Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 157 of 410
Found at i:47760503 original size:31 final size:31
Alignment explanation
Indices: 47760468--47760548 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
47760458 GAATCAGAAT
* *
47760468 CAGAATTAGAATCAGAATCAATATCAGGTAA
1 CAGAATTAAAATCAGAATCAATATCAAGTAA
* * *
47760499 CAGAATCAAAATCAAAATCAGTATCAAGTAA
1 CAGAATTAAAATCAGAATCAATATCAAGTAA
47760530 CAGAATCTAAAATCAGAAT
1 CAGAAT-TAAAATCAGAAT
47760549 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 32 0.76
32 10 0.24
ACGTcount: A:0.52, C:0.15, G:0.12, T:0.21
Consensus pattern (31 bp):
CAGAATTAAAATCAGAATCAATATCAAGTAA
Found at i:47760503 original size:37 final size:36
Alignment explanation
Indices: 47760419--47760548 Score: 120
Period size: 37 Copynumber: 3.5 Consensus size: 36
47760409 GAACTAGAAT
* *
47760419 CAGAATCAGAATCAGAATTAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGAATCAGAATCA-ATGA
47760456 CAGAATCAGAATCAGAATTAGAATCAGAATCAAT-A
1 CAGAATCAGAATCAGAATTAGAATCAGAATCAATGA
* * * * *
47760491 TCAGGTAA-CAGAATCAAAATCAAAATCAGTATCAAGTAA
1 -CA-G-AATCAGAATCAGAATTAGAATCAGAATCAA-TGA
*
47760530 CAGAATCTAAAATCAGAAT
1 CAGAATC-AGAATCAGAAT
47760549 GTGAATGCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
35 1 0.01
36 5 0.06
37 57 0.73
38 14 0.18
39 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (36 bp):
CAGAATCAGAATCAGAATTAGAATCAGAATCAATGA
Found at i:47760764 original size:27 final size:27
Alignment explanation
Indices: 47760685--47760786 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
47760675 GCTCAGTTAT
* * * *
47760685 CAGATATTGTGACAGAGTCATCAGATA
1 CAGATATTGTGGCAGAGCCACCAGAAA
*
47760712 TAGATATTGTGGCAGAGCCACCAG-AA
1 CAGATATTGTGGCAGAGCCACCAGAAA
*
47760738 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAGAAA
* * *
47760766 CAGATAATGTAGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
47760787 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 6 0.10
27 49 0.78
28 8 0.13
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGAAA
Found at i:47768753 original size:28 final size:29
Alignment explanation
Indices: 47768700--47768755 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
47768690 ACAACAGTTT
**
47768700 TCACACGGCCTAGCACACGCTTGTGTCCC
1 TCACACGGCCTAGCACACGCCCGTGTCCC
47768729 TCACACGGCC-ATG-ACACGCCCGTGTCC
1 TCACACGGCCTA-GCACACGCCCGTGTCC
47768756 TAGCCCATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.18, C:0.43, G:0.21, T:0.18
Consensus pattern (29 bp):
TCACACGGCCTAGCACACGCCCGTGTCCC
Found at i:47769780 original size:47 final size:47
Alignment explanation
Indices: 47769710--47769925 Score: 161
Period size: 47 Copynumber: 4.7 Consensus size: 47
47769700 GTAAGGTGCT
* * *
47769710 GATGCCATGTCCCAGACACGGTCTTATACTAGCTCATATCTC-TTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCA-ATCTCATAGTC
*
47769757 GATGCCATGTCCCAGACATGGTCTTACACTA--TC-ATCTCATAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCAATCTCATAGTC
* * * * *
47769801 GATG-CATGTCCCAGACAT-TTCTTACAC-AGGCTTACGTCTCGA-GGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTA-GCTCA-ATCTC-ATAGTC
* * *
47769847 GATGCCATGTCCCAGACATGGTCTTACAATGGCTC--TCATAAT-GTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCAATC-TCATAGT--C
47769894 TGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 -GATGCCATGTCCCAGACATGGTCTTACACTAGC
47769926 CCACAATAAC
Statistics
Matches: 136, Mismatches: 18, Indels: 31
0.74 0.10 0.17
Matches are distributed among these distances:
41 1 0.01
42 8 0.06
43 19 0.14
44 8 0.06
45 7 0.05
46 21 0.15
47 58 0.43
48 14 0.10
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCAATCTCATAGTC
Found at i:47775084 original size:12 final size:12
Alignment explanation
Indices: 47775067--47775096 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47775057 AGCCACGGGT
47775067 GTGTGCTTGGCC
1 GTGTGCTTGGCC
47775079 GTGTGCTTGGCC
1 GTGTGCTTGGCC
*
47775091 TTGTGC
1 GTGTGC
47775097 CTCACATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.23, G:0.40, T:0.37
Consensus pattern (12 bp):
GTGTGCTTGGCC
Found at i:47775687 original size:15 final size:15
Alignment explanation
Indices: 47775667--47775697 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47775657 AGTTACGACG
47775667 TCCGAAAGCCCCGTA
1 TCCGAAAGCCCCGTA
47775682 TCCGAAAGCCCCGTA
1 TCCGAAAGCCCCGTA
47775697 T
1 T
47775698 GAGCTTTAGG
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:0.26, C:0.39, G:0.19, T:0.16
Consensus pattern (15 bp):
TCCGAAAGCCCCGTA
Found at i:47783181 original size:25 final size:25
Alignment explanation
Indices: 47783152--47783203 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
47783142 ATCCTAAAAG
47783152 AAAGAAATCGAATTTAGATAGGGGA
1 AAAGAAATCGAATTTAGATAGGGGA
47783177 AAAGAAATCGAATTTAGATAGGGGA
1 AAAGAAATCGAATTTAGATAGGGGA
47783202 AA
1 AA
47783204 TCGAAGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.50, C:0.04, G:0.27, T:0.19
Consensus pattern (25 bp):
AAAGAAATCGAATTTAGATAGGGGA
Found at i:47783485 original size:43 final size:44
Alignment explanation
Indices: 47783438--47783581 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 44
47783428 TACCAAGATG
*
47783438 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
** *
47783481 TGATTATGTGTAAGACCATTTC-GGGACATTGGCATCGT-TATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
* * * * * *
47783523 TGATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATCG-ATATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
*
47783566 TGATAACATGTAAGAC
1 TGATTACATGTAAGAC
47783582 TATATATGGG
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 35 0.42
43 48 0.57
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (44 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
Found at i:47783525 original size:42 final size:43
Alignment explanation
Indices: 47783446--47783560 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 43
47783436 TGTGATTACA
*
47783446 TGTAAGACCATGTCTGGGACATTGGCATTGTATTATGATTAT-G
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATT-TCG
*
47783489 TGTAAGACCATTTC-GGGACATTGGCATCGT-TATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT-TATGATTTCG
* * *
47783531 TGTAAGACCCTGTCTAGGACAGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
47783561 ATATGTGATA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
41 2 0.03
42 35 0.56
43 26 0.41
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
Found at i:47790180 original size:40 final size:40
Alignment explanation
Indices: 47790051--47790181 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
47790041 TATGCTGGAA
* * *
47790051 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * *
47790091 GCTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
47790131 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
*
47790171 ATTAAATCCGG
1 ATTATATCCGG
47790182 TTATATTCCG
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:47791992 original size:26 final size:27
Alignment explanation
Indices: 47791926--47791992 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
47791916 AGTAGTGGAA
*
47791926 TGGGTTTTTGAAAATTTTCCTCAAAAT
1 TGGGTTTTTGAAAGTTTTCCTCAAAAT
** * *
47791953 TGGGTTTTCAAAAGTTTTTCT-AAACCT
1 TGGGTTTTTGAAAGTTTTCCTCAAA-AT
47791980 T-GGTTTTTGAAAG
1 TGGGTTTTTGAAAG
47791993 AGATGATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 13 0.41
27 19 0.59
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (27 bp):
TGGGTTTTTGAAAGTTTTCCTCAAAAT
Found at i:47793720 original size:56 final size:56
Alignment explanation
Indices: 47793634--47793861 Score: 284
Period size: 56 Copynumber: 4.1 Consensus size: 56
47793624 TTGTGACATC
* *
47793634 TGATTCTGATATATGTGTGCAAGTAAGACCACGATTAATACGTTGGCATCGATATG
1 TGATTCTGATATATGTGTACGAGTAAGACCACGATTAATACGTTGGCATCGATATG
* ** *
47793690 TGATTCTGGA-ATATGTGTGCGAGTAAGACCACCTTTAATATGTTGGCATCGATATG
1 TGATTCT-GATATATGTGTACGAGTAAGACCACGATTAATACGTTGGCATCGATATG
* * *
47793746 TGATTCCGATATATGTGTATGAGTAAGACCACGTTTAATACGTTGGCATCGATATG
1 TGATTCTGATATATGTGTACGAGTAAGACCACGATTAATACGTTGGCATCGATATG
* * * *
47793802 TGATT-TGATATATGTGTACGAGGAAGACC-CTATATAAGACAG-TGGCATCGTTATG
1 TGATTCTGATATATGTGTACGAGTAAGACCACGAT-TAATAC-GTTGGCATCGATATG
47793857 TGATT
1 TGATT
47793862 ACATGTAAGA
Statistics
Matches: 152, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
54 2 0.01
55 45 0.30
56 103 0.68
57 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (56 bp):
TGATTCTGATATATGTGTACGAGTAAGACCACGATTAATACGTTGGCATCGATATG
Found at i:47802579 original size:39 final size:39
Alignment explanation
Indices: 47802514--47802637 Score: 158
Period size: 39 Copynumber: 3.2 Consensus size: 39
47802504 TGTTATGATC
* *
47802514 AAATCTCCGGACATGAGGTCCGCAGGCTATAAGCTGGAA
1 AAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAA
* * *
47802553 AAATATCCGGACATGAGATCCACAGGCTATATGCTAGAA
1 AAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAA
* * * * *
47802592 ATATATCCAGACTTGAGGTCCGCAAGCTATGTGCTGGAA
1 AAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAA
47802631 AAATATC
1 AAATATC
47802638 TGGGTTAAAG
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (39 bp):
AAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAA
Found at i:47810558 original size:39 final size:39
Alignment explanation
Indices: 47810514--47810641 Score: 130
Period size: 39 Copynumber: 3.3 Consensus size: 39
47810504 TATGAGATTG
* * *
47810514 AAAATATCCGGACATGAGGTCCGCATGATATATGTTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGATATATGCTAGA
* * *
47810553 AAAATATCCGGACATGAGATCCGCGGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGATATATGCTAGA
* * * * *** *
47810592 AATATATCCAGACTTGAGGTCCGCAGGCTGCGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGATATATGCTAGA
47810631 AAAATATCCGG
1 AAAATATCCGG
47810642 GTTAAAGACC
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGATATATGCTAGA
Found at i:47816341 original size:23 final size:24
Alignment explanation
Indices: 47816313--47816366 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
47816303 AGCCCAAATA
* *
47816313 AGCTTCTTGATA-GGCTCTTTATG
1 AGCTTCTTGAAATGGCTCTATATG
* *
47816336 AGCTTCCTGAAATGGCTCTATGTG
1 AGCTTCTTGAAATGGCTCTATATG
47816360 AGCTTCT
1 AGCTTCT
47816367 CACTACAAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (24 bp):
AGCTTCTTGAAATGGCTCTATATG
Found at i:47818428 original size:36 final size:36
Alignment explanation
Indices: 47818388--47818459 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
47818378 GTTGAATGAT
47818388 TCATGTTATGTTTTGGTTTGTTTTAATGTCTTTTAA
1 TCATGTTATGTTTTGGTTTGTTTTAATGTCTTTTAA
47818424 TCATGTTATGTTTTGGTTTGTTTTAATGTCTTTTAA
1 TCATGTTATGTTTTGGTTTGTTTTAATGTCTTTTAA
47818460 CAGGTTGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.17, C:0.06, G:0.17, T:0.61
Consensus pattern (36 bp):
TCATGTTATGTTTTGGTTTGTTTTAATGTCTTTTAA
Found at i:47823304 original size:29 final size:29
Alignment explanation
Indices: 47823271--47823402 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
47823261 GTGACGAGAT
*
47823271 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
47823300 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
47823329 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
47823358 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
47823387 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47823403 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:47831164 original size:29 final size:29
Alignment explanation
Indices: 47831131--47831262 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
47831121 GTGACGAGAT
*
47831131 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
47831160 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
47831189 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
47831218 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
47831247 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47831263 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:47840797 original size:44 final size:42
Alignment explanation
Indices: 47840664--47840801 Score: 120
Period size: 42 Copynumber: 3.2 Consensus size: 42
47840654 GACCCAAACG
* ** *
47840664 TGGTCTTACATGTAATCGAATATCGATGCC-ACTATCCCAGACA
1 TGGTCTTACATGAAATTAAATA-CGATGCCGA-TGTCCCAGACA
*
47840707 GGGTCTTACATGAAATTAAATACGATGCCGATGTCCCAGACA
1 TGGTCTTACATGAAATTAAATACGATGCCGATGTCCCAGACA
* * **
47840749 TGGTCTTATATGTAAATCTCAAAT-CGATG-CGAATGTCCCTGATG
1 TGGTCTTACATG-AAAT-T-AAATACGATGCCG-ATGTCCCAGACA
47840793 TGGTCTTAC
1 TGGTCTTAC
47840802 GTGATAACTC
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
42 27 0.34
43 25 0.32
44 23 0.29
45 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (42 bp):
TGGTCTTACATGAAATTAAATACGATGCCGATGTCCCAGACA
Found at i:47851799 original size:13 final size:13
Alignment explanation
Indices: 47851783--47851809 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47851773 TGTGTTAAAC
47851783 TCTCGTGTGAAAA
1 TCTCGTGTGAAAA
47851796 TCTCGTGTGAAAA
1 TCTCGTGTGAAAA
47851809 T
1 T
47851810 TTAACTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (13 bp):
TCTCGTGTGAAAA
Found at i:47853248 original size:18 final size:18
Alignment explanation
Indices: 47853225--47853260 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
47853215 CCATTTTGTT
47853225 TCTTCCATATGAAAATAG
1 TCTTCCATATGAAAATAG
47853243 TCTTCCATATGAAAATAG
1 TCTTCCATATGAAAATAG
47853261 ACTCATCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
TCTTCCATATGAAAATAG
Found at i:47854128 original size:40 final size:40
Alignment explanation
Indices: 47854083--47854249 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
47854073 CGGAATATAA
47854083 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
47854123 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
47854163 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
47854203 CCGGATATAATTTCCAGCATAATTGTCC-TCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATG-CCTTCGGGTCTTAGC
47854242 CCGGATAT
1 CCGGATAT
47854250 CATTCAATTT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 14 0.13
40 91 0.85
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47856423 original size:71 final size:71
Alignment explanation
Indices: 47856339--47856502 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
47856329 CGATTTGTCT
47856339 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
47856404 CTTTCA
66 CTTTCA
47856410 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
47856475 CTTTCA
66 CTTTCA
47856481 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
47856503 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:47856540 original size:71 final size:70
Alignment explanation
Indices: 47856339--47856536 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
47856329 CGATTTGTCT
* * * *
47856339 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
47856404 CTTTCA
65 CTTTCA
* * * *
47856410 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
47856475 CTTTCA
65 CTTTCA
* *
47856481 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
47856537 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:47863984 original size:71 final size:71
Alignment explanation
Indices: 47863898--47864061 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
47863888 CGATTTGTCT
47863898 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
47863963 CTTTCA
66 CTTTCA
47863969 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
47864034 CTTTCA
66 CTTTCA
47864040 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
47864062 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:47864099 original size:71 final size:70
Alignment explanation
Indices: 47863898--47864095 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
47863888 CGATTTGTCT
* * * *
47863898 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
47863963 CTTTCA
65 CTTTCA
* * * *
47863969 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
47864034 CTTTCA
65 CTTTCA
* *
47864040 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
47864096 TACAGGTGTC
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:47870803 original size:29 final size:29
Alignment explanation
Indices: 47870770--47870900 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
47870760 GTGACGAGAT
47870770 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47870799 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
47870828 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
47870857 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
47870886 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
47870901 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:47876957 original size:39 final size:38
Alignment explanation
Indices: 47876860--47876967 Score: 114
Period size: 39 Copynumber: 2.8 Consensus size: 38
47876850 ATAACCATGT
*
47876860 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TAGAATGCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATTAGAA-GCTA
*
47876899 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCA-CTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-TAG-AAGCTA
*
47876939 GCACAATTGCCTTC-GGTCTTAACCCGGAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGAT
47876968 ATAATTTCCA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
39 44 0.72
40 13 0.21
41 3 0.05
42 1 0.02
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.24
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATTAGAAGCTA
Found at i:47878823 original size:30 final size:30
Alignment explanation
Indices: 47878789--47878882 Score: 145
Period size: 30 Copynumber: 3.2 Consensus size: 30
47878779 ATGAATCAGA
*
47878789 AGCTTTGGCACTAAGTGTGGGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAAACT
* * *
47878819 AGCTTTAGCACAAAGTGTGCGATTTAAACG
1 AGCTTTGGCACTAAGTGTGCGATTTAAACT
47878849 AGCTTTGGCACTAAGTGTGCGATTT-AACT
1 AGCTTTGGCACTAAGTGTGCGATTTAAACT
47878878 AGCTT
1 AGCTT
47878883 CGGCTACTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
29 8 0.14
30 49 0.86
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (30 bp):
AGCTTTGGCACTAAGTGTGCGATTTAAACT
Found at i:47882012 original size:2 final size:2
Alignment explanation
Indices: 47882005--47882032 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47881995 TTTGGAAGTG
47882005 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47882033 CATAAGTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47882567 original size:27 final size:28
Alignment explanation
Indices: 47882511--47882580 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
47882501 AAATTTGTAC
47882511 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
47882539 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
47882566 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
47882581 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:47890487 original size:27 final size:28
Alignment explanation
Indices: 47890431--47890500 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
47890421 AAATTTGTAC
47890431 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
47890459 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
47890486 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
47890501 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:47895432 original size:46 final size:46
Alignment explanation
Indices: 47895382--47895646 Score: 242
Period size: 46 Copynumber: 5.7 Consensus size: 46
47895372 TGGTTGAGCA
*
47895382 TCCGAACTCGTTGTGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
47895428 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
* * *
47895472 GCATTGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TC--CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
47895520 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
47895565 CATCCAAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
47895613 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47895647 GGGGCAGGTT
Statistics
Matches: 175, Mismatches: 26, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.06
44 2 0.01
45 6 0.03
46 108 0.62
47 27 0.15
48 5 0.03
49 5 0.03
50 6 0.03
51 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47895542 original size:92 final size:93
Alignment explanation
Indices: 47895379--47895642 Score: 424
Period size: 92 Copynumber: 2.8 Consensus size: 93
47895369 GGATGGTTGA
* * * *
47895379 GCATCCGAACTCGTTGTGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
47895444 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
*
47895472 GCAT-TGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
*
47895536 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* * *
47895564 GCATCCAAACTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCGAACGCTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
47895628 TTGAGTCCGAGTTCA
65 TTGAGTCCGAGTTCA
47895643 CTTAGGGGCA
Statistics
Matches: 158, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
92 87 0.55
93 71 0.45
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:47903403 original size:39 final size:39
Alignment explanation
Indices: 47903346--47903670 Score: 544
Period size: 39 Copynumber: 8.3 Consensus size: 39
47903336 CGAGACTTTA
* * *
47903346 AGCCCGGATATAATACCAGCAC-AAAGCCTACGGGACTTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TT
* *
47903385 AGCCCGGATATAACACCAGCACAAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
47903424 AGCCCGGATATAACACCAGCACGACTGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* *
47903463 AGCCCGGATATAACACCAACGCGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
47903502 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
47903541 AGCCCGGATATAACACTAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
47903580 AGCCCGGATAAAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
47903619 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
47903658 AGCCCGGATATAA
1 AGCCCGGATATAA
47903671 TTCTCCATTA
Statistics
Matches: 269, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
39 258 0.96
40 11 0.04
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.18
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:47906650 original size:28 final size:30
Alignment explanation
Indices: 47906618--47906691 Score: 98
Period size: 33 Copynumber: 2.4 Consensus size: 30
47906608 GTGATCAACA
47906618 CAGTATCAGTACAATCT-G-AAGCCCTATT
1 CAGTATCAGTACAATCTGGAAAGCCCTATT
*
47906646 CAGTATCAGTACAGTCTGGACCAAAGCCCTATT
1 CAGTATCAGTACAATCTGG---AAAGCCCTATT
47906679 CAGTATCAGTACA
1 CAGTATCAGTACA
47906692 GCGCATAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 16 0.40
29 1 0.03
33 23 0.57
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (30 bp):
CAGTATCAGTACAATCTGGAAAGCCCTATT
Found at i:47917498 original size:13 final size:13
Alignment explanation
Indices: 47917482--47917507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47917472 TATTTATGTA
47917482 TTATGTAAGTTAT
1 TTATGTAAGTTAT
47917495 TTATGTAAGTTAT
1 TTATGTAAGTTAT
47917508 GTAAGTTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTATGTAAGTTAT
Found at i:47917510 original size:22 final size:20
Alignment explanation
Indices: 47917472--47917515 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 20
47917462 ATATGATATA
47917472 TATTTATGTATTATGTAAGT
1 TATTTATGTATTATGTAAGT
47917492 TATTTATGTAAGTTATGTAAGT
1 TATTTATGT-A-TTATGTAAGT
47917514 TA
1 TA
47917516 CTTAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 9 0.41
21 1 0.05
22 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (20 bp):
TATTTATGTATTATGTAAGT
Found at i:47917907 original size:22 final size:21
Alignment explanation
Indices: 47917878--47917919 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
47917868 TTTAACTTTA
47917878 GAATTAAATATAAAAATTAAT
1 GAATTAAATATAAAAATTAAT
* *
47917899 GAATATAAATTTAAAATTTAA
1 GAAT-TAAATATAAAAATTAA
47917920 AATAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
GAATTAAATATAAAAATTAAT
Found at i:47920682 original size:15 final size:15
Alignment explanation
Indices: 47920673--47920701 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47920663 TAAAATTATT
47920673 AAAATAAAAAATAAA
1 AAAATAAAAAATAAA
47920688 AAAATAAAAAATAA
1 AAAATAAAAAATAA
47920702 TTTAACATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAATAAAAAATAAA
Found at i:47923129 original size:18 final size:18
Alignment explanation
Indices: 47923086--47923120 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
47923076 GAAAGGCTGA
47923086 GAAAGAAAAGGGAATCGG
1 GAAAGAAAAGGGAATCGG
47923104 GAAAGAAAAGGGAATCG
1 GAAAGAAAAGGGAATCG
47923121 TGGGAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.06, G:0.37, T:0.06
Consensus pattern (18 bp):
GAAAGAAAAGGGAATCGG
Found at i:47926771 original size:24 final size:23
Alignment explanation
Indices: 47926719--47926772 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
47926709 GGCCTAGCCT
47926719 CTTTTAATAACTAGGGCAAAGAC
1 CTTTTAATAACTAGGGCAAAGAC
* *
47926742 CTTTTTGATAAACTGGGGCAAAG-C
1 C-TTTTAAT-AACTAGGGCAAAGAC
47926766 GCTTTTA
1 -CTTTTA
47926773 GCACTTCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 1 0.04
24 11 0.44
25 13 0.52
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (23 bp):
CTTTTAATAACTAGGGCAAAGAC
Found at i:47926834 original size:10 final size:10
Alignment explanation
Indices: 47926819--47926856 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
47926809 TATGTGAATC
47926819 TATCATGGCA
1 TATCATGGCA
47926829 TATCATGTGCA
1 TATCATG-GCA
47926840 TATCATGGCA
1 TATCATGGCA
47926850 TATCATG
1 TATCATG
47926857 TACAAAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (10 bp):
TATCATGGCA
Found at i:47934637 original size:24 final size:25
Alignment explanation
Indices: 47934610--47934656 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
47934600 AGGCCTAACC
47934610 TTTTTAAT-AACTGGGGCAAAGCCG
1 TTTTTAATAAACTGGGGCAAAGCCG
*
47934634 TTTTTGATAAACTGGGGCAAAGC
1 TTTTTAATAAACTGGGGCAAAGC
47934657 ACTTTTAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (25 bp):
TTTTTAATAAACTGGGGCAAAGCCG
Found at i:47934662 original size:25 final size:23
Alignment explanation
Indices: 47934608--47934662 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 23
47934598 GGAGGCCTAA
47934608 CCTTTTTAATAACTGGGGCAAAG
1 CCTTTTTAATAACTGGGGCAAAG
*
47934631 CCGTTTTTGATAAACTGGGGCAAAG
1 CC-TTTTTAAT-AACTGGGGCAAAG
47934656 CACTTTT
1 C-CTTTT
47934663 AGCACTTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 2 0.07
24 7 0.25
25 18 0.64
26 1 0.04
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (23 bp):
CCTTTTTAATAACTGGGGCAAAG
Found at i:47938163 original size:16 final size:16
Alignment explanation
Indices: 47938123--47938163 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
47938113 GAACCTTGGG
*
47938123 GCAAAAGTGCAAATAT
1 GCAAAAGTTCAAATAT
47938139 GCAAAAGTTCAAATAT
1 GCAAAAGTTCAAATAT
47938155 GCAAAAGTT
1 GCAAAAGTT
47938164 TAGGGGTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (16 bp):
GCAAAAGTTCAAATAT
Found at i:47939013 original size:100 final size:100
Alignment explanation
Indices: 47938832--47939027 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
47938822 CAAATGAACT
*
47938832 ATTGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCACTACGTGTACCGGATAATTGGTCGCATGT
1 ATTGTGA-GTCACGTGTGTAGTACTAAGTGCAGGCACTACGTGTACCAGATAATTGGTCGCATGT
47938897 GTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAA
65 GTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAA
*
47938933 ATTGTGA-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGT
1 ATTGTGAGTCACGTGTGTAGTACTAAGTGCAGGC-ACTACGTGTACCAGATAATTGGTCGCATGT
47938997 GTAGTACTAAGTGCAGGCTACTATGCGTACC
65 GTAGTACTAAGTGCAGGCTACTATGCGTACC
47939028 AGATAGCTTC
Statistics
Matches: 92, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
99 26 0.28
100 59 0.64
101 7 0.08
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
ATTGTGAGTCACGTGTGTAGTACTAAGTGCAGGCACTACGTGTACCAGATAATTGGTCGCATGTG
TAGTACTAAGTGCAGGCTACTATGCGTACCCAAAA
Found at i:47939017 original size:49 final size:49
Alignment explanation
Indices: 47938846--47939032 Score: 252
Period size: 49 Copynumber: 3.8 Consensus size: 49
47938836 TGAGGTCACG
* *
47938846 TGTGTAGTACTAAGTGCAGGC-ACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
* * * *
47938894 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAATTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGATAATTG-G-TCGCA
* *
47938945 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
*
47938994 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
47939033 GCTTCGGCTA
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
48 21 0.18
49 53 0.45
50 7 0.06
51 38 0.32
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
Found at i:47942263 original size:45 final size:45
Alignment explanation
Indices: 47942213--47942381 Score: 195
Period size: 45 Copynumber: 3.7 Consensus size: 45
47942203 TGGTTGAGCA
47942213 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATG
* *
47942258 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATG-GATGCGAA-T--G
*
47942303 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATG
* *
47942351 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCACT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
47942382 TAGGGGCGGG
Statistics
Matches: 106, Mismatches: 7, Indels: 23
0.78 0.05 0.17
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
44 1 0.01
45 38 0.36
46 19 0.18
47 28 0.26
48 1 0.01
49 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATG
Found at i:47942376 original size:92 final size:92
Alignment explanation
Indices: 47942210--47942378 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
47942200 GGATGGTTGA
* *
47942210 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
47942275 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
47942302 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
47942367 TGAGT-CGAGTTC
65 TGAGTCCGAGTTC
47942379 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 41 0.56
93 32 0.44
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47949933 original size:46 final size:46
Alignment explanation
Indices: 47949811--47949935 Score: 214
Period size: 46 Copynumber: 2.7 Consensus size: 46
47949801 GGTTGAGCAT
* * *
47949811 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
47949857 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
47949903 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47949936 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:47952834 original size:20 final size:18
Alignment explanation
Indices: 47952798--47952846 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
47952788 CTTGCTAGAG
*
47952798 TATTTTGTTTTT-CTTTT
1 TATTTTGTTTTTGGTTTT
*
47952815 GTGTTTGTGTTTTTGGTTTT
1 -TATTT-TGTTTTTGGTTTT
47952835 TATTTTGTTTTT
1 TATTTTGTTTTT
47952847 CTTTTTGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 11 0.42
19 11 0.42
20 4 0.15
ACGTcount: A:0.04, C:0.02, G:0.16, T:0.78
Consensus pattern (18 bp):
TATTTTGTTTTTGGTTTT
Found at i:47954873 original size:53 final size:54
Alignment explanation
Indices: 47954746--47954999 Score: 274
Period size: 55 Copynumber: 4.8 Consensus size: 54
47954736 ACGCAGGTAC
* * * *
47954746 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
47954795 CTTACC-ATTCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
47954847 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
47954902 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
47954955 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
47955000 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 23, Indels: 18
0.81 0.11 0.09
Matches are distributed among these distances:
48 29 0.17
49 7 0.04
52 11 0.06
53 41 0.24
54 8 0.05
55 72 0.42
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:47958198 original size:40 final size:40
Alignment explanation
Indices: 47958053--47958216 Score: 168
Period size: 40 Copynumber: 4.1 Consensus size: 40
47958043 CGGGATTCAA
* * * *
47958053 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
47958093 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
47958133 CCGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* ** *
47958173 CCGGATATAATCACTAGCATAAATGCCTTCTAGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
47958213 CCGG
1 CCGG
47958217 GTATCATTCA
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
40 100 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47958200 original size:80 final size:80
Alignment explanation
Indices: 47958053--47958216 Score: 186
Period size: 80 Copynumber: 2.0 Consensus size: 80
47958043 CGGGATTCAA
* * ** * *
47958053 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
* *
47958118 CCTTCGGGTCTTAGC
66 CCTTCGAGACTTAGC
** * * *
47958133 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
*
47958197 GCCTTCTAGACTTAGC
65 GCCTTCGAGACTTAGC
47958213 CCGG
1 CCGG
47958217 GTATCATTCA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
80 67 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGAGACTTAGC
Found at i:47961582 original size:78 final size:79
Alignment explanation
Indices: 47961391--47961606 Score: 348
Period size: 78 Copynumber: 2.7 Consensus size: 79
47961381 AAACCAAGTA
* * * *
47961391 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGATTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
47961454 GTAACTCGCACAAATG
65 GTAACTCG-ACAAATG
47961470 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
47961535 TAACTCG-CAAATG
66 TAACTCGACAAATG
*
47961548 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
47961607 TTATCATCGA
Statistics
Matches: 130, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
78 64 0.49
79 14 0.11
80 52 0.40
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTCGACAAATG
Found at i:47961610 original size:40 final size:40
Alignment explanation
Indices: 47961391--47961606 Score: 350
Period size: 40 Copynumber: 5.5 Consensus size: 40
47961381 AAACCAAGTA
* *
47961391 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
47961430 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47961470 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47961510 CCTTCGGGACTTAGCCCGGATATAGTAACTCG--CAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47961548 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47961588 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47961607 TTATCATCGA
Statistics
Matches: 167, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
38 37 0.22
39 14 0.08
40 116 0.69
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47979972 original size:54 final size:53
Alignment explanation
Indices: 47979845--47980040 Score: 182
Period size: 54 Copynumber: 3.6 Consensus size: 53
47979835 ACTTACCATT
* *
47979845 GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAAT
1 GCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAAC
* * * *
47979898 GCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTG-CTTATAGTAACTTATCAAC
1 GCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAAC
*** * *
47979952 GCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATT
1 GCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-C
* * * *
47980007 TCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 GCCATGTCTTGACATGGTCTTACATGGGATCCTT
47980041 AAACCCTAAT
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
52 7 0.06
53 33 0.28
54 42 0.36
55 35 0.30
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (53 bp):
GCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAAC
Found at i:47987641 original size:18 final size:18
Alignment explanation
Indices: 47987618--47987658 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
47987608 AGGACCGAGA
47987618 TTCGGTCAAATGTAAATC
1 TTCGGTCAAATGTAAATC
47987636 TTCGGTCAAATGTAAATC
1 TTCGGTCAAATGTAAATC
47987654 TTCGG
1 TTCGG
47987659 GAAAATCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (18 bp):
TTCGGTCAAATGTAAATC
Found at i:47987664 original size:18 final size:18
Alignment explanation
Indices: 47987625--47987664 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
47987615 AGATTCGGTC
**
47987625 AAATGTAAATCTTCGGTC
1 AAATGTAAATCTTCGGGA
47987643 AAATGTAAATCTTCGGGA
1 AAATGTAAATCTTCGGGA
47987661 AAAT
1 AAAT
47987665 CTCTAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (18 bp):
AAATGTAAATCTTCGGGA
Found at i:47991711 original size:30 final size:31
Alignment explanation
Indices: 47991635--47991717 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
47991625 TCAGTCTCGA
*
47991635 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCTGAAGCCTTTTCATAAAT
47991665 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCTGAAGCCTTTTCATAAAT
47991696 CATATCACT-GGCTGAAGCCTTT
1 CATATCACTGGGCTGAAGCCTTT
47991718 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCTGAAGCCTTTTCATAAAT
Found at i:47991951 original size:24 final size:24
Alignment explanation
Indices: 47991924--47992007 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
47991914 TTGGAGGCCT
47991924 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
47991948 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTAATAAACTGGGGCAA
** * *
47991973 AGCCCTTTTCGGTAAACTAGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
47991998 AGCCCTTTTA
1 AGCCCTTTTA
47992008 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
23 1 0.02
24 14 0.27
25 37 0.71
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:47991971 original size:25 final size:25
Alignment explanation
Indices: 47991937--47992006 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
47991927 CTCTTTTAAT
*
47991937 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
47991962 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
47991987 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
47992007 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:47992877 original size:27 final size:27
Alignment explanation
Indices: 47992818--47992892 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
47992808 CATATTCGTC
47992818 ATTTTACCATACAGGGGTATTACGGTT
1 ATTTTACCATACAGGGGTATTACGGTT
* *
47992845 ACTTTACCCTACAGGGGCT-TTACGGTCT
1 ATTTTACCATACAGGGG-TATTACGGT-T
*
47992873 -TTTTACC-TATTAGGGGTATT
1 ATTTTACCATA-CAGGGGTATT
47992893 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 3 0.08
27 35 0.88
28 2 0.05
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (27 bp):
ATTTTACCATACAGGGGTATTACGGTT
Found at i:47992963 original size:27 final size:27
Alignment explanation
Indices: 47992933--47993018 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
47992923 GTAAATCTAC
47992933 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
47992960 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
47992986 AGAAAGTCAAGGGTATTTCTATAATTGTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
47993016 AAA
1 AAA
47993019 TTAGGTGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
26 1 0.02
27 22 0.44
28 7 0.14
29 19 0.38
30 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:47993037 original size:27 final size:27
Alignment explanation
Indices: 47993020--47993119 Score: 132
Period size: 27 Copynumber: 3.7 Consensus size: 27
47993010 TTGTGTAAAT
*
47993020 TAGGTGTATTTTGGTAATTTTACAAAT
1 TAGGTGTATTTTGGTAATTTTACAAAC
* *
47993047 TGAGG-GTATTTTGGTAATTTCATAAAC
1 T-AGGTGTATTTTGGTAATTTTACAAAC
47993074 TA-GTGGTATTTTGGTAATTTTACAAAC
1 TAGGT-GTATTTTGGTAATTTTACAAAC
*
47993101 TAGGGGTATTTTGGTAATT
1 TAGGTGTATTTTGGTAATT
47993120 CTACCCTATA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
25 1 0.02
26 1 0.02
27 57 0.90
28 4 0.06
ACGTcount: A:0.28, C:0.05, G:0.22, T:0.45
Consensus pattern (27 bp):
TAGGTGTATTTTGGTAATTTTACAAAC
Found at i:47993138 original size:54 final size:54
Alignment explanation
Indices: 47993015--47993119 Score: 158
Period size: 54 Copynumber: 1.9 Consensus size: 54
47993005 TATAATTGTG
* * *
47993015 TAAATTAGGTGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCA
1 TAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGTAATTTCA
*
47993069 TAAACTAGTGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATT
1 TAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTTGGTAATT
47993120 CTACCCTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 44 0.96
55 2 0.04
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.45
Consensus pattern (54 bp):
TAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGTAATTTCA
Found at i:47993145 original size:54 final size:54
Alignment explanation
Indices: 47993015--47993152 Score: 129
Period size: 54 Copynumber: 2.6 Consensus size: 54
47993005 TATAATTGTG
* * ** *
47993015 TAAATTAGGTGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCA
1 TAAACTAGGGGTATTTCAGTAATTTTACAAATAGAGGGTATTTTGGTAATTTCA
* **
47993069 TAAACTAGTGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAA-TTC-
1 TAAACTAGGGGTATTTCAGTAATTTTACAAA-TAGAGGGTATTTTGGTAATTTCA
** *
47993121 TACCCTATAGGGGTATTTCAGTAATTTCACAA
1 TAAAC--TAGGGGTATTTCAGTAATTTTACAA
47993153 TCAAGGGTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
52 3 0.04
53 3 0.04
54 63 0.89
55 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
TAAACTAGGGGTATTTCAGTAATTTTACAAATAGAGGGTATTTTGGTAATTTCA
Found at i:47993253 original size:27 final size:27
Alignment explanation
Indices: 47993151--47993242 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
47993141 GTAATTTCAC
* * * *
47993151 AATCAAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
47993178 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
47993205 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
47993232 AATCGAGGGTA
1 AATCGAGGGTA
47993243 CTTTTGTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:48000791 original size:21 final size:20
Alignment explanation
Indices: 48000765--48000804 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
48000755 GTTATAATGA
*
48000765 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGCGTG-TGCCCTT
48000786 CCACACGGGCGTGTGCCCT
1 CCACACGGGCGTGTGCCCT
48000805 GTTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (20 bp):
CCACACGGGCGTGTGCCCTT
Found at i:48003174 original size:28 final size:28
Alignment explanation
Indices: 48003134--48003189 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
48003124 ATAATTCAAT
48003134 CTCCAAAATGTTTGTTAAGGGCATCTCA
1 CTCCAAAATGTTTGTTAAGGGCATCTCA
48003162 CTCCAAAATGTTTGTTAAGGGCATCTCA
1 CTCCAAAATGTTTGTTAAGGGCATCTCA
48003190 TTCCTTCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (28 bp):
CTCCAAAATGTTTGTTAAGGGCATCTCA
Found at i:48005417 original size:27 final size:27
Alignment explanation
Indices: 48005363--48005442 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
48005353 TTAGAATACT
* *
48005363 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-GTAAAATTACTGAAATACCC
*
48005391 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTGTAAAATTACTGAAATACCC
*
48005418 -TCGATTTGTAAAATTACTGAAATAC
1 TTAG-TTTGTAAAATTACTGAAATAC
48005443 TTCGACTTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.04
27 37 0.80
28 7 0.15
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACTGAAATACCC
Found at i:48005447 original size:26 final size:27
Alignment explanation
Indices: 48005372--48005460 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
48005362 TTTAGTTTAC
* *
48005372 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
48005399 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
48005426 TAAAATTACTGAAATA-CTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
48005452 TAAAATTAC
1 TAAAATTAC
48005461 CAAAGTACCC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 21 0.39
27 33 0.61
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:48005523 original size:27 final size:27
Alignment explanation
Indices: 48005400--48005633 Score: 127
Period size: 27 Copynumber: 8.6 Consensus size: 27
48005390 CTTAGTTTGT
* * **
48005400 AAAAATACTGAAATACCCTCGATTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * * **
48005427 AAAATTACTGAAATA-CTTCGACTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * *
48005453 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* ***
48005480 AGAATTAC-AGTTTTACCCTCGATTTAC
1 AAAATTACTA-AAATACCCTCGATTTAC
** **
48005507 AAAATTACTAAAATACCCTTAATTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
*
48005534 AAAATTACCAAAATACCC-CTGATTTAC
1 AAAATTACTAAAATACCCTC-GATTTAC
* * *
48005561 AAAGTTACAAAAATACCCTTGACTTT-C
1 AAAATTACTAAAATACCCTCGA-TTTAC
* * *
48005588 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACTA-AAATACCCTCGATTTAC
*
48005617 AAAATTACTGAAATACC
1 AAAATTACTAAAATACC
48005634 TTTGGTTTGT
Statistics
Matches: 159, Mismatches: 37, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
26 22 0.14
27 111 0.70
28 9 0.06
29 17 0.11
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTCGATTTAC
Found at i:48005558 original size:81 final size:80
Alignment explanation
Indices: 48005413--48005569 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 80
48005403 AATACTGAAA
** * * *
48005413 TACCCTCGATTTGTAAAATTACTGAAATACTTCGACTTGTAAAATTACCAAAGTACCCCCGATTT
1 TACCCTCGATTTACAAAATTACTAAAATACTTCAACTTGTAAAATTACCAAAATACCCCCGATTT
48005478 ACAGAA-TTACAGTTT
66 ACA-AAGTTACAGTTT
* *
48005493 TACCCTCGATTTACAAAATTACTAAAATACCCTT-AATTTGTAAAATTACCAAAATACCCCTGAT
1 TACCCTCGATTTACAAAATTACTAAAATA--CTTCAACTTGTAAAATTACCAAAATACCCCCGAT
48005557 TTACAAAGTTACA
64 TTACAAAGTTACA
48005570 AAAATACCCT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 28 0.42
81 36 0.54
82 3 0.04
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACTAAAATACTTCAACTTGTAAAATTACCAAAATACCCCCGATTT
ACAAAGTTACAGTTT
Found at i:48005617 original size:56 final size:54
Alignment explanation
Indices: 48005500--48005633 Score: 153
Period size: 56 Copynumber: 2.4 Consensus size: 54
48005490 TTTTACCCTC
* *
48005500 GATTTACAAAATTACTAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCT
1 GATTTACAAAATTACTAAAATACCCTTAATTTCTAAAATTACCAAAATACCACT
* * * * *
48005554 GATTTACAAAGTTACAAAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATT
1 GATTTACAAAATTACTAAAATACCCTT-AATTTCT-AAAATTACCA-AAATACCACT
* *
48005610 GGTTTACAAAATTACTGAAATACC
1 GATTTACAAAATTACTAAAATACC
48005634 TTTGGTTTGT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 25 0.38
55 6 0.09
56 35 0.53
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (54 bp):
GATTTACAAAATTACTAAAATACCCTTAATTTCTAAAATTACCAAAATACCACT
Found at i:48005638 original size:27 final size:27
Alignment explanation
Indices: 48005590--48005641 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
48005580 TGACTTTCTA
48005590 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
48005617 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
48005642 GTTGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:48005724 original size:27 final size:27
Alignment explanation
Indices: 48005693--48005760 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
48005683 ATGCCCCTAT
* *
48005693 TAGGGTAAAGTGACCGTAA-AGCCCTTG
1 TAGGGTAAAATGACCGTAATA-CCCCTG
48005720 TAGGGTAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
*
48005747 TATGGTAAAATGAC
1 TAGGGTAAAATGAC
48005761 GAATATGCCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCCTG
Found at i:48006953 original size:25 final size:25
Alignment explanation
Indices: 48006921--48006968 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48006911 CTATAACATG
* * *
48006921 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
48006946 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
48006969 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:48007013 original size:11 final size:11
Alignment explanation
Indices: 48006977--48007032 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
48006967 GGGTTTATGT
48006977 ATGATATGCAC
1 ATGATATGCAC
* *
48006988 ATGACATG--T
1 ATGATATGCAC
48006997 ATGATATGCAC
1 ATGATATGCAC
*
48007008 ATGATATG--T
1 ATGATATGCAC
48007017 ATGATATGCAC
1 ATGATATGCAC
48007028 ATGAT
1 ATGAT
48007033 GTAATCATAA
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:48007032 original size:20 final size:20
Alignment explanation
Indices: 48006972--48007032 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
48006962 CCCTAGGGTT
48006972 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
48006992 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
48007012 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
48007032 T
1 T
48007033 GTAATCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:48007137 original size:24 final size:23
Alignment explanation
Indices: 48007081--48007246 Score: 219
Period size: 24 Copynumber: 7.0 Consensus size: 23
48007071 GAGGAAGTGA
48007081 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
48007104 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
48007127 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
48007151 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
48007175 TAAAGGGGTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
48007199 AAAAGGGCTT-TGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTT-AT
*
48007222 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
48007246 A
1 A
48007247 TGATAAAGCA
Statistics
Matches: 128, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
23 59 0.46
24 63 0.49
25 6 0.05
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:48007197 original size:71 final size:70
Alignment explanation
Indices: 48007081--48007245 Score: 251
Period size: 71 Copynumber: 2.3 Consensus size: 70
48007071 GAGGAAGTGA
48007081 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTT-TGCCCCA
48007146 GTTATC
65 GTTATC
* *
48007152 AAAAGGGCTTATGCCCCAGTTATTAAAGGGGTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAG
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGCCCCAG
* *
48007217 TTGTT
66 TTATC
*
48007222 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
48007246 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
70 21 0.24
71 66 0.76
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (70 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGCCCCAG
TTATC
Found at i:48007225 original size:23 final size:24
Alignment explanation
Indices: 48007081--48007245 Score: 239
Period size: 23 Copynumber: 7.0 Consensus size: 24
48007071 GAGGAAGTGA
48007081 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48007105 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
48007128 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
48007152 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48007176 -AAAGGGGTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48007199 AAAAGGGCTT-TGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48007222 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
48007246 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
23 62 0.48
24 60 0.47
25 7 0.05
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:48007473 original size:31 final size:31
Alignment explanation
Indices: 48007438--48007501 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
48007428 CGTTTACCGT
*
48007438 AAAGGCTTCGGCCCAGTGATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTGATATGAAATATGA
*
48007469 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTGATATGAAATATGA
48007500 AA
1 AA
48007502 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAAATATGA
Found at i:48012126 original size:42 final size:42
Alignment explanation
Indices: 48012079--48012178 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
48012069 TGTGTAGGAA
* *
48012079 CATATCTGGAATATGGAATCAAAATGAGACTTTGTAAAAGAC
1 CATATCTGGGATATGGAATCAAAATGAGACTTCGTAAAAGAC
** * * **
48012121 CATATCTGGGATATGTCATCGATATGAGACTTCGTGTAAGAC
1 CATATCTGGGATATGGAATCAAAATGAGACTTCGTAAAAGAC
48012163 CATATCTGGGATATGG
1 CATATCTGGGATATGG
48012179 CATTGGAACG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (42 bp):
CATATCTGGGATATGGAATCAAAATGAGACTTCGTAAAAGAC
Found at i:48014846 original size:79 final size:79
Alignment explanation
Indices: 48014706--48014927 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 79
48014696 TATTCGAATG
* * * **
48014706 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGC
48014771 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* *
48014787 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGC
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGC
48014850 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * * *
48014866 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAGTCCGAAGG
48014928 TATGTGATTC
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 64 0.52
80 45 0.37
81 12 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:48014908 original size:40 final size:40
Alignment explanation
Indices: 48014706--48014913 Score: 262
Period size: 40 Copynumber: 5.2 Consensus size: 40
48014696 TATTCGAATG
* * *
48014706 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
48014747 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
*
48014787 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
48014826 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
48014866 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
48014906 ATATCCGG
1 ATATCCGG
48014914 TTAAATTCCG
Statistics
Matches: 147, Mismatches: 14, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
39 37 0.25
40 81 0.55
41 28 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:48023021 original size:39 final size:40
Alignment explanation
Indices: 48022916--48023123 Score: 253
Period size: 40 Copynumber: 5.2 Consensus size: 40
48022906 TATTCGAATG
* * *
48022916 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
48022957 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
*
48022997 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
48023036 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * **
48023076 ATAACCGGGCTATGTCCCGAAGGCATTTAAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
48023116 ATATCCGG
1 ATATCCGG
48023124 TTAAATTCGA
Statistics
Matches: 146, Mismatches: 15, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 37 0.25
40 80 0.55
41 28 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:48023056 original size:79 final size:81
Alignment explanation
Indices: 48022916--48023102 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 81
48022906 TATTCGAATG
* * *
48022916 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGC
48022981 ATTTGTGCGAGTTACT
66 ATTTGTGCGAGTTACT
* * **
48022997 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAG
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAG
48023058 GCATTTGTGCGAGTTACT
64 GCATTTGTGCGAGTTACT
* *
48023076 ATAACCGGGCTATGTCCCGAAGGCATT
1 ATATCCGGGCTAAGTCCCGAAGGCATT
48023103 TAAGCGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 51 0.55
80 29 0.31
81 12 0.13
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGC
ATTTGTGCGAGTTACT
Found at i:48023126 original size:79 final size:79
Alignment explanation
Indices: 48022920--48023136 Score: 239
Period size: 79 Copynumber: 2.7 Consensus size: 79
48022910 CGAATGATAT
* * *
48022920 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
*
48022984 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* *
48023001 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCATT
48023063 TGTGCGAGTTACT-ATAA
63 TGTGCGAGTTACTAAT-A
* ** *
48023080 CCGGGCTATGTCCCGAAGGCATTTAAGCGAGTAGCTATATCCGGTTAA-ATTCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGG
48023137 TATGTGATTC
Statistics
Matches: 116, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
78 9 0.08
79 55 0.47
80 42 0.36
81 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:48025406 original size:30 final size:30
Alignment explanation
Indices: 48025370--48025427 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
48025360 CACGGGCAGA
*
48025370 GACACGGGCGTGTGTCTTAGCCGTGTGAAG
1 GACACGGGCATGTGTCTTAGCCGTGTGAAG
* *
48025400 GACACGGGCATGTGTCTTGGCTGTGTGA
1 GACACGGGCATGTGTCTTAGCCGTGTGA
48025428 CTTCAATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.19, G:0.40, T:0.26
Consensus pattern (30 bp):
GACACGGGCATGTGTCTTAGCCGTGTGAAG
Found at i:48027441 original size:27 final size:27
Alignment explanation
Indices: 48027411--48027471 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
48027401 CGACTTGTAA
48027411 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAGTAC-CCTCGATTTACAG
****
48027438 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
48027465 AATTACC
1 AATTACC
48027472 GTGTAACACC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTACAG
Found at i:48028853 original size:24 final size:24
Alignment explanation
Indices: 48028823--48029089 Score: 453
Period size: 24 Copynumber: 11.1 Consensus size: 24
48028813 GAATGTGACT
* *
48028823 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
* *
48028847 ATAGCAAATCGCACGCATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
48028871 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
* *
48028895 ATAGTGAATCGCACACACAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
48028919 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
48028943 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
* *
48028967 ATGGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
48028991 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
48029015 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
48029039 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
48029063 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
48029087 ATA
1 ATA
48029090 TGGTCCTTGC
Statistics
Matches: 231, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 231 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:48030733 original size:27 final size:27
Alignment explanation
Indices: 48030695--48031064 Score: 408
Period size: 27 Copynumber: 13.7 Consensus size: 27
48030685 GGCTGTCACA
**
48030695 TACCGTTTTACCCTCGATTTTTAAAAT
1 TACCGTTTTACCCTCGATTTACAAAAT
*
48030722 TACCATTTTACCCTCGATTTACAAAAT
1 TACCGTTTTACCCTCGATTTACAAAAT
* *
48030749 TACTGTTTTACCCTC-AGTTTACAGAAT
1 TACCGTTTTACCCTCGA-TTTACAAAAT
* *
48030776 TACTGTTTTACCCTCGATTTACAGAAT
1 TACCGTTTTACCCTCGATTTACAAAAT
*
48030803 TACCGTTTTACCCTC-AGTTTACAGAAT
1 TACCGTTTTACCCTCGA-TTTACAAAAT
** * *
48030830 TATTGTTTTACCCTCGATTTATAGAAT
1 TACCGTTTTACCCTCGATTTACAAAAT
*
48030857 TACCATTTTACCCTCGATTTACAAAAT
1 TACCGTTTTACCCTCGATTTACAAAAT
*
48030884 TACCGTTTTACCCTC-AGTTTACAGAAT
1 TACCGTTTTACCCTCGA-TTTACAAAAT
* *
48030911 TACTGTTTTACCCTCGATTTACAGAAT
1 TACCGTTTTACCCTCGATTTACAAAAT
* **
48030938 TATCGTTTTACCCTCGATTTGTAAAAT
1 TACCGTTTTACCCTCGATTTACAAAAT
* * *
48030965 TATCGTTTTACCCTTGATTTACAGAAT
1 TACCGTTTTACCCTCGATTTACAAAAT
* *
48030992 TACTAG-TTTACCCT-TAGTTTACAAAAT
1 TAC-CGTTTTACCCTCGA-TTTACAAAAT
* *
48031019 TATCGTTTTACCCTCGATTTACAGAAT
1 TACCGTTTTACCCTCGATTTACAAAAT
* *
48031046 TACTGTTTTACCCTTGATT
1 TACCGTTTTACCCTCGATT
48031065 GTGAAATTAC
Statistics
Matches: 295, Mismatches: 38, Indels: 20
0.84 0.11 0.06
Matches are distributed among these distances:
26 5 0.02
27 285 0.97
28 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCGTTTTACCCTCGATTTACAAAAT
Found at i:48030837 original size:81 final size:82
Alignment explanation
Indices: 48030698--48031059 Score: 479
Period size: 81 Copynumber: 4.5 Consensus size: 82
48030688 TGTCACATAC
** * *
48030698 CGTTTTACCCTCGATTTTTAAAATTACCATTTTACCCTC-GATTTACAAAATTACTGTTTTACCC
1 CGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAGATTTACAGAATTACTGTTTTACCC
48030762 TC-AGTTTACAGAATTA-
66 TCGA-TTTACAGAATTAT
* *
48030778 CTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTATTGTTTTACC
1 C-GTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAGATTTACAGAATTACTGTTTTACC
* *
48030842 CTCGATTTATAGAATTAC
65 CTCGATTTACAGAATTAT
*
48030860 CATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAG-TTTACAGAATTACTGTTTTACCC
1 CGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAGATTTACAGAATTACTGTTTTACCC
48030924 TCGATTTACAGAATTAT
66 TCGATTTACAGAATTAT
** * *
48030941 CGTTTTACCCTCGATTTGTAAAATTATCGTTTTACCCT-TGATTTACAGAATTACTAG-TTTACC
1 CGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAGATTTACAGAATTACT-GTTTTACC
* *
48031004 CT-TAGTTTACAAAATTAT
65 CTCGA-TTTACAGAATTAT
* *
48031022 CGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCT
1 CGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCT
48031060 TGATTGTGAA
Statistics
Matches: 251, Mismatches: 24, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
80 3 0.01
81 244 0.97
82 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (82 bp):
CGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAGATTTACAGAATTACTGTTTTACCC
TCGATTTACAGAATTAT
Found at i:48031099 original size:27 final size:27
Alignment explanation
Indices: 48031069--48031263 Score: 230
Period size: 27 Copynumber: 7.2 Consensus size: 27
48031059 TTGATTGTGA
48031069 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
48031096 AATTTCTAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
48031123 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
48031150 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
48031177 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
48031204 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** * * *
48031231 AATTACTGAGGTACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
48031258 AATTAC
1 AATTAC
48031264 CATTCTGCCC
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:48031137 original size:54 final size:54
Alignment explanation
Indices: 48031069--48031265 Score: 270
Period size: 54 Copynumber: 3.6 Consensus size: 54
48031059 TTGATTGTGA
* * * *
48031069 AATTACTGAAATACCCCTGTAGGGTAGAATTTCTAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
48031123 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
48031177 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
** * *
48031231 AATTACTGAGGTACCCTTGTGGGGTAAAATTACCA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCA
48031266 TTCTGCCCCT
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 123 0.98
55 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:48031501 original size:27 final size:26
Alignment explanation
Indices: 48031463--48031545 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
48031453 CGGAGGAAGC
*
48031463 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
48031490 GTTCTGGTGGCTCTACCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
48031516 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
48031543 GTT
1 GTT
48031546 GATCGGTCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 10 0.20
27 39 0.80
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:48031665 original size:22 final size:22
Alignment explanation
Indices: 48031633--48031691 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
48031623 CTCGTTATTA
*
48031633 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
48031655 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
48031677 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
48031692 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:48031878 original size:27 final size:27
Alignment explanation
Indices: 48031856--48031929 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
48031846 TAGGTGGGTT
*
48031856 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
48031883 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
48031910 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
48031930 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:48032055 original size:6 final size:6
Alignment explanation
Indices: 48032046--48032286 Score: 205
Period size: 6 Copynumber: 39.8 Consensus size: 6
48032036 TTGCATTCAC
* *
48032046 ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
48032094 -TTACTG ATTCTG ATTCTG ATTCTG --TCAAGTA ATTTTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTC---TG ATTCTG ATTCTG ATTCTG
* * *
48032143 ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTA ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
* * * *
48032191 ATTTTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
48032240 ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
48032287 CATTTTGGTT
Statistics
Matches: 191, Mismatches: 22, Indels: 44
0.74 0.09 0.17
Matches are distributed among these distances:
4 2 0.01
5 14 0.07
6 160 0.84
7 12 0.06
8 2 0.01
9 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:48032189 original size:85 final size:85
Alignment explanation
Indices: 48032046--48032286 Score: 428
Period size: 85 Copynumber: 2.8 Consensus size: 85
48032036 TTGCATTCAC
48032046 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
* *
48032111 GATTCTGTCAAGTAATTTTG
66 GATTCTGTCAACTAATTCTG
* *
48032131 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTAATTCTGATTTT
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
*
48032196 GATTCTGTCACCTAATTCTG
66 GATTCTGTCAACTAATTCTG
*
48032216 ATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
48032281 GATTCT
66 GATTCT
48032287 CATTTTGGTT
Statistics
Matches: 148, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 148 1.00
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
GATTCTGTCAACTAATTCTG
Found at i:48032307 original size:30 final size:30
Alignment explanation
Indices: 48032046--48032286 Score: 308
Period size: 30 Copynumber: 8.4 Consensus size: 30
48032036 TTGCATTCAC
*
48032046 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
48032076 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* * *
48032106 ATTCTGATTCTG--TC---AAGTAATTTTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
48032131 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
48032161 ATTCTGATTCTGATTCTGTTACTAATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
48032191 A---T--TT-TGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
48032216 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
48032246 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
48032276 ATTCTGATTCT
1 ATTCTGATTCT
48032287 CATTTTGGTT
Statistics
Matches: 183, Mismatches: 14, Indels: 28
0.81 0.06 0.12
Matches are distributed among these distances:
24 10 0.05
25 31 0.17
27 3 0.02
28 3 0.02
29 1 0.01
30 124 0.68
31 11 0.06
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:48034330 original size:27 final size:27
Alignment explanation
Indices: 48034298--48034734 Score: 515
Period size: 27 Copynumber: 16.2 Consensus size: 27
48034288 AAAGTACTCC
48034298 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
48034325 CAATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
48034352 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
48034379 CAATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
48034406 C-AGTTTACAGAATTACTGTTTTATCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
48034433 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
48034460 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
48034487 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
48034514 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
48034541 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
48034568 C-AGTTTAGAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
48034595 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
48034622 TGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
48034649 TGATTTACAGAATTACTAG-TTTACCCT
1 CGATTTACAGAATTAC-CGTTTTACCCT
* * *
48034676 -TAGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
48034703 CGATTTATAGAATTACCGTTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
48034730 TGATT
1 CGATT
48034735 GTGAAATTAC
Statistics
Matches: 351, Mismatches: 49, Indels: 20
0.84 0.12 0.05
Matches are distributed among these distances:
26 5 0.01
27 341 0.97
28 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:48034777 original size:27 final size:27
Alignment explanation
Indices: 48034739--48034916 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
48034729 TTGATTGTGA
* *
48034739 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
**
48034766 AATTTTCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
** * *
48034793 AATTACTAAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
48034820 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * *
48034847 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
48034874 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
48034901 AATTACC-AAGATACCC
1 AATTACCGAA-ATACCC
48034917 TTGTGGGGTA
Statistics
Matches: 128, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
26 2 0.02
27 126 0.98
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTATAGGGTAG
Found at i:48034805 original size:54 final size:54
Alignment explanation
Indices: 48034739--48034926 Score: 252
Period size: 54 Copynumber: 3.5 Consensus size: 54
48034729 TTGATTGTGA
* * **
48034739 AATTACTGAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * *
48034793 AATTACTAAAATACCCTTATAGGATAGAATTACCAAAATACCCCTATAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* *
48034847 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAG
1 AATTACT-AAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * *
48034901 AATTACCAAGATACCCTTGTGGGGTA
1 AATTACTAAAATACCCTTGTAGGGTA
48034927 AAATACCATT
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 115 0.99
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
Found at i:48034835 original size:81 final size:81
Alignment explanation
Indices: 48034747--48034926 Score: 252
Period size: 81 Copynumber: 2.2 Consensus size: 81
48034737 GAAATTACTG
* * * *
48034747 AAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTA
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCAAAATACCCCTA
48034812 TAGGATAGAATTACCA
66 TAGGATAGAATTACCA
* * * *
48034828 AAATACCCCTATAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTA
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCAAAATACCCCTA
*
48034893 TAGGGTAGAATTACCA
66 TAGGATAGAATTACCA
* * *
48034909 AGATACCCTTGTGGGGTA
1 AAATACCCCTGTAGGGTA
48034927 AAATACCATT
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCAAAATACCCCTA
TAGGATAGAATTACCA
Found at i:48035170 original size:27 final size:26
Alignment explanation
Indices: 48035132--48035214 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
48035122 CGGAGGAAGC
*
48035132 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
48035159 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
48035185 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
48035212 GTT
1 GTT
48035215 GACCGGTCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:48035330 original size:22 final size:22
Alignment explanation
Indices: 48035302--48035360 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
48035292 CCCGTTATTA
48035302 ATGGCTTTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
48035324 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
48035346 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
48035361 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:48035547 original size:27 final size:27
Alignment explanation
Indices: 48035525--48035598 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
48035515 TAGGTGGGTT
*
48035525 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
48035552 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
48035579 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
48035599 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:48035725 original size:6 final size:6
Alignment explanation
Indices: 48035716--48035956 Score: 198
Period size: 6 Copynumber: 39.8 Consensus size: 6
48035706 TTGCATTCAC
* *
48035716 ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
48035764 -TTACTG ATTCTG ATTCTG ATTCTG --TCAAGTA AGTT-TG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTC---TG A-TTCTG ATTCTG ATTCTG
* *
48035813 ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
* * * * *
48035861 ATTTTG ATTCTG -TCACCTA ATTCTG ATTCTA ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
48035910 ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
48035957 CATTTTGGTT
Statistics
Matches: 191, Mismatches: 20, Indels: 48
0.74 0.08 0.19
Matches are distributed among these distances:
4 2 0.01
5 16 0.08
6 158 0.83
7 12 0.06
8 2 0.01
10 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:48035857 original size:85 final size:85
Alignment explanation
Indices: 48035716--48035956 Score: 421
Period size: 85 Copynumber: 2.8 Consensus size: 85
48035706 TTGCATTCAC
48035716 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
*
48035781 GATTCTGTCAAGTAAGTT-TG
66 GATTCTGTCAACTAA-TTCTG
*
48035801 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTTT
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
*
48035866 GATTCTGTCACCTAATTCTG
66 GATTCTGTCAACTAATTCTG
* *
48035886 ATTCTAATTCTGATTCTGTTACTAATATTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
48035951 GATTCT
66 GATTCT
48035957 CATTTTGGTT
Statistics
Matches: 149, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
84 2 0.01
85 147 0.99
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
GATTCTGTCAACTAATTCTG
Found at i:48035977 original size:30 final size:30
Alignment explanation
Indices: 48035716--48035956 Score: 283
Period size: 30 Copynumber: 8.4 Consensus size: 30
48035706 TTGCATTCAC
*
48035716 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
48035746 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
48035776 ATTCTGATTCTG--TCAAG-TA--AGTT-TG
1 ATTCTGATTCTGATTC-TGTTACTAATTCTG
*
48035801 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
48035831 ATTCTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
48035855 ATTCTGATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
*
48035886 ATTCTAATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
48035916 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
48035946 ATTCTGATTCT
1 ATTCTGATTCT
48035957 CATTTTGGTT
Statistics
Matches: 180, Mismatches: 15, Indels: 32
0.79 0.07 0.14
Matches are distributed among these distances:
24 20 0.11
25 14 0.08
26 4 0.02
27 5 0.03
28 5 0.03
29 6 0.03
30 104 0.58
31 22 0.12
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:48040310 original size:42 final size:42
Alignment explanation
Indices: 48040244--48040400 Score: 192
Period size: 42 Copynumber: 3.7 Consensus size: 42
48040234 CTAAAACTAC
*
48040244 GTGTAAGACCATATCTGGGCTATGGCATC-AGTATGAGACTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGA-TATGAGACTTT
* * *
48040286 GTATAAGATCATATCTGGGATATGGCATTGATATGAGACTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTT
* * * *
48040328 GTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGA-TTAA
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACTT-T
*
48040371 ATGTAAGACCATATCTGGGATATGGCATCG
1 GTGTAAGACCATATCTGGGATATGGCATCG
48040401 GAACTGTACT
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 64 0.65
43 34 0.35
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTT
Found at i:48040389 original size:85 final size:84
Alignment explanation
Indices: 48040244--48040398 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
48040234 CTAAAACTAC
* * ** *
48040244 GTGTAAGACCATATCTGGGCTATGGCATCAGTATGAGACTTTGTATAAGATCATATCTGGGATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCAGTACGAGACTTAATATAAGACCATATCTGGGATAT
48040309 GGCATTGATATGAGACTTT
66 GGCATTGATATGAGACTTT
*
48040328 GTGTAAGACCATAGCTGGGCTATTGGCATC-GATACGAGA-TTAAATGTAAGACCATATCTGGGA
1 GTGTAAGACCATAGCTGGGCTA-TGGCATCAG-TACGAGACTT-AATATAAGACCATATCTGGGA
48040391 TATGGCAT
63 TATGGCAT
48040399 CGGAACTGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
84 24 0.39
85 38 0.61
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCAGTACGAGACTTAATATAAGACCATATCTGGGATAT
GGCATTGATATGAGACTTT
Found at i:48046453 original size:32 final size:32
Alignment explanation
Indices: 48046412--48046497 Score: 118
Period size: 32 Copynumber: 2.7 Consensus size: 32
48046402 TCATAGTCTT
* * *
48046412 AATTGGGCCTAGCCCATCTCAGAATCAATATC
1 AATTGGGCCTAGCCCATATCAAAACCAATATC
*
48046444 AATTGGGCCTAGCCCATATCAAAACCAGTATC
1 AATTGGGCCTAGCCCATATCAAAACCAATATC
* *
48046476 AGTTGGGCCTAGCCCATTTCAA
1 AATTGGGCCTAGCCCATATCAA
48046498 TATCAAACCC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (32 bp):
AATTGGGCCTAGCCCATATCAAAACCAATATC
Found at i:48051277 original size:32 final size:32
Alignment explanation
Indices: 48051241--48051330 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 32
48051231 AGAGTCTTAA
* * *
48051241 TTGGGTCTAGCTCATTTCAAAATCAATATTGG
1 TTGGGCCTAGCACATTTCAAAATCAATATTAG
* * * * *
48051273 TTGGGCCTAGCCCATATCAGAACCAGTATTAG
1 TTGGGCCTAGCACATTTCAAAATCAATATTAG
*
48051305 TTGGGCCTAGCACATTTCAATATCAA
1 TTGGGCCTAGCACATTTCAAAATCAA
48051331 ACCCATATGA
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (32 bp):
TTGGGCCTAGCACATTTCAAAATCAATATTAG
Found at i:48055182 original size:14 final size:14
Alignment explanation
Indices: 48055151--48055202 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 14
48055141 ATGAGTCCTC
48055151 AAAAATAAATAGAAAT
1 AAAAATAAA-A-AAAT
*
48055167 AAAAGTAAAAAAAT
1 AAAAATAAAAAAAT
48055181 AAAAAT--AAAAAT
1 AAAAATAAAAAAAT
48055193 AAAAATAAAA
1 AAAAATAAAA
48055203 TGAGTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 12 0.38
14 11 0.34
15 1 0.03
16 8 0.25
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Done.