Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 143 of 189
Found at i:43562818 original size:43 final size:43
Alignment explanation
Indices: 43562716--43562832 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
43562706 TGTCATGGAG
* * *
43562716 TCTTTCATCCATGGTCTTACTCATTATACTTGGTTACCATAGCA
1 TCTTTCATCCATGGTCTTACTCCTTATAC-CGGGTACCATAGCA
** *
43562760 TCACTCATCTATGGTCTTACTCCTTATACCGGGTAGCCAT-GCA
1 TCTTTCATCCATGGTCTTACTCCTTATACCGGGTA-CCATAGCA
* *
43562803 TCTTTCATCCATGGTCTTACGCCATATACC
1 TCTTTCATCCATGGTCTTACTCCTTATACC
43562833 TTTACCTTGT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 32 0.52
44 29 0.48
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (43 bp):
TCTTTCATCCATGGTCTTACTCCTTATACCGGGTACCATAGCA
Found at i:43570880 original size:21 final size:21
Alignment explanation
Indices: 43570856--43570905 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
43570846 CATCTATGGC
*
43570856 CCTTAAAATGGGCTTACAAGG
1 CCTTAAAATGGGATTACAAGG
* **
43570877 CCTTACAATGGGATTATGAGG
1 CCTTAAAATGGGATTACAAGG
43570898 CCTTAAAA
1 CCTTAAAA
43570906 ATAGTTAGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (21 bp):
CCTTAAAATGGGATTACAAGG
Found at i:43579109 original size:13 final size:13
Alignment explanation
Indices: 43579088--43579117 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
43579078 CAAACTGAAC
*
43579088 TTCTTTCCTTATT
1 TTCTATCCTTATT
43579101 TTCTATCCTTATT
1 TTCTATCCTTATT
43579114 TTCT
1 TTCT
43579118 TAAAGTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCTATCCTTATT
Found at i:43582803 original size:48 final size:48
Alignment explanation
Indices: 43582736--43582897 Score: 198
Period size: 48 Copynumber: 3.4 Consensus size: 48
43582726 GTGTGGCATG
*
43582736 GACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGGGTGGCACG
1 GACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGGGTGGCACA
* * *
43582784 GACTGTGTGTAGGCTACCAATATTCTGTTAAGATACAAGCGTGGCACA
1 GACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGGGTGGCACA
* * * * ** * * *
43582832 GATTATGTGCAGGCCACCAAGAGTCTGTTATTACACAAAGGTGGTACA
1 GACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGGGTGGCACA
*
43582880 GACTGTGTGTAGGCCACC
1 GACTGTGTGCAGGCCACC
43582898 GAGAAATCTA
Statistics
Matches: 95, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 95 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (48 bp):
GACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGGGTGGCACA
Found at i:43589782 original size:47 final size:48
Alignment explanation
Indices: 43589713--43589830 Score: 184
Period size: 48 Copynumber: 2.5 Consensus size: 48
43589703 CGCATATGCA
43589713 GCACGGACTGTGTGCAGGCCACC-ATATTCTATTAACATACAAGGGTG
1 GCACGGACTGTGTGCAGGCCACCAATATTCTATTAACATACAAGGGTG
* * *
43589760 GCACGGATTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGGGTG
1 GCACGGACTGTGTGCAGGCCACCAATATTCTATTAACATACAAGGGTG
* *
43589808 GCACGGACTATGTGCTGGCCACC
1 GCACGGACTGTGTGCAGGCCACC
43589831 GAGAGTCTGT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
47 22 0.34
48 42 0.66
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (48 bp):
GCACGGACTGTGTGCAGGCCACCAATATTCTATTAACATACAAGGGTG
Found at i:43598106 original size:18 final size:18
Alignment explanation
Indices: 43598082--43598124 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
43598072 AAACCTATAA
43598082 AAAATAAATAC-ACTAAGT
1 AAAATAAA-ACTACTAAGT
*
43598100 TAAATAAAACTACTAAGT
1 AAAATAAAACTACTAAGT
43598118 AAAATAA
1 AAAATAA
43598125 CCAAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.63, C:0.09, G:0.05, T:0.23
Consensus pattern (18 bp):
AAAATAAAACTACTAAGT
Found at i:43602044 original size:20 final size:20
Alignment explanation
Indices: 43602021--43602074 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
43602011 AAGTGCAGAA
* *
43602021 AAAGGCACAAATTTGCAAGC
1 AAAGGCACAAATGTGCAAAC
43602041 AAAGGCACCAAA-GTGCAAAC
1 AAAGGCA-CAAATGTGCAAAC
*
43602061 AAATGCACAAATGT
1 AAAGGCACAAATGT
43602075 AGGATCAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.14
20 21 0.72
21 4 0.14
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (20 bp):
AAAGGCACAAATGTGCAAAC
Found at i:43608037 original size:201 final size:201
Alignment explanation
Indices: 43607689--43608090 Score: 741
Period size: 201 Copynumber: 2.0 Consensus size: 201
43607679 TATACAACTC
43607689 ACGATGTTGGGACAATGATGATCTCAAGTCTGAGAATCATATACATAGTTATCACTTTGAGTAAT
1 ACGATGTTGGGACAATGATGATCTCAAGTCTGAGAATCATATACATAGTTATCACTTTGAGTAAT
* * * *
43607754 GTTGTGACTATTACATAATAATCCAAGAAACATACTCATAGTGAGTCTGTCCAATATGTTGTTCT
66 GTTGTAACTATTACATAATAATACAAGAAACATACTCATAGCGAGTCAGTCCAATATGTTGTTCT
*
43607819 TTAACACATATTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
131 TTAACACATACTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
43607884 ACTATA
196 ACTATA
* *
43607890 ACGATGTTGGGACAATGATGATCTTAAGTCTGAGGATCATATACATAGTTATCACTTTGAGTAAT
1 ACGATGTTGGGACAATGATGATCTCAAGTCTGAGAATCATATACATAGTTATCACTTTGAGTAAT
43607955 GTTGTAACTATTACATAATAATACAAGAAACATACTCATAGCGAGTCAGTCCAATATGTTGTTCT
66 GTTGTAACTATTACATAATAATACAAGAAACATACTCATAGCGAGTCAGTCCAATATGTTGTTCT
43608020 TTAACACATACTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
131 TTAACACATACTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
43608085 ACTATA
196 ACTATA
43608091 CATTAGTCTT
Statistics
Matches: 194, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
201 194 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (201 bp):
ACGATGTTGGGACAATGATGATCTCAAGTCTGAGAATCATATACATAGTTATCACTTTGAGTAAT
GTTGTAACTATTACATAATAATACAAGAAACATACTCATAGCGAGTCAGTCCAATATGTTGTTCT
TTAACACATACTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
ACTATA
Found at i:43609776 original size:37 final size:37
Alignment explanation
Indices: 43609726--43609800 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
43609716 TAACCTATCC
43609726 AATAATGTTTCAGTCGTTGGCCGTTAAATTTAAACTT
1 AATAATGTTTCAGTCGTTGGCCGTTAAATTTAAACTT
43609763 AATAATGTTTCAGTCGTTGGCCGTTAAATTTAAACTT
1 AATAATGTTTCAGTCGTTGGCCGTTAAATTTAAACTT
43609800 A
1 A
43609801 CCTCCTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (37 bp):
AATAATGTTTCAGTCGTTGGCCGTTAAATTTAAACTT
Found at i:43610562 original size:17 final size:18
Alignment explanation
Indices: 43610523--43610563 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
43610513 TGAATGAATG
43610523 AATAAATAGATTATAAAA
1 AATAAATAGATTATAAAA
*
43610541 CATAAATA-ATTA-AAACA
1 AATAAATAGATTATAAA-A
43610558 AATAAA
1 AATAAA
43610564 ACTTAGTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 3 0.15
17 10 0.50
18 7 0.35
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (18 bp):
AATAAATAGATTATAAAA
Found at i:43617138 original size:17 final size:17
Alignment explanation
Indices: 43617109--43617141 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43617099 TATCGTTTGT
43617109 TTATCTTTCTTATTTAG
1 TTATCTTTCTTATTTAG
43617126 TTAT-TTTCGTTATTTA
1 TTATCTTTC-TTATTTA
43617142 TTTTTATCGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (17 bp):
TTATCTTTCTTATTTAG
Found at i:43618563 original size:61 final size:58
Alignment explanation
Indices: 43618492--43618605 Score: 174
Period size: 61 Copynumber: 1.9 Consensus size: 58
43618482 AGTGATTATC
* *
43618492 TTAATGTTAAATTTAATTTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAGAT
1 TTAATATTAAATTTAATATAATATTTATC-T-T-GATAAATATTATATTAATTTAATAGAT
*
43618553 TTAATATTAAATTTAATATAATATTTATCTTGATAAGTATTATATTAATTTAA
1 TTAATATTAAATTTAATATAATATTTATCTTGATAAATATTATATTAATTTAA
43618606 CATCAAAGTG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
58 21 0.42
59 1 0.02
60 1 0.02
61 27 0.54
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (58 bp):
TTAATATTAAATTTAATATAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:43618620 original size:58 final size:61
Alignment explanation
Indices: 43618498--43618627 Score: 153
Period size: 58 Copynumber: 2.2 Consensus size: 61
43618488 TATCTTAATG
* * **
43618498 TTAAATTTAATTTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAGATTTAATA
1 TTAAATTTAATATAATATTTATCTTGTAGATAAATATTATATTAATTTAATACATCAAATA
*
43618559 TTAAATTTAATATAATATTTATC-T-T-GATAAGTATTATATTAATTT-A-ACATCAAAGTGA
1 TTAAATTTAATATAATATTTATCTTGTAGATAAATATTATATTAATTTAATACATCAAA-T-A
*
43618617 TTAAGTTTAAT
1 TTAAATTTAAT
43618628 TATAGTTGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
56 5 0.08
57 2 0.03
58 30 0.49
59 1 0.02
60 1 0.02
61 22 0.36
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
TTAAATTTAATATAATATTTATCTTGTAGATAAATATTATATTAATTTAATACATCAAATA
Found at i:43622202 original size:259 final size:259
Alignment explanation
Indices: 43621743--43623040 Score: 2290
Period size: 259 Copynumber: 5.0 Consensus size: 259
43621733 ATTTGGTATA
* * * * * *
43621743 GATACCTCGGCTCGAGTATCAATACTCGGGGAAGAAAAATTGATACTTTATCCGATGGTATCGAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
* *
43621808 ATTTTTTTATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTTTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
* * *
43621873 GTATCGAAACCACTTAAGGAAAATATCGATAACTAGATATCAATATCAATACCTACGGACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACAGACATTTT
* *
43621938 TATGAAATTTTGCTAATTAGCCTTTATGCATGATGCTGGCAGTATGTATGATCAATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
*
43622002 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCAAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
* * * *
43622067 ATTTTTTGATAGTTGGGTTTTTAATTGACAAACAGTATGCTCATTTGGTATTGTTTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
43622132 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACAGACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACAGACATTTT
* *
43622197 TATGAAATTTTGCTAATTAGCCCTTAAGCATGATGCTGGCAGTATGTATGATCAATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
*
43622261 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTACTCGGTGGTACCGAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
* *
43622326 ATTTCTTGATAGTTGGGTTTTTAATCGAGAAATAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
* **
43622391 GTATCGATACCACTTAAGGAAAATATCGACAACTGGATATCAATATCAATACCTATGGACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACAGACATTTT
* *
43622456 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGTTGGCAGTATGTATGACCGATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
43622520 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
*
43622585 ATTTTTTTATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
*
43622650 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACAAACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACAGACATTTT
*
43622715 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCGATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
43622779 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
* *
43622844 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAATAATATGCTCATTTGGTATCGTGTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
*
43622909 GTATCGATACCACTTAAGGAAAATATCGATAACTAGATATCAATATCAATACCTACAGACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACAGACATTTT
43622974 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
43623038 GAT
1 GAT
43623041 TTGCATGTAA
Statistics
Matches: 993, Mismatches: 46, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
259 993 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (259 bp):
GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACAGACATTTT
TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
Found at i:43623315 original size:5 final size:5
Alignment explanation
Indices: 43623305--43623511 Score: 405
Period size: 5 Copynumber: 41.2 Consensus size: 5
43623295 TTATACTTGT
43623305 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
43623355 TTATA TTATA TTATA TTATA TTATTA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA
43623406 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
43623456 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
43623506 TTATA T
1 TTATA T
43623512 ATGTATGAGA
Statistics
Matches: 201, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
5 196 0.98
6 5 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:43626158 original size:41 final size:42
Alignment explanation
Indices: 43626113--43626255 Score: 148
Period size: 41 Copynumber: 3.4 Consensus size: 42
43626103 TACTCGGTGA
* *
43626113 AATCAGCACTTAGCAACCACC-TTATATTCAATGATACGGGG
1 AATCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGG
* * *
43626154 AATCAGCACATAGCAACC-CCTTTCACAATAAAGGATACGGTGG
1 AATCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG-GG
* * * ***
43626197 AATCCGCACTTAGCAACCACCTTTAGAATCAATAAT-TTAGG
1 AATCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGG
43626238 AATCAGCACTTAGCAACC
1 AATCAGCACTTAGCAACC
43626256 CCTCGGAGAA
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.02
41 38 0.46
42 12 0.14
43 26 0.31
44 5 0.06
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.22
Consensus pattern (42 bp):
AATCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGG
Found at i:43626328 original size:41 final size:41
Alignment explanation
Indices: 43626283--43626367 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
43626273 TTAGCAATCT
* *
43626283 CTTTTTGATCAGTGATTCGGGGAATCTACACTTAACAACCC
1 CTTTTCGATCAATGATTCGGGGAATCTACACTTAACAACCC
* * *
43626324 CTTTTCGATTAATGATTCGGGGAATCTGCACTTAGCAACCC
1 CTTTTCGATCAATGATTCGGGGAATCTACACTTAACAACCC
43626365 CTT
1 CTT
43626368 ACATTCAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (41 bp):
CTTTTCGATCAATGATTCGGGGAATCTACACTTAACAACCC
Found at i:43629380 original size:3 final size:3
Alignment explanation
Indices: 43629372--43629396 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43629362 TATATATTTT
43629372 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
43629397 AGAAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:43629472 original size:16 final size:16
Alignment explanation
Indices: 43629398--43629474 Score: 52
Period size: 16 Copynumber: 4.8 Consensus size: 16
43629388 TAATAATAAA
*
43629398 GAAAGAAAAAGAAATA-
1 GAAAG-AAAAGAAAAAG
43629414 GAAAGAACAAACGAAAAA-
1 GAAAG-A-AAA-GAAAAAG
* *
43629432 GAAAG-AAACATAAAG
1 GAAAGAAAAGAAAAAG
43629447 GAAAGAAAAGAAAAAG
1 GAAAGAAAAGAAAAAG
* *
43629463 GGAAGGAAAGAA
1 GAAAGAAAAGAA
43629475 GGAGAAAGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
14 4 0.08
15 8 0.16
16 25 0.50
17 3 0.06
18 10 0.20
ACGTcount: A:0.70, C:0.04, G:0.23, T:0.03
Consensus pattern (16 bp):
GAAAGAAAAGAAAAAG
Found at i:43630158 original size:2 final size:2
Alignment explanation
Indices: 43630153--43630180 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
43630143 TATATATATA
43630153 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
43630181 ATTATATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:43647764 original size:13 final size:13
Alignment explanation
Indices: 43647725--43647775 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
43647715 AGTTTGGCAA
43647725 TACTTTTGAAAAG
1 TACTTTTGAAAAG
* * *
43647738 TGCTGTGGAAAAG
1 TACTTTTGAAAAG
*
43647751 TACTTTTGAGAAG
1 TACTTTTGAAAAG
*
43647764 TGCTTTTGAAAA
1 TACTTTTGAAAA
43647776 ATTTGAGTGT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:43655121 original size:46 final size:46
Alignment explanation
Indices: 43655070--43655191 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 46
43655060 TGAGCTCATT
*
43655070 CATATGTTGCAGACTCGAGAATATAGAATTAGGTTCCAAGCTCCTG
1 CATATGTTGCAGACTCGAGAATACAGAATTAGGTTCCAAGCTCCTG
* * * * ** *
43655116 CATATGTTGCGGACTTGAGAATACGGAATTAGGTTTCGTGTTCCTG
1 CATATGTTGCAGACTCGAGAATACAGAATTAGGTTCCAAGCTCCTG
* *
43655162 TATCTGTTGCAGACTCGAGAATACAAGAAT
1 CATATGTTGCAGACTCGAGAATAC-AGAAT
43655192 ATTAAGCCTT
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
46 58 0.94
47 4 0.06
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (46 bp):
CATATGTTGCAGACTCGAGAATACAGAATTAGGTTCCAAGCTCCTG
Found at i:43657966 original size:47 final size:47
Alignment explanation
Indices: 43657888--43658536 Score: 1019
Period size: 47 Copynumber: 13.6 Consensus size: 47
43657878 CCCTTCGGGA
* * * * * * *
43657888 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43657935 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43657982 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43658029 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43658078 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43658125 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43658174 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43658221 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43658268 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43658315 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43658364 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43658411 CATATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43658460 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43658507 CTTATCACATATATATATACTTTCACATTC
1 CTTATCAC--ATATATACACTTTCACATTC
43658537 CACATATACT
Statistics
Matches: 560, Mismatches: 32, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
47 360 0.64
49 200 0.36
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43658085 original size:96 final size:96
Alignment explanation
Indices: 43657888--43658536 Score: 1090
Period size: 96 Copynumber: 6.8 Consensus size: 96
43657878 CCCTTCGGGA
* * * * * * * * *
43657888 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
43657951 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
43657982 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
43658047 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
43658078 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
43658143 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
43658174 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT--
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
43658237 ACTTTCACATTCATCACATCGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
43658268 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
43658333 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
43658364 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCATATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
43658429 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
43658460 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
43658525 ACTTTCACATTC
66 ACTTTCACATTC
43658537 CACATATACT
Statistics
Matches: 526, Mismatches: 25, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
94 137 0.26
96 389 0.74
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43658186 original size:143 final size:141
Alignment explanation
Indices: 43657888--43658536 Score: 1019
Period size: 143 Copynumber: 4.5 Consensus size: 141
43657878 CCCTTCGGGA
* * * * * * * * *
43657888 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
43657953 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACCTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
43658018 GGCCATTAGGC
131 GGCCATTAGGC
* *
43658029 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
43658094 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
43658159 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
* *
43658174 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
43658239 TTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
43658304 GGCCATTAGGC
131 GGCCATTAGGC
*
43658315 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
43658380 ACTTTCACATTCATCACATCGGCCATTAGGCCATATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
43658445 CATCGGCTATTAGGC
127 CATCGGCCATTAGGC
* *
43658460 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
43658525 ACTTTCACATTC
64 ACTTTCACATTC
43658537 CACATATACT
Statistics
Matches: 475, Mismatches: 23, Indels: 16
0.92 0.04 0.03
Matches are distributed among these distances:
141 55 0.12
143 309 0.65
145 111 0.23
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:43661797 original size:103 final size:103
Alignment explanation
Indices: 43661660--43662026 Score: 542
Period size: 103 Copynumber: 3.6 Consensus size: 103
43661650 TTGCATATAA
** * *
43661660 AGGGGTTGCTGTGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
43661725 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
66 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* *
43661763 AGGGGTTGCTAAGTGTTGATTCCCCTAC-CTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
*
43661827 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
65 TTAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* * *
43661866 AGGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
* *
43661931 TGAAATGT-GAAGGGGGTTGCTAAGTGCTGATTCCCCCA
65 TTAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
** * * *
43661969 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGG-TGCTAAGTGCGGAATCCACC
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACC
43662027 AACAACGGTT
Statistics
Matches: 243, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
101 18 0.07
102 8 0.03
103 178 0.73
104 39 0.16
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:43672485 original size:75 final size:75
Alignment explanation
Indices: 43672347--43672487 Score: 219
Period size: 75 Copynumber: 1.9 Consensus size: 75
43672337 GACTTACTAG
* * *
43672347 TTAACATTCAACCTTTCTTTTCTACCAACAAATTTACATATCAAACAACCTATATAGATTCATAT
1 TTAACATTCAACCTTTCTTTTCTACCAACAAATTTACATATCAAACAACCTATACAAAGTCATAT
43672412 TACTCATTAA
66 TACTCATTAA
* ** *
43672422 TTAACATTCAACCTTTCTTTTCTATCAGTAGATTTACATATCAAACAACCTATACAAAGTCATAT
1 TTAACATTCAACCTTTCTTTTCTACCAACAAATTTACATATCAAACAACCTATACAAAGTCATAT
43672487 T
66 T
43672488 TGCTTATTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 59 1.00
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (75 bp):
TTAACATTCAACCTTTCTTTTCTACCAACAAATTTACATATCAAACAACCTATACAAAGTCATAT
TACTCATTAA
Found at i:43682758 original size:25 final size:25
Alignment explanation
Indices: 43682728--43682776 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
43682718 AGATTTAGAG
43682728 TTTATTTTTGTTCGTCAAGATCTAA
1 TTTATTTTTGTTCGTCAAGATCTAA
43682753 TTTATTTTTGTTCGTCAAGATCTA
1 TTTATTTTTGTTCGTCAAGATCTA
43682777 CTCCTATGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.53
Consensus pattern (25 bp):
TTTATTTTTGTTCGTCAAGATCTAA
Found at i:43683814 original size:18 final size:18
Alignment explanation
Indices: 43683788--43683831 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
43683778 GACGTTGTTA
* * *
43683788 AAGACGAAGTTTTTGTTG
1 AAGAAGAAGTTGTTGCTG
*
43683806 AAGCAGAAGTTGTTGCTG
1 AAGAAGAAGTTGTTGCTG
43683824 AAGAAGAA
1 AAGAAGAA
43683832 AAAGTTGTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.07, G:0.30, T:0.27
Consensus pattern (18 bp):
AAGAAGAAGTTGTTGCTG
Found at i:43685175 original size:20 final size:20
Alignment explanation
Indices: 43685129--43685178 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
43685119 ATCATGGTCT
* *
43685129 TTGCTTTCTTCTTTACTTGC
1 TTGCTTACTTCTTTACTTAC
*
43685149 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTCTTTACTTAC
43685169 TTGCTTACTT
1 TTGCTTACTT
43685179 AAATAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.10, C:0.24, G:0.08, T:0.58
Consensus pattern (20 bp):
TTGCTTACTTCTTTACTTAC
Found at i:43685482 original size:50 final size:49
Alignment explanation
Indices: 43685354--43685539 Score: 153
Period size: 50 Copynumber: 3.8 Consensus size: 49
43685344 GATAATAACA
* * * *
43685354 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCCTGTA-C-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-G-TTCTTATATCG
* * * * *
43685403 TGCCAATCCCATATCCTAGATATGATCTTACATGGGAGTTCTTATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTTATATC-G
* * ** * * *
43685453 TGCCCATGCCATGTCCTAGACATGGTCTTACGA-GGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGAGTTCTTAT-ATCG
*
43685503 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
43685540 TCTCATTCCT
Statistics
Matches: 109, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
47 6 0.06
48 2 0.02
49 31 0.28
50 68 0.62
51 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTTATATCG
Found at i:43686574 original size:47 final size:47
Alignment explanation
Indices: 43686504--43686726 Score: 290
Period size: 47 Copynumber: 4.7 Consensus size: 47
43686494 ATTCATCAAT
* * *
43686504 TTGGGCAGCATATATATACAACAATTTGGGTAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGT--AACAAATTGGGTAGCATTTAAGCATCAAAA
*
43686553 TTGGACAGCATATATGTAACAAATTGGGTAGCATTTAGGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGTAGCATTTAAGCATCAAAA
* * *
43686600 TTGAACAACATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGTAGCATTTAAGCATCAAAA
** *
43686647 TTGGACAGCAT-TAACTAACAAATTGGGCAGCATTT-AGACATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGTAGCATTTAAG-CATCAAAA
* *
43686693 TTGGACAACAT-TATGTATCAAATTGGGTAGCATT
1 TTGGACAGCATATATGTAACAAATTGGGTAGCATT
43686727 ATGTAACAAA
Statistics
Matches: 156, Mismatches: 17, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
45 2 0.01
46 59 0.38
47 80 0.51
49 15 0.10
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (47 bp):
TTGGACAGCATATATGTAACAAATTGGGTAGCATTTAAGCATCAAAA
Found at i:43686764 original size:113 final size:114
Alignment explanation
Indices: 43686612--43686832 Score: 374
Period size: 113 Copynumber: 1.9 Consensus size: 114
43686602 GAACAACATA
43686612 TATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTAACTAACAAATTGGGCAG
1 TATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTAACTAACAAATTGGGCAG
*
43686677 CATTT-AGACATCAAAATTGGACAACATTATGTATCAAATTGGGTAGCAT
66 CATTTAAG-CATCAAAATTGGACAACATTATGTAACAAATTGGGTAGCAT
* **
43686726 TATGTAACAAATTGGGCAG-ATTTAGGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAG
1 TATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTAACTAACAAATTGGGCAG
*
43686790 CATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGG
66 CATTTAAGCATCAAAATTGGACAACATTATGTAACAAATTGGG
43686833 CGGCATTTAG
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
113 80 0.79
114 21 0.21
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (114 bp):
TATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTAACTAACAAATTGGGCAG
CATTTAAGCATCAAAATTGGACAACATTATGTAACAAATTGGGTAGCAT
Found at i:43686799 original size:159 final size:161
Alignment explanation
Indices: 43686550--43686885 Score: 550
Period size: 159 Copynumber: 2.1 Consensus size: 161
43686540 TTAAGCATCA
** *
43686550 AAATTGGACAGCATATATGTAACAAATTGGGTAGCATTTAGGCATCAAAATTGAACAACATATAT
1 AAATTGGGTAGCAT-TATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAACATATAT
43686615 GTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTAACTAACAAATTGGGCAGCAT
65 GTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTAACTAACAAATTGGGCAGCAT
*
43686680 TTAGACATCAAAATTGGACAACATTATGTATC
130 TTAGACATCAAAATTGGACAACATTATGTAAC
* *
43686712 AAATTGGGTAGCATTATGTAACAAATTGGGCAG-ATTTAGGCATCAAAATTGGACAGCAT-TATG
1 AAATTGGGTAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAACATATATG
** *
43686775 TAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCGGCATT
66 TAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTAACTAACAAATTGGGCAGCATT
* *
43686840 TAGGCATCAAAATTGGACAGCATTATGTAAC
131 TAGACATCAAAATTGGACAACATTATGTAAC
43686871 AAATTGGGTAGCATT
1 AAATTGGGTAGCATT
43686886 TAAGCATCAA
Statistics
Matches: 163, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
159 109 0.67
160 24 0.15
161 18 0.11
162 12 0.07
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (161 bp):
AAATTGGGTAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAACATATATG
TAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTAACTAACAAATTGGGCAGCATT
TAGACATCAAAATTGGACAACATTATGTAAC
Found at i:43686812 original size:46 final size:46
Alignment explanation
Indices: 43686712--43686988 Score: 475
Period size: 46 Copynumber: 6.0 Consensus size: 46
43686702 ATTATGTATC
**
43686712 AAATTGGGTAGCATTATGTAACAAATTGGGCAG-ATTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
*
43686757 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
*
43686803 AAATTGGACAGCATTATGTAACAAATTGGGCGGCATTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
* *
43686849 AAATTGGACAGCATTATGTAACAAATTGGGTAGCATTTAAGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
43686895 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
* *
43686941 AAATTGGACAGCATTATGCAACAAATTGGGCAGCATTTATGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
43686987 AA
1 AA
43686989 TCAATCCATC
Statistics
Matches: 219, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
45 31 0.14
46 188 0.86
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (46 bp):
AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
Found at i:43686898 original size:205 final size:208
Alignment explanation
Indices: 43686504--43686931 Score: 648
Period size: 205 Copynumber: 2.1 Consensus size: 208
43686494 ATTCATCAAT
* * *
43686504 TTGGGCAGCATATATATACAACAATTTGGGTAGCATTTAAGCATCAAAATTGGACAGCATATATG
1 TTGGGCAGCAT-TATGT--AACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATG
* *
43686569 TAACAAATTGGGTAGCATTTAGGCATCAAAATTGAACAACATATATGTAACAAATTGGGCAGCAT
63 TAACAAATTGGGCAGCATTTAAGCATCAAAATTGAACAACATATATGTAACAAATTGGGCAGCAT
43686634 TTAAGCATCAAAATTGGACAGCATTAACTAACAAATTGGGCAGCATTTAGACATCAAAATTGGAC
128 TTAAGCATCAAAATTGGACAGCATTAACTAACAAATTGGGCAGCATTTAGACATCAAAATTGGAC
*
43686699 AACATTATGTATCAAA
193 AACATTATGTAACAAA
* *
43686715 TTGGGTAGCATTATGTAACAAATTGGGCAG-ATTTAGGCATCAAAATTGGACAGCAT-TATGTAA
1 TTGGGCAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
* * *
43686778 CAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCAT-TATGTAACAAATTGGGCGGCATTTA
66 CAAATTGGGCAGCATTTAAGCATCAAAATTGAACAACATATATGTAACAAATTGGGCAGCATTTA
* ** * *
43686842 GGCATCAAAATTGGACAGCATTATGTAACAAATTGGGTAGCATTTA-AGCATCAAAATTGGACAG
131 AGCATCAAAATTGGACAGCATTAACTAACAAATTGGGCAGCATTTAGA-CATCAAAATTGGACAA
43686906 CATTATGTAACAAA
195 CATTATGTAACAAA
43686920 TTGGGCAGCATT
1 TTGGGCAGCATT
43686932 TAGGCATCAA
Statistics
Matches: 199, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
204 1 0.01
205 105 0.53
206 42 0.21
207 25 0.13
208 12 0.06
210 4 0.02
211 10 0.05
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (208 bp):
TTGGGCAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
CAAATTGGGCAGCATTTAAGCATCAAAATTGAACAACATATATGTAACAAATTGGGCAGCATTTA
AGCATCAAAATTGGACAGCATTAACTAACAAATTGGGCAGCATTTAGACATCAAAATTGGACAAC
ATTATGTAACAAA
Found at i:43686982 original size:23 final size:23
Alignment explanation
Indices: 43686491--43686989 Score: 354
Period size: 23 Copynumber: 21.6 Consensus size: 23
43686481 TTGAACTGCT
* *
43686491 TTTATTCATCAATTTGGGCAGCA
1 TTTATGCATCAAATTGGGCAGCA
* * * *
43686514 TATATATACAACAATTTGGGTAGCA
1 T-T-TATGCATCAAATTGGGCAGCA
* *
43686539 TTTAAGCATCAAAATTGGACAGCA
1 TTTATGCATC-AAATTGGGCAGCA
* * * *
43686563 TATATGTAACAAATTGGGTAGCA
1 TTTATGCATCAAATTGGGCAGCA
* ** *
43686586 TTTAGGCATCAAAATTGAACAACA
1 TTTATGCATC-AAATTGGGCAGCA
* * *
43686610 TATATGTAACAAATTGGGCAGCA
1 TTTATGCATCAAATTGGGCAGCA
* *
43686633 TTTAAGCATCAAAATTGGACAGCA
1 TTTATGCATC-AAATTGGGCAGCA
* *
43686657 -TTA-ACTAACAAATTGGGCAGCA
1 TTTATGC-ATCAAATTGGGCAGCA
* *
43686679 TTTA-GACATCAAAATTGGACAACA
1 TTTATG-CATC-AAATTGGGCAGCA
* *
43686703 -TTATGTATCAAATTGGGTAGCA
1 TTTATGCATCAAATTGGGCAGCA
* *
43686725 -TTATGTAACAAATTGGGCAG-A
1 TTTATGCATCAAATTGGGCAGCA
* *
43686746 TTTAGGCATCAAAATTGGACAGCA
1 TTTATGCATC-AAATTGGGCAGCA
* *
43686770 -TTATGTAACAAATTGGGCAGCA
1 TTTATGCATCAAATTGGGCAGCA
* *
43686792 TTTAAGCATCAAAATTGGACAGCA
1 TTTATGCATC-AAATTGGGCAGCA
* * *
43686816 -TTATGTAACAAATTGGGCGGCA
1 TTTATGCATCAAATTGGGCAGCA
* *
43686838 TTTAGGCATCAAAATTGGACAGCA
1 TTTATGCATC-AAATTGGGCAGCA
* * *
43686862 -TTATGTAACAAATTGGGTAGCA
1 TTTATGCATCAAATTGGGCAGCA
* *
43686884 TTTAAGCATCAAAATTGGACAGCA
1 TTTATGCATC-AAATTGGGCAGCA
* *
43686908 -TTATGTAACAAATTGGGCAGCA
1 TTTATGCATCAAATTGGGCAGCA
* *
43686930 TTTAGGCATCAAAATTGGACAGCA
1 TTTATGCATC-AAATTGGGCAGCA
*
43686954 -TTATGCAACAAATTGGGCAGCA
1 TTTATGCATCAAATTGGGCAGCA
43686976 TTTATGCATCAAAT
1 TTTATGCATCAAAT
43686990 CAATCCATCA
Statistics
Matches: 362, Mismatches: 92, Indels: 44
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.00
22 105 0.29
23 132 0.36
24 105 0.29
25 19 0.05
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (23 bp):
TTTATGCATCAAATTGGGCAGCA
Found at i:43687864 original size:43 final size:43
Alignment explanation
Indices: 43687808--43687931 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
43687798 AACTCATACA
* * *
43687808 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATA-CCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAACACA-AGCCG
* * * *
43687851 ATGCTACTGTCCCAGACAG-GGTCTTACACGTAAACAGAAGTCG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAAACACAAGCCG
43687894 ATGCCAATGTCCCAGACGTGGTCTTACACG-ATAACACA
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTA-AACACA
43687932 TATCGAAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 3 0.04
43 63 0.94
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAAACACAAGCCG
Found at i:43694789 original size:23 final size:23
Alignment explanation
Indices: 43694677--43695180 Score: 364
Period size: 23 Copynumber: 21.8 Consensus size: 23
43694667 CCTATTTGAA
* * *
43694677 CAGCTTTTATTCATCAATTTGGG
1 CAGCATTTATGCATCAAATTGGG
* * *
43694700 CAGCATATATATACAACAATTTGGG
1 CAGCAT-T-TATGCATCAAATTGGG
* * *
43694725 TAGCATTTAAGCATCAAAATTGGA
1 CAGCATTTATGCATC-AAATTGGG
* * * *
43694749 CAGTATATATGTAACAAATTGGG
1 CAGCATTTATGCATCAAATTGGG
* **
43694772 CAGCATTTAGGCATCAAAATTGAA
1 CAGCATTTATGCATC-AAATTGGG
* * *
43694796 CAGCATATATGTAACAAATTGGG
1 CAGCATTTATGCATCAAATTGGG
* *
43694819 CAGCATTTAAGCATCAAAATTGGA
1 CAGCATTTATGCATC-AAATTGGG
*
43694843 CAGCA-TTAT-CTAACAAATTGGG
1 CAGCATTTATGC-ATCAAATTGGG
*
43694865 CAGCATTTA-GACATCAAAATTGGA
1 CAGCATTTATG-CATC-AAATTGGG
*
43694889 CAGCA-TTATGTATCAAATTGGG
1 CAGCATTTATGCATCAAATTGGG
* * *
43694911 TAGCA-TTATGTAACAAATTGGG
1 CAGCATTTATGCATCAAATTGGG
* *
43694933 CAG-ATTTAGGCATCAAAATTGGA
1 CAGCATTTATGCATC-AAATTGGG
* *
43694956 CAGCA-TTATGTAACAAATTGGG
1 CAGCATTTATGCATCAAATTGGG
* * *
43694978 TAGCATTTAAGCATCAAAATTGGA
1 CAGCATTTATGCATC-AAATTGGG
* *
43695002 CAGCA-TTATGTAACAAATTGGG
1 CAGCATTTATGCATCAAATTGGG
* *
43695024 CAGCATTTAGGCATCAAAATTGGA
1 CAGCATTTATGCATC-AAATTGGG
* * *
43695048 TAGCA-TTATGTAACAAATTGGG
1 CAGCATTTATGCATCAAATTGGG
* * *
43695070 CAGTATTTAAGCATCAAAATTGGA
1 CAGCATTTATGCATC-AAATTGGG
* *
43695094 CAGCA-TTATGTAACAAATTGGG
1 CAGCATTTATGCATCAAATTGGG
* *
43695116 CAGCATTTAGGCATCAAAATTGGA
1 CAGCATTTATGCATC-AAATTGGG
* *
43695140 CAGCA-TTATGCAACAAATTTGG
1 CAGCATTTATGCATCAAATTGGG
43695162 CAGCATTTATGCATCAAAT
1 CAGCATTTATGCATCAAAT
43695181 CAATCCATCA
Statistics
Matches: 367, Mismatches: 91, Indels: 46
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.00
22 104 0.28
23 137 0.37
24 106 0.29
25 19 0.05
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (23 bp):
CAGCATTTATGCATCAAATTGGG
Found at i:43694880 original size:46 final size:47
Alignment explanation
Indices: 43694695--43694917 Score: 308
Period size: 47 Copynumber: 4.7 Consensus size: 47
43694685 ATTCATCAAT
* * * *
43694695 TTGGGCAGCATATATATACAACAATTTGGGTAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGT--AACAAATTGGGCAGCATTTAAGCATCAAAA
* *
43694744 TTGGACAGTATATATGTAACAAATTGGGCAGCATTTAGGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
43694791 TTGAACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
43694838 TTGGACAGCAT-TATCTAACAAATTGGGCAGCATTT-AGACATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAG-CATCAAAA
* *
43694884 TTGGACAGCAT-TATGTATCAAATTGGGTAGCATT
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATT
43694918 ATGTAACAAA
Statistics
Matches: 159, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
45 2 0.01
46 62 0.39
47 81 0.51
49 14 0.09
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (47 bp):
TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
Found at i:43694955 original size:113 final size:114
Alignment explanation
Indices: 43694796--43695030 Score: 393
Period size: 113 Copynumber: 2.1 Consensus size: 114
43694786 CAAAATTGAA
43694796 CAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAAT
1 CAGCAT-TATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAAT
*
43694861 TGGGCAGCATTT-AGACATCAAAATTGGACAGCATTATGTATCAAATTGGG
65 TGGGCAGCATTTAAG-CATCAAAATTGGACAGCATTATGTAACAAATTGGG
* * *
43694911 TAGCATTATGTAACAAATTGGGCAG-ATTTAGGCATCAAAATTGGACAGCATTATGTAACAAATT
1 CAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATT
*
43694975 GGGTAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGG
66 GGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGG
43695024 CAGCATT
1 CAGCATT
43695031 TAGGCATCAA
Statistics
Matches: 113, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
113 87 0.77
114 21 0.19
115 5 0.04
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (114 bp):
CAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATT
GGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGG
Found at i:43694990 original size:159 final size:161
Alignment explanation
Indices: 43694756--43695069 Score: 560
Period size: 159 Copynumber: 2.0 Consensus size: 161
43694746 GGACAGTATA
43694756 TATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAGCATATATGTAACAAATTGGGCA
1 TATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAGCATATATGTAACAAATTGGGCA
43694821 GCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATT
66 GCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATT
*
43694886 GGACAGCATTATGTATCAAATTGGGTAGCAT
131 GGACAGCATTATGTAACAAATTGGGTAGCAT
* *
43694917 TATGTAACAAATTGGGCAG-ATTTAGGCATCAAAATTGGACAGCAT-TATGTAACAAATTGGGTA
1 TATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAGCATATATGTAACAAATTGGGCA
* *
43694980 GCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCAAAATT
66 GCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATT
*
43695045 GGATAGCATTATGTAACAAATTGGG
131 GGACAGCATTATGTAACAAATTGGG
43695070 CAGTATTTAA
Statistics
Matches: 147, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
159 103 0.70
160 25 0.17
161 19 0.13
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (161 bp):
TATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAGCATATATGTAACAAATTGGGCA
GCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATT
GGACAGCATTATGTAACAAATTGGGTAGCAT
Found at i:43695003 original size:46 final size:46
Alignment explanation
Indices: 43694881--43695179 Score: 460
Period size: 46 Copynumber: 6.6 Consensus size: 46
43694871 TTAGACATCA
* * * **
43694881 AAATTGGACAGCA-TTATGTATC-AAATTGGGTAGCATTATGTAAC
1 AAATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGTAAC
43694925 AAATTGGGCAG-ATTTAGGCATCAAAATTGGACAGCATTATGTAAC
1 AAATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGTAAC
* *
43694970 AAATTGGGTAGCATTTAAGCATCAAAATTGGACAGCATTATGTAAC
1 AAATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGTAAC
*
43695016 AAATTGGGCAGCATTTAGGCATCAAAATTGGATAGCATTATGTAAC
1 AAATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGTAAC
* *
43695062 AAATTGGGCAGTATTTAAGCATCAAAATTGGACAGCATTATGTAAC
1 AAATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGTAAC
*
43695108 AAATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGCAAC
1 AAATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGTAAC
* *
43695154 AAATTTGGCAGCATTTATGCATCAAA
1 AAATTGGGCAGCATTTAGGCATCAAA
43695180 TCAATCCATC
Statistics
Matches: 234, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
43 1 0.00
44 17 0.07
45 30 0.13
46 186 0.79
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (46 bp):
AAATTGGGCAGCATTTAGGCATCAAAATTGGACAGCATTATGTAAC
Found at i:43695113 original size:205 final size:208
Alignment explanation
Indices: 43694695--43695122 Score: 666
Period size: 205 Copynumber: 2.1 Consensus size: 208
43694685 ATTCATCAAT
* * * *
43694695 TTGGGCAGCATATATATACAACAATTTGGGTAGCATTTAAGCATCAAAATTGGACAGTATATATG
1 TTGGGCAGCAT-TATGT--AACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATG
*
43694760 TAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAGCATATATGTAACAAATTGGGCAGCAT
63 TAACAAATTGGGCAGCATTTAAGCATCAAAATTGAACAGCATATATGTAACAAATTGGGCAGCAT
43694825 TTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATTGGAC
128 TTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATTGGAC
*
43694890 AGCATTATGTATCAAA
193 AGCATTATGTAACAAA
* *
43694906 TTGGGTAGCATTATGTAACAAATTGGGCAG-ATTTAGGCATCAAAATTGGACAGCAT-TATGTAA
1 TTGGGCAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
* *
43694969 CAAATTGGGTAGCATTTAAGCATCAAAATTGGACAGCAT-TATGTAACAAATTGGGCAGCATTTA
66 CAAATTGGGCAGCATTTAAGCATCAAAATTGAACAGCATATATGTAACAAATTGGGCAGCATTTA
* * * *
43695033 GGCATCAAAATTGGATAGCATTATGTAACAAATTGGGCAGTATTTA-AGCATCAAAATTGGACAG
131 AGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGA-CATCAAAATTGGACAG
43695097 CATTATGTAACAAA
195 CATTATGTAACAAA
43695111 TTGGGCAGCATT
1 TTGGGCAGCATT
43695123 TAGGCATCAA
Statistics
Matches: 201, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
204 1 0.00
205 107 0.53
206 43 0.21
207 24 0.12
208 12 0.06
210 4 0.02
211 10 0.05
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (208 bp):
TTGGGCAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
CAAATTGGGCAGCATTTAAGCATCAAAATTGAACAGCATATATGTAACAAATTGGGCAGCATTTA
AGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATTGGACAGC
ATTATGTAACAAA
Found at i:43696063 original size:43 final size:43
Alignment explanation
Indices: 43695997--43696122 Score: 152
Period size: 43 Copynumber: 2.9 Consensus size: 43
43695987 AACTCGTACA
43695997 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATA-CCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAA-CACATAGCCG
* * *
43696040 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAAGACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGT-AACACATAGCCG
43696083 ATGCCAACGTCCCAGACGTGGTCTTACATGATAACACATA
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-TAACACATA
43696123 TCGGAAATCC
Statistics
Matches: 70, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
42 4 0.06
43 59 0.84
44 7 0.10
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAACACATAGCCG
Found at i:43701295 original size:25 final size:25
Alignment explanation
Indices: 43701205--43701346 Score: 144
Period size: 25 Copynumber: 5.7 Consensus size: 25
43701195 TCATGTACAT
* *
43701205 GTATGCTCAT-ACGAGCTATGAATCG
1 GTATGCTC-TCACGAGCTATAAATTG
* * * * *
43701230 GTATGCTCACTCGAGCCATAGATTA
1 GTATGCTCTCACGAGCTATAAATTG
* *
43701255 GTATGCTCTTAGGAGCTAT-AATTCG
1 GTATGCTCTCACGAGCTATAAATT-G
43701280 GTATGCTCTCACGAGCTATAAATTG
1 GTATGCTCTCACGAGCTATAAATTG
* * *
43701305 GCATGCTCTCATGAGATATAAATTG
1 GTATGCTCTCACGAGCTATAAATTG
43701330 GTATGCTCTCACGAGCT
1 GTATGCTCTCACGAGCT
43701347 GTGGGTTATC
Statistics
Matches: 92, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
24 3 0.03
25 85 0.92
26 4 0.04
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATAAATTG
Found at i:43708947 original size:18 final size:18
Alignment explanation
Indices: 43708920--43708962 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
43708910 CATTTGGTAT
43708920 CGATACTTCTATGAGTAC
1 CGATACTTCTATGAGTAC
* *
43708938 CGATATTTCTATGAGTAT
1 CGATACTTCTATGAGTAC
43708956 CGATACT
1 CGATACT
43708963 ATTCAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (18 bp):
CGATACTTCTATGAGTAC
Found at i:43712122 original size:18 final size:19
Alignment explanation
Indices: 43712099--43712139 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
43712089 AATATTACAC
43712099 ATTTCAATTTT-ACATTAA
1 ATTTCAATTTTCACATTAA
*
43712117 ATTTCAATTTTCACATTAT
1 ATTTCAATTTTCACATTAA
43712136 ATTT
1 ATTT
43712140 TGCTTATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTCAATTTTCACATTAA
Found at i:43717305 original size:25 final size:24
Alignment explanation
Indices: 43717274--43717324 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
43717264 ATGGTTTTAA
43717274 TTAATTTTTAAATTTTTTATAAATT
1 TTAA-TTTTAAATTTTTTATAAATT
** *
43717299 TTAATTTTATGTTTTTTATATATT
1 TTAATTTTAAATTTTTTATAAATT
43717323 TT
1 TT
43717325 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTAATTTTAAATTTTTTATAAATT
Found at i:43723911 original size:94 final size:94
Alignment explanation
Indices: 43723794--43724041 Score: 298
Period size: 94 Copynumber: 2.6 Consensus size: 94
43723784 GAGTTTGCCG
* * *
43723794 AGACAGTAAACACGGGGTAGTCTGCCATGACGTTAAACATGGGGTTACATGTGTAAGACCTTATC
1 AGACAGTAAACACGGGGTAGTCTGCCAGGACATTAAACATGGGGTTACATGTGTAAGACCTTAGC
* * *
43723859 TCAACTATGGCAATATAAGGAGTCCATCA
66 TCAACTATGGAAACATAAGGAGCCCATCA
* ** *
43723888 AGACAGCAAACACGGGGTAGTCTGTTAGGATATTAAACATGGGGTTACATGTGTAAGACCTTAGC
1 AGACAGTAAACACGGGGTAGTCTGCCAGGACATTAAACATGGGGTTACATGTGTAAGACCTTAGC
*** ** *
43723953 TTGGCTATGGAAACATGGGGAGCCCATCG
66 TCAACTATGGAAACATAAGGAGCCCATCA
* * * ** *
43723982 TGATAGTAAACATGGGGTAGTCCACCAGGACATTTAACATGGGGTTACATGTGTAAGACC
1 AGACAGTAAACACGGGGTAGTCTGCCAGGACATTAAACATGGGGTTACATGTGTAAGACC
43724042 ATAGTTTGGC
Statistics
Matches: 128, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
94 128 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (94 bp):
AGACAGTAAACACGGGGTAGTCTGCCAGGACATTAAACATGGGGTTACATGTGTAAGACCTTAGC
TCAACTATGGAAACATAAGGAGCCCATCA
Found at i:43735145 original size:20 final size:21
Alignment explanation
Indices: 43735120--43735158 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43735110 TATGGTCGGT
*
43735120 AAAATTT-TAACAATATAATG
1 AAAATTTATAACAAAATAATG
43735140 AAAATTTATAACAAAATAA
1 AAAATTTATAACAAAATAA
43735159 CATAAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAATTTATAACAAAATAATG
Found at i:43740468 original size:23 final size:23
Alignment explanation
Indices: 43740438--43740481 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
43740428 CTAGAAGTAA
*
43740438 TGATTACTTATATAACAATTTCT
1 TGATTACTTATAAAACAATTTCT
43740461 TGATTACTTATAAAACAATTT
1 TGATTACTTATAAAACAATTT
43740482 GGCGTATACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (23 bp):
TGATTACTTATAAAACAATTTCT
Found at i:43741566 original size:39 final size:38
Alignment explanation
Indices: 43741508--43741581 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
43741498 CTAACACTCA
**
43741508 CACCAACTGGTTAGTAACTAACATAG-CCTACCAGTGGC
1 CACCAACTGGTTAACAACTAACAT-GTCCTACCAGTGGC
43741546 CACCAAACTGGTTAACAACTAACATGTCCTACCAGT
1 CACC-AACTGGTTAACAACTAACATGTCCTACCAGT
43741582 TGCCTATCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.22
Consensus pattern (38 bp):
CACCAACTGGTTAACAACTAACATGTCCTACCAGTGGC
Found at i:43746300 original size:40 final size:40
Alignment explanation
Indices: 43746240--43746339 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
43746230 TCGAAATGCT
* * *
43746240 AACAAAGGCACCGAAGTGCATACAAAGGTACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCATACAAAGGTACCAAAGTGCA
* * *
43746280 AACAGAGGCACTAAAGTGCATACAGAGGTACTAAAGTGCA
1 AACAGAGGCACCAAAGTGCATACAAAGGTACCAAAGTGCA
*
43746320 AACATAGGCACCAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
43746340 AAAAGAGGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (40 bp):
AACAGAGGCACCAAAGTGCATACAAAGGTACCAAAGTGCA
Found at i:43746348 original size:20 final size:20
Alignment explanation
Indices: 43746240--43746349 Score: 112
Period size: 20 Copynumber: 5.5 Consensus size: 20
43746230 TCGAAATGCT
* *
43746240 AACAAAGGCACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCA
* * * *
43746260 TACAAAGGTACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCA
*
43746280 AACAGAGGCACTAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
* * *
43746300 TACAGAGGTACTAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
*
43746320 AACATAGGCACCAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
*
43746340 AAAAGAGGCA
1 AACAGAGGCA
43746350 TTGAAGTGTA
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.45, C:0.20, G:0.25, T:0.11
Consensus pattern (20 bp):
AACAGAGGCACCAAAGTGCA
Found at i:43747406 original size:69 final size:70
Alignment explanation
Indices: 43747311--43747445 Score: 227
Period size: 69 Copynumber: 1.9 Consensus size: 70
43747301 TGGAAGAAAG
* *
43747311 AATTTTTTTTAATGTTTTTATGTTTTAACTAATGTTTATAATTTTAATTAATTAACAAATACATT
1 AATTTGTTTTAATGTTTTTATGTTTTAACTAATGTTTATAATTTTAATTAACTAACAAATACATT
43747376 ACTTT
66 ACTTT
* *
43747381 AATTTGTTTT-ATGTTTTTATGTTTTAACTCATGTTTATAATTTTAGTTAACTAACAAATACATT
1 AATTTGTTTTAATGTTTTTATGTTTTAACTAATGTTTATAATTTTAATTAACTAACAAATACATT
43747445 A
66 A
43747446 TTTTCATTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 52 0.85
70 9 0.15
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (70 bp):
AATTTGTTTTAATGTTTTTATGTTTTAACTAATGTTTATAATTTTAATTAACTAACAAATACATT
ACTTT
Found at i:43753051 original size:16 final size:17
Alignment explanation
Indices: 43753023--43753054 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43753013 TACTTAATGA
43753023 TTAAAATATATAATATT
1 TTAAAATATATAATATT
43753040 TTAAAATA-ATAATAT
1 TTAAAATATATAATAT
43753055 CATCAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAAATATATAATATT
Found at i:43756932 original size:58 final size:58
Alignment explanation
Indices: 43756756--43756935 Score: 269
Period size: 57 Copynumber: 3.1 Consensus size: 58
43756746 TTTTCCAAAT
*
43756756 CATTTTCATTTTCATTTAGGAGAAAACCGTATTCATTTCCAAATGTTT-TCATTTCTC
1 CATTTTCATTTTCATTTAGGAGAAAACCATATTCATTTCCAAATGTTTCTCATTTCTC
43756813 CATTTTCATTTTCATTTAGGAGAAAACCATATTCATTTCCAAATGTTTC-CATTTCTC
1 CATTTTCATTTTCATTTAGGAGAAAACCATATTCATTTCCAAATGTTTCTCATTTCTC
* * * *
43756870 CATTTTCAATTTCCTTTTA-GAGAAAACCATA-ACAATTTTCAAATGTTTCTCATTTCTC
1 CATTTTC-ATTTTCATTTAGGAGAAAACCATATTC-ATTTCCAAATGTTTCTCATTTCTC
43756928 CATTTTCA
1 CATTTTCA
43756936 CAATTTCTAT
Statistics
Matches: 114, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
56 1 0.01
57 89 0.78
58 24 0.21
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (58 bp):
CATTTTCATTTTCATTTAGGAGAAAACCATATTCATTTCCAAATGTTTCTCATTTCTC
Found at i:43758910 original size:40 final size:39
Alignment explanation
Indices: 43758866--43759023 Score: 158
Period size: 40 Copynumber: 3.9 Consensus size: 39
43758856 TGATATCAAT
* *
43758866 TATGTCCGTTTGAGCCATACCTAGTGAATCTACTAAAACG
1 TATGTCC-TTTGAGCCATACCTACTGAATCTACTGAAACG
* *
43758906 TATGTTCTTTCGAGCCATACCTACTGAATCTACTGAAATG
1 TATGTCCTTT-GAGCCATACCTACTGAATCTACTGAAACG
* * *
43758946 AATG-CGCTTTTGAGCCATACCTACTGATTCCACTGAAACG
1 TATGTC-C-TTTGAGCCATACCTACTGAATCTACTGAAACG
* * *
43758986 TATG-CGCTATCGAGCCTTACCTACTGATTCTACTGAAA
1 TATGTC-CT-TTGAGCCATACCTACTGAATCTACTGAAA
43759024 TTATGCTTTA
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
39 4 0.04
40 94 0.93
41 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (39 bp):
TATGTCCTTTGAGCCATACCTACTGAATCTACTGAAACG
Found at i:43759007 original size:80 final size:80
Alignment explanation
Indices: 43758874--43759024 Score: 221
Period size: 80 Copynumber: 1.9 Consensus size: 80
43758864 ATTATGTCCG
* * ** *
43758874 TTTGAGCCATACCTAGTGAATCTACTAAAACGTATGTTCTTTCGAGCCATACCTACTGAATCTAC
1 TTTGAGCCATACCTACTGAATCCACTAAAACGTATGCGCTATCGAGCCATACCTACTGAATCTAC
43758939 TGAAATGAATGCGCT
66 TGAAATGAATGCGCT
* * * *
43758954 TTTGAGCCATACCTACTGATTCCACTGAAACGTATGCGCTATCGAGCCTTACCTACTGATTCTAC
1 TTTGAGCCATACCTACTGAATCCACTAAAACGTATGCGCTATCGAGCCATACCTACTGAATCTAC
43759019 TGAAAT
66 TGAAAT
43759025 TATGCTTTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (80 bp):
TTTGAGCCATACCTACTGAATCCACTAAAACGTATGCGCTATCGAGCCATACCTACTGAATCTAC
TGAAATGAATGCGCT
Found at i:43759046 original size:39 final size:39
Alignment explanation
Indices: 43758877--43759056 Score: 150
Period size: 40 Copynumber: 4.5 Consensus size: 39
43758867 ATGTCCGTTT
* * * * *
43758877 GAGCCATACCTAGTGAATCTACTAAAACGTATG-TTCTTTC
1 GAGCCATACCTACTGATTCTACTGAAA-TTATGCTT-TATC
* *
43758917 GAGCCATACCTACTGAATCTACTGAAATGAATGCGCTTT-T-
1 GAGCCATACCTACTGATTCTACTGAAAT-TAT--GCTTTATC
* * **
43758957 GAGCCATACCTACTGATTCCACTGAAACGTATGCGCTATC
1 GAGCCATACCTACTGATTCTACTGAAA-TTATGCTTTATC
*
43758997 GAGCCTTACCTACTGATTCTACTGAAATTATGCTTTATC
1 GAGCCATACCTACTGATTCTACTGAAATTATGCTTTATC
* * *
43759036 AATCCATACCTAATGATTCTA
1 GAGCCATACCTACTGATTCTA
43759057 GTGGAAGTTG
Statistics
Matches: 114, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 27 0.24
40 79 0.69
41 1 0.01
42 2 0.02
43 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.32
Consensus pattern (39 bp):
GAGCCATACCTACTGATTCTACTGAAATTATGCTTTATC
Found at i:43764856 original size:74 final size:74
Alignment explanation
Indices: 43764772--43764921 Score: 228
Period size: 74 Copynumber: 2.0 Consensus size: 74
43764762 AGTGGGCCAT
* *
43764772 GGCCCCCCAAGGTTTAAAATTTTTTCAATTTAGCCCTTTGTAGATATACTATGGCCCTCCCAAAA
1 GGCCCCCCAAGGTTTAAAATTTTTGCAATTTAGCCCTTTGTAGATATACTATAGCCCTCCCAAAA
*
43764837 ATATAAGTA
66 ATACAAGTA
** ** *
43764846 GGCCCCCCAAGGTTTAAGCTTTTTGCAATTTTTCCCTTTGTATATATACTATAGCCCTCCCAAAA
1 GGCCCCCCAAGGTTTAAAATTTTTGCAATTTAGCCCTTTGTAGATATACTATAGCCCTCCCAAAA
43764911 ATACAAGTA
66 ATACAAGTA
43764920 GG
1 GG
43764922 GCCTTCCAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (74 bp):
GGCCCCCCAAGGTTTAAAATTTTTGCAATTTAGCCCTTTGTAGATATACTATAGCCCTCCCAAAA
ATACAAGTA
Found at i:43765323 original size:18 final size:18
Alignment explanation
Indices: 43765296--43765334 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
43765286 TTCTAAATGT
*
43765296 AAAAGAAAAAT-CAAACA
1 AAAAGAAAAATAAAAACA
43765313 AAAATGAAAAATAAAAACA
1 AAAA-GAAAAATAAAAACA
43765332 AAA
1 AAA
43765335 GCAACCCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 7 0.37
19 8 0.42
ACGTcount: A:0.79, C:0.08, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAAGAAAAATAAAAACA
Found at i:43772664 original size:27 final size:28
Alignment explanation
Indices: 43772624--43772692 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
43772614 TTAATTGAAT
*
43772624 TCTT-TTCTCCTTCTTGTTACGTTTTTTC
1 TCTTCTTCT-CTTCTTCTTACGTTTTTTC
**
43772652 -CTTCTTCTCTTCTTCTTATTTTTTTTC
1 TCTTCTTCTCTTCTTCTTACGTTTTTTC
*
43772679 TTTTCTTC-CTTCTT
1 TCTTCTTCTCTTCTT
43772693 TTCCTTTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 25 0.71
28 10 0.29
ACGTcount: A:0.03, C:0.26, G:0.03, T:0.68
Consensus pattern (28 bp):
TCTTCTTCTCTTCTTCTTACGTTTTTTC
Found at i:43776074 original size:18 final size:18
Alignment explanation
Indices: 43776051--43776086 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
43776041 TGTATAATAT
* *
43776051 TATATCATGTTATTTTTA
1 TATATCAAGTAATTTTTA
43776069 TATATCAAGTAATTTTTA
1 TATATCAAGTAATTTTTA
43776087 ACACATAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
TATATCAAGTAATTTTTA
Found at i:43783716 original size:13 final size:14
Alignment explanation
Indices: 43783698--43783729 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
43783688 GTCAATATTT
43783698 TATAATTACTT-AA
1 TATAATTACTTCAA
43783711 TATAATTACTTCAA
1 TATAATTACTTCAA
43783725 TATAA
1 TATAA
43783730 CAACCTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (14 bp):
TATAATTACTTCAA
Found at i:43786722 original size:22 final size:22
Alignment explanation
Indices: 43786682--43786724 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
43786672 TTCTTAAAAA
*
43786682 TAAAAATATAAAAATTAGATTC
1 TAAAAATATAAAAAGTAGATTC
* *
43786704 TAAAAATATAGAGAGTAGATT
1 TAAAAATATAAAAAGTAGATT
43786725 ATAACCTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.30
Consensus pattern (22 bp):
TAAAAATATAAAAAGTAGATTC
Found at i:43788381 original size:25 final size:25
Alignment explanation
Indices: 43788342--43788399 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
43788332 ATACACTAAA
* *
43788342 AAAATATAACGTAAACTTAAATCTT
1 AAAATAAAACATAAACTTAAATCTT
*
43788367 AAAATAAAACATAAATTTAAATCTT
1 AAAATAAAACATAAACTTAAATCTT
43788392 AAAGATAA
1 AAA-ATAA
43788400 TATTATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.29
Consensus pattern (25 bp):
AAAATAAAACATAAACTTAAATCTT
Found at i:43794171 original size:40 final size:39
Alignment explanation
Indices: 43794134--43794352 Score: 263
Period size: 40 Copynumber: 5.7 Consensus size: 39
43794124 GCTACTCGTT
* *
43794134 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
43794174 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
43794214 CAAATGCCTTC-GG-CTTAGCCCGGATTAGTATCTCGC-
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
*
43794250 CAAATACCTTCGGGACTTA-CCCGGATTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * * *
43794287 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
43794328 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43794353 CATCATTCAA
Statistics
Matches: 157, Mismatches: 12, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
36 18 0.11
37 38 0.24
38 20 0.13
39 5 0.03
40 64 0.41
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:43794273 original size:37 final size:37
Alignment explanation
Indices: 43794101--43794352 Score: 226
Period size: 40 Copynumber: 6.5 Consensus size: 37
43794091 AAATCACGTA
* * * **
43794101 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATG
1 CCTTCGGGACTTACCCGGAT-TAG-TACTCGCACAAATG
* *
43794140 CCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTA-CCCGGAT-TAGT-ACTCGCACAAATG
43794180 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTT-ACCCGGA-TTAGT-ACTCGCACAAATG
*
43794220 CCTTC-GG-CTTAGCCCGGATTAGTATCTCGC-CAAATA
1 CCTTCGGGACTTA-CCCGGATTAGTA-CTCGCACAAATG
43794256 CCTTCGGGACTTACCCGGATTAGTACTCGCACAAATG
1 CCTTCGGGACTTACCCGGATTAGTACTCGCACAAATG
* * *
43794293 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTA-CCCGGAT-TAGT-AC-TCGCACAAATG
43794333 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTA-CCCGGA
43794353 CATCATTCAA
Statistics
Matches: 183, Mismatches: 15, Indels: 29
0.81 0.07 0.13
Matches are distributed among these distances:
36 19 0.10
37 39 0.21
38 19 0.10
39 16 0.09
40 77 0.42
41 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (37 bp):
CCTTCGGGACTTACCCGGATTAGTACTCGCACAAATG
Found at i:43794336 original size:113 final size:118
Alignment explanation
Indices: 43794134--43794352 Score: 290
Period size: 113 Copynumber: 1.9 Consensus size: 118
43794124 GCTACTCGTT
* *
43794134 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATACCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
43794199 ATTTAGTAACTCGCACAAATGCCTTC-GG-CTTAGCCCGGATTAGTATCTCGC
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTATCTCGC
* **
43794250 CAAATACCTTCGGGACTTA-CCCGGAT-TAGT-ACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATACCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
43794311 GATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
65 GATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
43794353 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
112 3 0.03
113 39 0.43
114 14 0.16
115 17 0.19
116 17 0.19
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (118 bp):
CAAATACCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTATCTCGC
Found at i:43802132 original size:40 final size:40
Alignment explanation
Indices: 43802095--43802314 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
43802085 GCTACTCGTT
*
43802095 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
43802135 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
43802175 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
43802214 CAAATACCTTC-GG-CTTA-CCCGGA-TTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
43802249 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
43802290 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43802315 CATCATTCAA
Statistics
Matches: 159, Mismatches: 13, Indels: 16
0.85 0.07 0.09
Matches are distributed among these distances:
35 18 0.11
36 5 0.03
37 10 0.06
38 11 0.07
39 35 0.22
40 67 0.42
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:43809213 original size:13 final size:13
Alignment explanation
Indices: 43809174--43809226 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
43809164 AGTTCTTCAT
*
43809174 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
* *
43809187 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
43809200 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
43809213 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
43809226 T
1 T
43809227 TTAGTTTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:43816808 original size:2 final size:2
Alignment explanation
Indices: 43816801--43816827 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43816791 GATACTACAT
43816801 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
43816828 ATTCTCATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:43820201 original size:162 final size:166
Alignment explanation
Indices: 43819989--43820316 Score: 391
Period size: 162 Copynumber: 2.0 Consensus size: 166
43819979 GTCTTCTCGT
* * * *
43819989 TTGGAAAATAAAATCAAAATCGAATAAAATTTGTTAAAAGGAGGGAATAAATCTAGAAACAG-TT
1 TTGGAAAACAAAATCAAAATCGAATAAAATCTGTTAAAAGGAGAGAATAAATCCAGAAACAGTTT
* * * *
43820053 -TTTCAAT-TTAA-TTCT-ATTTTGGAAACAAAAT-TAAAATCGAATAAAATTTGTTAAACGACA
66 ATTTC-ATGTTAATTTCTCATTTTAGAAACAAAATAGAAAATCGAATAAAATCTATTAAACGACA
*
43820113 GGAATAAATCCTGAAAAAGATTTTCAATTTAATTTTATC
130 AGAATAAATCCTGAAAAAGATTTT--ATTTAATTTTATC
* * * *
43820152 TTGG-AAACAAAATTAAAATCGAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAATAGATT
1 TTGGAAAACAAAATCAAAATCGAATAAAATCTGTTAAAAGGAGAGAATAAATCCAGAAACAG--T
* * * *
43820216 TTATTTCATGTTAATTTCTCGTTTTAGCAACAAAATAGAAAATGGAATAAAATCTATTAAATGAC
64 TTATTTCATGTTAATTTCTCATTTTAGAAACAAAATAGAAAATCGAATAAAATCTATTAAACGAC
* *
43820281 AAGAATAAATCTTGAAACAGATTTTATTTAATTTTA
129 AAGAATAAATCCTGAAAAAGATTTTATTTAATTTTA
43820317 ATACTCGTTT
Statistics
Matches: 138, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
162 49 0.36
163 4 0.03
165 4 0.03
166 8 0.06
167 15 0.11
168 13 0.09
169 45 0.33
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (166 bp):
TTGGAAAACAAAATCAAAATCGAATAAAATCTGTTAAAAGGAGAGAATAAATCCAGAAACAGTTT
ATTTCATGTTAATTTCTCATTTTAGAAACAAAATAGAAAATCGAATAAAATCTATTAAACGACAA
GAATAAATCCTGAAAAAGATTTTATTTAATTTTATC
Found at i:43820266 original size:88 final size:83
Alignment explanation
Indices: 43819998--43820481 Score: 334
Period size: 81 Copynumber: 5.8 Consensus size: 83
43819988 TTTGGAAAAT
* * * * * ** *
43819998 AAAATCAAAATCGAATAAAATTTGTTAAAAGGAGGGAATAAATCTAGAAACAG--TTT-TTCAA-
1 AAAATAAAAATGGAATAAAATCTGTTAAATGGAGAGAATAAATCCCGAAACAGATTTTATTTAAT
* **
43820059 TTTAATTCTATTTTGGAAAC
66 TTTAATACTCGTTT-G-AAC
* * * * * * *
43820079 AAAATTAAAATCGAATAAAATTTGTTAAA-CGACAGGAATAAATCCTGAAAAAGATTTTCAATTT
1 AAAATAAAAATGGAATAAAATCTGTTAAATGGAGA-GAATAAATCCCGAAACAGATTTT--ATTT
*
43820143 AA-TTT--TA-TC-TTGGAAAC
63 AATTTTAATACTCGTTTG-AAC
* * * * *
43820160 AAAATTAAAATCGAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAATAGATTTTATTTCAT
1 AAAATAAAAATGGAATAAAATCTGTTAAATGGAGAGAATAAATCCCGAAACAGATTTTATTTAAT
* *
43820225 GTTAATTTCTCGTTTTAGCAAC
66 TTTAA-TACTCG-TTT-G-AAC
* * **
43820247 AAAATAGAAAATGGAATAAAATCTATTAAAT-GACAAGAATAAATCTTGAAACAGATTTTATTTA
1 AAAATA-AAAATGGAATAAAATCTGTTAAATGGA-GAGAATAAATCCCGAAACAGATTTTATTTA
*
43820311 ATTTTAATACTCGTTTG--G
64 ATTTTAATACTCGTTTGAAC
* * * * *
43820329 AAAA-AAAAA-GGAATAAAATCTGTTGAATGGCTG-GAATAAATCCTGGAACATATTTTATTTAA
1 AAAATAAAAATGGAATAAAATCTGTTAAATGG-AGAGAATAAATCCCGAAACAGATTTTATTT-A
*
43820391 ATTTTAATACTTGTTTGGAAAC
64 ATTTTAATACTCGTTT-G-AAC
* * * *
43820413 AAAGTAAAAAATGGAATAAAATCTGTTGAATGGCGAGAATAAATCCCGAAACAGAATTTATTTAA
1 AAAAT-AAAAATGGAATAAAATCTGTTAAATGGAGAGAATAAATCCCGAAACAGATTTTATTTAA
43820478 TTTT
65 TTTT
43820482 TATTTTCAAA
Statistics
Matches: 327, Mismatches: 48, Indels: 51
0.77 0.11 0.12
Matches are distributed among these distances:
79 46 0.14
80 25 0.08
81 99 0.30
82 9 0.03
83 5 0.02
84 6 0.02
85 1 0.00
86 24 0.07
87 60 0.18
88 52 0.16
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.32
Consensus pattern (83 bp):
AAAATAAAAATGGAATAAAATCTGTTAAATGGAGAGAATAAATCCCGAAACAGATTTTATTTAAT
TTTAATACTCGTTTGAAC
Found at i:43820430 original size:87 final size:84
Alignment explanation
Indices: 43820166--43820483 Score: 299
Period size: 87 Copynumber: 3.8 Consensus size: 84
43820156 AAACAAAATT
* * * * * * * *
43820166 AAAATCGAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAATAGATTTTATTT-CATGTTAA
1 AAAATGGAATAAAATCTGTTGAATGGCG-GAATAAATCCTGAAACAGATTTTATTTAAATTTTAA
* * *
43820230 TTTCTCGTTTTAGCAACAAAATAG
65 -TACTCG-TTT-GGAAC-AAATAA
* * * * *
43820254 AAAATGGAATAAAATCTATTAAATGACAAGAATAAATCTTGAAACAGATTTTATTT-AATTTTAA
1 AAAATGGAATAAAATCTGTTGAATGGC-GGAATAAATCCTGAAACAGATTTTATTTAAATTTTAA
43820318 TACTCGTTTGG---AAA-AA
65 TACTCGTTTGGAACAAATAA
* *
43820334 AAAA-GGAATAAAATCTGTTGAATGGCTGGAATAAATCCTGGAACATATTTTATTTAAATTTTAA
1 AAAATGGAATAAAATCTGTTGAATGGC-GGAATAAATCCTGAAACAGATTTTATTTAAATTTTAA
*
43820398 TACTTGTTTGGAAACAAAGTAA
65 TACTCGTTTGG-AACAAA-TAA
* * *
43820420 AAAATGGAATAAAATCTGTTGAATGGCGAGAATAAATCCCGAAACAGAATTTATTTAATTTTTA
1 AAAATGGAATAAAATCTGTTGAATGGCG-GAATAAATCCTGAAACAGATTTTATTTAAATTTTA
43820484 TTTTCAAATA
Statistics
Matches: 192, Mismatches: 28, Indels: 21
0.80 0.12 0.09
Matches are distributed among these distances:
79 43 0.22
80 23 0.12
81 3 0.02
84 3 0.02
85 1 0.01
86 10 0.05
87 57 0.30
88 52 0.27
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (84 bp):
AAAATGGAATAAAATCTGTTGAATGGCGGAATAAATCCTGAAACAGATTTTATTTAAATTTTAAT
ACTCGTTTGGAACAAATAA
Found at i:43820632 original size:23 final size:22
Alignment explanation
Indices: 43820595--43820642 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 22
43820585 GTTAGCAAAC
43820595 AAAAATATATAAATAT-AAATA
1 AAAAATATATAAATATAAAATA
43820616 AAAAATATTTATAAATATAAAATA
1 AAAAATA--TATAAATATAAAATA
43820640 AAA
1 AAA
43820643 TAAATTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 7 0.29
23 9 0.38
24 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAATATATAAATATAAAATA
Found at i:43821256 original size:11 final size:11
Alignment explanation
Indices: 43821242--43821267 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43821232 ATTTTTTTAA
43821242 TTTTAAAATAC
1 TTTTAAAATAC
43821253 TTTTAAAATAC
1 TTTTAAAATAC
43821264 TTTT
1 TTTT
43821268 TTTAATTTTT
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:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:43821546 original size:20 final size:20
Alignment explanation
Indices: 43821521--43821570 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
43821511 ATGGGCAATT
*
43821521 AAATCAATTTGATTAAAATC
1 AAATCAAATTGATTAAAATC
43821541 AAATCAAATTGATTAAAATC
1 AAATCAAATTGATTAAAATC
*
43821561 AAATAAAATT
1 AAATCAAATT
43821571 AGGATATATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATC
Found at i:43826495 original size:21 final size:21
Alignment explanation
Indices: 43826471--43826537 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
43826461 AACTGAAACC
43826471 CATAAGGGTTGAACGGAAGCT
1 CATAAGGGTTGAACGGAAGCT
* **
43826492 CAT-AGGAGCTGAACAAAAAGC-
1 CATAAGG-GTTGAAC-GGAAGCT
* *
43826513 CATAAGGGTTAAACGGAAACT
1 CATAAGGGTTGAACGGAAGCT
43826534 CATA
1 CATA
43826538 TAAGTTAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
20 6 0.18
21 21 0.62
22 7 0.21
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.16
Consensus pattern (21 bp):
CATAAGGGTTGAACGGAAGCT
Found at i:43826669 original size:24 final size:24
Alignment explanation
Indices: 43826622--43826669 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
43826612 TAATTGAGTA
* * *
43826622 ATTTTCCATCAATTCATTCTTTGC
1 ATTTACCATCAATTCATCCATTGC
43826646 ATTTACCATCAATTCATCCATTGC
1 ATTTACCATCAATTCATCCATTGC
43826670 CACAGAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.25, C:0.27, G:0.04, T:0.44
Consensus pattern (24 bp):
ATTTACCATCAATTCATCCATTGC
Found at i:43831363 original size:57 final size:59
Alignment explanation
Indices: 43831251--43831398 Score: 185
Period size: 57 Copynumber: 2.5 Consensus size: 59
43831241 AATTGACGGT
* *
43831251 AAAAAGGATCTAGCCCGGACTGGTGATCCTATCCTGATATAGCCCTCCTGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCGAAGAATATGTG-G
43831314 AAAAAGATCTAGCCCGGACGGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
* * *
43831370 AAAATGGATTTAGCCCGGACGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
43831399 GAATTAGGGT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
56 5 0.06
57 45 0.58
58 1 0.01
59 1 0.01
61 1 0.01
62 20 0.26
63 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.23
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:43831633 original size:67 final size:67
Alignment explanation
Indices: 43831520--43831651 Score: 237
Period size: 67 Copynumber: 2.0 Consensus size: 67
43831510 GTTTATATTA
* *
43831520 CAGGGGATTTAGCCTGGACTGGTAATCCCGTTGTAAGAAATTAGGTTCGCGGGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
43831585 TG
66 TG
*
43831587 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAGGAAATGAGGTTCGCGGGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
43831652 GAATTGGAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (67 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
TG
Found at i:43833304 original size:49 final size:51
Alignment explanation
Indices: 43833228--43833325 Score: 148
Period size: 49 Copynumber: 2.0 Consensus size: 51
43833218 ACATGTGAAA
*
43833228 ATGTGATTATGTGATTTCTGTGTAAGACCATAGCTGGGA-TATGGCATCGGT
1 ATGTGATTATGTGATTACTGTGTAAGACCATAG-TGGGACTATGGCATCGGT
*
43833279 ATGTGA-TATGTGATTAC-GTGTAAGACCATAGTTGGACTATGGCATCG
1 ATGTGATTATGTGATTACTGTGTAAGACCATAGTGGGACTATGGCATCG
43833326 AGAAAACGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
48 4 0.09
49 24 0.55
50 10 0.23
51 6 0.14
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (51 bp):
ATGTGATTATGTGATTACTGTGTAAGACCATAGTGGGACTATGGCATCGGT
Found at i:43846269 original size:13 final size:13
Alignment explanation
Indices: 43846251--43846275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43846241 TGATTTATAT
43846251 GTGTGAAAATTTC
1 GTGTGAAAATTTC
43846264 GTGTGAAAATTT
1 GTGTGAAAATTT
43846276 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:43848436 original size:13 final size:13
Alignment explanation
Indices: 43848418--43848447 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
43848408 TCTATGAGGT
*
43848418 TTTTGGTTGATTG
1 TTTTGGTTGATTA
43848431 TTTTGGTTGATTA
1 TTTTGGTTGATTA
43848444 TTTT
1 TTTT
43848448 TAGAGGTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.67
Consensus pattern (13 bp):
TTTTGGTTGATTA
Found at i:43850590 original size:21 final size:21
Alignment explanation
Indices: 43850560--43850632 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
43850550 GTGCTAAACT
*
43850560 GAAACCCATAAGGGTTGAACG
1 GAAACTCATAAGGGTTGAACG
* *
43850581 GAAGCTCAT-AGGAGCTGAACG
1 GAAACTCATAAGG-GTTGAACG
* *
43850602 GAAACCCATAAGGGTTAAACG
1 GAAACTCATAAGGGTTGAACG
43850623 GAAACTCATA
1 GAAACTCATA
43850633 TGAGTTAACA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (21 bp):
GAAACTCATAAGGGTTGAACG
Found at i:43850639 original size:21 final size:21
Alignment explanation
Indices: 43850545--43850640 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 21
43850535 CACAGAAGCA
* * *
43850545 CATAAGTGCTAAACTGAAACC
1 CATAAGAGTTAAACGGAAACC
* * * *
43850566 CATAAGGGTTGAACGGAAGCT
1 CATAAGAGTTAAACGGAAACC
* * *
43850587 CATAGGAGCTGAACGGAAACC
1 CATAAGAGTTAAACGGAAACC
* *
43850608 CATAAGGGTTAAACGGAAACT
1 CATAAGAGTTAAACGGAAACC
*
43850629 CATATGAGTTAA
1 CATAAGAGTTAA
43850641 CAAAAGCTCG
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (21 bp):
CATAAGAGTTAAACGGAAACC
Found at i:43851858 original size:52 final size:52
Alignment explanation
Indices: 43851801--43851904 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
43851791 AATTAACTAT
43851801 AAAAATGTTAAAATTTTCTAACGAAACTTTAATAATACCTTAATGACACTCC
1 AAAAATGTTAAAATTTTCTAACGAAACTTTAATAATACCTTAATGACACTCC
43851853 AAAAATGTTAAAATTTTCTAACGAAACTTTAATAATACCTTAATGACACTCC
1 AAAAATGTTAAAATTTTCTAACGAAACTTTAATAATACCTTAATGACACTCC
43851905 GTAAATATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (52 bp):
AAAAATGTTAAAATTTTCTAACGAAACTTTAATAATACCTTAATGACACTCC
Found at i:43852212 original size:24 final size:23
Alignment explanation
Indices: 43852185--43852230 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
43852175 CTATTTTATT
*
43852185 TTCCCCAAAATAAATAAATAAAAA
1 TTCCACAAAATAAAT-AATAAAAA
* *
43852209 TTCCATAAATTAAATAATAAAA
1 TTCCACAAAATAAATAATAAAA
43852231 CCACCTCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (23 bp):
TTCCACAAAATAAATAATAAAAA
Found at i:43858027 original size:15 final size:17
Alignment explanation
Indices: 43857999--43858037 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
43857989 TTAAAATCTA
*
43857999 TAAAAAAAAGATAATT-
1 TAAAAATAAGATAATTG
43858015 TAAAAATAA-ATAATTG
1 TAAAAATAAGATAATTG
43858031 TAAAAAT
1 TAAAAAT
43858038 TATAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
TAAAAATAAGATAATTG
Found at i:43858058 original size:22 final size:23
Alignment explanation
Indices: 43858011--43858059 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
43858001 AAAAAAAGAT
43858011 AATTTAAAAATAAATAATTGTAAA
1 AATTTAAAAATAAATAA-TGTAAA
43858035 AATTATAAAAATAAAT-A-GTAAA
1 AATT-TAAAAATAAATAATGTAAA
43858057 AAT
1 AAT
43858060 ATTTTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.33
24 5 0.21
25 11 0.46
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
AATTTAAAAATAAATAATGTAAA
Found at i:43858125 original size:29 final size:27
Alignment explanation
Indices: 43858075--43858133 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
43858065 AAATATATAT
*
43858075 AAAATATTTAAAAGTATTAAAATGTTGTA
1 AAAATATTTAAAAGTATAAAAAT-TT-TA
*
43858104 AAAATCTTTAAAATGTA-AAAAATTTTA
1 AAAATATTTAAAA-GTATAAAAATTTTA
43858131 AAA
1 AAA
43858134 TTGATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 2 0.07
29 17 0.63
30 3 0.11
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (27 bp):
AAAATATTTAAAAGTATAAAAATTTTA
Found at i:43858236 original size:30 final size:28
Alignment explanation
Indices: 43858197--43858272 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 28
43858187 AGAATTGTAA
* * *
43858197 AAAATATTTTCACATTTTTTTACATTTTAT
1 AAAA-ATTTTAACATTTTTTAACA-ATTAT
*
43858227 ACAAAATTTTAATATTTTTTAACAATTAT
1 A-AAAATTTTAACATTTTTTAACAATTAT
*
43858256 AAAAATTGTAA-ATTTTT
1 AAAAATTTTAACATTTTT
43858273 AAAATGTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 6 0.15
28 9 0.22
29 5 0.12
30 17 0.43
31 3 0.08
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (28 bp):
AAAAATTTTAACATTTTTTAACAATTAT
Found at i:43858677 original size:18 final size:20
Alignment explanation
Indices: 43858656--43858700 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
43858646 TAAAAAAATT
43858656 ATAATTTTTA-AAA-TTTTA
1 ATAATTTTTACAAATTTTTA
43858674 ATAATTTTTACAAATTTTTA
1 ATAATTTTTACAAATTTTTA
43858694 AT-ATTTT
1 ATAATTTT
43858701 AAATTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.40
19 8 0.32
20 7 0.28
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATAATTTTTACAAATTTTTA
Found at i:43858689 original size:10 final size:9
Alignment explanation
Indices: 43858658--43858700 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
43858648 AAAAAATTAT
43858658 AATTTTTAA
1 AATTTTTAA
43858667 AA-TTTTAA
1 AATTTTTAA
43858675 TAATTTTTACA
1 -AATTTTTA-A
43858686 AATTTTTAA
1 AATTTTTAA
*
43858695 TATTTT
1 AATTTT
43858701 AAATTAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
8 6 0.20
9 10 0.33
10 13 0.43
11 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (9 bp):
AATTTTTAA
Found at i:43858701 original size:18 final size:16
Alignment explanation
Indices: 43858650--43858703 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 16
43858640 ATTTTTTAAA
*
43858650 AAAATTATAAT-TTTT
1 AAAATTTTAATATTTT
43858665 AAAATTTTAATAATTTTT
1 AAAATTTTAAT-A-TTTT
43858683 ACAAATTTTTAATATTTT
1 A-AAA-TTTTAATATTTT
43858701 AAA
1 AAA
43858704 TTAAATTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 10 0.30
17 2 0.06
18 10 0.30
19 4 0.12
20 7 0.21
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
AAAATTTTAATATTTT
Found at i:43863203 original size:23 final size:23
Alignment explanation
Indices: 43863177--43863252 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
43863167 ATAAGTGCCA
43863177 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
43863200 CACTGATATATAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
43863223 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
43863246 CACTGAT
1 CACTGAT
43863253 CAATAACACT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:43863352 original size:8 final size:8
Alignment explanation
Indices: 43863339--43863367 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
43863329 ACCCGGGACT
43863339 CACTGTAA
1 CACTGTAA
43863347 CACTGTAA
1 CACTGTAA
43863355 CACTGTAA
1 CACTGTAA
43863363 CACTG
1 CACTG
43863368 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:43870053 original size:23 final size:23
Alignment explanation
Indices: 43870027--43870102 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
43870017 ATAAGTGCCA
43870027 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
43870050 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
43870073 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
43870096 CACTGAT
1 CACTGAT
43870103 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:43870201 original size:8 final size:8
Alignment explanation
Indices: 43870188--43870216 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
43870178 ACCCGGGACT
43870188 CACTGTAA
1 CACTGTAA
43870196 CACTGTAA
1 CACTGTAA
43870204 CACTGTAA
1 CACTGTAA
43870212 CACTG
1 CACTG
43870217 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:43870347 original size:18 final size:17
Alignment explanation
Indices: 43870321--43870359 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
43870311 ATTTTCCTTC
43870321 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
43870338 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
43870356 CACA
1 CACA
43870360 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:43876911 original size:23 final size:23
Alignment explanation
Indices: 43876885--43876960 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
43876875 ATAAGTGCCA
43876885 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
43876908 CACTGATATATAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
43876931 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
43876954 CACTGAT
1 CACTGAT
43876961 CAATAACACT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:43877060 original size:8 final size:8
Alignment explanation
Indices: 43877047--43877075 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
43877037 ACCCGGGACT
43877047 CACTGTAA
1 CACTGTAA
43877055 CACTGTAA
1 CACTGTAA
43877063 CACTGTAA
1 CACTGTAA
43877071 CACTG
1 CACTG
43877076 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:43877206 original size:18 final size:17
Alignment explanation
Indices: 43877180--43877218 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
43877170 ATTTTCCTTC
43877180 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
43877197 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
43877215 CACA
1 CACA
43877219 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:43884255 original size:50 final size:50
Alignment explanation
Indices: 43884143--43884384 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
43884133 ATTTGGGTAA
* * * *
43884143 AGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCCTTAATATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC----GA-GATG
* *
43884199 AGAGGTCTCC-TGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATG
1 AGAGATC-CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
43884249 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
** *
43884299 AGAGATCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
*
43884349 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
43884385 TTTGGCATTT
Statistics
Matches: 165, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
49 2 0.01
50 93 0.56
51 31 0.19
55 1 0.01
56 36 0.22
57 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:43884337 original size:100 final size:103
Alignment explanation
Indices: 43884143--43884392 Score: 335
Period size: 100 Copynumber: 2.4 Consensus size: 103
43884133 ATTTGGGTAA
* * * *
43884143 AGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCCTTAATATCATGAGAGGTCTC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGATCCC
* * *
43884208 CTGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATG
63 CCGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
* * *
43884249 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGATCCCCCG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGATCCCCCG
43884311 TAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
* *
43884349 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
43884393 TTTTTTACCA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
100 50 0.39
101 38 0.29
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGATCCCCCG
TAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
Found at i:43886085 original size:20 final size:20
Alignment explanation
Indices: 43886062--43886105 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
43886052 CTGTAGTGAT
*
43886062 AACAGGGAAACCAAAGTGTG
1 AACAGGGAAACCAAAGTGTA
* *
43886082 AACAGGGACACCGAAGTGTA
1 AACAGGGAAACCAAAGTGTA
43886102 AACA
1 AACA
43886106 TATAGGCATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.18, G:0.27, T:0.09
Consensus pattern (20 bp):
AACAGGGAAACCAAAGTGTA
Found at i:43886522 original size:198 final size:198
Alignment explanation
Indices: 43886178--43886579 Score: 795
Period size: 198 Copynumber: 2.0 Consensus size: 198
43886168 TATCCTAATC
*
43886178 ATTTACTACGTTCAAACAAGCATTTATACATGATTCATAACGTTTATAATACAGGGGCACTTCCA
1 ATTTAATACGTTCAAACAAGCATTTATACATGATTCATAACGTTTATAATACAGGGGCACTTCCA
43886243 TGTTTTTAGTACACATGCCATAATCAAATCACACTCATTCCAAATCCACGTGAATCACGTTTTAC
66 TGTTTTTAGTACACATGCCATAATCAAATCACACTCATTCCAAATCCACGTGAATCACGTTTTAC
43886308 AAGTATTCAAACTTTCAATTAGATCTTTTCATTTATCACATTTAGTACTAAATTATAAACCTTGT
131 AAGTATTCAAACTTTCAATTAGATCTTTTCATTTATCACATTTAGTACTAAATTATAAACCTTGT
43886373 AAA
196 AAA
43886376 ATTTAATACGTTCAAACAAGCATTTATACATGATTCATAACGTTTATAATACAGGGGCACTTCCA
1 ATTTAATACGTTCAAACAAGCATTTATACATGATTCATAACGTTTATAATACAGGGGCACTTCCA
43886441 TGTTTTTAGTACACATGCCATAATCAAATCACACTCATTCCAAATCCACGTGAATCACGTTTTAC
66 TGTTTTTAGTACACATGCCATAATCAAATCACACTCATTCCAAATCCACGTGAATCACGTTTTAC
43886506 AAGTATTCAAACTTTCAATTAGATCTTTTCATTTATCACATTTAGTACTAAATTATAAACCTTGT
131 AAGTATTCAAACTTTCAATTAGATCTTTTCATTTATCACATTTAGTACTAAATTATAAACCTTGT
43886571 AAA
196 AAA
43886574 ATTTAA
1 ATTTAA
43886580 AATTTAACAA
Statistics
Matches: 203, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
198 203 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (198 bp):
ATTTAATACGTTCAAACAAGCATTTATACATGATTCATAACGTTTATAATACAGGGGCACTTCCA
TGTTTTTAGTACACATGCCATAATCAAATCACACTCATTCCAAATCCACGTGAATCACGTTTTAC
AAGTATTCAAACTTTCAATTAGATCTTTTCATTTATCACATTTAGTACTAAATTATAAACCTTGT
AAA
Found at i:43892532 original size:14 final size:14
Alignment explanation
Indices: 43892513--43892551 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
43892503 TTGTTTCACT
*
43892513 GAAAATGGCTTCTG
1 GAAAATGACTTCTG
* *
43892527 GAAAATTATTTCTG
1 GAAAATGACTTCTG
43892541 GAAAATGACTT
1 GAAAATGACTT
43892552 ACTTTTTTGG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (14 bp):
GAAAATGACTTCTG
Found at i:43893162 original size:18 final size:18
Alignment explanation
Indices: 43893124--43893159 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
43893114 TTATTATTTT
*
43893124 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
43893142 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
43893160 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:43895088 original size:21 final size:21
Alignment explanation
Indices: 43895050--43895090 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
43895040 TTAAATAAAT
* **
43895050 TTTAGTTAATTTTTTTAAGTA
1 TTTAATTAATTTAGTTAAGTA
43895071 TTTAATTAATTTAGTTAAGT
1 TTTAATTAATTTAGTTAAGT
43895091 GTTAAATGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (21 bp):
TTTAATTAATTTAGTTAAGTA
Found at i:43897752 original size:25 final size:24
Alignment explanation
Indices: 43897685--43897754 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 24
43897675 CAGGCCCATT
*
43897685 TTCACAACTCGTGTGAGTGC-TTTGA
1 TTCACAGCTCGTGTGA--GCATTTGA
* *
43897710 TTCATAGCTCATGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATT-TGA
43897735 TTCACAGCTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
43897755 ACATGTACAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 2 0.05
24 2 0.05
25 34 0.89
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (24 bp):
TTCACAGCTCGTGTGAGCATTTGA
Found at i:43898103 original size:188 final size:188
Alignment explanation
Indices: 43897781--43898160 Score: 625
Period size: 188 Copynumber: 2.0 Consensus size: 188
43897771 ACGGATTACA
* ** * *
43897781 GTTATATGAGCTAGCACACTATGTGTGAGCTATCCTGGGTATCCAACGGTATTCGAAATGGTTTA
1 GTTACATGAGCTAGCACAAAATGTGTGAGCTATCCCGGGTATCCAACGGTATTCGAAATGGTTCA
* * * * *
43897846 TTGGACATGATTTGAAAGCAAATGGTAAGAGTTCGATATGAACTAATATATGTTCATATATGAAT
66 ATGGACATGATTTGAAAGAAAATGGTAAGAGTTCGATAAGAACTAAGATATGTTCACATATGAAT
*
43897911 TGCATTGGATGGGTGATATATGGATAAATGTAAGTTGAGATGGATGATATATTCATAT
131 TGCATTGGATGGGTGATACATGGATAAATGTAAGTTGAGATGGATGATATATTCATAT
*
43897969 GTTACATGAGCTAGCACAAAATGTGTGAGCTATCCCGGGTATCCAACGGTATTCTAAATGGTTCA
1 GTTACATGAGCTAGCACAAAATGTGTGAGCTATCCCGGGTATCCAACGGTATTCGAAATGGTTCA
* *
43898034 ATGGGCATGATTTGAAAGAAAATGGTAAGGGTTCGATAAGAACTAAGATATGTTCACATATGAAT
66 ATGGACATGATTTGAAAGAAAATGGTAAGAGTTCGATAAGAACTAAGATATGTTCACATATGAAT
*
43898099 TGCATTGGATTGGTGATACATGGATAAATGTAAGTTGAGATGGATGATATATTCATAT
131 TGCATTGGATGGGTGATACATGGATAAATGTAAGTTGAGATGGATGATATATTCATAT
43898157 GTTA
1 GTTA
43898161 AATGCTTAAA
Statistics
Matches: 177, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
188 177 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.32
Consensus pattern (188 bp):
GTTACATGAGCTAGCACAAAATGTGTGAGCTATCCCGGGTATCCAACGGTATTCGAAATGGTTCA
ATGGACATGATTTGAAAGAAAATGGTAAGAGTTCGATAAGAACTAAGATATGTTCACATATGAAT
TGCATTGGATGGGTGATACATGGATAAATGTAAGTTGAGATGGATGATATATTCATAT
Found at i:43898309 original size:15 final size:15
Alignment explanation
Indices: 43898289--43898318 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43898279 CTTACTTATA
43898289 TAAGTGCCCAAATGG
1 TAAGTGCCCAAATGG
43898304 TAAGTGCCCAAATGG
1 TAAGTGCCCAAATGG
43898319 AAATATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (15 bp):
TAAGTGCCCAAATGG
Found at i:43901947 original size:21 final size:21
Alignment explanation
Indices: 43901918--43901958 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43901908 TCATATTAAT
*
43901918 TTCATATATCACTTTC-TAAAC
1 TTCAAATATCA-TTTCATAAAC
43901939 TTCAAATATCATTTCATAAA
1 TTCAAATATCATTTCATAAA
43901959 TATGTAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (21 bp):
TTCAAATATCATTTCATAAAC
Found at i:43903430 original size:23 final size:23
Alignment explanation
Indices: 43903404--43903522 Score: 130
Period size: 23 Copynumber: 5.2 Consensus size: 23
43903394 ATAAGTGCCA
*
43903404 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* ** *
43903427 CACTGATACGTAATCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
43903450 CACTAAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
** *
43903473 CACTGATATGTAGCCTTATCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
43903496 CACTGAAATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
43903519 CACT
1 CACT
43903523 AATCAATAAC
Statistics
Matches: 75, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 75 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:43903478 original size:46 final size:46
Alignment explanation
Indices: 43903411--43903522 Score: 152
Period size: 46 Copynumber: 2.4 Consensus size: 46
43903401 CCACACTGAT
* *
43903411 ATGTAGCCAAAGCTACCACTGATACGTAATCGTAGCTACCACTAAA
1 ATGTAGCCGAAGCTACCACTGATACGTAACCGTAGCTACCACTAAA
* * * * *
43903457 ATGTAGCCGAAGCTACCACTGATATGTAGCCTTATCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGATACGTAACCGTAGCTACCACTAAA
*
43903503 ATGTAGTCGAAGCTACCACT
1 ATGTAGCCGAAGCTACCACT
43903523 AATCAATAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGATACGTAACCGTAGCTACCACTAAA
Found at i:43903777 original size:18 final size:17
Alignment explanation
Indices: 43903751--43903789 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
43903741 ATTTTCCTTC
43903751 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
43903768 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
43903786 CACA
1 CACA
43903790 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Done.