Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 135 of 208
Found at i:44107420 original size:50 final size:50
Alignment explanation
Indices: 44107336--44107461 Score: 164
Period size: 50 Copynumber: 2.5 Consensus size: 50
44107326 AATGGCATCC
* * **
44107336 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC-
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCT
* *
44107385 CCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCT
1 CAT-GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCT
* *
44107436 CATGTAAGACCATATCTGGGATATGG
1 CATGTAAGACCATGTCTGGGACATGG
44107462 AATTTGTAGT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
49 2 0.03
50 62 0.94
51 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCT
Found at i:44107751 original size:12 final size:12
Alignment explanation
Indices: 44107734--44107773 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
44107724 ATGAGTTATT
*
44107734 TAAGTATGCAAG
1 TAAGTAAGCAAG
44107746 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
44107758 TAAGTAAACAAG
1 TAAGTAAGCAAG
44107770 TAAG
1 TAAG
44107774 AGAGTAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:44107770 original size:20 final size:20
Alignment explanation
Indices: 44107747--44107785 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
44107737 GTATGCAAGT
44107747 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
44107767 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
44107786 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:44112798 original size:20 final size:20
Alignment explanation
Indices: 44112770--44112807 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
44112760 AGTTGTTATG
*
44112770 AAGTTGAATTAAAGGCCAAC
1 AAGTAGAATTAAAGGCCAAC
44112790 AAGTAGAATTAAAGGCCA
1 AAGTAGAATTAAAGGCCA
44112808 GTAGCTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.18
Consensus pattern (20 bp):
AAGTAGAATTAAAGGCCAAC
Found at i:44115159 original size:27 final size:27
Alignment explanation
Indices: 44115129--44115306 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44115119 ATATTGAGTC
* * * *
44115129 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
44115156 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44115183 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44115211 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44115238 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44115265 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44115292 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44115307 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44115268 original size:82 final size:81
Alignment explanation
Indices: 44115150--44115305 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44115140 TGCTATATAA
* *
44115150 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44115215 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44115232 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44115296 CACTTAGTGC
65 CACTTAGTGC
44115306 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44118761 original size:43 final size:43
Alignment explanation
Indices: 44118721--44118941 Score: 334
Period size: 43 Copynumber: 5.1 Consensus size: 43
44118711 TAAAAACGGT
* * *
44118721 GCTAAAAACCAAGACTTTTAGCAGCGCTTTTCCCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
44118764 GCTAAAGACCAAGACCTTTAACGGCGCTTATCCCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* * * *
44118807 GCTAAAGACGAAGAACTTTAGCGGCGCATTTCCCACAAACACC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
44118850 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* * *
44118893 GCTAAAGACTAATACCTTTAGCGGCGCTTTTCCCACAAACGTC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
44118936 GCTAAA
1 GCTAAA
44118942 AACATGAATT
Statistics
Matches: 160, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 160 1.00
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (43 bp):
GCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCC
Found at i:44119163 original size:18 final size:18
Alignment explanation
Indices: 44119140--44119199 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
44119130 TTAAAACAAG
44119140 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
44119158 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
44119175 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
44119193 TTACATT
1 TTACATT
44119200 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:44123751 original size:7 final size:7
Alignment explanation
Indices: 44123725--44123783 Score: 57
Period size: 7 Copynumber: 8.4 Consensus size: 7
44123715 CACTAACTCA
*
44123725 TAACCTC
1 TAACCCC
*
44123732 TAACCTC
1 TAACCCC
44123739 TAACCCC
1 TAACCCC
44123746 TAACCCC
1 TAACCCC
* **
44123753 AAACTAC
1 TAACCCC
44123760 TAACCCC
1 TAACCCC
44123767 TAACTCCC
1 TAAC-CCC
44123775 -AACCCC
1 TAACCCC
44123781 TAA
1 TAA
44123784 ACATTATTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
6 3 0.07
7 37 0.86
8 3 0.07
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.19
Consensus pattern (7 bp):
TAACCCC
Found at i:44123783 original size:21 final size:21
Alignment explanation
Indices: 44123705--44123776 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
44123695 CGAATCTCTA
* * * *
44123705 AACCCTAAATCACTAACTCAT
1 AACCCCAAACCACTAACCCCT
* * *
44123726 AACCTCTAACCTCTAACCCCT
1 AACCCCAAACCACTAACCCCT
*
44123747 AACCCCAAACTACTAACCCCT
1 AACCCCAAACCACTAACCCCT
44123768 AACTCCCAA
1 AAC-CCCAA
44123777 CCCCTAAACA
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
21 34 0.87
22 5 0.13
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCCAAACCACTAACCCCT
Found at i:44124343 original size:20 final size:19
Alignment explanation
Indices: 44124312--44124357 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
44124302 ATTAAATTTT
44124312 AATT-AATATAAATAAACA
1 AATTAAATATAAATAAACA
*
44124330 AATTAAATAGTAAATAGACA
1 AATTAAATA-TAAATAAACA
*
44124350 AATAAAAT
1 AATTAAAT
44124358 GTTTTTGCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 16 0.67
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (19 bp):
AATTAAATATAAATAAACA
Found at i:44124416 original size:41 final size:41
Alignment explanation
Indices: 44124364--44124685 Score: 376
Period size: 41 Copynumber: 7.7 Consensus size: 41
44124354 AAATGTTTTT
* *
44124364 GCGGCGCTTTTTCAAAAAACGCCGCTAAAAGTCTGAGCATTA
1 GCGGCGC-TTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * * *
44124406 GCGTCGTTTTTCCAAAAACGACGCTAAAGGTCTGACCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* *
44124447 GCGGCGCTTTTCTAAAATCGCCGCTAAAGGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * *
44124488 GAGGCGCTTTTCCAAAAACGCCGCTAAAAGTCTGAGCATCA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* ***
44124529 GCGGCACTTTTTTTAAAACGCCGCTAAAGGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * *
44124570 GCGGCACTTTTCCATAAATGCCGCTAAAGGTCTGAGCA-TA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * *
44124610 GCGGCGCGGCGCTTCTCAAAAAAACGCTGCTAAAGGTCTGAGCATTA
1 -----GCGGCGCTTTTC-CAAAAACGCCGCTAAAGGTCTGAGCATTA
*
44124657 GCGGCGCATTTCCAAAAACGCCGCTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
44124686 CCTAGAAAGG
Statistics
Matches: 234, Mismatches: 39, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.01
41 183 0.78
42 15 0.06
45 10 0.04
46 22 0.09
47 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
Found at i:44124860 original size:40 final size:40
Alignment explanation
Indices: 44124723--44124858 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 40
44124713 TGGGCTTAGG
* * *
44124723 TTTTTTGCGGCGCTTTTCTAAAAAACGCCGCTAATGC-ACA
1 TTTTTAGCGGCG-TTTTCTAAAAAGCGCCGCTAATGCTAGA
* * *
44124763 TTTTTAGCGGCGTTTTCCAAAAAGCACCGCTAATGCTGGA
1 TTTTTAGCGGCGTTTTCTAAAAAGCGCCGCTAATGCTAGA
* * *
44124803 TCTTTAGCGGCGATTTT-TGAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCG-TTTTCTAAAAAGCGCCGCTAATGCTAGA
44124843 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
44124859 TTATTCAAAC
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 25 0.30
40 53 0.65
41 4 0.05
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTCTAAAAAGCGCCGCTAATGCTAGA
Found at i:44130367 original size:40 final size:39
Alignment explanation
Indices: 44130260--44130476 Score: 246
Period size: 40 Copynumber: 5.6 Consensus size: 39
44130250 TTGAATGCTG
* * * * * *
44130260 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTATTAAA
44130300 TCC-GG-TAAGT-CCGAAGGC-TT-TGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATTAAA
44130334 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTATTAAA
*
44130374 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTATTAAA
* * * *
44130414 TCCGGGTTATGTCCCGAAGTCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATTAAA
* * *
44130453 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
44130477 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
34 10 0.06
35 5 0.03
36 7 0.04
37 16 0.10
38 7 0.04
39 35 0.22
40 78 0.49
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATTAAA
Found at i:44130496 original size:79 final size:80
Alignment explanation
Indices: 44130330--44130511 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 80
44130320 TGCGAGTTAT
* * *
44130330 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
** ** *
44130395 ATTCGTGCGAGTTGT
66 ATTCGAACGAGGAGC
* * * *
44130410 TAAATCCGGGTTATGTCCCGAAGTCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
*
44130474 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
* *
44130489 TATATCC-GGTTAAATCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
44130512 TACGTGATTT
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 13 0.15
79 46 0.54
80 26 0.31
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:44138365 original size:39 final size:40
Alignment explanation
Indices: 44138161--44138383 Score: 306
Period size: 40 Copynumber: 5.6 Consensus size: 40
44138151 TTGAATGCTG
* * * * * *
44138161 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
44138201 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
44138241 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
44138281 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44138321 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44138360 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
44138384 TGAACGAGGA
Statistics
Matches: 169, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 34 0.20
40 129 0.76
41 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:44138403 original size:79 final size:80
Alignment explanation
Indices: 44138161--44138418 Score: 236
Period size: 80 Copynumber: 3.2 Consensus size: 80
44138151 TTGAATGCTG
* * * * * * * *
44138161 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** * *
44138225 CGTGCGAGTTA-TTAAA
65 CGAACGAG-GAGCTAAA
* * *
44138241 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
44138306 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * *
44138321 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
44138385 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
44138400 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
44138419 TACGTGATTT
Statistics
Matches: 154, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 87 0.56
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:44144640 original size:40 final size:40
Alignment explanation
Indices: 44144567--44144646 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
44144557 TTCTCTCTTG
* * **
44144567 GACTGAAACAACTTATCAAGCTTAGCTTGTGGCATCATTC
1 GACTAAAACAACTTATCAAGCTCAGCTAATGGCATCATTC
* *
44144607 GACTAAAACGACTTATCAATCTCAGCTAATGGCATCATTC
1 GACTAAAACAACTTATCAAGCTCAGCTAATGGCATCATTC
44144647 TTTCCTTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (40 bp):
GACTAAAACAACTTATCAAGCTCAGCTAATGGCATCATTC
Found at i:44153030 original size:113 final size:114
Alignment explanation
Indices: 44152661--44153143 Score: 571
Period size: 114 Copynumber: 4.2 Consensus size: 114
44152651 TAAAGAAAGT
* * * * * * * * ** *
44152661 ATTAGTGGCGCTTATTTAAAATCACCGCTAAAGCATAGAATTGGCGACAAGTCGCAAAAAGTGCC
1 ATTAGTGGCGCTTATATAAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTAGTGAAAAGCGCC
* *
44152726 GCAATACATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGC
66 GCAATATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGC
* * *
44152775 ATTAGTGGCGCTTATACAAAAACGCCGCTAAAGAATAGTATTAGCGGTGAGTAGTGAAAAGCGCC
1 ATTAGTGGCGCTTATATAAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTAGTGAAAAGCGCC
* * * *
44152840 GCAATATTTCTTAACCAAAATGCAGAGTTTGGTCTTGAGGTATATTAGG
66 GCAATATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGC
* ** * *
44152889 ATTAGTGGCGCTTATCA-GAAAACGCCGCTAAAGCATAGTATTAGCGGCGCTTATTGTAAAGCGC
1 ATTAGTGGCGCTTAT-ATAAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTAGTGAAAAGCGC
* * *
44152953 CGCAA-A-ATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGC
65 CGCAATATATCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATACTAGC
* * *
44153002 AGTAGTGGCGCTTATATTAAAACGCCGCTAAATCATAGTATTAGCGGCGAGTAGTGAAAAGCGCC
1 ATTAGTGGCGCTTATATAAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTAGTGAAAAGCGCC
* * * * *
44153067 GCAAGATTTCTTAACCAAAATGCAGAGTTTGGTCTTGCGGTATATTAGGC
66 GCAATATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTA-GC
44153117 -TTAGTGGCGCTTAT-TGAAAAACGCCGC
1 ATTAGTGGCGCTTATAT-AAAAACGCCGC
44153144 AAAAAAATTA
Statistics
Matches: 312, Mismatches: 50, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
112 17 0.05
113 81 0.26
114 195 0.62
115 19 0.06
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (114 bp):
ATTAGTGGCGCTTATATAAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTAGTGAAAAGCGCC
GCAATATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGC
Found at i:44153057 original size:227 final size:228
Alignment explanation
Indices: 44152718--44153143 Score: 678
Period size: 227 Copynumber: 1.9 Consensus size: 228
44152708 CAAGTCGCAA
* * *
44152718 AAAGTGCCGCAATACATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGCATTAGTGG
1 AAAGCGCCGCAATACATATTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGCAGTAGTGG
* *
44152783 CGCTTATACAAAAACGCCGCTAAAGAATAGTATTAGCGGTGAGTAGTGAAAAGCGCCGCAATATT
66 CGCTTATACAAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGATT
44152848 TCTTAACCAAAATGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATCAG-AAAAC
131 TCTTAACCAAAATGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTAT-AGAAAAAC
44152912 GCCGCTAAAGCATAGTATTAGCGGCGCTTATTGT
195 GCCGCTAAAGCATAGTATTAGCGGCGCTTATTGT
* * *
44152946 AAAGCGCCGCAA-A-ATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAGTAGTG
1 AAAGCGCCGCAATACATATTAACCAAAACGCAGAG-TTTGGTCTTGAGGTACACTAGCAGTAGTG
** **
44153009 GCGCTTATATTAAAACGCCGCTAAATCATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGAT
65 GCGCTTATACAAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGAT
* * *
44153074 TTCTTAACCAAAATGCAGAGTTTGGTCTTGCGGTATATTAGGCTTAGTGGCGCTTATTGAAAAAC
130 TTCTTAACCAAAATGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATAGAAAAAC
44153139 GCCGC
195 GCCGC
44153144 AAAAAAATTA
Statistics
Matches: 181, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
226 19 0.10
227 151 0.83
228 11 0.06
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (228 bp):
AAAGCGCCGCAATACATATTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGCAGTAGTGG
CGCTTATACAAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGATT
TCTTAACCAAAATGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATAGAAAAACG
CCGCTAAAGCATAGTATTAGCGGCGCTTATTGT
Found at i:44153318 original size:142 final size:142
Alignment explanation
Indices: 44153022--44153285 Score: 413
Period size: 142 Copynumber: 1.9 Consensus size: 142
44153012 CTTATATTAA
**
44153022 AACGCCGCTAAATCATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGATTTCTTAACCAAAA
1 AACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGATTTCTTAACCAAAA
* * * * *
44153087 TGCAGAGTTTGGTCTTGCGGTATATTAGGCTTAGTGGCGCTTATTGAAAAACGCCGCAAAAAAAT
66 TGCAGAGTTTGATCTTGAGGTACATTAGGATTAGTGGCGCTTATTGAAAAACACCGCAAAAAAAT
44153152 TAACCAAAATGC
131 TAACCAAAATGC
* * *
44153164 AACGCCGCTAAAGAATAGTATTAGTGGTGAGTAGTGAAAAGCGCCGCAATATTTCTTAACCAAAA
1 AACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGATTTCTTAACCAAAA
*
44153229 TGCAGAGTTTGATCTTGAGGTACATTAGGATTAGTGGCGCTTTTTTG-AAAACACCGC
66 TGCAGAGTTTGATCTTGAGGTACATTAGGATTAGTGGCGC-TTATTGAAAAACACCGC
44153286 TAAAGCATAG
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
142 105 0.95
143 5 0.05
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (142 bp):
AACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGATTTCTTAACCAAAA
TGCAGAGTTTGATCTTGAGGTACATTAGGATTAGTGGCGCTTATTGAAAAACACCGCAAAAAAAT
TAACCAAAATGC
Found at i:44153381 original size:255 final size:255
Alignment explanation
Indices: 44152909--44153403 Score: 570
Period size: 255 Copynumber: 1.9 Consensus size: 255
44152899 CTTATCAGAA
* ** * *
44152909 AACGCCGCTAAAGCATAGTATTAGCGGCGCTTATTGTAAAGCGCCGCAAAATATTAACCAAAACG
1 AACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAAATATTAACCAAAACG
* * * * * *
44152974 CAGCGCTTTGGTCTTGATGTATACTAGCAGTAGTGGCGCTTATATTAAAACGCCGCTAAATCATA
66 CAGAGCTTTGATCTTGAGGTACACTAGCAGTAGTGGCGCTTATATTAAAACACCGCTAAAGCATA
* * * *
44153039 GTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGATTTCTTAACCAAAATGCAGAGTTTGGTCTTG
131 GTATTAGCGGCGAGTAGTGAAAAGCGCCACAAGATATATTAACCAAAACGCAGAGTTTGGTCTTG
* * *
44153104 CGGTATATTAGGCTTAGTGGCGCTTATTGAAAAACGCCGCAAAAAAATTAACCAAAATGC
196 AGGTATACTAGGCTTAGTGGCGCTTATGGAAAAACGCCGCAAAAAAATTAACCAAAATGC
* * * *
44153164 AACGCCGCTAAAGAATAGTATTAGTGGTGAGTAGTGAAAAGCGCCGCAATATTTCTTAACCAAAA
1 AACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAA-A-ATATTAACCAAAA
* * * * *
44153229 TGCAGAG-TTTGATCTTGAGGTACATTAGGATTAGTGGCGCTT-TTTTGAAAACACCGCTAAAGC
64 CGCAGAGCTTTGATCTTGAGGTACACTAGCAGTAGTGGCGCTTATATT-AAAACACCGCTAAAGC
** * * * *
44153292 ATAGTATTAGCGGCGCTTATTGTAAAGTGCCACAA-A-ATATTAACCAAAACGCAGCGCTTTGGT
128 ATAGTATTAGCGGCGAGTAGTGAAAAGCGCCACAAGATATATTAACCAAAACGCAGAG-TTTGGT
* * *
44153355 CTTGATGTATACTA-GCAGTT-GTGGCGCTTATGGTAAAACGCCGCTAAAA
192 CTTGAGGTATACTAGGC--TTAGTGGCGCTTATGGAAAAACGCCGCAAAAA
44153404 CATATTATTA
Statistics
Matches: 198, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
254 18 0.09
255 89 0.45
256 75 0.38
257 16 0.08
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (255 bp):
AACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAAATATTAACCAAAACG
CAGAGCTTTGATCTTGAGGTACACTAGCAGTAGTGGCGCTTATATTAAAACACCGCTAAAGCATA
GTATTAGCGGCGAGTAGTGAAAAGCGCCACAAGATATATTAACCAAAACGCAGAGTTTGGTCTTG
AGGTATACTAGGCTTAGTGGCGCTTATGGAAAAACGCCGCAAAAAAATTAACCAAAATGC
Found at i:44155879 original size:17 final size:19
Alignment explanation
Indices: 44155833--44155879 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
44155823 AAAAGTAAAA
44155833 TAAAAATATATATATTTGTT
1 TAAAAAT-TATATATTTGTT
44155853 TAATAAATTAT-T-TTTGTT
1 TAA-AAATTATATATTTGTT
44155871 TAAAAATTA
1 TAAAAATTA
44155880 AAAATTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 1 0.04
20 6 0.23
21 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
TAAAAATTATATATTTGTT
Found at i:44156496 original size:36 final size:37
Alignment explanation
Indices: 44156453--44157300 Score: 648
Period size: 36 Copynumber: 23.5 Consensus size: 37
44156443 TAGGTATCAC
* *
44156453 AAATTAAATAACTTACATTAA-TTACATAACTTACAA
1 AAATTACATAACTTACATTAACTTACATAACTTACAT
* * *
44156489 AAATTAAATAACTTACA-TAACTTACATAAATTAAAT
1 AAATTACATAACTTACATTAACTTACATAACTTACAT
*
44156525 AACTTACATAACTTACATAAATTAAGAACCTTACATAACTTACAT
1 AAATTACATAACTTAC----ATT---AA-CTTACATAACTTACAT
* * *
44156570 AACTTACATAAATTA-AATAACTTACATAACTTACAT
1 AAATTACATAACTTACATTAACTTACATAACTTACAT
*
44156606 AAATTA-AGTAACTTACATTAA-TTACATAACTTACAA
1 AAATTACA-TAACTTACATTAACTTACATAACTTACAT
*
44156642 AAATTAAATAACTTACA-TAACTTACATAACTTACAT
1 AAATTACATAACTTACATTAACTTACATAACTTACAT
* * * *
44156678 AACTTATATAAATTA-AGTAACTTACATTAA-TTACAT
1 AAATTACATAACTTACATTAACTTACA-TAACTTACAT
* *
44156714 AAATTA-AGTAACTTACA-TAACTTACATAAATTAAAT
1 AAATTACA-TAACTTACATTAACTTACATAACTTACAT
* *
44156750 AACTTACATAACTTACA-TAAATTA-AGTAACTTACAT
1 AAATTACATAACTTACATTAACTTACA-TAACTTACAT
* * * *
44156786 TAATTACATAACTTACA-AAAATTAAATAACTTACAT
1 AAATTACATAACTTACATTAACTTACATAACTTACAT
* * * *
44156822 AACTTACATAAATTACA-TAAATTAAATAACTTACAT
1 AAATTACATAACTTACATTAACTTACATAACTTACAT
* * *
44156858 AACTTACATAAATTA-AGTAACTTACATAACTTACAT
1 AAATTACATAACTTACATTAACTTACATAACTTACAT
* * *
44156894 AACTTACATAAATTA-AGTAACTTACATAACTTACAT
1 AAATTACATAACTTACATTAACTTACATAACTTACAT
* * *
44156930 AAATTAAATAACTTAC-GTAACTTACATAAATTA-AGT
1 AAATTACATAACTTACATTAACTTACATAACTTACA-T
* * *
44156966 AACTTACATAACTTACA-TAAATTAAATAACTTACAT
1 AAATTACATAACTTACATTAACTTACATAACTTACAT
*
44157002 AAATTA-AGTAACTTACATTAA-TTACATAAATTA-AGT
1 AAATTACA-TAACTTACATTAACTTACATAACTTACA-T
*
44157038 AACTTACATAACTTACATAAATTAACTTACATAACTTACAT
1 AAATTACATAACTTAC----ATTAACTTACATAACTTACAT
* * *
44157079 AAATTACAAAAATTA-AATAACTTACATAACTTACAT
1 AAATTACATAACTTACATTAACTTACATAACTTACAT
* * * *
44157115 AAATTAAATAACTTACA-TAACTCACATAAATTAAAT
1 AAATTACATAACTTACATTAACTTACATAACTTACAT
* * *
44157151 AACTGACATAACTTACATT-A--TACATAACCTT-CTT
1 AAATTACATAACTTACATTAACTTACATAA-CTTACAT
* * * * *
44157185 AACTGACATTA--TACA-CAACTCACATAA-TTA-AT
1 AAATTACATAACTTACATTAACTTACATAACTTACAT
* * *
44157217 -ATTATACACAACTTACA-TAA--TACATTACTTACAT
1 AAAT-TACATAACTTACATTAACTTACATAACTTACAT
*
44157251 AACTTACAGT-ACTTACA-TAA--TACATAA--TACAT
1 AAATTACA-TAACTTACATTAACTTACATAACTTACAT
*
44157283 AACTTACATAACTTACAT
1 AAATTACATAACTTACAT
44157301 AATACATAAA
Statistics
Matches: 681, Mismatches: 78, Indels: 109
0.78 0.09 0.13
Matches are distributed among these distances:
31 3 0.00
32 37 0.05
33 3 0.00
34 51 0.07
35 21 0.03
36 482 0.71
37 20 0.03
40 8 0.01
41 25 0.04
42 1 0.00
44 2 0.00
45 28 0.04
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (37 bp):
AAATTACATAACTTACATTAACTTACATAACTTACAT
Found at i:44156512 original size:27 final size:27
Alignment explanation
Indices: 44156474--44157168 Score: 792
Period size: 27 Copynumber: 25.6 Consensus size: 27
44156464 CTTACATTAA
*
44156474 TTACATAACTTACAAAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
44156501 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
44156528 TTACATAACTTACATAAATTAAGAACCTTACATAAC
1 TTACATAACTTACATAAATT----A----A-ATAAC
44156564 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
44156591 TTACATAACTTACATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
* *
44156618 TTACATTAA-TTACATAACTTACAA-AAA
1 TTACA-TAACTTACATAAATTA-AATAAC
* * *
44156645 TTAAATAACTTACATAACTTACATAAC
1 TTACATAACTTACATAAATTAAATAAC
* *
44156672 TTACATAACTTATATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
*
44156699 TTACATTAA-TTACATAAATTAAGTAAC
1 TTACA-TAACTTACATAAATTAAATAAC
44156726 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
44156753 TTACATAACTTACATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
* *
44156780 TTACATTAA-TTACATAACTTACAA-AAA
1 TTACA-TAACTTACATAAATTA-AATAAC
* * * *
44156807 TTAAATAACTTACATAACTTACATAAA
1 TTACATAACTTACATAAATTAAATAAC
* * * *
44156834 TTACATAAATTAAATAACTTACATAAC
1 TTACATAACTTACATAAATTAAATAAC
* * *
44156861 TTACATAAATTA-AGTAACTTACATAAC
1 TTACATAACTTACA-TAAATTAAATAAC
*
44156888 TTACATAACTTACATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
44156915 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
* *
44156942 TTACGTAACTTACATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
44156969 TTACATAACTTACATAAA-T---T-A-
1 TTACATAACTTACATAAATTAAATAAC
*
44156990 --A-ATAACTTACATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
*
44157014 TTACATTAA-TTACATAAATTAAGTAAC
1 TTACA-TAACTTACATAAATTAAATAAC
44157041 TTACATAACTTACATAAATTAACTTACATAAC
1 TTACATAACTTACATAAATT-A---A-ATAAC
* *
44157073 TTACATAAATTACAAAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
44157100 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
44157127 TTACATAACTCACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
44157154 TGACATAACTTACAT
1 TTACATAACTTACAT
44157169 TATACATAAC
Statistics
Matches: 590, Mismatches: 41, Indels: 74
0.84 0.06 0.10
Matches are distributed among these distances:
18 14 0.02
19 2 0.00
22 2 0.00
23 2 0.00
26 17 0.03
27 483 0.82
28 18 0.03
31 3 0.01
32 23 0.04
35 1 0.00
36 25 0.04
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (27 bp):
TTACATAACTTACATAAATTAAATAAC
Found at i:44156525 original size:63 final size:63
Alignment explanation
Indices: 44156453--44157168 Score: 886
Period size: 63 Copynumber: 11.4 Consensus size: 63
44156443 TAGGTATCAC
*
44156453 AAATTAAATAACTTACATTAA-TTACATAACTTACAAAAATTAAATAACTTACATAACTTACAT
1 AAATTAAATAACTTACA-TAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
* * * *
44156516 AAATTAAATAACTTACATAACTTACATAAATTA-AGAACCTTACATAACTTACATAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAACTTACATAA-ATTAAATAACTTACATAACTTACAT
* * * *
44156579 AAATTAAATAACTTACATAACTTACATAAATTA-AGTAACTTACATTAA-TTACATAACTTACAA
1 AAATTAAATAACTTACATAACTTACATAACTTACA-TAAATTA-AATAACTTACATAACTTACAT
* * *
44156642 AAATTAAATAACTTACATAACTTACATAACTTACATAACTTATATAAATTA-AGTAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACA-TAACTTACAT
* * *
44156705 TAATTACATAAATTA-AGTAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
1 AAATTAAATAACTTACA-TAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
* *
44156768 AAATTAAGTAACTTACATTAA-TTACATAACTTACAAAAATTAAATAACTTACATAACTTACAT
1 AAATTAAATAACTTACA-TAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
* * * *
44156831 AAATTACATAAATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
* * * *
44156894 AACTTACATAAATTA-AGTAACTTACATAACTTACATAAATTAAATAACTTACGTAACTTACAT
1 AAATTAAATAACTTACA-TAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
* * * * * *
44156957 AAATTAAGTAACTTACATAACTTACATAAATTAAATAACTTACATAAATTA-AGTAACTTACAT
1 AAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACA-TAACTTACAT
* * *
44157020 TAATTACATAAATTA-AGTAACTTACATAACTTACATAAA-T---TAACTTACATAACTTACAT
1 AAATTAAATAACTTACA-TAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
* * *
44157079 AAATTACAA-AAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACTCACAT
1 AAATTA-AATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
*
44157142 AAATTAAATAACTGACATAACTTACAT
1 AAATTAAATAACTTACATAACTTACAT
44157169 TATACATAAC
Statistics
Matches: 573, Mismatches: 57, Indels: 46
0.85 0.08 0.07
Matches are distributed among these distances:
59 49 0.09
60 4 0.01
62 19 0.03
63 489 0.85
64 12 0.02
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (63 bp):
AAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
Found at i:44157249 original size:25 final size:25
Alignment explanation
Indices: 44157194--44157258 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
44157184 TAACTGACAT
* *
44157194 TATACACAACTCACATAATTAATAT
1 TATACACAACTTACATAATTAATAC
44157219 TATACACAACTTACATAA-TACATTAC
1 TATACACAACTTACATAATTA-A-TAC
*
44157245 T-TACATAACTTACA
1 TATACACAACTTACA
44157259 GTACTTACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.06
25 30 0.86
26 3 0.09
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (25 bp):
TATACACAACTTACATAATTAATAC
Found at i:44157276 original size:7 final size:7
Alignment explanation
Indices: 44157264--44157309 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
44157254 TTACAGTACT
44157264 TACATAA
1 TACATAA
44157271 TACATAA
1 TACATAA
44157278 TACATAA
1 TACATAA
44157285 CTTACATAA
1 --TACATAA
44157294 CTTACATAA
1 --TACATAA
44157303 TACATAA
1 TACATAA
44157310 AAATATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 21 0.57
9 16 0.43
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.30
Consensus pattern (7 bp):
TACATAA
Found at i:44162836 original size:21 final size:21
Alignment explanation
Indices: 44162810--44162875 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
44162800 CAACTTAAAA
* *
44162810 CAGAGGCGGCAGCGAGGGAAG
1 CAGAGGCCGCAGCGAGAGAAG
***
44162831 CAGAGGTTACAGCGAGAGAAG
1 CAGAGGCCGCAGCGAGAGAAG
44162852 CAGAGGCCGCAGCGAGAGAAG
1 CAGAGGCCGCAGCGAGAGAAG
44162873 CAG
1 CAG
44162876 CGAGAGAAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.44, T:0.03
Consensus pattern (21 bp):
CAGAGGCCGCAGCGAGAGAAG
Found at i:44162877 original size:12 final size:12
Alignment explanation
Indices: 44162840--44162887 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
44162830 GCAGAGGTTA
44162840 CAGCGAGAGAAG
1 CAGCGAGAGAAG
**
44162852 CA--GAG-GCCG
1 CAGCGAGAGAAG
44162861 CAGCGAGAGAAG
1 CAGCGAGAGAAG
44162873 CAGCGAGAGAAG
1 CAGCGAGAGAAG
44162885 CAG
1 CAG
44162888 AGGTTCAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
9 4 0.14
10 3 0.10
11 3 0.10
12 19 0.66
ACGTcount: A:0.38, C:0.21, G:0.42, T:0.00
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:44163357 original size:43 final size:42
Alignment explanation
Indices: 44163321--44163576 Score: 289
Period size: 43 Copynumber: 6.0 Consensus size: 42
44163311 GCGTTTGTGA
* * * * *
44163321 AATAAGCGCCACGAAAGAACACTACTTTTAGCGGCG-TTTGT
1 AATAAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTT
* * *
44163362 AGATGAAGCGCCGCTAAAGAACATTACTTTTAACGGCGTTTTCT
1 A-AT-AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTT
**
44163406 ACCAAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTT
1 AATAAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTT
* **
44163448 ATTAAGCGCCGCTATAGAACATTACTTTTAGCGGTATTTTTTT
1 AATAAGCGCCGCTATAGAACATTACTTTTAGCGG-CGTTTTTT
*
44163491 ATTAAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTT
1 AATAAGCGCCGCTATAGAACATTACTTTTAGCGGCG-TTTTTT
** * * *
44163534 CCTAAGCGCCGCTAAAGAAACATGACCTTTAGCGGCGTTTTTT
1 AATAAGCGCCGCTATAG-AACATTACTTTTAGCGGCGTTTTTT
44163577 TCTGTAAGCG
Statistics
Matches: 188, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 70 0.37
43 95 0.51
44 22 0.12
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (42 bp):
AATAAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTT
Found at i:44163426 original size:42 final size:42
Alignment explanation
Indices: 44163336--44163576 Score: 284
Period size: 42 Copynumber: 5.6 Consensus size: 42
44163326 GCGCCACGAA
* ** ** *
44163336 AGAACACTACTTTTAGCGGCGTTTGTAGATGAAGCGCCGCTAA
1 AGAACATTACTTTTAGCGGCGTTT-TTTACCAAGCGCCGCTAT
* *
44163379 AGAACATTACTTTTAACGGCGTTTTCTACCAAGCGCCGCTAT
1 AGAACATTACTTTTAGCGGCGTTTTTTACCAAGCGCCGCTAT
**
44163421 AGAACATTACTTTTAGCGGCGTTTTTTATTAAGCGCCGCTAT
1 AGAACATTACTTTTAGCGGCGTTTTTTACCAAGCGCCGCTAT
** **
44163463 AGAACATTACTTTTAGCGGTATTTTTTTATTAAGCGCCGCTAT
1 AGAACATTACTTTTAGCGG-CGTTTTTTACCAAGCGCCGCTAT
* *
44163506 AGAACATTACTTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAA
1 AGAACATTACTTTTAGCGGCGTTTTTTACC-AAGCGCCGCTAT
* *
44163549 AGAAACATGACCTTTAGCGGCGTTTTTT
1 AG-AACATTACTTTTAGCGGCGTTTTTT
44163577 TCTGTAAGCG
Statistics
Matches: 174, Mismatches: 21, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
42 76 0.44
43 75 0.43
44 23 0.13
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (42 bp):
AGAACATTACTTTTAGCGGCGTTTTTTACCAAGCGCCGCTAT
Found at i:44163575 original size:85 final size:82
Alignment explanation
Indices: 44163336--44163575 Score: 291
Period size: 85 Copynumber: 2.8 Consensus size: 82
44163326 GCGCCACGAA
* ** * *
44163336 AGAACACTACTTTTAGCGGCGTTTGTAGATGAAGCGCCGCTAAAGAACATTACTTTTAACGGCGT
1 AGAACATTACTTTTAGCGGCGTTT-T-TTTTAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGT
44163401 TTTCTACCAAGCGCCGCTAT
64 TTT-TACCAAGCGCCGCTAT
* **
44163421 AGAACATTACTTTTAGCGGCGTTTTTTATTAAGCGCCGCTATAGAACATTACTTTTAGCGGTATT
1 AGAACATTACTTTTAGCGGCGTTTTTT-TTAAGCGCCGCTAAAGAACATTACTTTTAGCGG--CG
**
44163486 TTTTTATTAAGCGCCGCTAT
63 TTTTTACCAAGCGCCGCTAT
* *
44163506 AGAACATTACTTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAAACATGACCTTTAGCGGCG
1 AGAACATTACTTTTAGCGGCGTTTTTTT--TAAGCGCCGCTAAAG-AACATTACTTTTAGCGGCG
44163571 TTTTT
63 TTTTT
44163576 TTCTGTAAGC
Statistics
Matches: 134, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
84 32 0.24
85 69 0.51
86 18 0.13
87 15 0.11
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (82 bp):
AGAACATTACTTTTAGCGGCGTTTTTTTTAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTT
TTACCAAGCGCCGCTAT
Found at i:44166521 original size:37 final size:38
Alignment explanation
Indices: 44166426--44166523 Score: 90
Period size: 37 Copynumber: 2.6 Consensus size: 38
44166416 ACACACCAGT
*
44166426 TTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAATAAA
1 TTGGCACCCAGTGCCTCATCGGATAA-T-AAAGGAATAAA
* * * * * ** *
44166466 TTGACAACCAATGTCTCATCGGTTAA-ACCGGAGTAAA
1 TTGGCACCCAGTGCCTCATCGGATAATAAAGGAATAAA
44166503 TTGGCACCCAGTGCCTCATCG
1 TTGGCACCCAGTGCCTCATCG
44166524 AATTAATCCA
Statistics
Matches: 45, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
37 24 0.53
40 21 0.47
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (38 bp):
TTGGCACCCAGTGCCTCATCGGATAATAAAGGAATAAA
Found at i:44166544 original size:41 final size:41
Alignment explanation
Indices: 44166430--44166565 Score: 120
Period size: 41 Copynumber: 3.4 Consensus size: 41
44166420 ACCAGTTTGG
* * * *
44166430 CACCCAGTGCCTCATCGGA-TAATTCAAAGTAATAAATTGA
1 CACCCAATGCCTCATCGAATTAATCCAAAGTAGTAAATTGA
* * * * * *
44166470 CAACCAATGTCTCATCG-GTTAAACC---GGAGTAAATTGG
1 CACCCAATGCCTCATCGAATTAATCCAAAGTAGTAAATTGA
*
44166507 CACCCAGTGCCTCATCGAATTAATCCAAAGTAGTAAATTGA
1 CACCCAATGCCTCATCGAATTAATCCAAAGTAGTAAATTGA
* *
44166548 CACCAAATGTCTCATCGA
1 CACCCAATGCCTCATCGA
44166566 CTCGAAGTCG
Statistics
Matches: 72, Mismatches: 19, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
37 23 0.32
38 6 0.08
40 18 0.25
41 25 0.35
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (41 bp):
CACCCAATGCCTCATCGAATTAATCCAAAGTAGTAAATTGA
Found at i:44167549 original size:5 final size:5
Alignment explanation
Indices: 44167539--44167579 Score: 73
Period size: 5 Copynumber: 8.2 Consensus size: 5
44167529 TTTTTTTTAT
*
44167539 TATAA TATAA TATAA TATAA TATGA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
44167580 TTATACTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:44167595 original size:11 final size:11
Alignment explanation
Indices: 44167576--44167625 Score: 91
Period size: 11 Copynumber: 4.5 Consensus size: 11
44167566 TAATATAATA
*
44167576 TAATTTATACT
1 TAATATATACT
44167587 TAATATATACT
1 TAATATATACT
44167598 TAATATATACT
1 TAATATATACT
44167609 TAATATATACT
1 TAATATATACT
44167620 TAATAT
1 TAATAT
44167626 TTAAGTTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (11 bp):
TAATATATACT
Found at i:44183672 original size:42 final size:41
Alignment explanation
Indices: 44183607--44183912 Score: 371
Period size: 42 Copynumber: 7.3 Consensus size: 41
44183597 TTATTTCTAT
* * *
44183607 AAACGCCGCTATAGGTCATGACCTTTAGCGGTGCTTTTCCAA
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGCGCTTTTCCAC
**
44183649 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTCCCCAC
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGCGCTTTTCCAC
*
44183691 AAACACCGCTATAGATCAGGACCTTTAGCGGCGC-TTTCTCAC
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGCGCTTTTC-CAC
* * *
44183733 AAACGCCGCTATAGCTCAAGATCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTATAGATC-AGACCTTTAGCGGCGCTTT-TCCAC
* *
44183776 AAACGCCGCTATAGAACAAACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGACCTTTAGCGGCGCTTTT-CCAC
*
44183818 AAACGCCGCTATAGAGCAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGACCTTTAGCGGCGCTTTT-CCAC
* * * *
44183860 AAACGCCGCTATAAAACAGACCTTTAACGACGCTTTTCACAC
1 AAACGCCGCTATAGATCAGACCTTTAGCGGCGCTTTTC-CAC
*
44183902 AAACGCTGCTA
1 AAACGCCGCTA
44183913 AAAACATATC
Statistics
Matches: 233, Mismatches: 25, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
41 3 0.01
42 208 0.89
43 21 0.09
44 1 0.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.23
Consensus pattern (41 bp):
AAACGCCGCTATAGATCAGACCTTTAGCGGCGCTTTTCCAC
Found at i:44183760 original size:126 final size:127
Alignment explanation
Indices: 44183607--44183872 Score: 385
Period size: 127 Copynumber: 2.1 Consensus size: 127
44183597 TTATTTCTAT
* * * * * *
44183607 AAACGCCGCTATAGGTCATGACCTTTAGCGGTGCTTT-TCCAAAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTATAGAACA-AAC
* *
44183671 CTTTAGCGGCGC-TTCCCCACAAACACCGCTATAGATCAGGACCTTTAGCGGCGC-TTTCTCAC
65 CTTTAGCGGCGCTTTCCCCACAAACACCGCTATAGAGCA-GACCTTTAGCGGCGCTTTTCCCAC
* *
44183733 AAACGCCGCTATAGCTCAAGATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTATAGAACAAACC
1 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTATAGAACAAACC
* *
44183798 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAGCAGACCTTTAGCGGCGCTTTTCCCAC
66 TTTAGCGGCGCTTTCCCCACAAACACCGCTATAGAGCAGACCTTTAGCGGCGCTTTTCCCAC
44183860 AAACGCCGCTATA
1 AAACGCCGCTATA
44183873 AAACAGACCT
Statistics
Matches: 125, Mismatches: 12, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
126 62 0.50
127 63 0.50
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.23
Consensus pattern (127 bp):
AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTATAGAACAAACC
TTTAGCGGCGCTTTCCCCACAAACACCGCTATAGAGCAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:44188239 original size:17 final size:20
Alignment explanation
Indices: 44188217--44188269 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 20
44188207 GCAAAACACG
44188217 TAAAAAACTGAACC-AG-A-
1 TAAAAAACTGAACCGAGCAC
*
44188234 TAAAAAAATGAACCGAGCAC
1 TAAAAAACTGAACCGAGCAC
44188254 TAAAAATACTGAACCG
1 TAAAAA-ACTGAACCG
44188270 GGAAGGGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 1 0.03
20 6 0.20
21 8 0.27
ACGTcount: A:0.55, C:0.19, G:0.13, T:0.13
Consensus pattern (20 bp):
TAAAAAACTGAACCGAGCAC
Found at i:44188528 original size:21 final size:21
Alignment explanation
Indices: 44188422--44188528 Score: 54
Period size: 21 Copynumber: 5.0 Consensus size: 21
44188412 CACTAGTTAA
* *
44188422 TCTAAACCCTAAACCATAA-A
1 TCTAAACCATAAACCATAACC
* * * **
44188442 TTTAAACCCTAAAACCCTAAAA
1 TCTAAACCAT-AAACCATAACC
* *
44188464 TCATAAACCCTTAACACATAACC
1 TC-TAAACCATAAAC-CATAACC
* **
44188487 TCTAAACCTTAAACCCCAACC
1 TCTAAACCATAAACCATAACC
* *
44188508 TTTAAACCATAAATCATAACC
1 TCTAAACCATAAACCATAACC
44188529 CATAATCCCT
Statistics
Matches: 67, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
20 9 0.13
21 29 0.43
22 15 0.22
23 14 0.21
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (21 bp):
TCTAAACCATAAACCATAACC
Found at i:44188545 original size:15 final size:15
Alignment explanation
Indices: 44188525--44188558 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
44188515 CATAAATCAT
*
44188525 AACCCATAATCCCTA
1 AACCCATAATCCATA
44188540 AACCCATAATCCATA
1 AACCCATAATCCATA
44188555 AACC
1 AACC
44188559 TTAAAATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:44188804 original size:66 final size:66
Alignment explanation
Indices: 44188698--44188831 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 66
44188688 CCCTAAACTA
*
44188698 TAGTGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACGATTATATAAGAAATTAT
1 TAGTGATAATTAATTCAATATTTTAAAATTAACACTATCTCTTTTACGATTATATAAGAAATTAT
44188763 T
66 T
* *
44188764 TAGTGATAATTAATTCAATATTTTAAAATTAACACTATCTCTTTTATGATTTTATAAGAAATTAT
1 TAGTGATAATTAATTCAATATTTTAAAATTAACACTATCTCTTTTACGATTATATAAGAAATTAT
44188829 T
66 T
44188830 TA
1 TA
44188832 ACATATAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.46
Consensus pattern (66 bp):
TAGTGATAATTAATTCAATATTTTAAAATTAACACTATCTCTTTTACGATTATATAAGAAATTAT
T
Found at i:44189132 original size:39 final size:40
Alignment explanation
Indices: 44189079--44189195 Score: 157
Period size: 40 Copynumber: 2.9 Consensus size: 40
44189069 GGCGCTTTAT
* *
44189079 TAAAGACGCTGCTAATGCT-TATTTTTAGCGGCGTTTTCTA
1 TAAAG-CGCTGCTAATGCTCGATCTTTAGCGGCGTTTTCTA
* *
44189119 TAAAGCGCCGCTAAAT-CTCGATCTTTAGCGGCGTTTTCCA
1 TAAAGCGCTGCT-AATGCTCGATCTTTAGCGGCGTTTTCTA
*
44189159 AAAAGCGCTGCTAATGCTCGATCTTTAGCGGCGTTTT
1 TAAAGCGCTGCTAATGCTCGATCTTTAGCGGCGTTTT
44189196 TTTATCCAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
39 11 0.16
40 57 0.84
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (40 bp):
TAAAGCGCTGCTAATGCTCGATCTTTAGCGGCGTTTTCTA
Found at i:44206924 original size:30 final size:29
Alignment explanation
Indices: 44206861--44206936 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
44206851 AATAGCCTAT
* * *
44206861 ATTTTTATAATTTTTAAAGAATTAAATTAA
1 ATTTTTATCATTTTT-AAGAATCAAAATAA
*
44206891 ATTTTTATCATTTTTAAGGATCAAAATATA
1 ATTTTTATCATTTTTAAGAATCAAAATA-A
*
44206921 A-TTTTATCATTATTAA
1 ATTTTTATCATTTTTAA
44206937 TTTAAAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
29 24 0.60
30 16 0.40
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (29 bp):
ATTTTTATCATTTTTAAGAATCAAAATAA
Found at i:44207817 original size:46 final size:48
Alignment explanation
Indices: 44207767--44207903 Score: 138
Period size: 49 Copynumber: 2.8 Consensus size: 48
44207757 TTTAACTTGT
44207767 ATATAACAATAATAAT-AAT-C-AAA-TGATAACCAATTTATAATAATAA
1 ATATAACAATAAT-ATGAATCCAAAACTGATAA-CAATTTATAATAATAA
***
44207813 ATATAATTTTAATATGAATCCAAAATCTGATAACAATTTATAATAATAA
1 ATATAACAATAATATGAATCCAAAA-CTGATAACAATTTATAATAATAA
*** *
44207862 ATATAATTTTAATATGAATCCAAAATCTGATAATAATATTAT
1 ATATAACAATAATATGAATCCAAAA-CTGATAACAAT-TTAT
44207904 TTATTTTATA
Statistics
Matches: 81, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
45 2 0.02
46 13 0.16
47 1 0.01
48 3 0.04
49 52 0.64
50 10 0.12
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (48 bp):
ATATAACAATAATATGAATCCAAAACTGATAACAATTTATAATAATAA
Found at i:44207863 original size:49 final size:49
Alignment explanation
Indices: 44207790--44207903 Score: 201
Period size: 49 Copynumber: 2.3 Consensus size: 49
44207780 AATAATCAAA
44207790 TGATAACCAATTTATAATAATAAATATAATTTTAATATGAATCCAAAATC
1 TGATAA-CAATTTATAATAATAAATATAATTTTAATATGAATCCAAAATC
44207840 TGATAACAATTTATAATAATAAATATAATTTTAATATGAATCCAAAATC
1 TGATAACAATTTATAATAATAAATATAATTTTAATATGAATCCAAAATC
*
44207889 TGATAATAATATTAT
1 TGATAACAAT-TTAT
44207904 TTATTTTATA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
49 52 0.84
50 10 0.16
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (49 bp):
TGATAACAATTTATAATAATAAATATAATTTTAATATGAATCCAAAATC
Found at i:44207988 original size:30 final size:31
Alignment explanation
Indices: 44207929--44207990 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
44207919 TTTAAAACAC
* *
44207929 TATTAATTAAATAATTATTTTTATTTTTATT
1 TATTAATTAAATAATTATTATTATATTTATT
44207960 TATT-ATT-AATAATATATTATTATATTTATT
1 TATTAATTAAATAAT-TATTATTATATTTATT
44207990 T
1 T
44207991 GAAAAGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 6 0.21
30 18 0.64
31 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
TATTAATTAAATAATTATTATTATATTTATT
Found at i:44209735 original size:18 final size:17
Alignment explanation
Indices: 44209712--44209760 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
44209702 AATCGTGTCG
44209712 TTCATTTCCAAAACATTA
1 TTCATTT-CAAAACATTA
* *
44209730 TTCATTTACAAATCGTTA
1 TTCATTT-CAAAACATTA
44209748 TTCAATTTCAAAA
1 TTC-ATTTCAAAA
44209761 TGTTTTCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (17 bp):
TTCATTTCAAAACATTA
Found at i:44210723 original size:17 final size:18
Alignment explanation
Indices: 44210692--44210727 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
44210682 CATGATGTTC
44210692 GCCCGTGTAGGCCCACAT
1 GCCCGTGTAGGCCCACAT
44210710 GCCCGTGT-GGCCCACAT
1 GCCCGTGTAGGCCCACAT
44210727 G
1 G
44210728 ACCCAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.14, C:0.39, G:0.31, T:0.17
Consensus pattern (18 bp):
GCCCGTGTAGGCCCACAT
Found at i:44215248 original size:3 final size:3
Alignment explanation
Indices: 44215240--44215269 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
44215230 GATCAAGAAC
44215240 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
44215270 GAAATGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44216192 original size:22 final size:21
Alignment explanation
Indices: 44216157--44216233 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 21
44216147 AAAGGGTACC
* *
44216157 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
44216178 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
44216201 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
44216220 TGCATATCATATCT
1 TACAAATCATATCT
44216234 AAGATTGTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 19 0.40
21 4 0.08
22 15 0.31
23 10 0.21
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:44216200 original size:23 final size:22
Alignment explanation
Indices: 44216157--44216214 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
44216147 AAAGGGTACC
* *
44216157 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
44216178 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
44216201 TGCATATCATATCT
1 TACAAATCATATCT
44216215 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:44216256 original size:17 final size:19
Alignment explanation
Indices: 44216193--44216246 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
44216183 AATCATATCT
44216193 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
44216212 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
44216231 TCTAAGATTGTATATC
1 TCTAAGATTGCATATC
44216247 CTTCAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:44216861 original size:44 final size:45
Alignment explanation
Indices: 44216809--44216918 Score: 120
Period size: 44 Copynumber: 2.5 Consensus size: 45
44216799 CTACTCTACT
* * *
44216809 GCAACTTCAGAGAGATAAGATCTATTA-TTTTAATCTGCTCCACA
1 GCAACTTCAGAGAGATAAGATCTACTAGCTTCAATCTGCTCCACA
* *
44216853 GCAACTTCA-AGGAGATAGGAT-TACTAGCTTCAATCTGCTCCACT
1 GCAACTTCAGA-GAGATAAGATCTACTAGCTTCAATCTGCTCCACA
* *
44216897 GCAACTT-AGGGAGATAAAATCT
1 GCAACTTCAGAGAGATAAGATCT
44216919 GTAATTTGCA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
43 14 0.26
44 40 0.74
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (45 bp):
GCAACTTCAGAGAGATAAGATCTACTAGCTTCAATCTGCTCCACA
Found at i:44217103 original size:44 final size:44
Alignment explanation
Indices: 44217055--44217574 Score: 518
Period size: 44 Copynumber: 12.7 Consensus size: 44
44217045 TGTAATTTTG
* * *
44217055 AACCTACTCCACTGTTG-CTCAGGGAGATATGATTCACAATCTTC
1 AACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTC
44217099 AACCTATTCCACTGCTGACCAGGGAGATAGG-------A--TTC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTC
*
44217134 -ACCTATTCCACTGTTGACCAGGGAGATAGGACTT-ACAATCTTC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTC
* *
44217177 AACCTATTCCACTGCTGACTAGGGAGATAAGG-CTCACAATCTTC
1 AACCTATTCCACTGCTGACCAGGGAGAT-AGGATTCACAATCTTC
* *
44217221 AACCTATTCGACTGCTGACCAGGGAGATAGGACTCACAATCTTC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTC
*
44217265 AACCTATTCCACTGCTAACCAGGGAGATAGGATT--C-A---T-
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTC
*
44217302 ---CTATTCCATTGCTGACCAGGGAGATAGGACTT-ACAATCTTC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTC
* * *
44217343 AACCTATTCCATTACTGACCAGGGAGATAGGACTCACAATCTTC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTC
* *
44217387 AACCTATTCCACTGCTGACTAGGGAGATAGGACTCACAATCTTC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTC
*
44217431 AACCTATTCCACTGCTGACTAGGGAGATAGG-------A-C-TC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTC
*
44217466 -ACCTATTCCACTGCTGACTAGGGAGATAGG-------A-C-TC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTC
*
44217500 -ACCTATTCCACTGCTGATCAGGGAGATAGGACTT-ACAATCTTC
1 AACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTC
44217543 AACCTATTCCACTGCTGACCAGGGAGATAGGA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGA
44217575 CTGGGACGCA
Statistics
Matches: 419, Mismatches: 22, Indels: 70
0.82 0.04 0.14
Matches are distributed among these distances:
34 118 0.28
35 7 0.02
36 2 0.00
37 3 0.01
38 1 0.00
40 1 0.00
41 3 0.01
42 2 0.00
43 10 0.02
44 268 0.64
45 4 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (44 bp):
AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTC
Found at i:44217110 original size:88 final size:83
Alignment explanation
Indices: 44217030--44217501 Score: 413
Period size: 78 Copynumber: 5.7 Consensus size: 83
44217020 CACTACTGCT
* *
44217030 TAGGGAGATAAGATCTGTAATTTTGAACCTACTCCACTGTTG-CTCAGGGAGATATGATTCACAA
1 TAGGGAGATAAG--CTG-AA-TTT-AACCTATTCCACTGTTGAC-CAGGGAGATAGGATTCACAA
44217094 TCTTCAACCTATTCCACTGCTGAC
60 TCTTCAACCTATTCCACTGCTGAC
* *
44217118 CAGGGAGAT-AG--G-A-TTCACCTATTCCACTGTTGACCAGGGAGATAGGACTT-ACAATCTTC
1 TAGGGAGATAAGCTGAATTTAACCTATTCCACTGTTGACCAGGGAGATAGGA-TTCACAATCTTC
44217177 AACCTATTCCACTGCTGAC
65 AACCTATTCCACTGCTGAC
* * * *
44217196 TAGGGAGATAAGGCTCACAATCTTCAACCTATTCGACTGCTGACCAGGGAGATAGGACTCACAAT
1 TAGGGAGATAA-GCT--GAAT-TT-AACCTATTCCACTGTTGACCAGGGAGATAGGATTCACAAT
*
44217261 CTTCAACCTATTCCACTGCTAAC
61 CTTCAACCTATTCCACTGCTGAC
* * * * *
44217284 CAGGGAGAT-AG--G-A-TTCATCTATTCCATTGCTGACCAGGGAGATAGGACTT-ACAATCTTC
1 TAGGGAGATAAGCTGAATTTAACCTATTCCACTGTTGACCAGGGAGATAGGA-TTCACAATCTTC
* *
44217343 AACCTATTCCATTACTGAC
65 AACCTATTCCACTGCTGAC
* * * * * *
44217362 CAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACTAGGGAGATAGGACTCACAAT
1 TAGGGAGATAAG-CT--GAAT-TT-AACCTATTCCACTGTTGACCAGGGAGATAGGATTCACAAT
44217427 CTTCAACCTATTCCACTGCTGAC
61 CTTCAACCTATTCCACTGCTGAC
* * * * *
44217450 TAGGGAGAT-AG--G-A-CTCACCTATTCCACTGCTGACTAGGGAGATAGGACTCAC
1 TAGGGAGATAAGCTGAATTTAACCTATTCCACTGTTGACCAGGGAGATAGGATTCAC
44217502 CTATTCCACT
Statistics
Matches: 324, Mismatches: 35, Indels: 60
0.77 0.08 0.14
Matches are distributed among these distances:
78 161 0.50
79 11 0.03
80 1 0.00
81 3 0.01
83 1 0.00
85 2 0.01
86 1 0.00
87 10 0.03
88 134 0.41
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (83 bp):
TAGGGAGATAAGCTGAATTTAACCTATTCCACTGTTGACCAGGGAGATAGGATTCACAATCTTCA
ACCTATTCCACTGCTGAC
Found at i:44217235 original size:122 final size:125
Alignment explanation
Indices: 44217055--44217571 Score: 532
Period size: 122 Copynumber: 4.2 Consensus size: 125
44217045 TGTAATTTTG
* * * **
44217055 AACCTACTCCACTGTTG-CTCAGGGAGATATGATTCACAATCTTCAACCTATTCCACTGCTGACC
1 AACCTATTCCACTGCTGACT-AGGGAGATAAGGCTCACAATCTTCAACCTATTCCACTGCTGACC
*
44217119 AGGGAGATAGG-A-TTC-ACCTATTCCACTGTTGACCAGGGAGATAGGACTTACAATCTTC
65 AGGGAGATAGGAACTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTC
*
44217177 AACCTATTCCACTGCTGACTAGGGAGATAAGGCTCACAATCTTCAACCTATTCGACTGCTGACCA
1 AACCTATTCCACTGCTGACTAGGGAGATAAGGCTCACAATCTTCAACCTATTCCACTGCTGACCA
*
44217242 GGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTAACCAGGGAGATAGGA-TT-C-A---
66 GGGAGATAGG------AA-CTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCT
44217301 T-
124 TC
* * * * *
44217302 ---CTATTCCATTGCTGACCAGGGAGAT-AGGACTTACAATCTTCAACCTATTCCATTACTGACC
1 AACCTATTCCACTGCTGACTAGGGAGATAAGG-CTCACAATCTTCAACCTATTCCACTGCTGACC
* *
44217363 AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACTAGGGAGATAGGACTCACAATC
65 AGGGAGATAGG------AA-CTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
44217428 TTC
123 TTC
*
44217431 AACCTATTCCACTGCTGACTAGGGAGAT-AGG------A-C-TC-ACCTATTCCACTGCTGACTA
1 AACCTATTCCACTGCTGACTAGGGAGATAAGGCTCACAATCTTCAACCTATTCCACTGCTGACCA
*
44217486 GGGAGATAGG-AC-TC-ACCTATTCCACTGCTGATCAGGGAGATAGGACTTACAATCTTC
66 GGGAGATAGGAACTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTC
*
44217543 AACCTATTCCACTGCTGACCAGGGAGATA
1 AACCTATTCCACTGCTGACTAGGGAGATA
44217572 GGACTGGGAC
Statistics
Matches: 346, Mismatches: 26, Indels: 55
0.81 0.06 0.13
Matches are distributed among these distances:
112 67 0.19
113 2 0.01
114 1 0.00
115 1 0.00
121 3 0.01
122 198 0.57
123 5 0.01
124 2 0.01
125 2 0.01
126 1 0.00
128 1 0.00
129 2 0.01
130 1 0.00
131 5 0.01
132 55 0.16
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (125 bp):
AACCTATTCCACTGCTGACTAGGGAGATAAGGCTCACAATCTTCAACCTATTCCACTGCTGACCA
GGGAGATAGGAACTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTC
Found at i:44217308 original size:166 final size:166
Alignment explanation
Indices: 44217055--44217576 Score: 773
Period size: 166 Copynumber: 3.2 Consensus size: 166
44217045 TGTAATTTTG
* * * *
44217055 AACCTACTCCACTGTTG-CTCAGGGAGATATGATTCACAATCTTCAACCTATTCCACTGCTGACC
1 AACCTATTCCACTGCTGAC-CAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACC
*
44217119 AGGGAGATAGGATTCACCTATTCCACTGTTGACCAGGGAGATAGGACTTACAATCTTCAACCTAT
65 AGGGAGATAGGATTCACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTAT
44217184 TCCACTGCTGACTAGGGAGATAAGG-CTCACAATCTTC
130 TCCACTGCTGACTAGGGAGAT-AGGACTCACAATCTTC
* *
44217221 AACCTATTCGACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTAACCA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCA
* *
44217286 GGGAGATAGGATTCATCTATTCCATTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATT
66 GGGAGATAGGATTCACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATT
* * *
44217351 CCATTACTGACCAGGGAGATAGGACTCACAATCTTC
131 CCACTGCTGACTAGGGAGATAGGACTCACAATCTTC
* *
44217387 AACCTATTCCACTGCTGACTAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACTA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCA
* *
44217452 GGGAGATAGGACTCACCTATTCCACTGCTGACTAGGGAGATAGG-------A-C-TC-ACCTATT
66 GGGAGATAGGATTCACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATT
*
44217507 CCACTGCTGA-TCAGGGAGATAGGACTTACAATCTTC
131 CCACTGCTGACT-AGGGAGATAGGACTCACAATCTTC
44217543 AACCTATTCCACTGCTGACCAGGGAGATAGGACT
1 AACCTATTCCACTGCTGACCAGGGAGATAGGACT
44217577 GGGACGCAAA
Statistics
Matches: 328, Mismatches: 25, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
156 71 0.22
157 2 0.01
158 1 0.00
159 1 0.00
165 3 0.01
166 249 0.76
167 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (166 bp):
AACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCA
GGGAGATAGGATTCACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATT
CCACTGCTGACTAGGGAGATAGGACTCACAATCTTC
Found at i:44217531 original size:34 final size:34
Alignment explanation
Indices: 44217432--44217532 Score: 186
Period size: 34 Copynumber: 3.0 Consensus size: 34
44217422 ACAATCTTCA
44217432 ACCTATTCCACTGCTGACTAGGGAGATAGGACTC
1 ACCTATTCCACTGCTGACTAGGGAGATAGGACTC
44217466 ACCTATTCCACTGCTGACTAGGGAGATAGGACTC
1 ACCTATTCCACTGCTGACTAGGGAGATAGGACTC
44217500 ACCTATTCCACTGCTGA-TCAGGGAGATAGGACT
1 ACCTATTCCACTGCTGACT-AGGGAGATAGGACT
44217533 TACAATCTTC
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
33 1 0.02
34 65 0.98
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.24
Consensus pattern (34 bp):
ACCTATTCCACTGCTGACTAGGGAGATAGGACTC
Found at i:44218610 original size:20 final size:20
Alignment explanation
Indices: 44218587--44218624 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44218577 CCTTTTCTTT
44218587 TTGTCATTTTCATTTTTTAA
1 TTGTCATTTTCATTTTTTAA
* *
44218607 TTGTGATTTTGATTTTTT
1 TTGTCATTTTCATTTTTT
44218625 TTTGTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (20 bp):
TTGTCATTTTCATTTTTTAA
Found at i:44219757 original size:25 final size:25
Alignment explanation
Indices: 44219704--44219769 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
44219694 AAGAAAATCC
* **
44219704 AAAAGAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTAA
44219729 AAAAGAATGAAAGAAT-ATTGACTAA
1 AAAAGAATGAAAGAATAATT-ACTAA
44219754 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
44219770 TGTATTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.59, C:0.05, G:0.17, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTAA
Found at i:44221746 original size:35 final size:35
Alignment explanation
Indices: 44221707--44221777 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
44221697 TTTGAAAAAA
44221707 AATGAAAATGGGAGTCGCCACCGATCCTTTTATTT
1 AATGAAAATGGGAGTCGCCACCGATCCTTTTATTT
44221742 AATGAAAATGGGAGTCGCCACCGATCCTTTTATTT
1 AATGAAAATGGGAGTCGCCACCGATCCTTTTATTT
44221777 A
1 A
44221778 GGTGTGATCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (35 bp):
AATGAAAATGGGAGTCGCCACCGATCCTTTTATTT
Found at i:44222563 original size:3 final size:3
Alignment explanation
Indices: 44222555--44222602 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
44222545 GATCAAGAAC
*
44222555 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
44222603 GAAAAGATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44222816 original size:23 final size:22
Alignment explanation
Indices: 44222777--44222819 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
44222767 AATTATAAAA
*
44222777 TATAAAAATATATATATGTACG
1 TATAAAAAAATATATATGTACG
44222799 TATAAGAAAAATATATATGTA
1 TATAA-AAAAATATATATGTA
44222820 TGTGAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.35
Consensus pattern (22 bp):
TATAAAAAAATATATATGTACG
Found at i:44223541 original size:22 final size:22
Alignment explanation
Indices: 44223506--44223563 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
44223496 AAAGGGTATC
* *
44223506 TACAAATTAAATCTCTT-AGAT
1 TACAAATCATATCTCTTAAGAT
*
44223527 TACAAAATCATATCTTTTAAGAT
1 TAC-AAATCATATCTCTTAAGAT
* *
44223550 TGCATATCATATCT
1 TACAAATCATATCT
44223564 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 3 0.10
22 21 0.70
23 6 0.20
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (22 bp):
TACAAATCATATCTCTTAAGAT
Found at i:44223579 original size:21 final size:19
Alignment explanation
Indices: 44223544--44223616 Score: 119
Period size: 19 Copynumber: 3.7 Consensus size: 19
44223534 TCATATCTTT
44223544 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
44223563 TAAGATTGCATATATCATATC
1 TAAGATTGC--ATATCATATC
*
44223584 TAAGATTGCATGTCATATC
1 TAAGATTGCATATCATATC
44223603 TAAGATTGCATATC
1 TAAGATTGCATATC
44223617 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 31 0.62
21 19 0.38
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:44234600 original size:50 final size:51
Alignment explanation
Indices: 44234517--44234615 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 51
44234507 TTTTAGATAC
*
44234517 TGATACATTAACTCTTATGGAGCTTTCAACTAATTTTATACTACCAAATCG
1 TGATACATTAACTCTTATAGAGCTTTCAACTAATTTTATACTACCAAATCG
* *
44234568 TGATATATTAACTCTT-TAGAGCTTTCAACTAATTTTTTACTACCAAAT
1 TGATACATTAACTCTTATAGAGCTTTCAACTAATTTTATACTACCAAAT
44234616 ATTGTAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 30 0.67
51 15 0.33
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.40
Consensus pattern (51 bp):
TGATACATTAACTCTTATAGAGCTTTCAACTAATTTTATACTACCAAATCG
Found at i:44236455 original size:18 final size:18
Alignment explanation
Indices: 44236419--44236455 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
44236409 AATTTTCATG
*
44236419 ATAAAAAAATGAAAGAAA
1 ATAAAAAAATGAAAAAAA
*
44236437 ATAAAAAAATTAAAAAAA
1 ATAAAAAAATGAAAAAAA
44236455 A
1 A
44236456 GTGTAGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (18 bp):
ATAAAAAAATGAAAAAAA
Found at i:44236838 original size:28 final size:29
Alignment explanation
Indices: 44236780--44236839 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
44236770 CGTTTTTTGT
* * *
44236780 AAAATCGGCCTATTCCTGTAATTTTTCAA
1 AAAATCAGCCTATTCATGTAATTTTTAAA
*
44236809 AAAATCAGTCTATTCATGTAA-TTTTAAA
1 AAAATCAGCCTATTCATGTAATTTTTAAA
44236837 AAA
1 AAA
44236840 GGGCATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (29 bp):
AAAATCAGCCTATTCATGTAATTTTTAAA
Found at i:44237412 original size:23 final size:23
Alignment explanation
Indices: 44237386--44237430 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
44237376 CTGATAACGA
44237386 GTTATAAAATAATCAAATAAAAC
1 GTTATAAAATAATCAAATAAAAC
44237409 GTTATAAAATAATCAAATAAAA
1 GTTATAAAATAATCAAATAAAA
44237431 GAACACTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (23 bp):
GTTATAAAATAATCAAATAAAAC
Found at i:44238007 original size:16 final size:16
Alignment explanation
Indices: 44237983--44238014 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44237973 AAAAATACTT
*
44237983 TTTTTAATTTTTTTAA
1 TTTTAAATTTTTTTAA
44237999 TTTTAAATTTTTTTAA
1 TTTTAAATTTTTTTAA
44238015 AATTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTAAATTTTTTTAA
Found at i:44238019 original size:11 final size:11
Alignment explanation
Indices: 44237999--44238028 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
44237989 ATTTTTTTAA
44237999 TTTT-AAATTT
1 TTTTAAAATTT
44238009 TTTTAAAATTT
1 TTTTAAAATTT
44238020 TTTTAAAAT
1 TTTTAAAAT
44238029 ACTTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:44238029 original size:50 final size:51
Alignment explanation
Indices: 44237959--44238075 Score: 173
Period size: 50 Copynumber: 2.3 Consensus size: 51
44237949 TATTTTTTTA
** * *
44237959 TTTTAAAATACTTTAAAAATACTTTTTTTAATTTTTTTAATTTT-AAATTT
1 TTTTAAAATTTTTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATAT
*
44238009 TTTTAAAATTTTTTTAAAATACTTTTTTTTATTTTTTTAATTTTAAAATAT
1 TTTTAAAATTTTTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATAT
44238060 TTTTAAAATATTTTTT
1 TTTTAAAAT-TTTTTT
44238076 TTTAAATTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 40 0.67
51 14 0.23
52 6 0.10
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (51 bp):
TTTTAAAATTTTTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATAT
Found at i:44238035 original size:40 final size:37
Alignment explanation
Indices: 44237991--44238111 Score: 92
Period size: 40 Copynumber: 3.2 Consensus size: 37
44237981 TTTTTTTAAT
44237991 TTTTTTAATTTTAAATTTTTTTAAAATTTTTTTAAAATA
1 TTTTTT-ATTTTAAATTTTTTTAAAA-TTTTTTAAAATA
44238030 CTTTTTTTTATTTT---TTTAATTTTAAAATATTTTTAAAATA
1 ---TTTTTTATTTTAAATTT--TTTTAAAAT-TTTTTAAAATA
**
44238070 -TTTTT-TTTTAAATTTTTATTTTAA-TTTTTAAAATAA
1 TTTTTTATTTTAAATTTTT-TTAAAATTTTTTAAAAT-A
44238106 TTTTTT
1 TTTTTT
44238112 GGTATTTATT
Statistics
Matches: 68, Mismatches: 2, Indels: 23
0.73 0.02 0.25
Matches are distributed among these distances:
35 14 0.21
36 8 0.12
37 9 0.13
38 6 0.09
39 1 0.01
40 19 0.28
41 5 0.07
42 6 0.09
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (37 bp):
TTTTTTATTTTAAATTTTTTTAAAATTTTTTAAAATA
Found at i:44238063 original size:11 final size:11
Alignment explanation
Indices: 44238049--44238074 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
44238039 ATTTTTTTAA
44238049 TTTTAAAATAT
1 TTTTAAAATAT
44238060 TTTTAAAATAT
1 TTTTAAAATAT
44238071 TTTT
1 TTTT
44238075 TTTTAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:44238095 original size:12 final size:13
Alignment explanation
Indices: 44237992--44238099 Score: 50
Period size: 12 Copynumber: 8.5 Consensus size: 13
44237982 TTTTTTAATT
44237992 TTTTTAATTTTAAA
1 TTTTT-ATTTTAAA
44238006 --TTT-TTTTAAA
1 TTTTTATTTTAAA
* *
44238016 ATTTT-TTTAAAA
1 TTTTTATTTTAAA
**
44238028 TACTTTT-TTTTATT
1 T--TTTTATTTTAAA
44238042 TTTTTAATTTTAAA
1 TTTTT-ATTTTAAA
* * *
44238056 ATATT-TTTAAAA
1 TTTTTATTTTAAA
*
44238068 TATTTTTTTTTAAA
1 T-TTTTATTTTAAA
44238082 TTTTTATTTT-AA
1 TTTTTATTTTAAA
44238094 TTTTTA
1 TTTTTA
44238100 AAATAATTTT
Statistics
Matches: 72, Mismatches: 14, Indels: 18
0.69 0.13 0.17
Matches are distributed among these distances:
10 7 0.10
12 30 0.42
13 11 0.15
14 24 0.33
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTATTTTAAA
Found at i:44238098 original size:13 final size:12
Alignment explanation
Indices: 44238006--44238098 Score: 53
Period size: 12 Copynumber: 7.2 Consensus size: 12
44237996 TAATTTTAAA
*
44238006 TTTTTTTAAAAT
1 TTTTTTTAAATT
*
44238018 TTTTTTAAAATACT
1 TTTTTTTAAAT--T
**
44238032 TTTTTTTATTTT
1 TTTTTTTAAATT
*
44238044 TTTAATTTTAAAATA
1 TTT--TTTT-AAATT
**
44238059 TTTTTAAAATATT
1 TTTTTTTAA-ATT
44238072 TTTTTTTAAATT
1 TTTTTTTAAATT
44238084 TTTATTTT-AATT
1 TTT-TTTTAAATT
44238096 TTT
1 TTT
44238099 AAAATAATTT
Statistics
Matches: 61, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
12 28 0.46
13 15 0.25
14 13 0.21
15 5 0.08
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTTTAAATT
Found at i:44238594 original size:105 final size:105
Alignment explanation
Indices: 44238482--44238685 Score: 399
Period size: 105 Copynumber: 1.9 Consensus size: 105
44238472 ATAATTATAG
*
44238482 TTTTTTAATGTCAATAATATCACATTCAATCCCATATATTTTCCTGAACATGCGAATAACTACAA
1 TTTTTTAATGTCAATAATATCACATTCAATCCCATATATTTTCCTAAACATGCGAATAACTACAA
44238547 AAATGTCACATCTTATCAAATATCAATCAAATAATAATTA
66 AAATGTCACATCTTATCAAATATCAATCAAATAATAATTA
44238587 TTTTTTAATGTCAATAATATCACATTCAATCCCATATATTTTCCTAAACATGCGAATAACTACAA
1 TTTTTTAATGTCAATAATATCACATTCAATCCCATATATTTTCCTAAACATGCGAATAACTACAA
44238652 AAATGTCACATCTTATCAAATATCAATCAAATAA
66 AAATGTCACATCTTATCAAATATCAATCAAATAA
44238686 GATGAAGGGA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 98 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (105 bp):
TTTTTTAATGTCAATAATATCACATTCAATCCCATATATTTTCCTAAACATGCGAATAACTACAA
AAATGTCACATCTTATCAAATATCAATCAAATAATAATTA
Found at i:44247929 original size:12 final size:11
Alignment explanation
Indices: 44247910--44247944 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
44247900 GGACATATGG
44247910 TGATGTTTAGT
1 TGATGTTTAGT
44247921 TGAATGTTTAGT
1 TG-ATGTTTAGT
44247933 TGATGATTTAGT
1 TGATG-TTTAGT
44247945 ATGTATAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (11 bp):
TGATGTTTAGT
Found at i:44264374 original size:25 final size:25
Alignment explanation
Indices: 44264340--44264390 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
44264330 TACTATTTGT
44264340 AGATGTCAGGTGAGTCTTTAAGCTG
1 AGATGTCAGGTGAGTCTTTAAGCTG
44264365 AGATGTCAGGTGAGTCTTTAAGCTG
1 AGATGTCAGGTGAGTCTTTAAGCTG
44264390 A
1 A
44264391 CTCTTGCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.12, G:0.31, T:0.31
Consensus pattern (25 bp):
AGATGTCAGGTGAGTCTTTAAGCTG
Found at i:44264856 original size:26 final size:26
Alignment explanation
Indices: 44264827--44264944 Score: 110
Period size: 26 Copynumber: 4.3 Consensus size: 26
44264817 AACATGTCAG
*
44264827 GAAAGAAAGCTTGTGTGGCATAATAT
1 GAAAGAAAGCTTGTATGGCATAATAT
* * *
44264853 GAAAGAAAGCATGTGTGGAATAATAT
1 GAAAGAAAGCTTGTATGGCATAATAT
*
44264879 GAAGGAAAGCTTGTATGGCGTACCATAATAT
1 GAAAGAAAGCTTGTAT-G-G---CATAATAT
* * *
44264910 GAAGGAAAGCTTGTATGGCGTAACAT
1 GAAAGAAAGCTTGTATGGCATAATAT
*
44264936 AAAAGAAAG
1 GAAAGAAAG
44264945 TGTATGTGGC
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
26 50 0.65
27 1 0.01
28 1 0.01
29 1 0.01
30 1 0.01
31 23 0.30
ACGTcount: A:0.42, C:0.08, G:0.27, T:0.23
Consensus pattern (26 bp):
GAAAGAAAGCTTGTATGGCATAATAT
Found at i:44264907 original size:31 final size:31
Alignment explanation
Indices: 44264872--44264937 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
44264862 CATGTGTGGA
*
44264872 ATAATATGAAGGAAAGCTTGTATGGCGTACC
1 ATAATATGAAGGAAAGCTTGTATGGCGTAAC
44264903 ATAATATGAAGGAAAGCTTGTATGGCGTAAC
1 ATAATATGAAGGAAAGCTTGTATGGCGTAAC
44264934 ATAA
1 ATAA
44264938 AAGAAAGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (31 bp):
ATAATATGAAGGAAAGCTTGTATGGCGTAAC
Found at i:44266239 original size:25 final size:25
Alignment explanation
Indices: 44266200--44266252 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
44266190 TCATTAGGGT
* *
44266200 TACCGATTTATAGCTCGTGAGAGCA
1 TACCGATTCACAGCTCGTGAGAGCA
**
44266225 TACCGATTCACAGCTCGTTTGAGCA
1 TACCGATTCACAGCTCGTGAGAGCA
44266250 TAC
1 TAC
44266253 ATGTACATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (25 bp):
TACCGATTCACAGCTCGTGAGAGCA
Found at i:44267009 original size:43 final size:42
Alignment explanation
Indices: 44266961--44267168 Score: 218
Period size: 43 Copynumber: 4.9 Consensus size: 42
44266951 TTTTATAAAT
* * *
44266961 AAACGCTGCTAAAGGTCATGACCTTTAGCGGCACTTATCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTT-TCCCAC
* *
44267004 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTCCCAC
* ** * * * * *
44267047 AAATGCCGCTATGGATCATTACTTTTAGCTGCGCTTTTCCTC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTCCCAC
* * *
44267089 AAACGCCGCTATAGAACATGAGCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTT-CCCAC
* * *
44267132 AAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTT
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTT
44267169 TATTGCAAAC
Statistics
Matches: 140, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
42 36 0.26
43 102 0.73
44 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTCCCAC
Found at i:44267159 original size:85 final size:84
Alignment explanation
Indices: 44266961--44267185 Score: 254
Period size: 85 Copynumber: 2.6 Consensus size: 84
44266951 TTTTATAAAT
* * * * *
44266961 AAACGCTGCTAAAGGTCATGACCTTTAGCGGCACTTATCCCACAAACGCCGCTATAGATCATGAC
1 AAACGCCGCTAAAGATCATGA-CTTTAGCGGCACTT-TTCCTCAAACGCCGCTATAGAACATGAC
*
44267026 TTTTAGCGGCGCTTTTCCCAC
64 TTTTAGCGGCGCTTTACCCAC
* ** * * *
44267047 AAATGCCGCTATGGATCATTACTTTTAGCTGCGCTTTTCCTCAAACGCCGCTATAGAACATGAGC
1 AAACGCCGCTAAAGATCATGAC-TTTAGCGGCACTTTTCCTCAAACGCCGCTATAGAACATGA-C
44267112 -TTTAGCGGCGCTTTACCCAC
64 TTTTAGCGGCGCTTTACCCAC
* **
44267132 AAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTATTGCAAACGCCGCTA
1 AAACGCCGCTAAAGATCATGA-CTTTAGCGGCACTTTTCCT-CAAACGCCGCTA
44267186 AAAGTACGGT
Statistics
Matches: 114, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
85 74 0.65
86 40 0.35
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (84 bp):
AAACGCCGCTAAAGATCATGACTTTAGCGGCACTTTTCCTCAAACGCCGCTATAGAACATGACTT
TTAGCGGCGCTTTACCCAC
Found at i:44268902 original size:86 final size:86
Alignment explanation
Indices: 44268799--44268989 Score: 283
Period size: 86 Copynumber: 2.2 Consensus size: 86
44268789 CTAAAAAAGA
* * **
44268799 AAATTTTCAATATTTATAACAACTTATATGCAACAAATTAGCAAAAATAAATGGTTCAAGTTCAT
1 AAATTTTCAATTTTTATAACAACTTATATGCAACAAATTAGAAAAAATAAACAGTTCAAGTTCAT
* * *
44268864 GCATTTACCAACAACCAGACT
66 GCATTCACCAACAACCACACC
* *
44268885 AAATTTTCAATTTTTATAACAACTTATGTGCAACAAATTAGAAAAAATCAACAGTTCAAGTTCAT
1 AAATTTTCAATTTTTATAACAACTTATATGCAACAAATTAGAAAAAATAAACAGTTCAAGTTCAT
*
44268950 GCATTCATCAACAACCACACC
66 GCATTCACCAACAACCACACC
*
44268971 AAATTTTCAACTTTTATAA
1 AAATTTTCAATTTTTATAA
44268990 AGTAGAAGGA
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 94 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.31
Consensus pattern (86 bp):
AAATTTTCAATTTTTATAACAACTTATATGCAACAAATTAGAAAAAATAAACAGTTCAAGTTCAT
GCATTCACCAACAACCACACC
Found at i:44271624 original size:22 final size:24
Alignment explanation
Indices: 44271585--44271639 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
44271575 AGAATAACTT
*
44271585 AGGGAAATTTAGGGGAAACGAAGTT
1 AGGGAAA-TTAGGGGAAACGAAGTC
*
44271610 A-GGAAATT-GGGGAAATGAAGTC
1 AGGGAAATTAGGGGAAACGAAGTC
44271632 AGGGAAAT
1 AGGGAAAT
44271640 CTGACATGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 13 0.48
23 8 0.30
24 5 0.19
25 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.36, T:0.18
Consensus pattern (24 bp):
AGGGAAATTAGGGGAAACGAAGTC
Found at i:44272818 original size:14 final size:14
Alignment explanation
Indices: 44272801--44272983 Score: 79
Period size: 14 Copynumber: 12.9 Consensus size: 14
44272791 CTAGTTAATC
44272801 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
44272815 TAAA-CCTAAACCC
1 TAAACCCTAAACCA
*
44272828 TAAAACCCTTAACACA
1 T-AAACCCTAAAC-CA
* *
44272844 T-AACCGGTAAACCT
1 TAAACC-CTAAACCA
* * *
44272858 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
*
44272872 TAAACCATAAACCA
1 TAAACCCTAAACCA
* * * *
44272886 TAAATCATAACCCC
1 TAAACCCTAAACCA
* *
44272900 TAAACTCATAATCCA
1 TAAAC-CCTAAACCA
*
44272915 TAAACCTTAAA--A
1 TAAACCCTAAACCA
*
44272927 TAGTAACTCCTAAACCT
1 TA--AAC-CCTAAACCA
*
44272944 TAAACTCTAAACCA
1 TAAACCCTAAACCA
*
44272958 TATACCCTAAACCA
1 TAAACCCTAAACCA
* *
44272972 AAAACCTTAAAC
1 TAAACCCTAAAC
44272984 TATAGTGATA
Statistics
Matches: 126, Mismatches: 30, Indels: 26
0.69 0.16 0.14
Matches are distributed among these distances:
12 3 0.02
13 12 0.10
14 70 0.56
15 37 0.29
16 2 0.02
17 2 0.02
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:44272882 original size:7 final size:7
Alignment explanation
Indices: 44272872--44272983 Score: 59
Period size: 7 Copynumber: 15.7 Consensus size: 7
44272862 CCCCAGCCTT
44272872 TAAACCA
1 TAAACCA
44272879 TAAACCA
1 TAAACCA
*
44272886 TAAATCA
1 TAAACCA
* *
44272893 TAACCCC
1 TAAACCA
44272900 TAAACTCA
1 TAAAC-CA
*
44272908 TAATCCA
1 TAAACCA
*
44272915 TAAACCT
1 TAAACCA
44272922 TAAA--A
1 TAAACCA
*
44272927 TAGTAACTCC
1 TA--AAC-CA
*
44272937 TAAACCT
1 TAAACCA
44272944 TAAACTC-
1 TAAAC-CA
44272951 TAAACCA
1 TAAACCA
* *
44272958 TATACCC
1 TAAACCA
44272965 TAAACCA
1 TAAACCA
* *
44272972 AAAACCT
1 TAAACCA
44272979 TAAAC
1 TAAAC
44272984 TATAGTGATA
Statistics
Matches: 78, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
5 2 0.03
6 1 0.01
7 64 0.82
8 9 0.12
10 2 0.03
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:44272925 original size:22 final size:22
Alignment explanation
Indices: 44272900--44272969 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
44272890 TCATAACCCC
44272900 TAAACTCATAATCCATAAACCT
1 TAAACTCATAATCCATAAACCT
*
44272922 TAAAAT-AGTAACTCC-TAAACCT
1 TAAACTCA-TAA-TCCATAAACCT
* * *
44272944 TAAACTC-TAAACCATATACCC
1 TAAACTCATAATCCATAAACCT
44272965 TAAAC
1 TAAAC
44272970 CAAAAACCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
20 2 0.05
21 14 0.36
22 20 0.51
23 3 0.08
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (22 bp):
TAAACTCATAATCCATAAACCT
Found at i:44273426 original size:82 final size:80
Alignment explanation
Indices: 44273290--44273478 Score: 272
Period size: 82 Copynumber: 2.3 Consensus size: 80
44273280 AATATTTTTT
* * *
44273290 GCGGCGCTTTTTAAAAACGCCGCT-AAAATAGAGCATTAGCGGCGCTTTTCCAAAAATGCCTCTA
1 GCGGCGCTTTTTAAAAACGCCGCTAAAAATAGAGCATTAGCGGCACTTTTCCAAAAACGCCACTA
* *
44273354 AAGACCCTGAGCATTA
66 AAG-CCCCGAGCATCA
* *
44273370 GCGGCGCTTTTTAAAAGACGTCGCTAAAAATAGAGCATTAGCGGCACTTTTTCAAAAACGCCACT
1 GCGGCGCTTTTTAAAA-ACGCCGCTAAAAATAGAGCATTAGCGGCACTTTTCCAAAAACGCCACT
44273435 AAAGCCCCGAGCATCA
65 AAAGCCCCGAGCATCA
*
44273451 GCGACGCTTTTTCAAAAACGCCGCTAAA
1 GCGGCGCTTTTT-AAAAACGCCGCTAAA
44273479 TCCCCATGCC
Statistics
Matches: 97, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
80 16 0.16
81 38 0.39
82 43 0.44
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (80 bp):
GCGGCGCTTTTTAAAAACGCCGCTAAAAATAGAGCATTAGCGGCACTTTTCCAAAAACGCCACTA
AAGCCCCGAGCATCA
Found at i:44273461 original size:41 final size:41
Alignment explanation
Indices: 44273290--44273524 Score: 194
Period size: 41 Copynumber: 5.8 Consensus size: 41
44273280 AATATTTTTT
* ***
44273290 GCGGCGCTTTTT-AAAAACGCCGCTAAA--ATAGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCGAGCATTA
* * * *
44273328 GCGGCGCTTTTCCAAAAATGCCTCTAAAGACCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCACTAAAG-CCCCGAGCATTA
* * ****
44273370 GCGGCGCTTTTT-AAAAGACGTCGCTAAA-AATAGAGCATTA
1 GCGGCGCTTTTTCAAAA-ACGCCACTAAAGCCCCGAGCATTA
* *
44273410 GCGGCACTTTTTCAAAAACGCCACTAAAGCCCCGAGCATCA
1 GCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCGAGCATTA
* * * *
44273451 GCGACGCTTTTTCAAAAACGCCGCTAAATCCCC-ATGCCTTA
1 GCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCGA-GCATTA
* * *
44273492 GCGACGCTTTTTGAAAAACACCACTAAAGCCCC
1 GCGGCGCTTTTTCAAAAACGCCACTAAAGCCCC
44273525 TAAAACACAA
Statistics
Matches: 157, Mismatches: 32, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
38 11 0.07
39 13 0.08
40 29 0.18
41 77 0.49
42 27 0.17
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCGAGCATTA
Found at i:44273493 original size:82 final size:81
Alignment explanation
Indices: 44273294--44273524 Score: 243
Period size: 82 Copynumber: 2.9 Consensus size: 81
44273284 TTTTTTGCGG
* * * * *
44273294 CGCTTTTTAAAA-ACGCCGCT-AAAATAGAGCATTAGCGGCGCTTTTCCAAAAATGCCTCTAAAG
1 CGCTTTTTAAAAGACGCCGCTAAAAACACAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAG
* * *
44273357 ACCCTGAGCATTAGCGG
66 -CCCCGAGCATCAGCGA
* * * *
44273374 CGCTTTTTAAAAGACGTCGCTAAAAATAGAGCATTAGCGGCACTTTTTCAAAAACGCCACTAAAG
1 CGCTTTTTAAAAGACGCCGCTAAAAACACAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAG
44273439 CCCCGAGCATCAGCGA
66 CCCCGAGCATCAGCGA
** * * * * *
44273455 CGCTTTTTCAAAA-ACGCCGCTAAATCCCCATGCCTTAGCGACGCTTTTTGAAAAACACCACTAA
1 CGCTTTTT-AAAAGACGCCGCTAAAAACACA-GCATTAGCGGCGCTTTTTCAAAAACGCCACTAA
44273519 AGCCCC
64 AGCCCC
44273525 TAAAACACAA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 12 0.09
81 39 0.30
82 77 0.60
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (81 bp):
CGCTTTTTAAAAGACGCCGCTAAAAACACAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAG
CCCCGAGCATCAGCGA
Found at i:44273628 original size:39 final size:40
Alignment explanation
Indices: 44273559--44273637 Score: 90
Period size: 39 Copynumber: 2.0 Consensus size: 40
44273549 TGGGCTTAGG
* * * *
44273559 TTTTTTGCGGCGCTTTTTCAGAAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCGCTTTTCCAGAAAACGCCGCAAATACTCA
*
44273599 TTTTTAGCGGCG-TTTTCCA-AAAAGTGCCGCAAATACTCA
1 TTTTTAGCGGCGCTTTTCCAGAAAA-CGCCGCAAATACTCA
44273638 ATCTTTAGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
38 4 0.12
39 18 0.55
40 11 0.33
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (40 bp):
TTTTTAGCGGCGCTTTTCCAGAAAACGCCGCAAATACTCA
Found at i:44273779 original size:18 final size:18
Alignment explanation
Indices: 44273756--44273792 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
44273746 TGTTTGATTG
* *
44273756 TGAATAGGGTCATTTGGT
1 TGAATAAGGCCATTTGGT
44273774 TGAATAAGGCCATTTGGT
1 TGAATAAGGCCATTTGGT
44273792 T
1 T
44273793 TGGCTTGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.30, T:0.38
Consensus pattern (18 bp):
TGAATAAGGCCATTTGGT
Found at i:44277459 original size:29 final size:29
Alignment explanation
Indices: 44277426--44277481 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
44277416 TACTACCTTA
44277426 ATGAACCATAGCTTGTTTAGACTAATGCT
1 ATGAACCATAGCTTGTTTAGACTAATGCT
44277455 ATGAACCATAGCTTGTTTAGACTAATG
1 ATGAACCATAGCTTGTTTAGACTAATG
44277482 TTACATTCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (29 bp):
ATGAACCATAGCTTGTTTAGACTAATGCT
Found at i:44283576 original size:22 final size:21
Alignment explanation
Indices: 44283526--44283596 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 21
44283516 ATATTAACTC
* *
44283526 TTATTTATTATTTATTT-TAA
1 TTATTTATTAATTATTTAAAA
44283546 TTATGTTTATTAATTATTATAAAA
1 TTA--TTTATTAATTATT-TAAAA
44283570 TTATTTATTTAATTTATTTAAAA
1 TTATTTA-TTAA-TTATTTAAAA
44283593 TTAT
1 TTAT
44283597 AAAATATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
20 3 0.07
22 16 0.37
23 14 0.33
24 10 0.23
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (21 bp):
TTATTTATTAATTATTTAAAA
Found at i:44283893 original size:16 final size:17
Alignment explanation
Indices: 44283868--44283905 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
44283858 TAATGTAAAT
*
44283868 AATA-ATATTAAG-TTA
1 AATATATATTAAGAATA
44283883 AATATATATTAAGAATA
1 AATATATATTAAGAATA
44283900 AATATA
1 AATATA
44283906 AAATTGTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 8 0.40
17 8 0.40
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (17 bp):
AATATATATTAAGAATA
Found at i:44284187 original size:17 final size:16
Alignment explanation
Indices: 44284152--44284181 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44284142 GATGAGTCAT
44284152 ATTTATATTTTAATAA
1 ATTTATATTTTAATAA
44284168 ATTTA-ATTTTAATA
1 ATTTATATTTTAATA
44284182 TAAATTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTATATTTTAATAA
Found at i:44287134 original size:27 final size:28
Alignment explanation
Indices: 44287056--44287134 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
44287046 ATTCGGCTGG
44287056 AGCTAAAAACATATTAAAATG-ATGTAATA
1 AGCT-AAAACATATT-AAATGCATGTAATA
* *
44287085 AGCTAAAACAAATT-AATGTCATGTACTA
1 AGCTAAAACATATTAAATG-CATGTAATA
*
44287113 A-CTAAGACATATTAAATGCATG
1 AGCTAAAACATATTAAATGCATG
44287135 CATGAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.09
27 14 0.33
28 21 0.49
29 4 0.09
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (28 bp):
AGCTAAAACATATTAAATGCATGTAATA
Found at i:44290328 original size:15 final size:16
Alignment explanation
Indices: 44290308--44290342 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
44290298 TCTCGCATTG
44290308 TTTTTCTTTT-TCATC
1 TTTTTCTTTTCTCATC
44290323 TTTTTCTTTTCTCATC
1 TTTTTCTTTTCTCATC
44290339 TTTT
1 TTTT
44290343 CACTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTCTTTTCTCATC
Found at i:44290392 original size:19 final size:19
Alignment explanation
Indices: 44290324--44290403 Score: 63
Period size: 20 Copynumber: 4.1 Consensus size: 19
44290314 TTTTTCATCT
44290324 TTTTCTTTTCTCATCTTTTCA
1 TTTTCTTTTCTCAT-TTTT-A
* * ** *
44290345 CTTTCTTTTGTTGTTTTTC
1 TTTTCTTTTCTCATTTTTA
*
44290364 CTTTCTTTTTCTCATTTTTA
1 TTTTC-TTTTCTCATTTTTA
*
44290384 TTTTCTTTTGT-ATTTTTA
1 TTTTCTTTTCTCATTTTTA
44290402 TT
1 TT
44290404 CTTTTCTTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
18 9 0.19
19 10 0.21
20 18 0.38
21 10 0.21
ACGTcount: A:0.07, C:0.16, G:0.04, T:0.72
Consensus pattern (19 bp):
TTTTCTTTTCTCATTTTTA
Found at i:44290410 original size:41 final size:41
Alignment explanation
Indices: 44290324--44290417 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 41
44290314 TTTTTCATCT
44290324 TTTTC-TTTTCTCATCTTTTCACTTTCTTTTGTTGTTTTTC
1 TTTTCTTTTTCTCATCTTTTCACTTTCTTTTGTTGTTTTTC
* * *
44290364 CTTTCTTTTTCTCAT-TTTT-ATTTTCTTTTGTATTTTTATTC
1 TTTTCTTTTTCTCATCTTTTCACTTTCTTTTGT-TGTTT-TTC
44290405 TTTTCTTTTTCTC
1 TTTTCTTTTTCTC
44290418 TCATTTGATC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 11 0.23
40 12 0.26
41 24 0.51
ACGTcount: A:0.06, C:0.18, G:0.03, T:0.72
Consensus pattern (41 bp):
TTTTCTTTTTCTCATCTTTTCACTTTCTTTTGTTGTTTTTC
Found at i:44306961 original size:39 final size:39
Alignment explanation
Indices: 44306903--44306983 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
44306893 GATTGATAGT
44306903 TACCAATATCCTTACGAAATAGTGATAAATTTATCATTA
1 TACCAATATCCTTACGAAATAGTGATAAATTTATCATTA
*
44306942 TACCAATATCCTTATGAAATAGTGATAAATTTATCATTA
1 TACCAATATCCTTACGAAATAGTGATAAATTTATCATTA
44306981 TAC
1 TAC
44306984 TTTAACTCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (39 bp):
TACCAATATCCTTACGAAATAGTGATAAATTTATCATTA
Found at i:44310900 original size:34 final size:34
Alignment explanation
Indices: 44310857--44310922 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
44310847 AGAATTTAGA
*
44310857 ATCAGAAGCATATCATTCAGTCTTATTCACATAC
1 ATCAGAAGCATATCATTCAATCTTATTCACATAC
44310891 ATCAGAAGCATATCATTCAATCTTATTCACAT
1 ATCAGAAGCATATCATTCAATCTTATTCACAT
44310923 GCATTCTCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (34 bp):
ATCAGAAGCATATCATTCAATCTTATTCACATAC
Found at i:44319090 original size:37 final size:38
Alignment explanation
Indices: 44319010--44319101 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 38
44319000 ACCAGAATGG
* *
44319010 CACCCAGTGCCTCATCGGATAGTTCGAAGCAAAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAGCAAAGTTGA
* *
44319048 CACCCAGTGTCTCATCGGCAAAG-CCGAAG-AAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGCAAAGTTGA
* *
44319085 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
44319102 AAACTATCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
37 21 0.46
38 22 0.48
39 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGCAAAGTTGA
Found at i:44319314 original size:23 final size:24
Alignment explanation
Indices: 44319270--44319315 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
44319260 TTTCTCACAT
* **
44319270 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTACTCCACC
44319294 TTTCAA-TCAATAATTACTCCAC
1 TTTCAATTCAATAATTACTCCAC
44319316 AAATTCACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTACTCCACC
Found at i:44319462 original size:3 final size:3
Alignment explanation
Indices: 44319454--44319482 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44319444 TATTTCTCAC
44319454 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
44319483 CTTACCTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:44319787 original size:10 final size:10
Alignment explanation
Indices: 44319751--44319796 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
44319741 TGTTTCTTTC
44319751 TTTC-TTTTA
1 TTTCATTTTA
44319760 TTTCATTTGT-
1 TTTCATTT-TA
44319770 TTTC-TTTTA
1 TTTCATTTTA
44319779 TTTCATTTTA
1 TTTCATTTTA
44319789 TTTCATTT
1 TTTCATTT
44319797 ACTTTATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
8 1 0.03
9 11 0.33
10 20 0.61
11 1 0.03
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTCATTTTA
Found at i:44320280 original size:9 final size:9
Alignment explanation
Indices: 44320266--44320307 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
44320256 ATTTGAATAA
44320266 ATAATAATT
1 ATAATAATT
44320275 ATAATAATT
1 ATAATAATT
44320284 AT-ATAGA-T
1 ATAATA-ATT
*
44320292 ATAATATTT
1 ATAATAATT
44320301 ATAATAA
1 ATAATAA
44320308 CTTGAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (9 bp):
ATAATAATT
Found at i:44326433 original size:13 final size:13
Alignment explanation
Indices: 44326415--44326441 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44326405 ATTTCCATAT
44326415 GGGGTGGCCACAC
1 GGGGTGGCCACAC
44326428 GGGGTGGCCACAC
1 GGGGTGGCCACAC
44326441 G
1 G
44326442 CCCATGTGCC
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:0.15, C:0.30, G:0.48, T:0.07
Consensus pattern (13 bp):
GGGGTGGCCACAC
Found at i:44327448 original size:17 final size:18
Alignment explanation
Indices: 44327417--44327466 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
44327407 GGAACATTCA
44327417 ATTTTTATTAATTTAGCCAT
1 ATTTTTATT--TTTAGCCAT
**
44327437 -TTTTTATTTTTA-TTAT
1 ATTTTTATTTTTAGCCAT
44327453 ATTTTTATTTTTAG
1 ATTTTTATTTTTAG
44327467 TTTAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 2 0.08
17 16 0.62
19 8 0.31
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.68
Consensus pattern (18 bp):
ATTTTTATTTTTAGCCAT
Found at i:44327475 original size:17 final size:17
Alignment explanation
Indices: 44327438--44327475 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
44327428 TTTAGCCATT
*
44327438 TTTTATTTTTATTATAT
1 TTTTATTTTTATTATAA
44327455 TTTTATTTTTAGTT-TAA
1 TTTTATTTTTA-TTATAA
44327472 TTTT
1 TTTT
44327476 TGCATTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATTATAA
Found at i:44331711 original size:6 final size:6
Alignment explanation
Indices: 44331700--44331728 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
44331690 TCCATGTCAT
44331700 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
44331729 TTGCTCGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:44348732 original size:12 final size:10
Alignment explanation
Indices: 44348705--44348736 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
44348695 ATTTATTAAC
44348705 AAACACATTA
1 AAACACATTA
44348715 AAACACATTA
1 AAACACATTA
*
44348725 AAACACACTA
1 AAACACATTA
44348735 AA
1 AA
44348737 TAAGCGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.62, C:0.22, G:0.00, T:0.16
Consensus pattern (10 bp):
AAACACATTA
Found at i:44350579 original size:28 final size:28
Alignment explanation
Indices: 44350513--44350665 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
44350503 ATATTAAGTC
* * *
44350513 CGCACACTCAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
44350540 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
44350568 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
44350596 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
44350624 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
44350651 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44350666 GCACAATTTA
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 38 0.33
28 78 0.67
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:44350654 original size:83 final size:83
Alignment explanation
Indices: 44350513--44350665 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
44350503 ATATTAAGTC
* *
44350513 CGCACACTCAGTGCTATATAATCAGCTCGCACACCTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAACTCGCACACCTAGTGCTACATAATCAAACTCGCACACTTA
44350578 GTGCTACATAGTCAAACT
66 GTGCTACATAGTCAAACT
* * * *
44350596 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTC-AATTCGCACACTT
1 CGCACACTCAGTGCTACATAATC-AACTCGCACACCTAGTGCTACATAATCAAACTCGCACACTT
44350660 AGTGCT
65 AGTGCT
44350666 GCACAATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 39 0.62
84 24 0.38
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (83 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACCTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAAACT
Found at i:44350684 original size:56 final size:55
Alignment explanation
Indices: 44350512--44350686 Score: 233
Period size: 56 Copynumber: 3.1 Consensus size: 55
44350502 CATATTAAGT
* * * * *
44350512 CCGCACACTCAGTGCTATATAATCAGCTCGCACACCTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC
*
44350567 TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCAAAC
* * * * *
44350623 TCGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAAC
44350679 CCGCACAC
1 CCGCACAC
44350687 GTAGCGCCAA
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
55 42 0.39
56 65 0.61
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (55 bp):
CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC
Found at i:44358707 original size:28 final size:28
Alignment explanation
Indices: 44358641--44358793 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
44358631 ATATTAAGTC
* * *
44358641 CGCACACTCAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
44358668 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
44358696 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
44358724 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
44358752 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
44358779 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44358794 GCACAATTTA
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 38 0.33
28 78 0.67
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Done.