Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 146 of 316
Found at i:46546695 original size:25 final size:24
Alignment explanation
Indices: 46546431--46546699 Score: 396
Period size: 24 Copynumber: 11.0 Consensus size: 24
46546421 GGAGGAAGTG
46546431 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
46546455 TAAAAAGGGCTTACGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
46546480 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
46546504 CAAAAGGGCTTATGCCTCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
46546528 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
46546552 TAAAAAGGGCTTACGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
*
46546577 TAAATAGGGCTTATGCCCTAGTTAT
1 TAAA-AGGGCTTATGCCCCAGTTAT
46546602 TAAATAGGGCTTATGCCCCAGTTAT
1 TAAA-AGGGCTTATGCCCCAGTTAT
*
46546627 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
46546651 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
46546675 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
46546700 ATGATAAAGC
Statistics
Matches: 225, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
24 123 0.55
25 102 0.45
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:46549100 original size:27 final size:28
Alignment explanation
Indices: 46549070--46549160 Score: 100
Period size: 27 Copynumber: 3.4 Consensus size: 28
46549060 TTTAGTTTAC
46549070 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* *
46549097 TAAAAATT-CTGAAATACCC-TCGATTTG
1 T-AAAATTACCGAAATACCCTTAGATTTG
* * *
46549124 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
46549151 TAAAATTACC
1 TAAAATTACC
46549161 AAAGTAGCCT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.18
27 40 0.71
28 6 0.11
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:46549173 original size:27 final size:26
Alignment explanation
Indices: 46549094--46549173 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
46549084 TACCCTTAGT
* *
46549094 TTGTAAAAATT-CTGAAATACCCTCGAT
1 TTGT-AAAATTACTCAAATA-CCTCGAC
*
46549121 TTGTAAAATTACTGAAATACCTTCGAC
1 TTGTAAAATTACTCAAATACC-TCGAC
46549148 TTGTAAAATTAC-CAAAGTAGCCTCGA
1 TTGTAAAATTACTCAAA-TA-CCTCGA
46549174 TTTCCAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
26 11 0.23
27 34 0.72
28 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACTCAAATACCTCGAC
Found at i:46549377 original size:27 final size:27
Alignment explanation
Indices: 46549168--46549376 Score: 249
Period size: 27 Copynumber: 7.7 Consensus size: 27
46549158 ACCAAAGTAG
* *
46549168 CCTCGATTTCCAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* * * *
46549195 CCCCGTTTTACATAATTACTATTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* *
46549222 CCCCGATTTACATAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* *
46549249 CCCCGATTTACATAATTA-TCGTTTTAC
1 CCTCGATTTACAGAATTACT-GTTTTAC
* *
46549276 CCTCGACTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
*
46549303 CCTCGATTTATAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
** *
46549330 CCTTAATTTACAGAATTACTATTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
*
46549357 CCTCGATTTACAAAATTACT
1 CCTCGATTTACAGAATTACT
46549377 AAAATACCCT
Statistics
Matches: 158, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 157 0.99
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACTGTTTTAC
Found at i:46549384 original size:27 final size:27
Alignment explanation
Indices: 46549354--46549492 Score: 136
Period size: 27 Copynumber: 5.1 Consensus size: 27
46549344 ATTACTATTT
* *
46549354 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
46549381 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
46549408 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * * *
46549435 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
46549462 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
46549489 TACC
1 TACC
46549493 TCTAATTTAC
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:46549385 original size:54 final size:54
Alignment explanation
Indices: 46549283--46549387 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
46549273 TACCCTCGAC
* * * ****
46549283 TTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTAAT
1 TTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAAT
*
46549337 TTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
1 TTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
46549388 GGTTTATAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (54 bp):
TTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAAT
Found at i:46549394 original size:81 final size:81
Alignment explanation
Indices: 46549219--46549395 Score: 185
Period size: 81 Copynumber: 2.2 Consensus size: 81
46549209 ATTACTATTT
* * * * * *
46549219 TACCCCCGATTTACATAATTACTGTTTTACCCCCGATTTACATAATTATCGTTTTACCCTCGACT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCCCAATTTACAGAATTATCATTTTACCCTCGACT
* ****
46549284 TACAGAATTACCGTTT
66 TACAAAATTACCAAAA
** *
46549300 TACCCTCGATTTATAGAATTACTGTTTTACCCTTAATTTACAGAATTA-CTATTTTACCCTCGAT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCCCAATTTACAGAATTATC-ATTTTACCCTCGAC
*
46549364 TTACAAAATTACTAAAA
65 TTACAAAATTACCAAAA
* *
46549381 TACCCTTGGTTTATA
1 TACCCTCGATTTATA
46549396 AAATCACCAA
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 1 0.01
81 77 0.99
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACTGTTTTACCCCCAATTTACAGAATTATCATTTTACCCTCGACT
TACAAAATTACCAAAA
Found at i:46549412 original size:54 final size:54
Alignment explanation
Indices: 46549354--46549492 Score: 181
Period size: 54 Copynumber: 2.6 Consensus size: 54
46549344 ATTACTATTT
* ** *
46549354 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
* * * * *
46549408 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
46549462 TACCCTCAATTTGTAAAATTACCAAAATACC
1 TACCCTCAATTTGTAAAATTACCAAAATACC
46549493 TCTAATTTAC
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.97
55 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:46549454 original size:81 final size:81
Alignment explanation
Indices: 46549369--46549523 Score: 186
Period size: 81 Copynumber: 1.9 Consensus size: 81
46549359 TCGATTTACA
* *** * **
46549369 AAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACCA-A
1 AAATTACCAAAATACCCTCAATTTATAAAATCACCAAAATACCCCTAATTTACAAAATTA-CAGA
46549433 AATACCCTTGGTTTGTG
65 AATACCCTTGGTTTGTG
* * * * *
46549450 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCTCTAATTTACAAAGTTACAGAA
1 AAATTACCAAAATACCCTCAATTTATAAAATCACCAAAATACCCCTAATTTACAAAATTACAGAA
46549515 ATACCCTTG
66 ATACCCTTG
46549524 ACTTTCTAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 2 0.03
81 59 0.97
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTATAAAATCACCAAAATACCCCTAATTTACAAAATTACAGAA
ATACCCTTGGTTTGTG
Found at i:46549500 original size:27 final size:26
Alignment explanation
Indices: 46549368--46549492 Score: 142
Period size: 27 Copynumber: 4.7 Consensus size: 26
46549358 CTCGATTTAC
* * *
46549368 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCC-TAGTTTGT
*
46549395 AAAATCACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
*
46549422 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCC-TAGTTTGT
* * *
46549449 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
46549476 AAAATTACCAAAATACC
1 AAAATTACCAAAATACC
46549493 TCTAATTTAC
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.05
27 76 0.92
28 3 0.04
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:46549510 original size:27 final size:27
Alignment explanation
Indices: 46549327--46549521 Score: 108
Period size: 27 Copynumber: 7.2 Consensus size: 27
46549317 ATTACTGTTT
* * * ***
46549327 TACCCTTAATTTACAGAATTACTATTT
1 TACCCTCAATTTACAAAATTACCAAAA
* *
46549354 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
*** * *
46549381 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* **
46549408 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
*** *** *
46549435 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCAATTTACAAAATTACCAAAA
**
46549462 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
*
46549489 TA-CCTCTAATTTACAAAGTTA-CAGAAA
1 TACCCTC-AATTTACAAAATTACCA-AAA
46549516 TACCCT
1 TACCCT
46549522 TGACTTTCTA
Statistics
Matches: 136, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
26 6 0.04
27 127 0.93
28 3 0.02
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:46549516 original size:54 final size:54
Alignment explanation
Indices: 46549417--46549521 Score: 133
Period size: 54 Copynumber: 1.9 Consensus size: 54
46549407 ATACCCCTAG
** ** *
46549417 TTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCCTTAATTTGACAAATTACAGAAATACCCTCAA
46549471 TTTGTAAAATTACCAAAATA-CCTCTAATTT-ACAAAGTTACAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCCT-TAATTTGACAAA-TTACAGAAATACCCT
46549522 TGACTTTCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
53 6 0.14
54 38 0.86
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCTTAATTTGACAAATTACAGAAATACCCTCAA
Found at i:46549667 original size:27 final size:26
Alignment explanation
Indices: 46549637--46549728 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 26
46549627 ACCCCTATTA
* *
46549637 GGTAAAAAGACCGTGAAGCCCCTGTAG
1 GGTAAAATGACCGT-AAGCCCCTGTAT
*
46549664 GGTAAAGTGACCGTAAAGCCCCTGTAT
1 GGTAAAATGACCGT-AAGCCCCTGTAT
*
46549691 GGTAAAATGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAA-GCCCCTGTAT
46549718 GGTAAAATGAC
1 GGTAAAATGAC
46549729 GAATATGCCC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.03
27 56 0.97
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (26 bp):
GGTAAAATGACCGTAAGCCCCTGTAT
Found at i:46549743 original size:25 final size:27
Alignment explanation
Indices: 46549624--46549728 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
46549614 AAATGACTAA
* *
46549624 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* * *
46549651 GAA-GCCCCTGTAGGGTAAAGTGACCGT
1 -AATACCCCTGTATGGTAAAATGACCGT
46549678 AA-AGCCCCTGTATGGTAAAATGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
46549705 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
46549729 GAATATGCCC
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
26 2 0.03
27 61 0.92
28 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:46550372 original size:14 final size:14
Alignment explanation
Indices: 46550355--46550396 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
46550345 GTGGTTGATT
46550355 ATAGGAGATATCGC
1 ATAGGAGATATCGC
*
46550369 ATAGGAGATCTCGTC
1 ATAGGAGATATCG-C
46550384 A-AGGA-ATATCGC
1 ATAGGAGATATCGC
46550396 A
1 A
46550397 AATCAGGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 2 0.08
13 5 0.20
14 16 0.64
15 2 0.08
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (14 bp):
ATAGGAGATATCGC
Found at i:46551021 original size:11 final size:11
Alignment explanation
Indices: 46550985--46551040 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
46550975 CATGGTATGT
46550985 ATGATATGCAC
1 ATGATATGCAC
* *
46550996 ATGACATG--T
1 ATGATATGCAC
46551005 ATGATATGCAC
1 ATGATATGCAC
*
46551016 ATGATATG--T
1 ATGATATGCAC
46551025 ATGATATGCAC
1 ATGATATGCAC
46551036 ATGAT
1 ATGAT
46551041 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:46551040 original size:20 final size:20
Alignment explanation
Indices: 46550974--46551040 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
46550964 ATTTTGATAA
*
46550974 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
46550994 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
46551014 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
46551034 ACATGAT
1 ACATGAT
46551041 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:46551116 original size:24 final size:24
Alignment explanation
Indices: 46551089--46551356 Score: 369
Period size: 24 Copynumber: 11.0 Consensus size: 24
46551079 GGAGAAAGTG
46551089 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
46551113 TAAAAAGGGCTTACGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
46551138 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
46551162 CAAAAGGGCTTATGCCTCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
46551186 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
46551210 TAAAAAGGGCTTATGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
*
46551235 TAAAAAGGGCTTGTGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
**
46551260 TAAAAAGGGCTTATGCCTTAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
* *
46551285 CAAAAGGGCTTACGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
46551309 GAAAAGGGCTTATGCCCCA-TTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
46551332 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
46551357 ATGACAAAGC
Statistics
Matches: 221, Mismatches: 18, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.06
24 111 0.50
25 96 0.43
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:46552822 original size:28 final size:27
Alignment explanation
Indices: 46552781--46552877 Score: 106
Period size: 28 Copynumber: 3.5 Consensus size: 27
46552771 TGTATATAGC
*
46552781 CCATTAGGCCCAATCTCATTCACATGG
1 CCATTAGGCCCAATCTCATTCATATGG
* * *
46552808 CACATTAGGCCCAATCACATTTATGTGG
1 C-CATTAGGCCCAATCTCATTCATATGG
*
46552836 CCCATTAGGCCCAAAACAT-ATTCATATGG
1 -CCATTAGGCCC-AATC-TCATTCATATGG
46552865 CCATTAGGCCCAA
1 CCATTAGGCCCAA
46552878 ATAACATTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
27 3 0.05
28 43 0.74
29 12 0.21
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (27 bp):
CCATTAGGCCCAATCTCATTCATATGG
Found at i:46552840 original size:56 final size:57
Alignment explanation
Indices: 46552779--46552887 Score: 152
Period size: 56 Copynumber: 1.9 Consensus size: 57
46552769 CCTGTATATA
* *
46552779 GCCCATTAGGCCC-AATC-TCATTCACATGGCACATTAGGCCC-AATCACATTTATGTG
1 GCCCATTAGGCCCAAAACAT-ATTCACATGGC-CATTAGGCCCAAATAACATTTATGTG
*
46552835 GCCCATTAGGCCCAAAACATATTCATATGGCCATTAGGCCCAAATAACATTTA
1 GCCCATTAGGCCCAAAACATATTCACATGGCCATTAGGCCCAAATAACATTTA
46552888 CAATCATGCT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
56 23 0.49
57 23 0.49
58 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (57 bp):
GCCCATTAGGCCCAAAACATATTCACATGGCCATTAGGCCCAAATAACATTTATGTG
Found at i:46558440 original size:25 final size:25
Alignment explanation
Indices: 46558412--46558462 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
46558402 CCCTTATAAT
*
46558412 GTGAAAATGACCT-TTTTACCCTTAG
1 GTGAAAATGA-CTATTTTACCCCTAG
46558437 GTGAAAATGACTATTTTACCCCTAG
1 GTGAAAATGACTATTTTACCCCTAG
46558462 G
1 G
46558463 GTTATGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (25 bp):
GTGAAAATGACTATTTTACCCCTAG
Found at i:46558541 original size:11 final size:10
Alignment explanation
Indices: 46558506--46558550 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
46558496 TTTGTACATA
* *
46558506 ATATTCCATA
1 ATATGCCATG
46558516 ATATGCCATG
1 ATATGCCATG
46558526 ATATGCACATG
1 ATATGC-CATG
*
46558537 GTATGCCATG
1 ATATGCCATG
46558547 ATAT
1 ATAT
46558551 ATATATGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (10 bp):
ATATGCCATG
Found at i:46558622 original size:25 final size:24
Alignment explanation
Indices: 46558594--46558656 Score: 90
Period size: 25 Copynumber: 2.6 Consensus size: 24
46558584 GGACGTGCTT
*
46558594 AAGGGCTATGCCCCAGTTTACCGAA
1 AAGGGCTTTGCCCCAGTTTACC-AA
*
46558619 AAGGGCTTTGCCCCAGTTTATCAA
1 AAGGGCTTTGCCCCAGTTTACCAA
*
46558643 AAGAGCTTTGCCCC
1 AAGGGCTTTGCCCC
46558657 GGTTATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 15 0.43
25 20 0.57
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (24 bp):
AAGGGCTTTGCCCCAGTTTACCAA
Found at i:46558650 original size:24 final size:25
Alignment explanation
Indices: 46558602--46558656 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
46558592 TTAAGGGCTA
*
46558602 TGCCCCAGTTTACCGAAAAGGGCTT
1 TGCCCCAGTTTACCGAAAAGAGCTT
*
46558627 TGCCCCAGTTTATC-AAAAGAGCTT
1 TGCCCCAGTTTACCGAAAAGAGCTT
46558651 TGCCCC
1 TGCCCC
46558657 GGTTATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (25 bp):
TGCCCCAGTTTACCGAAAAGAGCTT
Found at i:46566266 original size:10 final size:10
Alignment explanation
Indices: 46566255--46566299 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
46566245 TTTGTACATA
*
46566255 ATATGCCATA
1 ATATGCCATG
46566265 ATATGCCATG
1 ATATGCCATG
46566275 ATATGCACATG
1 ATATGC-CATG
*
46566286 ATACGCCATG
1 ATATGCCATG
46566296 ATAT
1 ATAT
46566300 ATATATATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (10 bp):
ATATGCCATG
Found at i:46566295 original size:21 final size:20
Alignment explanation
Indices: 46566255--46566299 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
46566245 TTTGTACATA
*
46566255 ATATGCCATAATATGCCATG
1 ATATGCCATAATACGCCATG
*
46566275 ATATGCACATGATACGCCATG
1 ATATGC-CATAATACGCCATG
46566296 ATAT
1 ATAT
46566300 ATATATATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (20 bp):
ATATGCCATAATACGCCATG
Found at i:46566373 original size:25 final size:25
Alignment explanation
Indices: 46566345--46566412 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
46566335 AGAAGTGCTT
* *
46566345 AAGGGCTATGCCCCAGTTTACCGAA
1 AAGGGCTTTGCCCCAGTTTACCAAA
* *
46566370 AAGGGCTTTGCCCCAATTTATCAAA
1 AAGGGCTTTGCCCCAGTTTACCAAA
*
46566395 AAGGGCTTTGCCCAAGTT
1 AAGGGCTTTGCCCCAGTT
46566413 ATTTAAAGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (25 bp):
AAGGGCTTTGCCCCAGTTTACCAAA
Found at i:46568334 original size:20 final size:21
Alignment explanation
Indices: 46568297--46568339 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
46568287 TGTATATCTT
46568297 TCAACAATATAAACACAT-CA
1 TCAACAATATAAACACATACA
*
46568317 TCAACAA-ATCAAATACATACA
1 TCAACAATAT-AAACACATACA
46568338 TC
1 TC
46568340 TTGTCCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 14 0.70
21 4 0.20
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (21 bp):
TCAACAATATAAACACATACA
Found at i:46570136 original size:65 final size:66
Alignment explanation
Indices: 46569984--46570146 Score: 163
Period size: 65 Copynumber: 2.5 Consensus size: 66
46569974 ACGGCTTTAG
* * *
46569984 ACACGCCCGTGTGTCTAGGCCGTGTCAAAACAGGGCATACATACTGACTTGTCTACACGGCCACA
1 ACACGCCCGTGTGTCTAGGCCGTGTCAAAACAGGGCAGACATACTGACTTGGCCACACGGCCAC-
*
46570049 AG
65 AC
* * * * * *
46570051 ACACGTCCGTATG-CTAGGCCGTGTGAAAATTAGGG-AGGC-TACTGACTTGGCCACACGGCTGA
1 ACACGCCCGTGTGTCTAGGCCGTGTCAAAA-CAGGGCAGACATACTGACTTGGCCACACGGC-CA
46570113 C-C
64 CAC
*
46570115 ACACGCCCGTGTGTCTCGGCCGTGGTCAAAAC
1 ACACGCCCGTGTGTCTAGGCCGT-GTCAAAAC
46570147 TGACTTAGCC
Statistics
Matches: 77, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
64 11 0.14
65 26 0.34
66 25 0.32
67 15 0.19
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (66 bp):
ACACGCCCGTGTGTCTAGGCCGTGTCAAAACAGGGCAGACATACTGACTTGGCCACACGGCCACA
C
Found at i:46573271 original size:48 final size:48
Alignment explanation
Indices: 46573156--46573724 Score: 481
Period size: 48 Copynumber: 12.0 Consensus size: 48
46573146 CAAGATAAAT
*
46573156 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
46573206 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
46573254 ATATGTATATGTGGTAAAGCTGAATGGCTACTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
46573302 ATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAATGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG-A--G
* * * * * *** *
46573353 CTACTGTGAAATAT-GT-ATG-AGATAT-G-TATATGTGGTAAAGCCGAATG-G
1 ATA-TGT-ATATGTGGTAAAGCCGA-ATGGCTA-ATGT-G-AAATATGTATGAG
* * * * * *
46573401 CTACTGTGAAATAT-GT-ATG-AGATAT-G-T-ATATGAAATATGTATGAG
1 ATA-TGT-ATATGTGGTAAAGCCGA-ATGGCTAATGTGAAATATGTATGAG
*
46573446 ATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * * * *
46573494 ATATGTATGATATATGT--A----TAT-G-AAATATG---TATG-A-GAT
1 ATATGTAT-ATGT-GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
46573531 ATGTATA--TGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
46573577 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
* *
46573627 ATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
46573675 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
46573723 AT
1 AT
46573725 GTGTGTATAT
Statistics
Matches: 433, Mismatches: 51, Indels: 72
0.78 0.09 0.13
Matches are distributed among these distances:
33 2 0.00
34 2 0.00
35 1 0.00
37 7 0.02
38 1 0.00
39 6 0.01
40 1 0.00
41 4 0.01
42 4 0.01
43 5 0.01
44 18 0.04
45 9 0.02
46 13 0.03
47 1 0.00
48 237 0.55
49 12 0.03
50 86 0.20
51 8 0.02
52 12 0.03
53 4 0.01
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:46573350 original size:24 final size:24
Alignment explanation
Indices: 46573323--46573372 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
46573313 TGGTAAAGCC
46573323 GAATGGCTACTGTGAAATATGTAT
1 GAATGGCTACTGTGAAATATGTAT
46573347 GAATGGCTACTGTGAAATATGTAT
1 GAATGGCTACTGTGAAATATGTAT
46573371 GA
1 GA
46573373 GATATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (24 bp):
GAATGGCTACTGTGAAATATGTAT
Found at i:46573391 original size:72 final size:72
Alignment explanation
Indices: 46573285--46573584 Score: 417
Period size: 72 Copynumber: 4.0 Consensus size: 72
46573275 GAATGGCTAC
46573285 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGA-
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAG
46573349 AT-GGCTA
66 ATAGG-TA
46573356 CTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGA
1 -TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGA
*
46573421 GATATGTA
65 GATAGGTA
*
46573429 TATGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAG
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAG
*
46573494 ATATGTA
66 ATAGGTA
46573501 TGAT-ATATGTATATGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGA
1 TG-TGA-A---ATATG---TA----TGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGA
*
46573565 AATATGTATGAGATATGTA
54 AATATGTATGAGATAGGTA
46573584 T
1 T
46573585 ATGTGGTAAA
Statistics
Matches: 211, Mismatches: 3, Indels: 17
0.91 0.01 0.07
Matches are distributed among these distances:
72 137 0.65
73 6 0.03
74 1 0.00
76 5 0.02
79 2 0.01
83 60 0.28
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (72 bp):
TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAG
ATAGGTA
Found at i:46573427 original size:11 final size:11
Alignment explanation
Indices: 46573411--46573453 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
46573401 CTACTGTGAA
46573411 ATATGTATGAG
1 ATATGTATGAG
*
46573422 ATATGTATATGAA
1 ATATG--TATGAG
46573435 ATATGTATGAG
1 ATATGTATGAG
46573446 ATATGTAT
1 ATATGTAT
46573454 ATGTGGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 18 0.64
13 10 0.36
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.40
Consensus pattern (11 bp):
ATATGTATGAG
Found at i:46573429 original size:83 final size:79
Alignment explanation
Indices: 46573339--46573584 Score: 371
Period size: 83 Copynumber: 3.1 Consensus size: 79
46573329 CTACTGTGAA
46573339 ATATGTATGAATGGCTACTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATATGTATGAAT-G-TA-T-TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
46573404 CTGTGAAATATGTATGAG
62 CTGTGAAATATGTATGAG
46573422 ATATG--T--A--TA-TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGT
1 ATATGTATGAATGTATTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGT
46573480 GAAATATGTATGAG
66 GAAATATGTATGAG
46573494 ATATGTATGATATATGTATATGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATATGTATG--A-ATGTAT-TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
46573559 CTGTGAAATATGTATGAG
62 CTGTGAAATATGTATGAG
46573577 ATATGTAT
1 ATATGTAT
46573585 ATGTGGTAAA
Statistics
Matches: 152, Mismatches: 0, Indels: 22
0.87 0.00 0.13
Matches are distributed among these distances:
72 68 0.45
74 1 0.01
75 2 0.01
79 2 0.01
81 3 0.02
83 76 0.50
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (79 bp):
ATATGTATGAATGTATTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGT
GAAATATGTATGAG
Found at i:46573439 original size:24 final size:24
Alignment explanation
Indices: 46573407--46573456 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
46573397 ATGGCTACTG
46573407 TGAAATATGTATGAGATATGTATA
1 TGAAATATGTATGAGATATGTATA
46573431 TGAAATATGTATGAGATATGTATA
1 TGAAATATGTATGAGATATGTATA
46573455 TG
1 TG
46573457 TGGTAAAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.38
Consensus pattern (24 bp):
TGAAATATGTATGAGATATGTATA
Found at i:46573456 original size:13 final size:13
Alignment explanation
Indices: 46573416--46573456 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
46573406 GTGAAATATG
46573416 TATGAGATATGTA
1 TATGAGATATGTA
*
46573429 TATGAAATATG--
1 TATGAGATATGTA
46573440 TATGAGATATGTA
1 TATGAGATATGTA
46573453 TATG
1 TATG
46573457 TGGTAAAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
13 14 0.58
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (13 bp):
TATGAGATATGTA
Found at i:46573471 original size:120 final size:118
Alignment explanation
Indices: 46573195--46573501 Score: 415
Period size: 120 Copynumber: 2.6 Consensus size: 118
46573185 AATGTGAAAT
* *
46573195 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATATGT
*
46573260 ATATGTGGTAAAGCTGAATGGCTACTGTGAAATATGTATGAGATATGTATATG
66 ATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATATGTATATG
* * * ** * **
46573313 -T-GGTAAAGCCGA-ATGGCTACTGT-GAAATATGTATGAATGGCTACTGTGAAATATGTATGAG
1 ATATGT-ATG-AGATATGTATA-TGTGGTAA-A-G-CCGAATGGCTACTGTGAAATATGTATGAG
46573374 ATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATATGTATATG
60 ATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATATGTATATG
46573433 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATAT
1 --ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATAT
46573498 GTAT
64 GTAT
46573502 GATATATGTA
Statistics
Matches: 158, Mismatches: 19, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
116 1 0.01
117 11 0.07
118 6 0.04
119 1 0.01
120 119 0.75
121 1 0.01
122 6 0.04
123 11 0.07
124 2 0.01
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.33
Consensus pattern (118 bp):
ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATATGT
ATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATATGTATATG
Found at i:46573499 original size:11 final size:11
Alignment explanation
Indices: 46573483--46573536 Score: 72
Period size: 11 Copynumber: 4.7 Consensus size: 11
46573473 CTACTGTGAA
46573483 ATATGTATGAG
1 ATATGTATGAG
*
46573494 ATATGTATGAT
1 ATATGTATGAG
*
46573505 ATATGTATATGAA
1 ATATG--TATGAG
46573518 ATATGTATGAG
1 ATATGTATGAG
46573529 ATATGTAT
1 ATATGTAT
46573537 ATGTGGTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 28 0.74
13 10 0.26
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (11 bp):
ATATGTATGAG
Found at i:46573521 original size:24 final size:24
Alignment explanation
Indices: 46573488--46573539 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
46573478 GTGAAATATG
* *
46573488 TATGAGATATGTATGATATATGTA
1 TATGAAATATGTATGAGATATGTA
46573512 TATGAAATATGTATGAGATATGTA
1 TATGAAATATGTATGAGATATGTA
46573536 TATG
1 TATG
46573540 TGGTAAAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.40
Consensus pattern (24 bp):
TATGAAATATGTATGAGATATGTA
Found at i:46573632 original size:98 final size:98
Alignment explanation
Indices: 46573518--46573715 Score: 360
Period size: 98 Copynumber: 2.0 Consensus size: 98
46573508 TGTATATGAA
*
46573518 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATATGT
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATATGT
46573583 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
46573616 ATATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGT
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATATGT
*
46573681 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
46573714 AT
1 AT
46573716 GTAGGAGATG
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (98 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATATGT
ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:46573732 original size:98 final size:96
Alignment explanation
Indices: 46573514--46573734 Score: 336
Period size: 98 Copynumber: 2.3 Consensus size: 96
46573504 TATATGTATA
46573514 TGAAATATGTATGAGA-TATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGA
1 TGAAATATGTA-GAGAGTATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGA
46573578 TATGTATATGTGGTAAAGCCGAATGGCTAATG
65 TATGTATATGTGGTAAAGCCGAATGGCTAATG
* * * *
46573610 TGAAATATATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAG
1 TGAAATATGTAGA-GAG-TATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAG
*
46573675 ATATGTATATGTGGTAAAGCCGAATGGCTAGTG
64 ATATGTATATGTGGTAAAGCCGAATGGCTAATG
*
46573708 TGAAATATGTAGGAGATGTGTGTATAT
1 TGAAATATGTA-GAGA-GTATGTATAT
46573735 TTTGGCCGAA
Statistics
Matches: 112, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
95 1 0.01
96 12 0.11
98 97 0.87
99 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (96 bp):
TGAAATATGTAGAGAGTATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGAT
ATGTATATGTGGTAAAGCCGAATGGCTAATG
Found at i:46573973 original size:37 final size:37
Alignment explanation
Indices: 46573865--46573973 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
46573855 GGAAATATAT
*
46573865 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAGG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTGG
* *
46573902 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTGG
* *
46573939 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
46573974 CATCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTGG
Found at i:46575085 original size:27 final size:27
Alignment explanation
Indices: 46575032--46575087 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
46575022 ATCTTATAGA
*
46575032 GGCATATCAGTCATTTTACCATGTAGG
1 GGCATATCAGTCATTTTACAATGTAGG
*
46575059 GGCATTTCAGTCATTTTATCAAT-TAGG
1 GGCATATCAGTCATTTTA-CAATGTAGG
46575086 GG
1 GG
46575088 GTTTAGGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (27 bp):
GGCATATCAGTCATTTTACAATGTAGG
Found at i:46576617 original size:40 final size:40
Alignment explanation
Indices: 46576573--46576721 Score: 262
Period size: 40 Copynumber: 3.7 Consensus size: 40
46576563 GCTACTAGCT
46576573 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
46576613 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** *
46576653 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
46576693 CAAATGCCTTCGGGACTTAGCTCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
46576722 CAATCCGAAT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:46576774 original size:18 final size:18
Alignment explanation
Indices: 46576729--46576770 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
46576719 TATCAATCCG
*
46576729 AATATTCATGCACATATC
1 AATATTCATGCACACATC
*
46576747 AATAAATCATG-ACACATC
1 AAT-ATTCATGCACACATC
46576765 AATATT
1 AATATT
46576771 TCATTTTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 2 0.10
18 12 0.60
19 6 0.30
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (18 bp):
AATATTCATGCACACATC
Found at i:46578466 original size:19 final size:20
Alignment explanation
Indices: 46578442--46578484 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
46578432 AAGCTCATGG
* *
46578442 GGCCCACAA-GGCCCAATTT
1 GGCCCAAAATGGCCCAATTC
46578461 GGCCCAAAATGGCCCAATTC
1 GGCCCAAAATGGCCCAATTC
46578481 GGCC
1 GGCC
46578485 TCGACCCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.26, C:0.37, G:0.23, T:0.14
Consensus pattern (20 bp):
GGCCCAAAATGGCCCAATTC
Found at i:46587014 original size:43 final size:43
Alignment explanation
Indices: 46586894--46587051 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
46586884 AGCTCGTTCA
* * *
46586894 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATAT-G
* *
46586937 ATGCC-ACTATCCCAGGCA-GGATCTTACACG-AAATCAAATATG
1 ATGCCAAC-GTCCCAGACATGG-TCTTACACGTAAATCAAATATG
* *
46586979 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AA-TATG
* **
46587023 ATGCCAACGTCCTAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
46587052 AAAAACACAT
Statistics
Matches: 94, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
42 26 0.28
43 39 0.41
44 28 0.30
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATATG
Found at i:46588413 original size:4 final size:4
Alignment explanation
Indices: 46588404--46588430 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
46588394 TTTTTTGATG
46588404 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
46588431 TGTATTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:46588465 original size:19 final size:19
Alignment explanation
Indices: 46588441--46588478 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
46588431 TGTATTTCAT
46588441 AATATTTAGTTATTACTAA
1 AATATTTAGTTATTACTAA
46588460 AATATTTAGTTATTACTAA
1 AATATTTAGTTATTACTAA
46588479 CTTGTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (19 bp):
AATATTTAGTTATTACTAA
Found at i:46589822 original size:17 final size:18
Alignment explanation
Indices: 46589800--46589835 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
46589790 CACATTGAAG
46589800 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
46589817 TGTTTTCATTGAAAACCT
1 TGTTTTCAGTGAAAACCT
46589835 T
1 T
46589836 CCTTAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:46591021 original size:28 final size:28
Alignment explanation
Indices: 46590946--46591053 Score: 83
Period size: 28 Copynumber: 3.9 Consensus size: 28
46590936 ACATACCTGT
* * *
46590946 ATATGGCCCACTAGGCGCAATCTCCTTC
1 ATATGGCCCATTAGGCCCAATCACCTTC
** *
46590974 ATATGGCCCATTAGAACCAATCACCTTT
1 ATATGGCCCATTAGGCCCAATCACCTTC
* * * *
46591002 TTGTGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCC-AATCACCTTC
** *
46591031 ATACAG-CCATTAGGACCAATCAC
1 ATATGGCCCATTAGGCCCAATCAC
46591054 ATTTACAGTC
Statistics
Matches: 63, Mismatches: 16, Indels: 3
0.77 0.20 0.04
Matches are distributed among these distances:
27 6 0.10
28 46 0.73
29 11 0.17
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.26
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACCTTC
Found at i:46591152 original size:18 final size:19
Alignment explanation
Indices: 46591129--46591165 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46591119 TGGGCCCAAC
*
46591129 AGCCCA-TCTGGCCCATTT
1 AGCCCATTCCGGCCCATTT
46591147 AGCCCATTCCGGCCCATTT
1 AGCCCATTCCGGCCCATTT
46591166 GGTCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.41, G:0.16, T:0.27
Consensus pattern (19 bp):
AGCCCATTCCGGCCCATTT
Found at i:46593641 original size:93 final size:93
Alignment explanation
Indices: 46593526--46593697 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
46593516 AGGATATTTG
* * * **
46593526 GGCATCCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
*
46593591 TTGAGTCCGAGTTCGTGAAATGTAACCA
66 TTAAGTCCGAGTTCGTGAAATGTAACCA
*
46593619 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCATTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
46593684 TTAAGTCCGAGTTC
66 TTAAGTCCGAGTTC
46593698 TCTTATGGGT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
TTAAGTCCGAGTTCGTGAAATGTAACCA
Found at i:46596844 original size:27 final size:28
Alignment explanation
Indices: 46596812--46596871 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
46596802 GTACACTTAG
* *
46596812 ACCCCTTACTG-G-TAAAATGGCTGTTAT
1 ACCCCTTAC-GAGATAAAATGACTGATAT
46596839 ACCCC-TACGAGATAAAATGACTGATAT
1 ACCCCTTACGAGATAAAATGACTGATAT
46596866 ACCCCT
1 ACCCCT
46596872 ATGATATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.04
26 4 0.14
27 23 0.82
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (28 bp):
ACCCCTTACGAGATAAAATGACTGATAT
Found at i:46598717 original size:25 final size:25
Alignment explanation
Indices: 46598689--46598751 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
46598679 GAATCAGTTT
*
46598689 GCTCTCATGAGCTATA-AATCGGTAA
1 GCTCTCACGAGCTA-AGAATCGGTAA
*
46598714 GCTCAT-ACGAGCTAAGAATCTGTAA
1 GCTC-TCACGAGCTAAGAATCGGTAA
46598739 GCTCTCACGAGCT
1 GCTCTCACGAGCT
46598752 GCAATCAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 2 0.06
25 30 0.91
26 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (25 bp):
GCTCTCACGAGCTAAGAATCGGTAA
Found at i:46599625 original size:15 final size:15
Alignment explanation
Indices: 46599605--46599635 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
46599595 GAAAATGGAA
46599605 GATGATTATTAATTT
1 GATGATTATTAATTT
46599620 GATGATTATTAATTT
1 GATGATTATTAATTT
46599635 G
1 G
46599636 GTTTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (15 bp):
GATGATTATTAATTT
Found at i:46606443 original size:25 final size:25
Alignment explanation
Indices: 46606403--46606477 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
46606393 TCGTCAATTT
46606403 CTATACAT--GTAAGCTCATACGAG
1 CTATACATCGGTAAGCTCATACGAG
* *
46606426 CTATTA-ATTGGTATGCTC-TCACGAG
1 CTA-TACATCGGTAAGCTCAT-ACGAG
* *
46606451 TTATACATCGGTAAGCTCATATGAG
1 CTATACATCGGTAAGCTCATACGAG
46606476 CT
1 CT
46606478 GAGAATTGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
23 5 0.12
24 5 0.12
25 29 0.73
26 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (25 bp):
CTATACATCGGTAAGCTCATACGAG
Found at i:46606488 original size:25 final size:25
Alignment explanation
Indices: 46606460--46606538 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
46606450 GTTATACATC
46606460 GGTAAGCTCATATGAGCTGAGAATT
1 GGTAAGCTCATATGAGCTGAGAATT
*
46606485 GGTAAGCTC-TCATGAGCTG-CAATT
1 GGTAAGCTCAT-ATGAGCTGAGAATT
* ** *
46606509 GGTAATCTCATACAAGCTGAGAATC
1 GGTAAGCTCATATGAGCTGAGAATT
46606534 GGTAA
1 GGTAA
46606539 TGTAACACCC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 19 0.42
25 26 0.58
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (25 bp):
GGTAAGCTCATATGAGCTGAGAATT
Found at i:46611634 original size:46 final size:46
Alignment explanation
Indices: 46611575--46611747 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
46611565 TGGTTGAGCA
*
46611575 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
46611621 TCCAAACTAGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
46611666 CATCCGAAC-ACGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTA-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
46611714 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTA
46611748 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 26 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46611731 original size:93 final size:93
Alignment explanation
Indices: 46611572--46611742 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
46611562 GGATGGTTGA
* * *
46611572 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTAGTTGAGT
1 GCATCCGAACACGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTAGTTGAGT
46611637 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
46611665 GCATCCGAACACGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACACGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTAGTTGAGT
46611730 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46611743 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACACGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTAGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:46619053 original size:46 final size:46
Alignment explanation
Indices: 46619003--46619175 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
46618993 TGGTTGAGCA
*
46619003 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * * *
46619049 TCCGAACCCGTTGAGTTGAGTCGGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
46619096 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
46619142 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46619176 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 59 0.58
47 27 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:46619159 original size:93 final size:93
Alignment explanation
Indices: 46619000--46619170 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
46618990 GGATGGTTGA
* * *
46619000 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACCCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACCCATTGAGT
*
46619065 TGAGTCGGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
46619093 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACCCATTGAGT
46619158 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46619171 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACCCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:46622078 original size:37 final size:37
Alignment explanation
Indices: 46622019--46622127 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
46622009 AGCTCAGATG
* *
46622019 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
46622056 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
46622093 TAATCTCCACACGTAGTCATTGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
46622128 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:46622578 original size:150 final size:145
Alignment explanation
Indices: 46622274--46623159 Score: 1249
Period size: 150 Copynumber: 6.0 Consensus size: 145
46622264 ACACGTCGCC
* *
46622274 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
* *
46622339 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT-GACCATTCGACTTTAC
66 CCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAG-CCATTCGGCTTTAC
*
46622403 CACATATGCATATCTC-A
128 CACATATACATATCTCAA
*
46622420 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
* * * *
46622485 AACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCGCATTAGCCATTCGGCTT
64 AGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACATTAGCCATTCGGCTT
46622550 TACCACATATACATATCTC-A
125 TACCACATATACATATCTCAA
* *
46622570 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
* * * *
46622635 GGCCATTCGGCTTTACCACATATGCATATCTCGTACATATTTCACATTAGCCATCCGGCTTTACC
64 AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
46622700 ACATATACATATCTCATATA
129 ACATATACATATCTC--A-A
* * * * * *
46622720 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATGTCTCATATATATATTTCGCATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
*
46622785 AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACC
64 AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
46622850 ACATATACATATCTCATA
129 ACATATACATATCTCA-A
* * *
46622868 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCGTACATATTTCACATTA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTA
* * *
46622932 GCCATTCGGCTTTACCACATATACATATCTCATATATATATACTTCACATTAACCATTCAGCTTT
65 GCCATTCGGCTTTACCACATATACATATCTC--ATACATAT--TTCACATTAGCCATTCGGCTTT
46622997 ACCACATATACATATCTCATA
126 ACCACATATACATATCTCA-A
* *
46623018 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
46623083 CCATTTGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
66 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
46623148 ATATACATATCT
131 ATATACATATCT
46623160 TATGCATCAA
Statistics
Matches: 679, Mismatches: 46, Indels: 30
0.90 0.06 0.04
Matches are distributed among these distances:
146 172 0.25
148 103 0.15
150 402 0.59
151 2 0.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (145 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
ATATACATATCTCAA
Found at i:46622715 original size:248 final size:246
Alignment explanation
Indices: 46622277--46623159 Score: 1583
Period size: 248 Copynumber: 3.6 Consensus size: 246
46622267 CGTCGCCTAC
* *
46622277 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
*
46622342 TTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGACCATTCGACTTTACCACA
66 TTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACA
*
46622407 TATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
131 TATGCATATCTCGTACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
46622472 TATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATAT
196 TATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTC--ATATAT
46622525 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
*
46622590 TTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGGCCATTCGGCTTTACCACA
66 TTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACA
*
46622655 TATGCATATCTCGTACATATTTCACATTAGCCATCCGGCTTTACCACATATACATATCTCATATA
131 TATGCATATCTCGTACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATA
*
46622720 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATGTCTCATATAT
194 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATAT
46622773 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
46622838 TTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACA
66 TTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACA
46622903 TATGCATATCTCGTACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
131 TATGCATATCTCGTACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
46622968 TATATACTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATAT
196 TATAT--TTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATAT
*
46623021 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
* *
46623086 TTTGGCTTTACCACATATACATATCTC--ATACATATTTCACATT-AGCCATTCGGCTTTACCAC
66 TTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGA-CCATTCGGCTTTACCAC
*
46623148 ATATACATATCT
130 ATATGCATATCT
46623160 TATGCATCAA
Statistics
Matches: 616, Mismatches: 14, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
245 1 0.00
246 53 0.09
248 513 0.83
250 49 0.08
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (246 bp):
ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
TTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACA
TATGCATATCTCGTACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
TATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATAT
Found at i:46623174 original size:98 final size:98
Alignment explanation
Indices: 46622277--46623159 Score: 1296
Period size: 98 Copynumber: 8.9 Consensus size: 98
46622267 CGTCGCCTAC
* *
46622277 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
46622342 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
46622375 ATATTTCACATT-GACCATTCGACTTTACCACATATGCATATCTCATACATATTTCACATTAGCC
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
46622439 ATTCGGCTTTACCACATATACATATCTCATATAT
65 ATTCGGCTTTACCACATATACATATCTCATATAT
* * * *
46622473 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCGCATTA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACATTA
*
46622538 GCCATTCGGCTTTACCACATATACATATCTC--ATAC
62 GCCATTCGGCTTTACCACATATACATATCTCATATAT
* * *
46622573 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGGC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGC
* * *
46622638 CATTCGGCTTTACCACATATGCATATCTC--GTAC
64 CATTCGGCTTTACCACATATACATATCTCATATAT
* *
46622671 ATATTTCACATTAGCCATCCGGCTTTACCACATATACATATCTCATATATATATATTTCACATTA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACATTA
* * *
46622736 ACCATTCAGCTTTACCACATATACATGTCTCATATAT
62 GCCATTCGGCTTTACCACATATACATATCTCATATAT
* *
46622773 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
46622838 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
46622871 ATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCGTACATATTTCACATTAGCC
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
46622935 ATTCGGCTTTACCACATATACATATCTCATATAT
65 ATTCGGCTTTACCACATATACATATCTCATATAT
* * * *
46622969 ATATACTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATTTCGCATTA
1 ATAT--TTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTA
*
46623034 GCCATTCGGCTTTACCACATATACATATCTC--ATAC
62 GCCATTCGGCTTTACCACATATACATATCTCATATAT
*
46623069 ATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
46623134 TTCGGCTTTACCACATATACATATCT
66 TTCGGCTTTACCACATATACATATCT
46623160 TATGCATCAA
Statistics
Matches: 719, Mismatches: 50, Indels: 34
0.90 0.06 0.04
Matches are distributed among these distances:
96 45 0.06
97 2 0.00
98 405 0.56
100 132 0.18
102 135 0.19
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (98 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:46627900 original size:27 final size:27
Alignment explanation
Indices: 46627845--46627935 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
46627835 TGGATAAGTT
*
46627845 GTAGAATTACCAAAATA-CCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
46627871 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
46627898 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
46627925 GTAAAATTACC
1 GTAGAATTACC
46627936 ATTTTTTCCC
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
26 14 0.25
27 41 0.75
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:46634485 original size:27 final size:27
Alignment explanation
Indices: 46634447--46634538 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
46634437 TGGATAAGTT
46634447 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
46634474 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
46634501 ATAGAATTACCGAGATACCCTTGT-GG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
46634527 GTTAAAATTACC
1 G-TAGAATTACC
46634539 ATTTTCCCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.03
27 56 0.97
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:46635308 original size:26 final size:27
Alignment explanation
Indices: 46635279--46635338 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
46635269 CCACATATAT
46635279 ATATCTGT-TCTGGTCACCTAGCCACA
1 ATATCTGTATCTGGTCACCTAGCCACA
* * * *
46635305 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTCACCTAGCCACA
46635332 ATATCTG
1 ATATCTG
46635339 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTCACCTAGCCACA
Found at i:46663580 original size:39 final size:40
Alignment explanation
Indices: 46663479--46663702 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
46663469 TCGAATGATG
* * *
46663479 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
46663518 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
46663559 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
46663598 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
46663637 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
46663676 AACCAGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
46663703 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
39 75 0.46
40 79 0.48
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:46663725 original size:79 final size:78
Alignment explanation
Indices: 46663532--46663702 Score: 238
Period size: 78 Copynumber: 2.2 Consensus size: 78
46663522 GGACTAAGAT
*
46663532 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAA-TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
* *
46663596 ATTCCGGGCTAAGC
65 ATACCAGGCTAAGC
* *
46663610 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGTGCGAGTTACT-AATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
*
46663674 ATAACCAGGCTATGTC
65 AT-ACCAGGCTAAG-C
46663690 CCGAAGGCATTTG
1 CCGAAGGCATTTG
46663703 AACGAGTAGC
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
78 35 0.43
79 34 0.41
80 13 0.16
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAA
TACCAGGCTAAGC
Found at i:46663733 original size:79 final size:79
Alignment explanation
Indices: 46663532--46663735 Score: 209
Period size: 79 Copynumber: 2.6 Consensus size: 79
46663522 GGACTAAGAT
* ** * * *
46663532 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCT-AAGCCCGAAGGCATTGGTGCGAGTTACTA
1 CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGGTGCGAGTTACTA
* *
46663596 ATTCCGGGCTAAGC
66 ATACCAGGCTAAGC
** * *
46663610 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGGTGCGAGTTACTA
*
46663674 ATAACCAGGCTATGTC
66 AT-ACCAGGCTAAG-C
* * *
46663690 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTGGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
46663736 TACGTGATTC
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 34 0.32
79 49 0.46
80 24 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGGTGCGAGTTACTA
ATACCAGGCTAAGC
Found at i:46667187 original size:42 final size:41
Alignment explanation
Indices: 46667140--46667280 Score: 113
Period size: 42 Copynumber: 3.2 Consensus size: 41
46667130 TTGTGATACA
46667140 TGTAAGACCATGTTTAGGGCATGGCATCGATATGAGATCCTG
1 TGTAAGACCATGTTTAGGGCATGGCATCGATATGAGAT-CTG
* *
46667182 TGTAAGACCATATTTGGGATATGGCATCGGCATCGATATGAGAT-TACG
1 TGTAAGACCAT-GTT----TAGGGCAT-GGCATCGATATGAGATCT--G
* ** * * *
46667230 TGTAAGACCATGTCTAGGATATGGCTTCGTTATGAGATTTCG
1 TGTAAGACCATGTTTAGGGCATGGCATCGATATGAGATCT-G
46667272 TGTAAGACC
1 TGTAAGACC
46667281 GTGTCTGGGA
Statistics
Matches: 81, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
42 36 0.44
43 8 0.10
46 1 0.01
47 8 0.10
48 28 0.35
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCATGTTTAGGGCATGGCATCGATATGAGATCTG
Found at i:46667233 original size:48 final size:47
Alignment explanation
Indices: 46667157--46667254 Score: 135
Period size: 48 Copynumber: 2.1 Consensus size: 47
46667147 CCATGTTTAG
* * *
46667157 GGCATGGCATCGATATGAGATCCTGTGTAAGACCATATTTGGGATAT
1 GGCATGGCATCGATATGAGATACTGTGTAAGACCATATCTAGGATAT
*
46667204 GGCATCGGCATCGATATGAGATTAC-GTGTAAGACCATGTCTAGGATAT
1 GGCAT-GGCATCGATATGAGA-TACTGTGTAAGACCATATCTAGGATAT
46667252 GGC
1 GGC
46667255 TTCGTTATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
47 5 0.11
48 38 0.84
49 2 0.04
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (47 bp):
GGCATGGCATCGATATGAGATACTGTGTAAGACCATATCTAGGATAT
Found at i:46667311 original size:42 final size:42
Alignment explanation
Indices: 46667209--46667311 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
46667199 GATATGGCAT
* *
46667209 CGGCATCGATATGAGATTACGTGTAAGACCATGTCTAGGATA
1 CGGCATCTATATGAGATTTCGTGTAAGACCATGTCTAGGATA
* * * * *
46667251 TGGCTTCGT-TATGAGATTTCGTGTAAGACCGTGTCTGGGATG
1 CGGCATC-TATATGAGATTTCGTGTAAGACCATGTCTAGGATA
*
46667293 CGGCATCTATATGTGATTT
1 CGGCATCTATATGAGATTT
46667312 ACCATGTCTA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.02
42 48 0.98
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (42 bp):
CGGCATCTATATGAGATTTCGTGTAAGACCATGTCTAGGATA
Found at i:46667533 original size:41 final size:41
Alignment explanation
Indices: 46667487--46667569 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
46667477 TGGGCTCGAG
*
46667487 TAAGTAAATTTGCTGTTTGAAATTGTGGATAACAGAAACAT
1 TAAGTAAATTTACTGTTTGAAATTGTGGATAACAGAAACAT
*
46667528 TAAGTAAATTTACTGTTTGAAATTGTGGATGACAGAAACAT
1 TAAGTAAATTTACTGTTTGAAATTGTGGATAACAGAAACAT
46667569 T
1 T
46667570 TGTAAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (41 bp):
TAAGTAAATTTACTGTTTGAAATTGTGGATAACAGAAACAT
Found at i:46672423 original size:36 final size:36
Alignment explanation
Indices: 46672332--46672424 Score: 123
Period size: 37 Copynumber: 2.6 Consensus size: 36
46672322 TGGAAATACA
* *
46672332 TGTGGTACGTGCAAGACCATAGCTGGGCTATGGCAT
1 TGTGATACGTGTAAGACCATAGCTGGGCTATGGCAT
** * *
46672368 CATAATTGCGTGTAAGACCATAGCTGGGCTATGGCAT
1 TGTGA-TACGTGTAAGACCATAGCTGGGCTATGGCAT
46672405 TGTGATACGTGTAAGACCAT
1 TGTGATACGTGTAAGACCAT
46672425 GTTTAGGACA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
36 15 0.33
37 31 0.67
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (36 bp):
TGTGATACGTGTAAGACCATAGCTGGGCTATGGCAT
Found at i:46672480 original size:42 final size:42
Alignment explanation
Indices: 46672413--46672657 Score: 194
Period size: 42 Copynumber: 5.7 Consensus size: 42
46672403 ATTGTGATAC
* * *
46672413 GTGTAAGACCATGTTTAGGACATGGCATCGATATGAGATCCT
1 GTGTAAGACCATGTTTGGGATATGGCATCGATATGAGATCTT
* *
46672455 GTGTAAGACCATATTTGGGATATGGCATCGACATCGATATGAGAT-TAC
1 GTGTAAGACCATGTTTGGGATAT-G----G-CATCGATATGAGATCT-T
* *
46672503 GTGTAAGACCATGTTTGGGATATGGCTTCGGTATGAGAT-TT
1 GTGTAAGACCATGTTTGGGATATGGCATCGATATGAGATCTT
* * * * * *
46672544 CGTGTAATACCGTGTCTGGGATGTGGCATCGATATGTGATTTT
1 -GTGTAAGACCATGTTTGGGATATGGCATCGATATGAGATCTT
* * * * *
46672587 GTATAAGACCATGTCTGAGACATGGCATCGATGTGAGA-CTTT
1 GTGTAAGACCATGTTTGGGATATGGCATCGATATGAGATC-TT
46672629 GTGTAAGACCATAG-TT-GGACTATGGCATC
1 GTGTAAGACCAT-GTTTGGGA-TATGGCATC
46672658 AAGTAAACGA
Statistics
Matches: 162, Mismatches: 29, Indels: 24
0.75 0.13 0.11
Matches are distributed among these distances:
41 2 0.01
42 117 0.72
43 5 0.03
47 2 0.01
48 36 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTTTGGGATATGGCATCGATATGAGATCTT
Found at i:46672564 original size:90 final size:90
Alignment explanation
Indices: 46672410--46672575 Score: 226
Period size: 90 Copynumber: 1.8 Consensus size: 90
46672400 GGCATTGTGA
*
46672410 TACGTGTAAGACCATGTTTAGGACATGGCATCGATATGAGATCCTGTGTAAGACCATATTTGGGA
1 TACGTGTAAGACCATGTTTAGGACATGGCATCGATATGAGATCCTGTGTAAGACCATATCTGGGA
46672475 TATGGCATCGACATCGATATGAGAT
66 TATGGCATCGACATCGATATGAGAT
* * * * * * * *
46672500 TACGTGTAAGACCATGTTTGGGATATGGCTTCGGTATGAGAT-TTCGTGTAATACCGTGTCTGGG
1 TACGTGTAAGACCATGTTTAGGACATGGCATCGATATGAGATCCT-GTGTAAGACCATATCTGGG
*
46672564 ATGTGGCATCGA
65 ATATGGCATCGA
46672576 TATGTGATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
89 1 0.02
90 64 0.98
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (90 bp):
TACGTGTAAGACCATGTTTAGGACATGGCATCGATATGAGATCCTGTGTAAGACCATATCTGGGA
TATGGCATCGACATCGATATGAGAT
Found at i:46672815 original size:41 final size:41
Alignment explanation
Indices: 46672769--46672851 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
46672759 TGGGCTCGAG
* *
46672769 TAAGTAAATTTGCTGTTTGAAATTGTGGACGACAGAAACAT
1 TAAGTAAATTTACTGTTTGAAATTGTGGACGACAAAAACAT
*
46672810 TAAGTAAATTTACTGTTTGAAATTGTGGATGACAAAAACAT
1 TAAGTAAATTTACTGTTTGAAATTGTGGACGACAAAAACAT
46672851 T
1 T
46672852 TGTAAAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (41 bp):
TAAGTAAATTTACTGTTTGAAATTGTGGACGACAAAAACAT
Found at i:46674684 original size:28 final size:28
Alignment explanation
Indices: 46674603--46674685 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
46674593 TATATATGTA
* *
46674603 TATGGCACTTAGTGTGCAAAAAATTAAG
1 TATGGCACTTAGTGTGCAAGAAATTGAG
* *
46674631 AATGGCACTT-GTTGTGCAAGATATTGAG
1 TATGGCACTTAG-TGTGCAAGAAATTGAG
* *
46674659 TATGGCACTTAGTGTGCGAGACATTGA
1 TATGGCACTTAGTGTGCAAGAAATTGA
46674686 AGATGCAACG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.02
28 44 0.96
29 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (28 bp):
TATGGCACTTAGTGTGCAAGAAATTGAG
Found at i:46692930 original size:27 final size:27
Alignment explanation
Indices: 46692891--46692943 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
46692881 TTCGTAGGCC
46692891 ACACAGGCGTGTGGGC-CTACATGGGCT
1 ACACAGGCGTGTGGGCTC-ACATGGGCT
* *
46692918 ACACGGGCTTGTGGGCTCACATGGGC
1 ACACAGGCGTGTGGGCTCACATGGGC
46692944 CCGTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.17, C:0.26, G:0.38, T:0.19
Consensus pattern (27 bp):
ACACAGGCGTGTGGGCTCACATGGGCT
Found at i:46693084 original size:27 final size:27
Alignment explanation
Indices: 46693046--46693200 Score: 161
Period size: 27 Copynumber: 5.8 Consensus size: 27
46693036 GCGTACCTGA
* * *
46693046 ACCCTCATGTGACAAGATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
46693073 ACCCTTATGTGATAAAATGACAATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
46693100 GCCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
46693127 A-CCTTATGTGAT-AAATCGATGATTTG
1 ACCCTTATGTGATAAAAT-GACGATTTT
* * * *
46693153 CCCCTTATATGATAAAATAATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* * *
46693180 GCCTTTATGTGATCAAATGAC
1 ACCCTTATGTGATAAAATGAC
46693201 CGAATACCTT
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
25 4 0.04
26 18 0.17
27 80 0.75
28 4 0.04
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (27 bp):
ACCCTTATGTGATAAAATGACGATTTT
Found at i:46693158 original size:53 final size:53
Alignment explanation
Indices: 46693047--46693200 Score: 168
Period size: 53 Copynumber: 2.9 Consensus size: 53
46693037 CGTACCTGAA
* * *
46693047 CCCTCATGTGACAAGATGACGATTTTACCCTTATGTGATAAAATGACAATTTTG
1 CCCTTATGTGATAAAATGACGATTTTA-CCTTATGTGATAAAATGACAATTTTG
**
46693101 CCCTTATGTGATAAAATGACGATTTTACCTTATGTGAT-AAATCGATGA-TTTG
1 CCCTTATGTGATAAAATGACGATTTTACCTTATGTGATAAAAT-GACAATTTTG
* * * * *
46693153 CCCCTTATATGATAAAATAATGATTTTGCCTTTATGTGATCAAATGAC
1 -CCCTTATGTGATAAAATGACGATTTTACC-TTATGTGATAAAATGAC
46693201 CGAATACCTT
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
52 8 0.09
53 39 0.45
54 35 0.41
55 4 0.05
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (53 bp):
CCCTTATGTGATAAAATGACGATTTTACCTTATGTGATAAAATGACAATTTTG
Found at i:46693258 original size:27 final size:26
Alignment explanation
Indices: 46693194--46693260 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
46693184 TTATGTGATC
*
46693194 AAATGACCG-AATACCTTCATAGGGT
1 AAATGACCGAAATACCCTCATAGGGT
*
46693219 AAATGACTGAAATACCCTCATAGGGT
1 AAATGACCGAAATACCCTCATAGGGT
46693245 AGAATGACCGAAATAC
1 A-AATGACCGAAATAC
46693261 ACCTATAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 8 0.22
26 16 0.43
27 13 0.35
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (26 bp):
AAATGACCGAAATACCCTCATAGGGT
Found at i:46693363 original size:23 final size:23
Alignment explanation
Indices: 46693335--46693380 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
46693325 ATGTATTTGA
46693335 GCATGCCATG-AT-ATATGTATGTT
1 GCATG-CATGTATGATAT-TATGTT
46693358 GCATGCATGTATGATATTATGTT
1 GCATGCATGTATGATATTATGTT
46693381 TGTAATAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 13 0.62
24 4 0.19
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (23 bp):
GCATGCATGTATGATATTATGTT
Found at i:46694777 original size:93 final size:93
Alignment explanation
Indices: 46694585--46694799 Score: 244
Period size: 93 Copynumber: 2.3 Consensus size: 93
46694575 TCATTTGTGT
*
46694585 GAGCTAGTGTAAGACATGTCTGGGACATACATCAGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATACATCAGCCACATGATGAGAGCCAGTGTAAGACCATG
*
46694650 TTTGGGACATGCATTGGCATTGAGACGA
66 TTCGGGACATGCATTGGCATTGAGACGA
* * * * * *
46694678 GTGCTAGTGTAAGACATGTTTGGGACATCCATCGGCTACGA-GATG-G-GTCAGTGTAAGACCAT
1 GAGCTAGTGTAAGACATGTCTGGGACATACATCAGCCAC-ATGATGAGAGCCAGTGTAAGACCAT
46694740 GTTCGGGACATGGCA-TGGC-TTG-GTTACGTGA
65 GTTCGGGACAT-GCATTGGCATTGAG--AC--GA
*
46694771 GAGCTAGTGTAAGACCATGTCTAGGACAT
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT
46694800 GGGATTGGCC
Statistics
Matches: 104, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
89 1 0.01
90 3 0.03
91 31 0.30
92 4 0.04
93 52 0.50
94 13 0.12
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (93 bp):
GAGCTAGTGTAAGACATGTCTGGGACATACATCAGCCACATGATGAGAGCCAGTGTAAGACCATG
TTCGGGACATGCATTGGCATTGAGACGA
Found at i:46720562 original size:27 final size:27
Alignment explanation
Indices: 46720523--46720575 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
46720513 TTCGTAGGCC
46720523 ACACAGGCGTGTGGGC-CTACATGGGCT
1 ACACAGGCGTGTGGGCTC-ACATGGGCT
* *
46720550 ACACGGGCTTGTGGGCTCACATGGGC
1 ACACAGGCGTGTGGGCTCACATGGGC
46720576 CCGTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.17, C:0.26, G:0.38, T:0.19
Consensus pattern (27 bp):
ACACAGGCGTGTGGGCTCACATGGGCT
Found at i:46720717 original size:27 final size:27
Alignment explanation
Indices: 46720679--46720834 Score: 170
Period size: 27 Copynumber: 5.8 Consensus size: 27
46720669 GCGTACCTGA
* * *
46720679 ACCCTCATGTGACAAGATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
46720706 ACCCTTATGTGATAAAATGACAATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
46720733 GCCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
46720760 ACCCTTATGTGAT-AAATCGATGATTTG
1 ACCCTTATGTGATAAAAT-GACGATTTT
* * * *
46720787 CCCCTTATATGATAAAATAATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* * *
46720814 GCCTTTATGTGATCAAATGAC
1 ACCCTTATGTGATAAAATGAC
46720835 CGAAATACCT
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.04
27 100 0.93
28 4 0.04
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (27 bp):
ACCCTTATGTGATAAAATGACGATTTT
Found at i:46720893 original size:27 final size:26
Alignment explanation
Indices: 46720828--46720895 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
46720818 TTATGTGATC
*
46720828 AAATGACCGAAATACCTTCATAGGGT
1 AAATGACCGAAATACCCTCATAGGGT
*
46720854 AAATGACTGAAATACCCTCATAGGGT
1 AAATGACCGAAATACCCTCATAGGGT
46720880 AGAATGACCGAAATAC
1 A-AATGACCGAAATAC
46720896 ACCTATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 25 0.66
27 13 0.34
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (26 bp):
AAATGACCGAAATACCCTCATAGGGT
Found at i:46720999 original size:23 final size:23
Alignment explanation
Indices: 46720971--46721016 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
46720961 ATGTATTTGA
46720971 GCATGCCATG-AT-ATATGTATGTT
1 GCATG-CATGTATGATAT-TATGTT
46720994 GCATGCATGTATGATATTATGTT
1 GCATGCATGTATGATATTATGTT
46721017 TGTAATAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 13 0.62
24 4 0.19
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (23 bp):
GCATGCATGTATGATATTATGTT
Found at i:46722399 original size:92 final size:94
Alignment explanation
Indices: 46722234--46722499 Score: 251
Period size: 94 Copynumber: 2.8 Consensus size: 94
46722224 ATTTGTGTGA
*
46722234 GCTAGTGTAAGACATGTCTGGGACATACATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATACATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTT
*
46722299 TGGGACATGGCATTGGCATTGAGACGAGT
66 CGGGACATGGCATTGGCATTGAGACGAGT
* * * * *
46722328 GCTAGTGTAAGACATGTTTGGGACATCCATCGGCTACGA-GATG-G-GTCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATACATCAGCCAC-ATGATGAGAGCCAGTGTAAGACCATGT
*
46722390 TCGGGACATGGCA-TGGC-TTG-GTTACGTGAGA
65 TCGGGACATGGCATTGGCATTGAG--AC--GAGT
* ** ** * *
46722421 GCTAGTGTAAGACCATGTCTAGGACATGGGATTGGCCTCAAAT-ATGATAGCCAGTGTAAGACCA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-ACATCAG-C-CACATGATGAGAGCCAGTGTAAGACCA
46722485 TG-TCTGGGACATGGC
62 TGTTC-GGGACATGGC
46722500 GTCGGCACTT
Statistics
Matches: 142, Mismatches: 17, Indels: 22
0.78 0.09 0.12
Matches are distributed among these distances:
89 1 0.01
90 3 0.02
91 6 0.04
92 29 0.20
93 16 0.11
94 48 0.34
95 5 0.04
96 5 0.04
97 3 0.02
98 26 0.18
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATACATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTT
CGGGACATGGCATTGGCATTGAGACGAGT
Found at i:46729920 original size:46 final size:46
Alignment explanation
Indices: 46729862--46730181 Score: 235
Period size: 49 Copynumber: 6.8 Consensus size: 46
46729852 TCATTTGTGT
* *
46729862 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCA-GATGA
* * * * *
46729908 GAGCCGGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CTCAGATGA
* * * *
46729956 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCTCGGGATGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTC-AGATG-A
* *
46730003 -AGCCAGTATAAGA-CATGTCTGGGACATGCAACGG-CT-ACGA-GA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCA-GATGA
* * * * * *
46730045 TGTGTCAGTGTAAGACCATGTCTGAGATATTGCAT-GACACGGTTATG-TGA
1 -GAGCCAGTGTAAGACCATGTCTGGGACA-TGCATCGGC-C--TCA-GATGA
* *
46730095 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAAAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTC--AGATGA
*
46730144 TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGC
46730182 ACTTTACCCA
Statistics
Matches: 212, Mismatches: 41, Indels: 39
0.73 0.14 0.13
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 12 0.06
45 15 0.07
46 54 0.25
47 31 0.15
48 23 0.11
49 69 0.33
50 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCAGATGA
Found at i:46735082 original size:42 final size:42
Alignment explanation
Indices: 46735030--46735125 Score: 174
Period size: 42 Copynumber: 2.3 Consensus size: 42
46735020 GTGCCAAGCA
46735030 ATGAGACTGAGAGGGTATCTTAGGTAATAATCTTTAGTGAAG
1 ATGAGACTGAGAGGGTATCTTAGGTAATAATCTTTAGTGAAG
*
46735072 ATGAGACTGAGAGGGTATCTTAGGTAGTAATCTTTAGTGAAG
1 ATGAGACTGAGAGGGTATCTTAGGTAATAATCTTTAGTGAAG
*
46735114 ATGAGATTGAGA
1 ATGAGACTGAGA
46735126 TGGTGTTTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.30
Consensus pattern (42 bp):
ATGAGACTGAGAGGGTATCTTAGGTAATAATCTTTAGTGAAG
Found at i:46739518 original size:14 final size:15
Alignment explanation
Indices: 46739499--46739531 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46739489 AGAGAGAATG
*
46739499 ATGATGGATGA-GGA
1 ATGATGAATGAGGGA
46739513 ATGATGAATGAGGGA
1 ATGATGAATGAGGGA
46739528 ATGA
1 ATGA
46739532 AGGGGTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.21
Consensus pattern (15 bp):
ATGATGAATGAGGGA
Found at i:46742582 original size:39 final size:38
Alignment explanation
Indices: 46742504--46742741 Score: 244
Period size: 39 Copynumber: 6.1 Consensus size: 38
46742494 GTAAATTATA
*** *
46742504 CCCTGAACGCACTTACGTGCCTTGTTGTACTTCGATAC
1 CCCTGAACGCACTTACGTGCCCCATTGTACTTCGGTAC
46742542 CCCTGAACGCACTTACGTGCCCCAGTTGTACTTCGGTAC
1 CCCTGAACGCACTTACGTGCCCCA-TTGTACTTCGGTAC
** * *
46742581 CCCCAAATGCACTTACGTGCCCCTATTGTACTTCAGTAC
1 CCCTGAACGCACTTACGTGCCCC-ATTGTACTTCGGTAC
* * * *
46742620 CCGTGAATGCACTTACCTGTCCCTATTGTACTTCGGTAC
1 CCCTGAACGCACTTACGTG-CCCCATTGTACTTCGGTAC
* *
46742659 CCCT-AATCGCACTTAAGTGCCCCTGTTGTACTTCGGTAC
1 CCCTGAA-CGCACTTACGTGCCCC-ATTGTACTTCGGTAC
* * * *
46742698 ACCTGATCACACTTACGTGCCCCTATTGTACTTCGATAC
1 CCCTGAACGCACTTACGTGCCCC-ATTGTACTTCGGTAC
*
46742737 TCCTG
1 CCCTG
46742742 TTAACATGTT
Statistics
Matches: 167, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
38 26 0.16
39 136 0.81
40 5 0.03
ACGTcount: A:0.19, C:0.34, G:0.17, T:0.30
Consensus pattern (38 bp):
CCCTGAACGCACTTACGTGCCCCATTGTACTTCGGTAC
Found at i:46747635 original size:46 final size:46
Alignment explanation
Indices: 46747485--46747659 Score: 144
Period size: 46 Copynumber: 3.8 Consensus size: 46
46747475 TCACTTGTGT
* * **
46747485 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTTTGA-GA
1 GAGCGAGTGTAAGACATGTCTGGGACATGCTTC-G--ACATTGAGACGA
* *
46747533 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATT-GGCATTGAGACGA
1 GAGCGAGTGTAAGA-CATGTCTGGGACAT-GC-TTCGACATTGAGACGA
* * * *
46747579 GTGCTAGTGTAAGACATGTTTGGGACATGCTTCGACTTTGAGACGTA
1 GAGCGAGTGTAAGACATGTCTGGGACATGCTTCGACATTGAGACG-A
* *
46747626 -AGCGAGTGTAAGAAATGTCTGGGACATGCATCGA
1 GAGCGAGTGTAAGACATGTCTGGGACATGCTTCGA
46747660 TGAGTGAAAT
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
45 8 0.08
46 53 0.50
47 31 0.30
48 12 0.11
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (46 bp):
GAGCGAGTGTAAGACATGTCTGGGACATGCTTCGACATTGAGACGA
Found at i:46767644 original size:49 final size:47
Alignment explanation
Indices: 46767553--46768063 Score: 826
Period size: 47 Copynumber: 10.7 Consensus size: 47
46767543 TTAGGATTCT
* * *
46767553 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
46767600 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
46767649 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46767696 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
46767745 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
46767794 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46767841 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46767888 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
46767935 ATGTTATGAATGTGAAAGTGTATATATGTGATAAGGCCCAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
46767982 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
46768029 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
46768064 TTTCGAAGGG
Statistics
Matches: 441, Mismatches: 18, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 300 0.68
49 140 0.32
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:46770671 original size:25 final size:25
Alignment explanation
Indices: 46770637--46770685 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
46770627 CCCCTATAAT
* *
46770637 GTGAAAATGACCATTTTGCCCCTAA
1 GTGAAAATGACCATTATACCCCTAA
46770662 GTGAAAATGACCATTATACCCCTA
1 GTGAAAATGACCATTATACCCCTA
46770686 GGGATATGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAA
Found at i:46770742 original size:10 final size:10
Alignment explanation
Indices: 46770727--46770754 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
46770717 CTGTTCTGTA
46770727 CATGATATGC
1 CATGATATGC
46770737 CATGATATGC
1 CATGATATGC
46770747 CATGATAT
1 CATGATAT
46770755 ATTCATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (10 bp):
CATGATATGC
Found at i:46771818 original size:18 final size:17
Alignment explanation
Indices: 46771792--46771825 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
46771782 GGTGTTACTT
46771792 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
46771810 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
46771826 AAGCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:46803528 original size:17 final size:18
Alignment explanation
Indices: 46803496--46803530 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46803486 AAATTTACCA
46803496 AAAATCACAGAAAATCAG
1 AAAATCACAGAAAATCAG
*
46803514 AAAATCCCA-AAAATCAG
1 AAAATCACAGAAAATCAG
46803531 GGCGTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.20, G:0.09, T:0.11
Consensus pattern (18 bp):
AAAATCACAGAAAATCAG
Found at i:46839382 original size:39 final size:40
Alignment explanation
Indices: 46839337--46839508 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
46839327 GCTCCTCGTT
* * *
46839337 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
46839377 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
46839416 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
46839456 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
46839496 CAAATGCCTTCGG
1 CAAATGCCTTCGG
46839509 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:46839437 original size:40 final size:39
Alignment explanation
Indices: 46839339--46839561 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
46839329 TCCTCGTTCA
* * * *
46839339 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
46839378 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
46839417 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
46839457 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
46839497 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
46839538 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
46839562 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:46839521 original size:80 final size:79
Alignment explanation
Indices: 46839337--46839561 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
46839327 GCTCCTCGTT
* * * * *
46839337 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
46839401 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
46839416 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
46839481 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
46839496 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
46839560 GA
63 GA
46839562 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:46839570 original size:41 final size:41
Alignment explanation
Indices: 46839493--46839570 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
46839483 TTTGTATCTC
* * *
46839493 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
46839534 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
46839571 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:46843444 original size:56 final size:56
Alignment explanation
Indices: 46843348--46843455 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 56
46843338 CAATGGCATC
* *
46843348 GATATATGTGTGCGAGTAAGACCACGATTTATACGTTGGCATCGATATGTGACTCT
1 GATATATGTGTGCGAGTAAGACCACGATCTAGACGTTGGCATCGATATGTGACTCT
46843404 GATATATGTGTGCGAGTAAGACC-CTG-TCTAGGACAG-TGGCATCGATATGTGA
1 GATATATGTGTGCGAGTAAGACCAC-GATCTA-GAC-GTTGGCATCGATATGTGA
46843456 TTACATGTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
55 4 0.09
56 42 0.89
57 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGATCTAGACGTTGGCATCGATATGTGACTCT
Found at i:46848188 original size:47 final size:47
Alignment explanation
Indices: 46848097--46848462 Score: 606
Period size: 47 Copynumber: 7.7 Consensus size: 47
46848087 TTAGGATTCT
* *
46848097 ATGTGATGGATGTGAACATGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-A-GTGTATATATGTGATAAGGCCTAATGGCCG
46848146 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
46848193 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
46848240 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46848287 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46848334 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
46848381 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
46848428 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
46848463 TCCCGAAGGG
Statistics
Matches: 301, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 285 0.95
48 1 0.00
49 15 0.05
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:46850640 original size:19 final size:20
Alignment explanation
Indices: 46850616--46850653 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46850606 GGTACCACCA
46850616 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
46850635 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
46850654 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:46850966 original size:46 final size:46
Alignment explanation
Indices: 46850881--46851002 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
46850871 CGCCCCTAAT
* *
46850881 TGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAG
* *
46850927 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAG
*
46850973 TGAACTCAGACTCAACTCAACAAGTTCGGA
1 TGAACTCGGACTCAACTCAACAAGTTCGGA
46851003 TGCTCAACCA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAG
Found at i:46859096 original size:43 final size:42
Alignment explanation
Indices: 46859026--46859183 Score: 160
Period size: 42 Copynumber: 3.7 Consensus size: 42
46859016 CACACGGTAC
* **
46859026 CATACCAATGCCATATCCCAGATATGGTCTTACATGGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGAAATCT
* *
46859068 CGTATCAATGCCAATAGCCCAGGA-ATGGTCTTACATGAAATCT
1 CATATCAATGCC-ATATCCCA-GATATGGTCTTACATGAAATCT
* * *
46859111 CATATCGATGCCATATCTCAGATATGGTCTTACA-CAAAGTCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGAAA-TCT
* * *
46859153 CATAT-AGATTCCTTATCCCATATATGGTCTT
1 CATATCA-ATGCCATATCCCAGATATGGTCTT
46859184 GCACATAGTC
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
41 5 0.05
42 55 0.57
43 34 0.35
44 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACATGAAATCT
Found at i:46869656 original size:23 final size:23
Alignment explanation
Indices: 46869613--46869656 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
46869603 AGGGCAATTG
* *
46869613 TTATACCTTGTGTAGCGAGCCAC
1 TTATACCTTGTATAGCAAGCCAC
*
46869636 TTATACCTTGTATAGTAAGCC
1 TTATACCTTGTATAGCAAGCC
46869657 TCATGAACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (23 bp):
TTATACCTTGTATAGCAAGCCAC
Found at i:46871805 original size:47 final size:46
Alignment explanation
Indices: 46871659--46871977 Score: 221
Period size: 49 Copynumber: 6.7 Consensus size: 46
46871649 TTACTTGTAT
* * *
46871659 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATA
* * * **
46871705 GCCAGTGTAAGACCATGCCTGGGACATGGCATCGGCGTAGAGAATGAGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG-ATGATA
*
46871754 GCCAGTCTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGATA
* * * * *
46871801 GCCAGTGTAAGACGTGTCTGGGACACGCATCAG-CTAAGAGTTG-T-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGATA
* *** * * ** * *
46871845 GCTAGTGTAAGACATGTCTTTTACAGGCATCAGCACGTATAGACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-C-TCGAGATGATA
* * * * * *
46871893 GCTAGTATAAAACCATGTCTGGGACATGGGATCAGCCTCGATGATGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GATGATA
**
46871942 GCCAGTGTAAGACCATGTCCAGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
46871978 AACATATCCC
Statistics
Matches: 213, Mismatches: 47, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
44 27 0.13
45 1 0.00
46 22 0.10
47 60 0.28
48 35 0.16
49 61 0.29
50 7 0.03
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATA
Found at i:46872796 original size:54 final size:55
Alignment explanation
Indices: 46872716--46872840 Score: 180
Period size: 54 Copynumber: 2.3 Consensus size: 55
46872706 GCACTTAAAA
* * * *
46872716 TTTAAAGTCAGTGCTGAACACGGGCAGGCCACACGGGCGTGTGTCAT-GTCGTGT
1 TTTAAAGTCAGTGTTGAACACAGGCAGGCCACACGGGCGTGTGTCATGGCCATGT
* * *
46872770 TTTAAAGTCAATGTTGTACACAGGCAGGCCACATGGGCGTGTGTCATGGCCATGT
1 TTTAAAGTCAGTGTTGAACACAGGCAGGCCACACGGGCGTGTGTCATGGCCATGT
46872825 TTTAAAGTCAGTGTTG
1 TTTAAAGTCAGTGTTG
46872841 CACATGGGCT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
54 42 0.68
55 20 0.32
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (55 bp):
TTTAAAGTCAGTGTTGAACACAGGCAGGCCACACGGGCGTGTGTCATGGCCATGT
Found at i:46882223 original size:16 final size:15
Alignment explanation
Indices: 46882182--46882224 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
46882172 ATGATGATAA
46882182 ATATTAATATATAATT
1 ATATTAAT-TATAATT
**
46882198 ATATCCATTATAATCT
1 ATATTAATTATAAT-T
46882214 ATATTAATTAT
1 ATATTAATTAT
46882225 TATCAACTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTAATTATAATT
Found at i:46885170 original size:38 final size:38
Alignment explanation
Indices: 46885114--46885188 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
46885104 TATGTGTATT
* * *
46885114 CGGGTTAAATCCAGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCAGCAGGCCTAGTGCTGGTATTATATC
*
46885152 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATAT
1 CGGGATAAATCCAGCAGGCCTAGTGCTGGTATTATAT
46885189 TCAGGCCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCAGCAGGCCTAGTGCTGGTATTATATC
Found at i:46885348 original size:43 final size:43
Alignment explanation
Indices: 46885186--46885353 Score: 212
Period size: 43 Copynumber: 3.9 Consensus size: 43
46885176 GCTGGTATTA
* * *
46885186 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCAGTGATGTG
* *
46885229 TATTTGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCAGTGATGTG
* * * * *
46885272 TATTC-GACGCTTTGTGCCTAGCAAGCTTCATGCCGGTGATGTG
1 TATTCGGGC-CTTCGTGCCTAGCAGGCTTAATGCCAGTGATGTG
* *
46885315 TATTCGGGCCTTCGTGCCTAGTAGGCGTAATGCCAGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCAGTGA
46885354 AATGATATGT
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
42 2 0.02
43 102 0.96
44 2 0.02
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCAGTGATGTG
Found at i:46888058 original size:93 final size:93
Alignment explanation
Indices: 46887952--46888123 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
46887942 GCCCATAAGA
* * * *
46887952 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAAATCGGACTCAACTCAA
46888017 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
46888045 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAAATCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAAATCGGACTCAACTCAA
*
46888110 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
46888124 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAAATCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:46888119 original size:46 final size:46
Alignment explanation
Indices: 46887944--46888119 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
46887934 TGTAACCCGC
* * * *
46887944 CCATAAGAGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
*
46887990 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTAG---CAT
* * * *
46888040 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
* *
46888083 CCATAAGTGAAATCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
46888120 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
Found at i:46888138 original size:46 final size:46
Alignment explanation
Indices: 46887988--46888138 Score: 130
Period size: 46 Copynumber: 3.2 Consensus size: 46
46887978 GGGCGTTTGC
* * *
46887988 ATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT
1 ATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAT
* * * * **
46888035 -TACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GC
1 AT-C--CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAT
*
46888081 ATCCATAAGTGAAATCGGACTCAACTCAACGAGTTCGGATGCCCAAAT
1 ATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AAT
46888129 ATCCT-AGTGA
1 ATCCTAAGTGA
46888139 CATGTCACTT
Statistics
Matches: 82, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 39 0.48
47 33 0.40
48 6 0.07
49 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
ATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAT
Done.