:0.09, G:0.48, T:0.32
Consensus pattern (12 bp):
GGTATTGGGTCA
Found at i:957587 original size:23 final size:24
Alignment explanation
Indices: 957543--957588 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
957533 ATTATTTAAA
957543 CGGGTATTGGGCCAGGTATTGGGT
1 CGGGTATTGGGCCAGGTATTGGGT
*
957567 CGGGTATTGGGTC-GGTATTGGG
1 CGGGTATTGGGCCAGGTATTGGG
957589 CTGGGAATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.11, C:0.11, G:0.48, T:0.30
Consensus pattern (24 bp):
CGGGTATTGGGCCAGGTATTGGGT
Found at i:957652 original size:2 final size:2
Alignment explanation
Indices: 957606--957632 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
957596 TCGGGCCGGG
957606 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
957633 TATTTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:957659 original size:24 final size:24
Alignment explanation
Indices: 957621--957683 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
957611 ATATATATAT
957621 ATATATATATATTATTTAAATTAA
1 ATATATATATATTATTTAAATTAA
* *
957645 ATATATATTTTTTATTTAAATTAA
1 ATATATATATATTATTTAAATTAA
*
957669 ATTTAT-TAATATTAT
1 ATATATAT-ATATTAT
957684 ATTTATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 1 0.03
24 32 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATATATATATTATTTAAATTAA
Found at i:957753 original size:13 final size:12
Alignment explanation
Indices: 957722--957758 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
957712 TTTTAATATT
*
957722 TATCGGGTCGGG
1 TATCGGGGCGGG
957734 TATCGGGGCGGG
1 TATCGGGGCGGG
957746 TAATCGGGGCGGG
1 T-ATCGGGGCGGG
957759 GATTACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.11, C:0.16, G:0.54, T:0.19
Consensus pattern (12 bp):
TATCGGGGCGGG
Found at i:960433 original size:1 final size:1
Alignment explanation
Indices: 960427--960453 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
960417 TCTAAACCGC
960427 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
960454 CTAAACTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:960975 original size:12 final size:11
Alignment explanation
Indices: 960958--960992 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
960948 CTACATATAA
960958 TAAAAATATATT
1 TAAAAAT-TATT
960970 TAAAAATTATT
1 TAAAAATTATT
960981 TAAAAATTATT
1 TAAAAATTATT
960992 T
1 T
960993 TTGATGATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAAAAATTATT
Found at i:963766 original size:26 final size:26
Alignment explanation
Indices: 963729--963797 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
963719 ATTATATCTT
963729 AATCATCATTTTAAATATATTTAAA-A
1 AATCAT-ATTTTAAATATATTTAAATA
*
963755 ATATCATATTTTAAATAATTTTTAAATA
1 A-ATCATATTTTAAAT-ATATTTAAATA
*
963783 AATTATA-TTTAAATA
1 AATCATATTTTAAATA
963798 AGAAATTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 1 0.03
26 17 0.45
27 18 0.47
28 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
AATCATATTTTAAATATATTTAAATA
Found at i:963778 original size:27 final size:27
Alignment explanation
Indices: 963729--963798 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 27
963719 ATTATATCTT
963729 AATCATCATTTTAAAT-ATATTTAAA-A
1 AATCAT-ATTTTAAATAATATTTAAATA
*
963755 ATATCATATTTTAAATAATTTTTAAATA
1 A-ATCATATTTTAAATAATATTTAAATA
*
963783 AATTATA-TTTAAATAA
1 AATCATATTTTAAATAA
963799 GAAATTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 19 0.49
27 18 0.46
28 2 0.05
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (27 bp):
AATCATATTTTAAATAATATTTAAATA
Found at i:966159 original size:22 final size:23
Alignment explanation
Indices: 966119--966161 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
966109 GATGATGTTG
* *
966119 TATTTTTTAAATTACTTTTATAT
1 TATTATTTAAATTAATTTTATAT
966142 TATTATTT-AATTAATTTTAT
1 TATTATTTAAATTAATTTTAT
966162 TCAACTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TATTATTTAAATTAATTTTATAT
Found at i:966348 original size:16 final size:15
Alignment explanation
Indices: 966327--966356 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
966317 TGCCAAAACA
966327 TATATTTAATTTATAT
1 TATATTT-ATTTATAT
966343 TATATTTATTTATA
1 TATATTTATTTATA
966357 ATAGAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATTTATTTATAT
Found at i:966457 original size:15 final size:17
Alignment explanation
Indices: 966437--966469 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
966427 AATTATATGT
966437 ATTT-AATTA-TTTAAA
1 ATTTAAATTATTTTAAA
966452 ATTTAAATTATTTTAAA
1 ATTTAAATTATTTTAAA
966469 A
1 A
966470 AAATATGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 5 0.31
17 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTAAATTATTTTAAA
Found at i:969742 original size:2 final size:2
Alignment explanation
Indices: 969735--969762 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
969725 AATTTTTAAA
969735 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
969763 GAATTATAAA
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:974173 original size:20 final size:19
Alignment explanation
Indices: 974149--974227 Score: 90
Period size: 19 Copynumber: 4.2 Consensus size: 19
974139 CTGCTGGAAA
*
974149 ACCGGTTTG-ACCAGTTTTG
1 ACCGGTTTGAACC-GGTTTG
974168 AACCGGTTTG-ACCGGTTTG
1 -ACCGGTTTGAACCGGTTTG
*
974187 ACCGGTTCGAACCGGTTTG
1 ACCGGTTTGAACCGGTTTG
* *
974206 ACCGGTCTGAACCGGGTTG
1 ACCGGTTTGAACCGGTTTG
974225 ACC
1 ACC
974228 CGACCCGACC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
18 8 0.15
19 33 0.62
20 12 0.23
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.28
Consensus pattern (19 bp):
ACCGGTTTGAACCGGTTTG
Found at i:974181 original size:9 final size:9
Alignment explanation
Indices: 974149--974227 Score: 86
Period size: 9 Copynumber: 8.3 Consensus size: 9
974139 CTGCTGGAAA
974149 ACCGGTTTG
1 ACCGGTTTG
*
974158 ACCAGTTTTG
1 ACC-GGTTTG
974168 AACCGGTTTG
1 -ACCGGTTTG
974178 ACCGGTTTG
1 ACCGGTTTG
*
974187 ACCGGTTCG
1 ACCGGTTTG
974196 AACCGGTTTG
1 -ACCGGTTTG
*
974206 ACCGGTCTG
1 ACCGGTTTG
*
974215 AACCGGGTTG
1 -ACCGGTTTG
974225 ACC
1 ACC
974228 CGACCCGACC
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 31 0.53
10 25 0.42
11 3 0.05
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:974206 original size:28 final size:28
Alignment explanation
Indices: 974149--974220 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
974139 CTGCTGGAAA
* *
974149 ACCGGTTTGACCAGTTTTGAACCGGTTTG
1 ACCGGTTTGACC-GGTTCGAACCGGTTTG
974178 ACCGGTTTGACCGGTTCGAACCGGTTTG
1 ACCGGTTTGACCGGTTCGAACCGGTTTG
*
974206 ACCGGTCTGAACCGG
1 ACCGGTTTG-ACCGG
974221 GTTGACCCGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 22 0.56
29 17 0.44
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.28
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTCGAACCGGTTTG
Found at i:974275 original size:17 final size:17
Alignment explanation
Indices: 974221--974278 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
974211 TCTGAACCGG
974221 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
*
974238 GTTAACCCGACCCGACC
1 GTTGACCCGACCCGACC
974255 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
974272 GTTGACC
1 GTTGACC
974279 GTGACCGTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.19, C:0.45, G:0.22, T:0.14
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:986137 original size:10 final size:10
Alignment explanation
Indices: 986108--986176 Score: 72
Period size: 10 Copynumber: 7.1 Consensus size: 10
986098 GCTGCTGGAA
986108 AACCGGTTTG
1 AACCGGTTTG
*
986118 -ACCAGTTTTG
1 AACC-GGTTTG
986128 AACCGGTTTG
1 AACCGGTTTG
*
986138 -ACCGGTTCG
1 AACCGGTTTG
986147 AACCGGTTTG
1 AACCGGTTTG
*
986157 -ACCGGTCTG
1 AACCGGTTTG
*
986166 AACCGGGTTG
1 AACCGGTTTG
986176 A
1 A
986177 CCCGATCCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 19 0.40
10 26 0.54
11 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:986151 original size:19 final size:19
Alignment explanation
Indices: 986108--986178 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
986098 GCTGCTGGAA
* *
986108 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTTCG
986128 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
986147 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTC-G
*
986166 AACCGGGTTGACC
1 AACCGGTTTGACC
986179 CGATCCGACC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
18 2 0.04
19 32 0.68
20 13 0.28
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Found at i:986194 original size:17 final size:17
Alignment explanation
Indices: 986172--986229 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
986162 TCTGAACCGG
*
986172 GTTGACCCGATCCGACC
1 GTTGACCCGACCCGACC
986189 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
986206 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
986223 GTTGACC
1 GTTGACC
986230 GTGACCGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:1001548 original size:15 final size:15
Alignment explanation
Indices: 1001528--1001564 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
1001518 CCCCTATGTT
1001528 TTTGGTCTAACCGAC
1 TTTGGTCTAACCGAC
1001543 TTTGGTCTAACCGAC
1 TTTGGTCTAACCGAC
1001558 TTTGGTC
1 TTTGGTC
1001565 ACCAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (15 bp):
TTTGGTCTAACCGAC
Found at i:1003928 original size:21 final size:20
Alignment explanation
Indices: 1003842--1003999 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
1003832 AAATGACCAA
**
1003842 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1003861 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1003881 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1003901 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1003922 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1003943 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1003963 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1003984 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1004000 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1004028 original size:20 final size:20
Alignment explanation
Indices: 1003966--1004159 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
1003956 CGATTTTCCA
* ** *
1003966 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
1003986 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
1004006 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1004026 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1004046 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1004066 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
1004086 ATATCGCAACGGGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
1004106 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
1004126 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
1004147 AAATCGCAACGCG
1 AAATCGCAACGCG
1004160 ATATTTAAAG
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 125 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1004050 original size:60 final size:60
Alignment explanation
Indices: 1003986--1004157 Score: 245
Period size: 60 Copynumber: 2.9 Consensus size: 60
1003976 GCGAATATGA
* *
1003986 AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGGGTATCCGT
* *** * *
1004046 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGGGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGGGTATCCGT
**
1004106 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACG
1 AAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTAAATCGCAACG
1004158 CGATATTTAA
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 66 0.69
61 29 0.31
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGGGTATCCGT
Found at i:1004579 original size:33 final size:33
Alignment explanation
Indices: 1004540--1004610 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1004530 TTCACTTAGA
1004540 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1004573 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1004606 TTTCA
1 TTTCA
1004611 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1004734 original size:20 final size:20
Alignment explanation
Indices: 1004690--1004764 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
1004680 TGCAGAAGAG
*
1004690 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
1004711 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
*
1004731 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
1004750 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
1004765 CGCAACGCGA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 15 0.34
20 18 0.41
21 11 0.25
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:1004753 original size:19 final size:19
Alignment explanation
Indices: 1004690--1004760 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
1004680 TGCAGAAGAG
1004690 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAG--AAATGAAAA
***
1004711 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGA-AATGAAAA
*
1004731 TCGCAACGCGAAATGAAAA
1 TCGCAACGAGAAATGAAAA
1004750 TCGCAACGAGA
1 TCGCAACGAGA
1004761 GAATCGCAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 16 0.39
20 15 0.37
21 10 0.24
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.13
Consensus pattern (19 bp):
TCGCAACGAGAAATGAAAA
Found at i:1004773 original size:33 final size:36
Alignment explanation
Indices: 1004683--1004787 Score: 108
Period size: 39 Copynumber: 2.9 Consensus size: 36
1004673 TTCAATTTGC
* *
1004683 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAAGACTCGCAACGCG--AAATGAAAATCGCAACGAG
1004721 AGAATGACTGTCGCAACGCGAAATGAAAATCGCAACGAG
1 AGAA-GAC--TCGCAACGCGAAATGAAAATCGCAACGAG
**
1004760 AG-A-A-TCGCAACGCGAAACCAAAATCGCA
1 AGAAGACTCGCAACGCGAAATGAAAATCGCA
1004788 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
33 22 0.37
36 1 0.02
38 5 0.08
39 23 0.38
41 9 0.15
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (36 bp):
AGAAGACTCGCAACGCGAAATGAAAATCGCAACGAG
Found at i:1004824 original size:14 final size:14
Alignment explanation
Indices: 1004805--1004894 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1004795 TTTTATTTCG
1004805 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1004819 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1004838 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1004852 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
1004869 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
1004885 CGTTGCGATT
1 CGTTGCGATT
1004895 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1004830 original size:33 final size:33
Alignment explanation
Indices: 1004788--1004902 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
1004778 CAAAATCGCA
*
1004788 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1004821 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
1004854 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1004887 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1004903 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1004843 original size:19 final size:18
Alignment explanation
Indices: 1004783--1004900 Score: 71
Period size: 14 Copynumber: 7.1 Consensus size: 18
1004773 GAAACCAAAA
* *
1004783 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCA-T
1004802 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
*
1004816 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
1004835 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
* *
1004849 TCTCGTTGCGATTGTCAT
1 TCGCGTTGCGATTTTCAT
1004867 CTCGCGTTGCGA--TTC--
1 -TCGCGTTGCGATTTTCAT
*
1004882 TCTCGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
1004900 T
1 T
1004901 TCAACCAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 29
0.67 0.08 0.25
Matches are distributed among these distances:
14 30 0.39
16 8 0.11
17 7 0.09
18 1 0.01
19 30 0.39
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCAT
Found at i:1006757 original size:93 final size:93
Alignment explanation
Indices: 1006598--1007071 Score: 921
Period size: 93 Copynumber: 5.1 Consensus size: 93
1006588 TAGATTGCTT
*
1006598 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1006663 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1006691 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1006756 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1006784 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1006849 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
1006877 AGTAAATTTGTTCGGTTGCTCCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1006942 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1006970 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1007035 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1007063 AGTAAATTT
1 AGTAAATTT
1007072 ATCCATTCAA
Statistics
Matches: 376, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 376 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1007155 original size:19 final size:19
Alignment explanation
Indices: 1007115--1007243 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
1007105 TAGTTTACTT
* *
1007115 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1007135 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1007154 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1007173 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
*
1007187 TCGCAACGCGAAACCATAA
1 TCGCAACGCGAAACCAAAA
*
1007206 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
1007220 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1007239 TCGCA
1 TCGCA
1007244 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 18 0.20
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.52
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1007194 original size:33 final size:32
Alignment explanation
Indices: 1007151--1007243 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
1007141 CGCGAAACCA
**
1007151 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
*
1007183 AGAATCGCAACGCGAAACCATAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1007216 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1007244 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 2 0.04
33 53 0.96
ACGTcount: A:0.45, C:0.28, G:0.18, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1007241 original size:52 final size:52
Alignment explanation
Indices: 1007115--1007243 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 52
1007105 TAGTTTACTT
**
1007115 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * * *
1007167 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCATAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
1007220 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
1007244 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 41 0.67
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:1007261 original size:19 final size:19
Alignment explanation
Indices: 1007239--1007373 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1007229 GAAACCAAAA
*
1007239 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1007258 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1007274 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1007291 TCGCATTGCGA--TT-ATG
1 TCGCGTTGCGATTTTCATT
1007307 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1007324 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
1007343 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1007363 TCGTGTTGCGA
1 TCGCGTTGCGA
1007374 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1007280 original size:14 final size:14
Alignment explanation
Indices: 1007261--1007317 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1007251 TTTCATTTCG
1007261 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1007275 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
* *
1007292 CGCATTGCGATTATGT
1 CG--TTGCGATTCTTT
1007308 CGTTGCGATT
1 CGTTGCGATT
1007318 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1007286 original size:33 final size:33
Alignment explanation
Indices: 1007244--1007336 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
1007234 CAAAATCGCA
* *
1007244 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTATGTCG
*
1007277 TTGCGATTTTCATTTCGCATTGCGATTATGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTATGTCG
1007310 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1007337 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTATGTCG
Found at i:1009314 original size:14 final size:14
Alignment explanation
Indices: 1009295--1009330 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1009285 ATTGTTTAAT
1009295 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1009309 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1009323 TGATTTGT
1 TGATTTGT
1009331 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1009461 original size:19 final size:19
Alignment explanation
Indices: 1009437--1009534 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
1009427 AAAATTGACT
1009437 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1009456 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1009475 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1009489 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1009508 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1009528 ATCGCAA
1 ATCGCAA
1009535 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1009566 original size:53 final size:53
Alignment explanation
Indices: 1009437--1009553 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
1009427 AAAATTGACT
1009437 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1009489 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1009542 ATCGCAATGCGA
1 ATCGCAATGCGA
1009554 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:1011884 original size:12 final size:12
Alignment explanation
Indices: 1011867--1011891 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1011857 TCTTCGGGGA
1011867 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1011879 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1011891 C
1 C
1011892 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1012100 original size:24 final size:24
Alignment explanation
Indices: 1012066--1012112 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1012056 CTGAAACATC
1012066 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1012090 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1012113 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1013085 original size:20 final size:20
Alignment explanation
Indices: 1012795--1013084 Score: 312
Period size: 20 Copynumber: 14.5 Consensus size: 20
1012785 AAATTTCAGT
* * *
1012795 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1012815 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1012835 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1012855 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1012875 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1012895 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1012915 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
1012935 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1012955 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
1012975 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
*
1012995 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1013015 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1013035 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1013055 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1013075 GTTGCGATTT
1 GTTGCGATTT
1013085 TGGAAAATCG
Statistics
Matches: 238, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
20 237 1.00
21 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1013101 original size:21 final size:21
Alignment explanation
Indices: 1013071--1013153 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
1013061 ATTTTCATAT
*
1013071 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1013092 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1013113 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1013134 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1013154 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1013144 original size:42 final size:43
Alignment explanation
Indices: 1013051--1013149 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1013041 ATTTATGTGT
* *
1013051 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
1013092 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
1013134 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1013150 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:1020541 original size:36 final size:35
Alignment explanation
Indices: 1020496--1020606 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 35
1020486 TAAGATACTA
*
1020496 CCTA-AACATCACCATCTTCTATCACCATTTTTACG
1 CCTATAACATCACCATCTTCTATCACCA-TTTCACG
* * *
1020531 CCTATAACATCACCATCTTCCATTACCATTGCACG
1 CCTATAACATCACCATCTTCTATCACCATTTCACG
* * *
1020566 CCTATATCCTTACCATCTTCTATCACCATTTCACG
1 CCTATAACATCACCATCTTCTATCACCATTTCACG
1020601 CCTATA
1 CCTATA
1020607 TAACCACCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
35 44 0.68
36 21 0.32
ACGTcount: A:0.27, C:0.36, G:0.04, T:0.33
Consensus pattern (35 bp):
CCTATAACATCACCATCTTCTATCACCATTTCACG
Found at i:1029187 original size:2 final size:2
Alignment explanation
Indices: 1029180--1029204 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1029170 TACTACCAAA
1029180 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1029205 CCCTTACTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1029207 original size:53 final size:50
Alignment explanation
Indices: 1029114--1029223 Score: 193
Period size: 53 Copynumber: 2.1 Consensus size: 50
1029104 AATTTCCAAT
1029114 GCTAGTTACTACCAAAAATATATATATATATATATATACCCTTACTGCAA
1 GCTAGTTACTACCAAAAATATATATATATATATATATACCCTTACTGCAA
1029164 GCTAGTTACTACCAAAATATATATATATATATATATATATACCCTTACTGCAA
1 GCTAGTTACTACC-AAA-A-ATATATATATATATATATATACCCTTACTGCAA
1029217 GCTAGTT
1 GCTAGTT
1029224 TCCCGACAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
50 13 0.23
51 3 0.05
52 1 0.02
53 40 0.70
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (50 bp):
GCTAGTTACTACCAAAAATATATATATATATATATATACCCTTACTGCAA
Found at i:1031603 original size:60 final size:60
Alignment explanation
Indices: 1031522--1031641 Score: 170
Period size: 60 Copynumber: 2.0 Consensus size: 60
1031512 GTCCTCCAAT
* *
1031522 TATGACCCTCATTTTAAATTAGTCCTTAAACTTTTTAACA-TTCTAATTTCAACCCCAAAC
1 TATGACCCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTTC-AATTTCAACCCCAAAC
* * **
1031582 TATGACTCTTATTCTAAATTAGTCCTTAAACTTTTGAACATTTCAATTTCATTCCCAAAC
1 TATGACCCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTTCAATTTCAACCCCAAAC
1031642 CCTCATTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 50 0.94
61 3 0.06
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (60 bp):
TATGACCCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTTCAATTTCAACCCCAAAC
Found at i:1031965 original size:60 final size:59
Alignment explanation
Indices: 1031821--1031998 Score: 198
Period size: 60 Copynumber: 3.0 Consensus size: 59
1031811 ACATAGTTTG
* * * * **
1031821 GGATGAAA-TTAAATGTTCAAAAGTTTAGGTACTAATTTAGAATG-AGGTCATAGTTTGG
1 GGATGAAATTTAAATGTTTAAAAGTTTAGG-ACTAATTTAAAATGAAGATCATAATTTAA
* * * *
1031879 GGATGGAATTGAAATGTTTAAAAGTTTAAGGACTAATTTAAAATGAAAATAATAATTTAA
1 GGATGAAATTTAAATGTTTAAAAGTTT-AGGACTAATTTAAAATGAAGATCATAATTTAA
* * *
1031939 GGATGAAATTTAAATTTTTAAAAGTTTGGGGACTAATTTAATATGAAGATCATAATTTAA
1 GGATGAAATTTAAATGTTTAAAAGTTT-AGGACTAATTTAAAATGAAGATCATAATTTAA
1031999 AGACACATGA
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
58 7 0.07
59 29 0.29
60 63 0.64
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (59 bp):
GGATGAAATTTAAATGTTTAAAAGTTTAGGACTAATTTAAAATGAAGATCATAATTTAA
Found at i:1036760 original size:20 final size:20
Alignment explanation
Indices: 1036737--1036783 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
1036727 GTTTCCAAAT
1036737 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
*
1036757 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATATGTAAA
1036777 TCGCAAC
1 TCGCAAC
1036784 ACTGAATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:1036820 original size:20 final size:20
Alignment explanation
Indices: 1036790--1036844 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1036780 CAACACTGAA
*
1036790 TTTCAAATTCGCAACTCGA-
1 TTTCGAATTCGCAACTCGAT
*
1036809 TTTCTGAATTCGCAGCTCGAT
1 TTTC-GAATTCGCAACTCGAT
*
1036830 TTTCGAATTCACAAC
1 TTTCGAATTCGCAAC
1036845 ATGAATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 4 0.13
20 22 0.73
21 4 0.13
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (20 bp):
TTTCGAATTCGCAACTCGAT
Found at i:1037056 original size:16 final size:15
Alignment explanation
Indices: 1037021--1037059 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1037011 TCCCCATCTC
*
1037021 TAATTTTTTTTTACA
1 TAATTTTTTTCTACA
*
1037036 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
1037052 TAATTTTT
1 TAATTTTT
1037060 CAATTATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Done.