Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 106 of 126
Found at i:32200559 original size:18 final size:17
Alignment explanation
Indices: 32200538--32200572 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32200528 TTATTATTAA
*
32200538 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
32200556 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
32200573 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:32200668 original size:120 final size:119
Alignment explanation
Indices: 32200519--32200920 Score: 642
Period size: 120 Copynumber: 3.3 Consensus size: 119
32200509 TAATCATATA
* * * *
32200519 TTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
1 TTAA-ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
* * * * *
32200584 AATATTCTTATATTATTTTACTCAAATCATAATATATGATACTATAAAATATAAT
65 AATATTCTTATATGAATTTACTAAAATCATAATATATAATAGTATAAAATATAAT
* * *
32200639 TTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATATTA
1 TT-AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
*
32200704 AATATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAAT
65 AATATTCTTATATGAATTTACTAAAATCATAATATATAATAGTATAAAATATAAT
32200759 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTAA-ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
32200824 AATATTCTTATATGAATTTACTAAAATCATAATATATAATAGTATAAAATATAAT
65 AATATTCTTATATGAATTTACTAAAATCATAATATATAATAGTATAAAATATAAT
*
32200879 TTAAAATAATTATTATTAAATATAAGTTAATAAAAATATATA
1 TT-AAATAATTATTATTAAATATAATTTAATAAAAATATATA
32200921 TTTTTTATAT
Statistics
Matches: 265, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
119 2 0.01
120 259 0.98
121 4 0.02
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (119 bp):
TTAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAA
ATATTCTTATATGAATTTACTAAAATCATAATATATAATAGTATAAAATATAAT
Found at i:32200679 original size:18 final size:17
Alignment explanation
Indices: 32200656--32200692 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
32200646 AATTATTATT
32200656 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
32200672 AAATATATGATTTAATA
1 AAATATATGATTTAATA
32200689 AAAT
1 AAAT
32200693 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:32200987 original size:48 final size:48
Alignment explanation
Indices: 32200921--32201015 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
32200911 AAAATATATA
* *
32200921 TTTTTTATATATTTTTCTGATTTTTAATAACTTTTAGACTTTGAAAAT
1 TTTTTTATATATATTTCTGATTTTTAATAACTTTTAGACTTCGAAAAT
*
32200969 TTTTTTATATATATTTCTGATTTTTAATAATTTTTAGACTTCGAAAA
1 TTTTTTATATATATTTCTGATTTTTAATAACTTTTAGACTTCGAAAA
32201016 AATTTACTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (48 bp):
TTTTTTATATATATTTCTGATTTTTAATAACTTTTAGACTTCGAAAAT
Found at i:32201413 original size:2 final size:2
Alignment explanation
Indices: 32201406--32201434 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32201396 ACTGGCATAA
32201406 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
32201435 TCTTGACAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:32202510 original size:53 final size:53
Alignment explanation
Indices: 32202430--32202535 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
32202420 CATTATAACC
32202430 TACAAGAAAACATAGAATGTACACAAGCAAGGGTACAACTTGTAAAAAATAGT
1 TACAAGAAAACATAGAATGTACACAAGCAAGGGTACAACTTGTAAAAAATAGT
*
32202483 TACAAGAAAACATAGAATGTACACAAGCAAGGGTACAGCTTGTAAAAAATAGT
1 TACAAGAAAACATAGAATGTACACAAGCAAGGGTACAACTTGTAAAAAATAGT
32202536 CCAGAATAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (53 bp):
TACAAGAAAACATAGAATGTACACAAGCAAGGGTACAACTTGTAAAAAATAGT
Found at i:32204537 original size:21 final size:21
Alignment explanation
Indices: 32204513--32204558 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
32204503 TTATATTATT
*
32204513 TATATCATATAAAAATTTAAA
1 TATATCATATAAAAATGTAAA
* * *
32204534 TATATTATATTATAATGTAAA
1 TATATCATATAAAAATGTAAA
32204555 TATA
1 TATA
32204559 AAAAAATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TATATCATATAAAAATGTAAA
Found at i:32204663 original size:25 final size:25
Alignment explanation
Indices: 32204614--32204663 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
32204604 ATGATATTAG
* *
32204614 TAAAATATAATTATTTAATATTAAA
1 TAAAATATAATTATTTAAAAATAAA
32204639 TAAAAT-TAATTATTTTAAAAATAAA
1 TAAAATATAATTA-TTTAAAAATAAA
32204664 AAATTTGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TAAAATATAATTATTTAAAAATAAA
Found at i:32207960 original size:14 final size:15
Alignment explanation
Indices: 32207941--32207969 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32207931 TAATTTAAGA
32207941 ATTTTTTA-TAAAAT
1 ATTTTTTATTAAAAT
32207955 ATTTTTTATTAAAAT
1 ATTTTTTATTAAAAT
32207970 TTGATTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTTTATTAAAAT
Found at i:32211812 original size:29 final size:29
Alignment explanation
Indices: 32211745--32211977 Score: 159
Period size: 29 Copynumber: 8.1 Consensus size: 29
32211735 TAAATAAGTA
* * * *
32211745 TTTATGGCTATATCAGTTAAAATGATGCC
1 TTTATAGCTATCTCTGTTAAAAGGATGCC
* * **
32211774 TCTATGGCTATCTCTGTTAAAAGGATGTT
1 TTTATAGCTATCTCTGTTAAAAGGATGCC
* * *
32211803 TTTATAGCTATCTCTGTTAAATGAATGTC
1 TTTATAGCTATCTCTGTTAAAAGGATGCC
* * ** *
32211832 TTTATGGCTATCTTTGTTTTAAGGAAGCC
1 TTTATAGCTATCTCTGTTAAAAGGATGCC
* * *
32211861 TTTGT-GGTGATCTCTGTTAAAAGAATGCC
1 TTTATAGCT-ATCTCTGTTAAAAGGATGCC
* * * *
32211890 TTTATGGTTATATCTGTTAAAAGGAAGCC
1 TTTATAGCTATCTCTGTTAAAAGGATGCC
*
32211919 TTT-TCAGCTATCTTTGTTAAAAGGAATG-C
1 TTTAT-AGCTATCTCTGTTAAAAGG-ATGCC
* * * *
32211948 TTTGTGGCTAT-TTTTTTAAAAGGATGCC
1 TTTATAGCTATCTCTGTTAAAAGGATGCC
32211976 TT
1 TT
32211978 CGTGGCAGGA
Statistics
Matches: 160, Mismatches: 38, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
27 3 0.02
28 17 0.11
29 135 0.84
30 5 0.03
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (29 bp):
TTTATAGCTATCTCTGTTAAAAGGATGCC
Found at i:32211838 original size:58 final size:59
Alignment explanation
Indices: 32211745--32211971 Score: 198
Period size: 58 Copynumber: 3.9 Consensus size: 59
32211735 TAAATAAGTA
* * * * * *
32211745 TTTATGGCTATATCAGTTAAAATG-ATGCCTCTATGGCTATCTCTGTTAAAAGGATGTT
1 TTTATAGCTATCTCTGTTAAAATGAATGCCTTTATGGCTATCTCTGTTAAAAGGAAGCT
* * ** *
32211803 TTTATAGCTATCTCTGTT-AAATGAATGTCTTTATGGCTATCTTTGTTTTAAGGAAGCC
1 TTTATAGCTATCTCTGTTAAAATGAATGCCTTTATGGCTATCTCTGTTAAAAGGAAGCT
* * * *
32211861 TTTGT-GGTGATCTCTGTTAAAA-GAATGCCTTTATGGTTATATCTGTTAAAAGGAAGCCT
1 TTTATAGCT-ATCTCTGTTAAAATGAATGCCTTTATGGCTATCTCTGTTAAAAGGAAG-CT
* * * * * *
32211920 TTT-CAGCTATCTTTGTTAAAAGGAATG-CTTTGTGGCTAT-TTTTTTAAAAGGA
1 TTTATAGCTATCTCTGTTAAAATGAATGCCTTTATGGCTATCTCTGTTAAAAGGA
32211972 TGCCTTCGTG
Statistics
Matches: 136, Mismatches: 27, Indels: 13
0.77 0.15 0.07
Matches are distributed among these distances:
57 18 0.13
58 104 0.76
59 14 0.10
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.42
Consensus pattern (59 bp):
TTTATAGCTATCTCTGTTAAAATGAATGCCTTTATGGCTATCTCTGTTAAAAGGAAGCT
Found at i:32218276 original size:2 final size:2
Alignment explanation
Indices: 32218269--32218355 Score: 165
Period size: 2 Copynumber: 43.5 Consensus size: 2
32218259 AAATTGGCTG
*
32218269 GA GA GA GA GA GA GA GA GA GA AA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
32218311 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
32218353 GA G
1 GA G
32218356 GATGCATTAG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:32229133 original size:3 final size:3
Alignment explanation
Indices: 32229127--32229154 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
32229117 GATATCAACT
32229127 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32229155 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:32230813 original size:18 final size:18
Alignment explanation
Indices: 32230792--32230851 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
32230782 AAATTACAAA
*
32230792 AAAAATAAAATAATTTCT
1 AAAAATAAAATAATTTAT
*
32230810 AAAATACAAAAT-ATTTAT
1 AAAA-ATAAAATAATTTAT
* *
32230828 AAAAATAAAAAAAATTAT
1 AAAAATAAAATAATTTAT
32230846 AAAAAT
1 AAAAAT
32230852 TCTAAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 5 0.14
18 24 0.69
19 6 0.17
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATAAAATAATTTAT
Found at i:32230832 original size:19 final size:18
Alignment explanation
Indices: 32230792--32230899 Score: 67
Period size: 18 Copynumber: 5.8 Consensus size: 18
32230782 AAATTACAAA
* * *
32230792 AAAAATAAAATAATTTCT
1 AAAAATAAAAAAAATTAT
* *
32230810 -AAAATACAAAATATTTAT
1 AAAAATA-AAAAAAATTAT
32230828 AAAAATAAAAAAAATTAT
1 AAAAATAAAAAAAATTAT
** *
32230846 AAAAATTCTAAAAAATTCT
1 AAAAA-TAAAAAAAATTAT
32230865 AAAGAATATATAAAAAAGTTA-
1 AAA-AATA-A-AAAAAA-TTAT
*
32230886 AAAATTAAAAAAAA
1 AAAAATAAAAAAAA
32230900 ACTCTAAAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
17 6 0.08
18 28 0.39
19 21 0.30
20 5 0.07
21 9 0.13
22 2 0.03
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAAATAAAAAAAATTAT
Found at i:32230849 original size:10 final size:10
Alignment explanation
Indices: 32230824--32230898 Score: 54
Period size: 9 Copynumber: 8.0 Consensus size: 10
32230814 TACAAAATAT
32230824 TTAT-AAAAA
1 TTATAAAAAA
*
32230833 -TAAAAAAAA
1 TTATAAAAAA
32230842 TTAT-AAAAA
1 TTATAAAAAA
*
32230851 TTCTAAAAAA
1 TTATAAAAAA
* *
32230861 TTCTAAAGAA
1 TTATAAAAAA
32230871 TATATAAAAAA
1 T-TATAAAAAA
*
32230882 GT-T-AAAAA
1 TTATAAAAAA
32230890 TTA-AAAAAA
1 TTATAAAAAA
32230899 AACTCTAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
8 8 0.15
9 19 0.37
10 18 0.35
11 7 0.13
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:32253643 original size:11 final size:11
Alignment explanation
Indices: 32253627--32253688 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
32253617 ATAGTGATAC
32253627 GGTGGTGCTAT
1 GGTGGTGCTAT
* *
32253638 GGTGGTGGTGT
1 GGTGGTGCTAT
32253649 GGTGGTGCTAT
1 GGTGGTGCTAT
**
32253660 GGTGGTTTTAT
1 GGTGGTGCTAT
* *
32253671 TGTGGTGATAT
1 GGTGGTGCTAT
*
32253682 AGTGGTG
1 GGTGGTG
32253689 TTTTGGTTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 41 1.00
ACGTcount: A:0.10, C:0.03, G:0.47, T:0.40
Consensus pattern (11 bp):
GGTGGTGCTAT
Found at i:32253675 original size:22 final size:22
Alignment explanation
Indices: 32253627--32253688 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
32253617 ATAGTGATAC
*
32253627 GGTGGTGCTATGGTGGTGGTGT
1 GGTGGTGCTATGGTGGTGGTAT
**
32253649 GGTGGTGCTATGGTGGTTTTAT
1 GGTGGTGCTATGGTGGTGGTAT
* * *
32253671 TGTGGTGATATAGTGGTG
1 GGTGGTGCTATGGTGGTG
32253689 TTTTGGTTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.10, C:0.03, G:0.47, T:0.40
Consensus pattern (22 bp):
GGTGGTGCTATGGTGGTGGTAT
Found at i:32257743 original size:29 final size:28
Alignment explanation
Indices: 32257707--32257863 Score: 88
Period size: 29 Copynumber: 5.5 Consensus size: 28
32257697 GCAGAGGTTT
32257707 CCAC-AAGACATTCCTTTAAC-AGAGAT-G
1 CCACAAAGACA-TCCTTTAACGA-AGATAG
*
32257734 ACCACAAAGACATCATTTTAACGAAGATAG
1 -CCACAAAGACATC-CTTTAACGAAGATAG
**
32257764 CCACAAAGACATCCTTTAAATAGAGATAG
1 CCACAAAGACATCCTTTAACGA-AGATAG
** * * * *
32257793 AAATAAAGGA-ATCCTTTTACCTAAGAGAG
1 CCACAAA-GACATCC-TTTAACGAAGATAG
* * * *
32257822 CCTCAAAGGCATTCATTTAACTAAGATAG
1 CCACAAAGACA-TCCTTTAACGAAGATAG
*
32257851 CCACAAAGGCATC
1 CCACAAAGACATC
32257864 ATTTTAATAG
Statistics
Matches: 101, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
28 15 0.15
29 74 0.73
30 12 0.12
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.22
Consensus pattern (28 bp):
CCACAAAGACATCCTTTAACGAAGATAG
Found at i:32257869 original size:29 final size:29
Alignment explanation
Indices: 32257735--32257918 Score: 142
Period size: 29 Copynumber: 6.3 Consensus size: 29
32257725 ACAGAGATGA
* *
32257735 CCACAAAGACATCATTTTAACGAAGATAG
1 CCACAAAGGCATCATTTTAACTAAGATAG
* * *
32257764 CCACAAAGACATC-CTTTAAATAGAGATAG
1 CCACAAAGGCATCATTTTAACTA-AGATAG
** * * * * *
32257793 AAATAAAGGAATCCTTTTACCTAAGAGAG
1 CCACAAAGGCATCATTTTAACTAAGATAG
*
32257822 CCTCAAAGGCATTCA-TTTAACTAAGATAG
1 CCACAAAGGCA-TCATTTTAACTAAGATAG
*
32257851 CCACAAAGGCATCATTTTAA-TAGAGATTG
1 CCACAAAGGCATCATTTTAACTA-AGATAG
* * * *
32257880 CCACATAGGCTTTCA-TTTAATTGAGATAG
1 CCACAAAGGC-ATCATTTTAACTAAGATAG
32257909 CCACAAAGGC
1 CCACAAAGGC
32257919 TTCCTTATAA
Statistics
Matches: 121, Mismatches: 27, Indels: 14
0.75 0.17 0.09
Matches are distributed among these distances:
28 11 0.09
29 98 0.81
30 12 0.10
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (29 bp):
CCACAAAGGCATCATTTTAACTAAGATAG
Found at i:32257929 original size:29 final size:28
Alignment explanation
Indices: 32257820--32257935 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 28
32257810 TACCTAAGAG
*
32257820 AGCCTCAAAGGCATTCATTTAACTA-AGAT
1 AGCCACAAAGGC-TTCATTTAA-TAGAGAT
*
32257849 AGCCACAAAGGCATCATTTTAATAGAGAT
1 AGCCACAAAGGCTTCA-TTTAATAGAGAT
* * *
32257878 TGCCACATAGGCTTTCATTTAATTGAGAT
1 AGCCACAAAGGC-TTCATTTAATAGAGAT
* *
32257907 AGCCACAAAGGCTTCCTTATAATATAGAT
1 AGCCACAAAGGCTTCATT-TAATAGAGAT
32257936 CACCATAAAG
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
28 10 0.14
29 59 0.82
30 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (28 bp):
AGCCACAAAGGCTTCATTTAATAGAGAT
Found at i:32257967 original size:26 final size:26
Alignment explanation
Indices: 32257938--32257997 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
32257928 ATATAGATCA
32257938 CCATAAAGACGTCCATTCAGAGATAG
1 CCATAAAGACGTCCATTCAGAGATAG
* ** *
32257964 CCATAAAGATGTTTATTTAGAGATAG
1 CCATAAAGACGTCCATTCAGAGATAG
*
32257990 CCACAAAG
1 CCATAAAG
32257998 GCTCACTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (26 bp):
CCATAAAGACGTCCATTCAGAGATAG
Found at i:32261546 original size:26 final size:26
Alignment explanation
Indices: 32261512--32261561 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
32261502 GAATATAAAG
32261512 GGGGTTGCTAAGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
32261538 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
32261562 GACTCATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:32261582 original size:33 final size:33
Alignment explanation
Indices: 32261540--32261691 Score: 118
Period size: 33 Copynumber: 4.5 Consensus size: 33
32261530 TTCCCCAAGG
32261540 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
32261573 GGTTGCTAAGTGCTAATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A-C-T-CAT-T---GGT
*
32261615 GGTTGCTAAGTGCTGATTCCCC--C-GA--GG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
32261642 GGTTGCTAAGTACTGATTCCACGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
32261675 GGTTGCTAAGTGCTGAT
1 GGTTGCTAAGTGCTGAT
32261692 CCCACCGTAT
Statistics
Matches: 94, Mismatches: 10, Indels: 30
0.70 0.07 0.22
Matches are distributed among these distances:
27 20 0.21
28 2 0.02
30 1 0.01
32 2 0.02
33 35 0.37
34 4 0.04
35 1 0.01
36 1 0.01
37 2 0.02
38 2 0.02
39 1 0.01
41 2 0.02
42 21 0.22
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
Found at i:32261671 original size:102 final size:102
Alignment explanation
Indices: 32261509--32261741 Score: 378
Period size: 102 Copynumber: 2.3 Consensus size: 102
32261499 TTTGAATATA
* * * *
32261509 AAGGGGGTTGCTAAGTGCTGATT-CCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTACTGATTCCACGAATCATTGGT
*
32261573 GGTTGCTAAGTGCTAATTCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTAATCCCACCGTATCTTAAATGTG
32261610 AAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTACTGATTCCACGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTACTGATTCCACGAATCATTGGT
*
32261675 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTAATCCCACCGTATCTTAAATGTG
* * *
32261712 AAAGGGGTTGCTAAGTGCTGAATCCACCGA
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCGA
32261742 TAACGGATAA
Statistics
Matches: 122, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 23 0.19
102 99 0.81
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTACTGATTCCACGAATCATTGGT
GGTTGCTAAGTGCTAATCCCACCGTATCTTAAATGTG
Found at i:32271466 original size:16 final size:14
Alignment explanation
Indices: 32271423--32271475 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 14
32271413 GCCCAAAATG
32271423 AAAAGAAA-AGAAA
1 AAAAGAAAGAGAAA
*
32271436 GAAAGAGAAGAAGAATA
1 AAAAGA-AAG-AGAA-A
32271453 AAAATGAAAGAGAAA
1 AAAA-GAAAGAGAAA
32271468 AAAAGAAA
1 AAAAGAAA
32271476 AAAAGTATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
15 5 0.15
16 8 0.24
17 7 0.21
18 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (14 bp):
AAAAGAAAGAGAAA
Found at i:32271477 original size:22 final size:23
Alignment explanation
Indices: 32271423--32271480 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
32271413 GCCCAAAATG
32271423 AAAAGAAAAGAAAGAAAGAGAAGA
1 AAAAGAAAA-AAAGAAAGAGAAGA
* * *
32271447 AGAA-TAAAAATGAAAGAGAA-A
1 AAAAGAAAAAAAGAAAGAGAAGA
32271468 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
32271481 TATGAAAAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
21 4 0.15
22 17 0.63
23 3 0.11
24 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (23 bp):
AAAAGAAAAAAAGAAAGAGAAGA
Found at i:32271867 original size:247 final size:246
Alignment explanation
Indices: 32271424--32271916 Score: 815
Period size: 247 Copynumber: 2.0 Consensus size: 246
32271414 CCCAAAATGA
* *
32271424 AAAGAAAAGAAAGAAAGAGAAGAAGAATAAAAATGAAAGAGAAAAAAAGAAAAAAAGTATGAAAA
1 AAAGAAAAGAAAGAAAGAGAAGAAGAATAAAAATGAAAAAGAAAAAAAGAAAAAAAGTACGAAAA
32271489 AGGAAAAGAGACAGGAAATAAGACGTTTAATTCCTTTAGAAACTATCGATTAAAAAGTCAGACAA
66 AGGAAAAGAGACAGGAAATAAGACGTTTAATTCCTTTAGAAACTATCGATTAAAAAGTCAGACAA
* * *
32271554 GTAACAAAAATATTTCCATATCGCGCACAACGCGACTCGAACACAGGACTAGTAATGGGGCAGAC
131 GTAACAAAAATATTTCCATATCACGCACAACGCGACTCGAACACAGGACTAGTAATGCGCCAGAC
*
32271619 ACGTAACCATTGAACCAACAGGCTCATTCTCAACACTAATTTACACAAAAT
196 ACGTAACCATTGAACCAACAGGCTCATTCTCAACACTAATTCACACAAAAT
* * *
32271670 AAAGAAACGAAAGGAAGAGAAGAATAATAAAAATGAAAAAGAAAAAAAGAAGAAAAAGTACGAAA
1 AAAGAAAAGAAAGAAAGAGAAGAAGAATAAAAATGAAAAAGAAAAAAAGAA-AAAAAGTACGAAA
* * * * * *
32271735 AAGGAAAAGTGACATGAAATAAGACGTTTAATTCCTTTAGAAATTATCGATTCAAAATTTAGACA
65 AAGGAAAAGAGACAGGAAATAAGACGTTTAATTCCTTTAGAAACTATCGATTAAAAAGTCAGACA
*
32271800 AGTAACAAAAATATTTCCATATCACGCACATCGCGACTCGAACACAGGACTAGTAATGCGCCAGA
130 AGTAACAAAAATATTTCCATATCACGCACAACGCGACTCGAACACAGGACTAGTAATGCGCCAGA
* *
32271865 CACTTAACCATTGAACCAACAGGCTCATTCTCAACACTGATTCACACAAAAT
195 CACGTAACCATTGAACCAACAGGCTCATTCTCAACACTAATTCACACAAAAT
32271917 CCAGCTGAAG
Statistics
Matches: 228, Mismatches: 18, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
246 47 0.21
247 181 0.79
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (246 bp):
AAAGAAAAGAAAGAAAGAGAAGAAGAATAAAAATGAAAAAGAAAAAAAGAAAAAAAGTACGAAAA
AGGAAAAGAGACAGGAAATAAGACGTTTAATTCCTTTAGAAACTATCGATTAAAAAGTCAGACAA
GTAACAAAAATATTTCCATATCACGCACAACGCGACTCGAACACAGGACTAGTAATGCGCCAGAC
ACGTAACCATTGAACCAACAGGCTCATTCTCAACACTAATTCACACAAAAT
Found at i:32275464 original size:15 final size:15
Alignment explanation
Indices: 32275446--32275476 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32275436 AATTTAACCT
32275446 AAGGGTATTTTTGTC
1 AAGGGTATTTTTGTC
32275461 AAGGGTATTTTTGTC
1 AAGGGTATTTTTGTC
32275476 A
1 A
32275477 TTTTATCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (15 bp):
AAGGGTATTTTTGTC
Found at i:32281725 original size:23 final size:23
Alignment explanation
Indices: 32281682--32281768 Score: 122
Period size: 23 Copynumber: 3.7 Consensus size: 23
32281672 ATTACTGAAT
* *
32281682 ACCAACCGCTACACACTATCTCTG
1 ACCAACC-CAACACACCATCTCTG
32281706 ACCAA-CCAAGCACACCATCTCTG
1 ACCAACCCAA-CACACCATCTCTG
*
32281729 ACCAACCCAACACACCATTTCTG
1 ACCAACCCAACACACCATCTCTG
32281752 ACCAACCCAACACACCA
1 ACCAACCCAACACACCA
32281769 AATAGGGTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
22 2 0.03
23 47 0.81
24 9 0.16
ACGTcount: A:0.36, C:0.45, G:0.06, T:0.14
Consensus pattern (23 bp):
ACCAACCCAACACACCATCTCTG
Found at i:32282965 original size:24 final size:25
Alignment explanation
Indices: 32282928--32282988 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
32282918 CAACGAAAAG
* * * *
32282928 AAAAGGAAGGAAGAGAAGATGAATA
1 AAAAGGAAGAAAGAAAAGAAGAAGA
32282953 AAAAGGAA-AAAGAAAAGAAGAAGA
1 AAAAGGAAGAAAGAAAAGAAGAAGA
*
32282977 AAAAGAAAGAAA
1 AAAAGGAAGAAA
32282989 ATTTAAAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 19 0.63
25 11 0.37
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.03
Consensus pattern (25 bp):
AAAAGGAAGAAAGAAAAGAAGAAGA
Found at i:32289446 original size:18 final size:18
Alignment explanation
Indices: 32289409--32289447 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
32289399 CAAAAAGTGC
* **
32289409 AAAAAAGAAAAATATGAA
1 AAAAAAGAAAAAGAAAAA
32289427 AAAAAAGAAAAAGAAAAA
1 AAAAAAGAAAAAGAAAAA
32289445 AAA
1 AAA
32289448 TTTTGTGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (18 bp):
AAAAAAGAAAAAGAAAAA
Found at i:32297007 original size:19 final size:18
Alignment explanation
Indices: 32296961--32297008 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
32296951 GATAGAATTT
*
32296961 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
32296980 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
32296998 TTGTATTAAAA
1 TTGTA-TAAAA
32297009 ATTTGAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:32297645 original size:14 final size:14
Alignment explanation
Indices: 32297622--32297651 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32297612 CATCCCTCAT
*
32297622 TCACATCTCTTCTC
1 TCACAACTCTTCTC
32297636 TCACAACTCTTCTC
1 TCACAACTCTTCTC
32297650 TC
1 TC
32297652 CTCTCTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:32299127 original size:27 final size:27
Alignment explanation
Indices: 32299090--32299468 Score: 289
Period size: 27 Copynumber: 14.2 Consensus size: 27
32299080 AGAGGTAAAT
32299090 AAATGA-TCGAAATACCCTGATAGGGTA
1 AAATGACT-GAAATACCCTGATAGGGTA
* *
32299117 AAATAACCGAAATACCCCT-ATAGGGTA
1 AAATGACTGAAATA-CCCTGATAGGGTA
* * ** *
32299144 AAATAACTAAAATACCCCCACAGGGTA
1 AAATGACTGAAATACCCTGATAGGGTA
* *
32299171 AAATGACTGAAATA-CCTCCATAGGATA
1 AAATGACTGAAATACCCT-GATAGGGTA
* * * *
32299198 AAATGATTGAAATACCCTCAAAAGGTA
1 AAATGACTGAAATACCCTGATAGGGTA
* **
32299225 AAATAACCAAAATACCCTCGAT-GGGTA
1 AAATGACTGAAATACCCT-GATAGGGTA
* ** *
32299252 AAATGGCTGAAATACCCCCAAAGGGTA
1 AAATGACTGAAATACCCTGATAGGGTA
32299279 AAATGA-TCGAAATACCCTCGA-AGGGTA
1 AAATGACT-GAAATACCCT-GATAGGGTA
* *
32299306 AAATGACTGAAATACCCTTAAAGGGTA
1 AAATGACTGAAATACCCTGATAGGGTA
32299333 AAATGACTGAAATACCCTTGA-AGGGTA
1 AAATGACTGAAATACCC-TGATAGGGTA
* *
32299360 AAATGAC-CAAAAACCCTCGA-AGGGTA
1 AAATGACTGAAATACCCT-GATAGGGTA
* * *
32299386 AATTGACTGAAATACCCTCA-AAGG--
1 AAATGACTGAAATACCCTGATAGGGTA
* * *
32299410 -AATGATTGAAATACCCTCAAAGGGTA
1 AAATGACTGAAATACCCTGATAGGGTA
* ** *
32299436 AAATGACCGAAATACCCCCATAGTGTA
1 AAATGACTGAAATACCCTGATAGGGTA
32299463 AAATGA
1 AAATGA
32299469 TTTTTATACC
Statistics
Matches: 285, Mismatches: 49, Indels: 36
0.77 0.13 0.10
Matches are distributed among these distances:
23 17 0.06
24 3 0.01
25 1 0.00
26 33 0.12
27 219 0.77
28 12 0.04
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATGACTGAAATACCCTGATAGGGTA
Found at i:32299169 original size:54 final size:54
Alignment explanation
Indices: 32299111--32299468 Score: 331
Period size: 54 Copynumber: 6.7 Consensus size: 54
32299101 ATACCCTGAT
* * * *
32299111 AGGGTAAAATAACCGAAATACCCCTATAGGGTAAAATAACTAAAATACCCCCAC
1 AGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCAA
* * * *
32299165 AGGGTAAAATGACTGAAATACCTCC-ATAGGATAAAATGATTGAAATACCCTCAA
1 AGGGTAAAATGACCGAAATACC-CCTATAGGGTAAAATGACTGAAATACCCCCAA
* * * * *
32299219 AAGGTAAAATAACCAAAATACCCTCGAT-GGGTAAAATGGCTGAAATACCCCCAA
1 AGGGTAAAATGACCGAAATACCC-CTATAGGGTAAAATGACTGAAATACCCCCAA
* * **
32299273 AGGGTAAAATGATCGAAATACCCTCGA-AGGGTAAAATGACTGAAATACCCTTAA
1 AGGGTAAAATGACCGAAATACCC-CTATAGGGTAAAATGACTGAAATACCCCCAA
* * * * * *
32299327 AGGGTAAAATGACTGAAATACCCTTGA-AGGGTAAAATGAC-CAAAAACCCTCGA
1 AGGGTAAAATGACCGAAATACCCCT-ATAGGGTAAAATGACTGAAATACCCCCAA
* * * * *
32299380 AGGGTAAATTGACTGAAATA-CCCTCA-AAGG---AATGATTGAAATACCCTCAA
1 AGGGTAAAATGACCGAAATACCCCT-ATAGGGTAAAATGACTGAAATACCCCCAA
* *
32299430 AGGGTAAAATGACCGAAATACCCCCATAGTGTAAAATGA
1 AGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGA
32299469 TTTTTATACC
Statistics
Matches: 249, Mismatches: 44, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
49 5 0.02
50 29 0.12
51 5 0.02
52 7 0.03
53 29 0.12
54 170 0.68
55 4 0.02
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (54 bp):
AGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCAA
Found at i:32299711 original size:26 final size:26
Alignment explanation
Indices: 32299681--32299731 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
32299671 GCCAAGTATA
*
32299681 CTATTATTGACAGCTTTCCTGCGATT
1 CTATTATTGACAGCTTTACTGCGATT
* *
32299707 CTATTATTGGCAGTTTTACTGCGAT
1 CTATTATTGACAGCTTTACTGCGAT
32299732 ATTGGTGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.43
Consensus pattern (26 bp):
CTATTATTGACAGCTTTACTGCGATT
Found at i:32305382 original size:26 final size:26
Alignment explanation
Indices: 32305353--32305423 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
32305343 TCTCCATTTT
* *
32305353 AGATAGTCTTCACAGACTTCCACAAA
1 AGATAGTCCTCACAAACTTCCACAAA
* *
32305379 AGATAGTCCTCACAAACTTCCCCCAA
1 AGATAGTCCTCACAAACTTCCACAAA
*
32305405 AGATAGTCCTGACAAACTT
1 AGATAGTCCTCACAAACTT
32305424 TCTACAGAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.37, C:0.30, G:0.11, T:0.23
Consensus pattern (26 bp):
AGATAGTCCTCACAAACTTCCACAAA
Found at i:32305491 original size:26 final size:27
Alignment explanation
Indices: 32305403--32305503 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 27
32305393 AACTTCCCCC
***
32305403 AAAGATAGTCCTGACAAACTTTCTACA
1 AAAGATAGTCCTGATGGACTTTCTACA
* * * *
32305430 GAAGATAATACTGATGGACTTTCTACC
1 AAAGATAGTCCTGATGGACTTTCTACA
*
32305457 AAAGATAGTCCTAATGGACTTT-TACA
1 AAAGATAGTCCTGATGGACTTTCTACA
*
32305483 AAAGATAGTCCTGACGGACTT
1 AAAGATAGTCCTGATGGACTT
32305504 CCCACATTTT
Statistics
Matches: 60, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
26 22 0.37
27 38 0.63
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (27 bp):
AAAGATAGTCCTGATGGACTTTCTACA
Found at i:32307677 original size:288 final size:287
Alignment explanation
Indices: 32307107--32307963 Score: 1126
Period size: 288 Copynumber: 3.0 Consensus size: 287
32307097 TTTCGTAGAA
* * *
32307107 TTAAAATATTAATCCATGATGACAAGCCCATGTGGAAG-TGTTAAGAAGCTTAGGTGTTACAGTT
1 TTAAAATATCAATCCATGATGACAAGCCCATGTGGAAGATGTTAATAAGCTTAGGTGTTACACTT
* * * * *
32307171 CAAGGACTCCAATCAAGCCTACACGCTTAGTAATGTTATATTCAGTAAACTTGCAATGCATTTGT
66 CAAGGACCCCAATCAAGCCCACACGCTTAGTCATG-TATATTCAGTCAACTTGCAGTGCATTTGT
* * * *
32307236 CGAATGGATCCAAGCATTTTTTGGAGAATATGTTTGCATATCGATTGAAGATTTATTTTTTACCT
130 GGAATGGATCCAAGCATTTTTGGGACAATATGTCTGCATATCGATTGAAGATTTATTTTTTACCT
* * * * * * * ** *
32307301 TTGTAATGCACTTTGAACCATTCGATTTCGAGTTTGGGAAATCAAGTTATGACCATTGTAGTGAA
195 TCGCAATGCACTCTGAACCACTCCATTTTGAATTTGGGATCTCAAGTTATGACCATTTTAGTGAA
**
32307366 GACTGCGCAAGTAGAATTTTTTTGTGGAC
260 GACTGCGTGAGTAGAA-TTTTTTGTGGAC
* *
32307395 TTAAAATATCAATCCATGATAACAAGCCCATGTGAAAGATGTTAATAAGCTTAGGTGTTACACTT
1 TTAAAATATCAATCCATGATGACAAGCCCATGTGGAAGATGTTAATAAGCTTAGGTGTTACACTT
* * * ** *
32307460 CAAGGACCCCAATCAAGCCCACACACTTAGCCATGTATATTTAGTCAACTTGTGGTGCATTTTTG
66 CAAGGACCCCAATCAAGCCCACACGCTTAGTCATGTATATTCAGTCAACTTGCAGTGCATTTGTG
*
32307525 GAATGGATCCAAGTATTTTTGGGACAATATGTCTGCATATCGATTGAAGATTTATTTTTTACCTT
131 GAATGGATCCAAGCATTTTTGGGACAATATGTCTGCATATCGATTGAAGATTTATTTTTTACCTT
*
32307590 CGCAACGCACTCTGATACCACTCCATTTTGAATTTGGGATCTCAAGTTATGACCATTTTAGTGAA
196 CGCAATGCACTCTGA-ACCACTCCATTTTGAATTTGGGATCTCAAGTTATGACCATTTTAGTGAA
*
32307655 GACTGCGTGAGTATAATTTTTTGTGGAC
260 GACTGCGTGAGTAGAATTTTTTGTGGAC
* *** * ** *
32307683 TTCAAATATCAATCCATGATGACAATTTCATTTGGAAGATGTTAATAAGCTTAGGCATTACACAT
1 TTAAAATATCAATCCATGATGACAAGCCCATGTGGAAGATGTTAATAAGCTTAGGTGTTACACTT
* * * *
32307748 CAAGGACCCTAATCAATCCCACACGCTTAGTCATATTATATTCAGTCGACTTGCAGTGCATTTGT
66 CAAGGACCCCAATCAAGCCCACACGCTTAGTCAT-GTATATTCAGTCAACTTGCAGTGCATTTGT
* * * * **
32307813 GGAATGGATCCAAGCACTTTTGGGACAATATGTCTGCACATCGATTGAAGATCTGTTTCATACCT
130 GGAATGGATCCAAGCATTTTTGGGACAATATGTCTGCATATCGATTGAAGATTTATTTTTTACCT
* *
32307878 TCGCAATGCAC-CTTAAACCACT-CACTTTTGATTTTGGGATCTCAAGTTATGACCATTTTAGTG
195 TCGCAATGCACTC-TGAACCACTCCA-TTTTGAATTTGGGATCTCAAGTTATGACCATTTTAGTG
* *
32307941 AAGACTACATGAGTAGAATTTTT
258 AAGACTGCGTGAGTAGAATTTTT
32307964 AGACGAGATT
Statistics
Matches: 496, Mismatches: 68, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
287 2 0.00
288 291 0.59
289 203 0.41
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (287 bp):
TTAAAATATCAATCCATGATGACAAGCCCATGTGGAAGATGTTAATAAGCTTAGGTGTTACACTT
CAAGGACCCCAATCAAGCCCACACGCTTAGTCATGTATATTCAGTCAACTTGCAGTGCATTTGTG
GAATGGATCCAAGCATTTTTGGGACAATATGTCTGCATATCGATTGAAGATTTATTTTTTACCTT
CGCAATGCACTCTGAACCACTCCATTTTGAATTTGGGATCTCAAGTTATGACCATTTTAGTGAAG
ACTGCGTGAGTAGAATTTTTTGTGGAC
Found at i:32308960 original size:19 final size:17
Alignment explanation
Indices: 32308936--32308980 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 17
32308926 AATAAGGATT
32308936 AAATTTGAAACAAAATAGA
1 AAATTTGAAA-AAAAT-GA
32308955 AAATTTTGGAAAAAAATGA
1 AAA-TTT-GAAAAAAATGA
32308974 AAATTTG
1 AAATTTG
32308981 GGAAACAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.04
18 3 0.12
19 8 0.33
20 8 0.33
21 4 0.17
ACGTcount: A:0.58, C:0.02, G:0.13, T:0.27
Consensus pattern (17 bp):
AAATTTGAAAAAAATGA
Found at i:32308984 original size:19 final size:21
Alignment explanation
Indices: 32308942--32308987 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
32308932 GATTAAATTT
*
32308942 GAAACAAAATAGAAAATTTTG
1 GAAACAAAATAGAAAATTTGG
32308963 GAAA-AAAAT-GAAAATTTGG
1 GAAACAAAATAGAAAATTTGG
32308982 GAAACA
1 GAAACA
32308988 GGGATCACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 13 0.57
20 6 0.26
21 4 0.17
ACGTcount: A:0.59, C:0.04, G:0.17, T:0.20
Consensus pattern (21 bp):
GAAACAAAATAGAAAATTTGG
Found at i:32333214 original size:27 final size:27
Alignment explanation
Indices: 32333177--32333384 Score: 326
Period size: 27 Copynumber: 7.6 Consensus size: 27
32333167 TAAATTGTGC
*
32333177 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
32333204 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
32333231 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
32333258 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
32333286 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
32333313 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
32333341 AGCACTAAGTGTGCGAGTTGATTATATAT
1 AGCACTAAGTGTGCGAGTTGA--CTATGT
*
32333370 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32333385 GACTATATAT
Statistics
Matches: 170, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
27 100 0.59
28 52 0.31
29 18 0.11
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:32333296 original size:82 final size:82
Alignment explanation
Indices: 32333177--32333384 Score: 337
Period size: 82 Copynumber: 2.5 Consensus size: 82
32333167 TAAATTGTGC
* *
32333177 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTG
1 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTG
32333242 TGCGAGT-TGACTATGT
66 TGCGAGTATGACTATGT
32333258 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGT-TGATTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
*
32333323 GTGCGAGTATGATTATGT
65 GTGCGAGTATGACTATGT
* *
32333341 AGCACTAAGTGTGCGAGTTGATTATATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGA-T-TATGTAGCACTAAGTGTGCG
32333385 GACTATATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
81 17 0.14
82 56 0.47
83 27 0.23
84 18 0.15
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTG
TGCGAGTATGACTATGT
Found at i:32333308 original size:55 final size:55
Alignment explanation
Indices: 32333177--32333384 Score: 346
Period size: 55 Copynumber: 3.8 Consensus size: 55
32333167 TAAATTGTGC
* *
32333177 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGT-TGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
32333231 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
32333286 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
* * *
32333341 AGCACTAAGTGTGCGAGTTGATTATATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGA--CTATGTAGCACTAAGTGTGCG
32333385 GACTATATAT
Statistics
Matches: 146, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
54 44 0.30
55 84 0.58
57 18 0.12
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
Found at i:32341050 original size:45 final size:44
Alignment explanation
Indices: 32341001--32341207 Score: 186
Period size: 45 Copynumber: 4.6 Consensus size: 44
32340991 AGAGACAAGA
* * *
32341001 AAGACCAT-GATTGAAAGATATCATGGCATTTTACCCAAAAAGAGT
1 AAGACCATAG-TTGAAAGATATCATGGCA-TTAAACCAAAAAGAAT
* * *
32341046 AAGACCATAGTTGAAAGATATTATGGCATTAAACCGAAATGAAT
1 AAGACCATAGTTGAAAGATATCATGGCATTAAACCAAAAAGAAT
** * * **
32341090 AAGACCATAGTTGAAAGATAAT-ATAACACTAAACCGAAAATGTGT
1 AAGACCATAGTTGAAAGAT-ATCATGGCATTAAACC-AAAAAGAAT
* * * * *
32341135 AAGACCATAGTTGAAAGATATTATGGCATTAAATTCGATACGAAT
1 AAGACCATAGTTGAAAGATATCATGGCATTAAA-CCAAAAAGAAT
32341180 AAGACCATAGTTGAAAGATA-CTATGGCA
1 AAGACCATAGTTGAAAGATATC-ATGGCA
32341208 CTACTTCGGA
Statistics
Matches: 134, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
44 42 0.31
45 90 0.67
46 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.25
Consensus pattern (44 bp):
AAGACCATAGTTGAAAGATATCATGGCATTAAACCAAAAAGAAT
Found at i:32341227 original size:45 final size:45
Alignment explanation
Indices: 32341045--32341245 Score: 178
Period size: 45 Copynumber: 4.5 Consensus size: 45
32341035 CCAAAAAGAG
* * *
32341045 TAAGACCATAGTTGAAAGATATTATGGCATTAAA-CCGAAATGA-A
1 TAAGACCATAGTTGAAAGATACTATGGCACTAAATCGGAAAT-ACA
* ** * * ***
32341089 TAAGACCATAGTTGAAAGATAATATAACACTAAACCGAAAATGTG
1 TAAGACCATAGTTGAAAGATACTATGGCACTAAATCGGAAATACA
* *
32341134 TAAGACCATAGTTGAAAGATATTATGGCATTAAATTC-G--ATACGAA
1 TAAGACCATAGTTGAAAGATACTATGGCACTAAA-TCGGAAATAC--A
**
32341179 TAAGACCATAGTTGAAAGATACTATGGCACTACTTCGGAAATACA
1 TAAGACCATAGTTGAAAGATACTATGGCACTAAATCGGAAATACA
* *
32341224 TAAGACCATGGTTGGAAGATAC
1 TAAGACCATAGTTGAAAGATAC
32341246 CATGACATCC
Statistics
Matches: 126, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
43 2 0.02
44 32 0.25
45 87 0.69
46 1 0.01
47 4 0.03
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGATACTATGGCACTAAATCGGAAATACA
Found at i:32341229 original size:90 final size:89
Alignment explanation
Indices: 32341045--32341244 Score: 256
Period size: 90 Copynumber: 2.2 Consensus size: 89
32341035 CCAAAAAGAG
*
32341045 TAAGACCATAGTTGAAAGATATTATGGCATTAAACCGAAATGAATAAGACCATAGTTGAAAGATA
1 TAAGACCATAGTTGAAAGATATTATGGCATTAAACCGAAACGAATAAGACCATAGTTGAAAGATA
***
32341110 ATATAACACTAAACCGAAAATGTG
66 ATATAACACTAAACCGAAAATACA
* *
32341134 TAAGACCATAGTTGAAAGATATTATGGCATTAAATTCGATACGAATAAGACCATAGTTGAAAGAT
1 TAAGACCATAGTTGAAAGATATTATGGCATTAAA-CCGAAACGAATAAGACCATAGTTGAAAGAT
* ** *** *
32341199 ACTATGGCACTACTTCGGAAATACA
65 AATATAACACTAAACCGAAAATACA
* *
32341224 TAAGACCATGGTTGGAAGATA
1 TAAGACCATAGTTGAAAGATA
32341245 CCATGACATC
Statistics
Matches: 95, Mismatches: 15, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
89 34 0.36
90 61 0.64
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (89 bp):
TAAGACCATAGTTGAAAGATATTATGGCATTAAACCGAAACGAATAAGACCATAGTTGAAAGATA
ATATAACACTAAACCGAAAATACA
Found at i:32342759 original size:137 final size:137
Alignment explanation
Indices: 32342612--32343030 Score: 617
Period size: 138 Copynumber: 3.0 Consensus size: 137
32342602 GAACATGAAC
***
32342612 ATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATGGAATTTATTAA
1 ATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAACAAATTTATTAA
** * *
32342677 TATAAGTAGTTATATTAATTAATTTAGGTCAAAAATAAAAAACATAGAAATTAATATTATTTTGA
66 TATAAAAAGTTATATTAATTAATTTCGGTCAAAAATAAAAGACATAGAAATTAATATTATTTTGA
*
32342742 AAATAAT
131 AAAGAAT
* *
32342749 ATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAAATTATTAA
1 ATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAACAAATTTATTAA
* * * *
32342814 TAGAAAAAGTTATATTAATTAATTTCGATCAAATTATAAAAGACATGGAAATTAATATTATTTTG
66 TATAAAAAGTTATATTAATTAATTTCGGTCAAA-AATAAAAGACATAGAAATTAATATTATTTTG
32342879 AAAAGAAT
130 AAAAGAAT
* *
32342887 ATAATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTAAACAAATTTATTAA
1 ATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAACAAATTTATTAA
* *
32342952 TATAAACAA-TTATATTAATTAATTTCGGTCAAAATATAAAAGACA-AGTAAACTAATATTCTTT
66 TATAAA-AAGTTATATTAATTAATTTCGGTCAAAA-ATAAAAGACATAG-AAATTAATATTATTT
*
32343015 TGGAAAGAAT
128 TGAAAAGAAT
32343025 ATAATT
1 ATAATT
32343031 CATTTTTCTA
Statistics
Matches: 254, Mismatches: 24, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
137 90 0.35
138 162 0.64
139 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (137 bp):
ATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAACAAATTTATTAA
TATAAAAAGTTATATTAATTAATTTCGGTCAAAAATAAAAGACATAGAAATTAATATTATTTTGA
AAAGAAT
Found at i:32342959 original size:18 final size:18
Alignment explanation
Indices: 32342936--32342970 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32342926 TGTATATATT
32342936 TAAACAAATT-TATTAATA
1 TAAAC-AATTATATTAATA
32342954 TAAACAATTATATTAAT
1 TAAACAATTATATTAAT
32342971 TAATTTCGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAACAATTATATTAATA
Found at i:32353255 original size:16 final size:17
Alignment explanation
Indices: 32353222--32353255 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32353212 CAATTTAATC
*
32353222 CAAAATTCACACTTTTG
1 CAAAATTCACAATTTTG
32353239 CAAAATT-ACAATTTTG
1 CAAAATTCACAATTTTG
32353255 C
1 C
32353256 CCATATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (17 bp):
CAAAATTCACAATTTTG
Found at i:32354530 original size:52 final size:52
Alignment explanation
Indices: 32354452--32354556 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
32354442 TGAGAAGCAG
32354452 CATAAACCCCTAGGAATCCCTACGATTTTCCCATTGGATTGGGAGGAGCCAC
1 CATAAACCCCTAGGAATCCCTACGATTTTCCCATTGGATTGGGAGGAGCCAC
32354504 CATAAACCCCTAGGAATCCCTACGATTTTCCCATTGGATTGGGAGGAGCCAC
1 CATAAACCCCTAGGAATCCCTACGATTTTCCCATTGGATTGGGAGGAGCCAC
32354556 C
1 C
32354557 TTATTTTTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (52 bp):
CATAAACCCCTAGGAATCCCTACGATTTTCCCATTGGATTGGGAGGAGCCAC
Found at i:32362210 original size:35 final size:35
Alignment explanation
Indices: 32362164--32362234 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
32362154 ATATAAATGC
32362164 TTAATAAACTCAATTGACAAGTACCATACTTACCT
1 TTAATAAACTCAATTGACAAGTACCATACTTACCT
32362199 TTAATAAACTCAATTGACAAGTACCATACTTACCT
1 TTAATAAACTCAATTGACAAGTACCATACTTACCT
32362234 T
1 T
32362235 GCTAAGAGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (35 bp):
TTAATAAACTCAATTGACAAGTACCATACTTACCT
Found at i:32372241 original size:193 final size:193
Alignment explanation
Indices: 32371912--32372297 Score: 772
Period size: 193 Copynumber: 2.0 Consensus size: 193
32371902 ACATACATAT
32371912 TTTATTGTTGTAGATATATTATGGCTGCAAACACTAATACACTCTCATTGCGATCAATCATTGAG
1 TTTATTGTTGTAGATATATTATGGCTGCAAACACTAATACACTCTCATTGCGATCAATCATTGAG
32371977 AAGGACAAATTGAATGGTTTGAATTTTCTTGACTGGTTCCGTAACTTAAGGATTGTCCTCAAACA
66 AAGGACAAATTGAATGGTTTGAATTTTCTTGACTGGTTCCGTAACTTAAGGATTGTCCTCAAACA
32372042 AGAACGGAAATTATATGTCATTGAACAACCGTTTCCTAATGAACCACCCGCTAATGCCTTGAG
131 AGAACGGAAATTATATGTCATTGAACAACCGTTTCCTAATGAACCACCCGCTAATGCCTTGAG
32372105 TTTATTGTTGTAGATATATTATGGCTGCAAACACTAATACACTCTCATTGCGATCAATCATTGAG
1 TTTATTGTTGTAGATATATTATGGCTGCAAACACTAATACACTCTCATTGCGATCAATCATTGAG
32372170 AAGGACAAATTGAATGGTTTGAATTTTCTTGACTGGTTCCGTAACTTAAGGATTGTCCTCAAACA
66 AAGGACAAATTGAATGGTTTGAATTTTCTTGACTGGTTCCGTAACTTAAGGATTGTCCTCAAACA
32372235 AGAACGGAAATTATATGTCATTGAACAACCGTTTCCTAATGAACCACCCGCTAATGCCTTGAG
131 AGAACGGAAATTATATGTCATTGAACAACCGTTTCCTAATGAACCACCCGCTAATGCCTTGAG
32372298 GGCTGATAGA
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
193 193 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (193 bp):
TTTATTGTTGTAGATATATTATGGCTGCAAACACTAATACACTCTCATTGCGATCAATCATTGAG
AAGGACAAATTGAATGGTTTGAATTTTCTTGACTGGTTCCGTAACTTAAGGATTGTCCTCAAACA
AGAACGGAAATTATATGTCATTGAACAACCGTTTCCTAATGAACCACCCGCTAATGCCTTGAG
Found at i:32376369 original size:43 final size:43
Alignment explanation
Indices: 32376321--32376538 Score: 174
Period size: 43 Copynumber: 5.1 Consensus size: 43
32376311 AATAAATGCC
* * * *
32376321 GCTATAGATCATGACCTTTAGCGACGCTTTTTCCACAAACGTT
1 GCTATAGATCAAGACCTTTAGCGACGCTTCTCCCACAAACGCT
* * * *
32376364 GCTATAGATTAGGACATTTAGCGGCGCTTCTCCCACAAACGCT
1 GCTATAGATCAAGACCTTTAGCGACGCTTCTCCCACAAACGCT
* ** * *
32376407 GCTATAGCTCAAGACCTTTAGCGGTGCTTCT-CCAAAAACCGCC
1 GCTATAGATCAAGACCTTTAGCGACGCTTCTCCCACAAA-CGCT
* * *
32376450 GCTATAGCTTAAGACCTTTAGCGGCAC-CTT-TCCCACAAACTCT
1 GCTATAGATCAAGACCTTTAGC-G-ACGCTTCTCCCACAAACGCT
* ** * * * *
32376493 GCTATAGAACAA-ACCTTTATTGGCGCTTCTCGCAAAAACGCC
1 GCTATAGATCAAGACCTTTAGCGACGCTTCTCCCACAAACGCT
32376535 GCTA
1 GCTA
32376539 AAAACATAAC
Statistics
Matches: 139, Mismatches: 30, Indels: 13
0.76 0.16 0.07
Matches are distributed among these distances:
40 1 0.01
41 4 0.03
42 26 0.19
43 98 0.71
44 10 0.07
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (43 bp):
GCTATAGATCAAGACCTTTAGCGACGCTTCTCCCACAAACGCT
Found at i:32376470 original size:86 final size:85
Alignment explanation
Indices: 32376364--32376538 Score: 219
Period size: 86 Copynumber: 2.0 Consensus size: 85
32376354 CACAAACGTT
* * **
32376364 GCTATAGATTAGGACATTTAGCGGC-GCTTCTCCCACAAACGCTGCTATAGCTCAAGACCTTTAG
1 GCTATAGATTAAGACATTTAGCGGCACCTT-TCCCACAAACGCTGCTATAGAACAA-ACCTTTAG
*
32376428 CGGTGCTTCTC-CAAAAACCGCC
64 CGGCGCTTCTCGCAAAAA-CGCC
* * * **
32376450 GCTATAGCTTAAGACCTTTAGCGGCACCTTTCCCACAAACTCTGCTATAGAACAAACCTTTATTG
1 GCTATAGATTAAGACATTTAGCGGCACCTTTCCCACAAACGCTGCTATAGAACAAACCTTTAGCG
32376515 GCGCTTCTCGCAAAAACGCC
66 GCGCTTCTCGCAAAAACGCC
32376535 GCTA
1 GCTA
32376539 AAAACATAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
85 24 0.31
86 50 0.65
87 3 0.04
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (85 bp):
GCTATAGATTAAGACATTTAGCGGCACCTTTCCCACAAACGCTGCTATAGAACAAACCTTTAGCG
GCGCTTCTCGCAAAAACGCC
Found at i:32379257 original size:25 final size:26
Alignment explanation
Indices: 32379224--32379272 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
32379214 GTGAAATTAT
*
32379224 TTTTTTGTGTCG-TTTTTATAAAATA
1 TTTTTTGTGGCGTTTTTTATAAAATA
32379249 TTTTTTGTGGCGTTTTTTATAAAA
1 TTTTTTGTGGCGTTTTTTATAAAA
32379273 ACGCTGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.22, C:0.04, G:0.14, T:0.59
Consensus pattern (26 bp):
TTTTTTGTGGCGTTTTTTATAAAATA
Found at i:32379578 original size:72 final size:72
Alignment explanation
Indices: 32379461--32379640 Score: 360
Period size: 72 Copynumber: 2.5 Consensus size: 72
32379451 AAGTTAGAAT
32379461 TATCCAAATTAAATAATTACCTATATATCCATATCATTTTTATTTTTGTATTTTTTTCTTATAAT
1 TATCCAAATTAAATAATTACCTATATATCCATATCATTTTTATTTTTGTATTTTTTTCTTATAAT
32379526 TTGGTCC
66 TTGGTCC
32379533 TATCCAAATTAAATAATTACCTATATATCCATATCATTTTTATTTTTGTATTTTTTTCTTATAAT
1 TATCCAAATTAAATAATTACCTATATATCCATATCATTTTTATTTTTGTATTTTTTTCTTATAAT
32379598 TTGGTCC
66 TTGGTCC
32379605 TATCCAAATTAAATAATTACCTATATATCCATATCA
1 TATCCAAATTAAATAATTACCTATATATCCATATCA
32379641 AATATACCAA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 108 1.00
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.49
Consensus pattern (72 bp):
TATCCAAATTAAATAATTACCTATATATCCATATCATTTTTATTTTTGTATTTTTTTCTTATAAT
TTGGTCC
Found at i:32380005 original size:21 final size:21
Alignment explanation
Indices: 32379930--32380015 Score: 91
Period size: 21 Copynumber: 4.0 Consensus size: 21
32379920 CTCTTAAATT
*
32379930 CCTAAATCCTAAACCCTAAATC
1 CCTAAATCCTAACCCCTAAA-C
* * *
32379952 CCTAACTCTTAACCCCTAACC
1 CCTAAATCCTAACCCCTAAAC
* *
32379973 CCTAACTTCTAACCCCTAAAC
1 CCTAAATCCTAACCCCTAAAC
* *
32379994 CTTAAATCCTAACCCTTAAAC
1 CCTAAATCCTAACCCCTAAAC
32380015 C
1 C
32380016 ATAATCCCTA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
21 37 0.70
22 16 0.30
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (21 bp):
CCTAAATCCTAACCCCTAAAC
Found at i:32380025 original size:21 final size:20
Alignment explanation
Indices: 32379981--32380040 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
32379971 CCCCTAACTT
* *
32379981 CTAACCCCTAAACCTTAAATC
1 CTAACCCATAAACCAT-AATC
*
32380002 CTAACCCTTAAACCATAATCC
1 CTAACCCATAAACCATAAT-C
* *
32380023 CTAATCCATAATCCATAA
1 CTAACCCATAAACCATAA
32380041 ATCCATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (20 bp):
CTAACCCATAAACCATAATC
Found at i:32380029 original size:7 final size:7
Alignment explanation
Indices: 32380014--32380047 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
32380004 AACCCTTAAA
32380014 CCATAAT
1 CCATAAT
*
32380021 CCCTAAT
1 CCATAAT
32380028 CCATAAT
1 CCATAAT
32380035 CCATAAAT
1 CCAT-AAT
32380043 CCATA
1 CCATA
32380048 TATAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.26
Consensus pattern (7 bp):
CCATAAT
Found at i:32380031 original size:14 final size:15
Alignment explanation
Indices: 32379996--32380047 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 15
32379986 CCCTAAACCT
* *
32379996 TAAATCC-TAACCCT
1 TAAATCCATAATCCA
*
32380010 TAAA-CCATAATCCC
1 TAAATCCATAATCCA
32380024 T-AATCCATAATCCA
1 TAAATCCATAATCCA
32380038 TAAATCCATA
1 TAAATCCATA
32380048 TATAATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 4 0.12
14 20 0.62
15 8 0.25
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAATCCATAATCCA
Found at i:32380111 original size:18 final size:21
Alignment explanation
Indices: 32380088--32380138 Score: 72
Period size: 18 Copynumber: 2.6 Consensus size: 21
32380078 CAAAACACGC
32380088 AAAAAACTGAACTG-G-A-TA
1 AAAAAACTGAACTGAGCACTA
32380106 AAAAAACTGAACTGAGCACTA
1 AAAAAACTGAACTGAGCACTA
*
32380127 AAAATACTGAAC
1 AAAAAACTGAAC
32380139 CGAGATAGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 14 0.48
19 1 0.03
20 1 0.03
21 13 0.45
ACGTcount: A:0.55, C:0.16, G:0.14, T:0.16
Consensus pattern (21 bp):
AAAAAACTGAACTGAGCACTA
Found at i:32380370 original size:14 final size:13
Alignment explanation
Indices: 32380353--32380401 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 13
32380343 CCCCAGACTT
32380353 TAAACCATAAGCCA
1 TAAACCATAA-CCA
32380367 TAAACCATAACCA
1 TAAACCATAACCA
32380380 CTAAACCCATAATCCA
1 -TAAA-CCATAA-CCA
32380396 TAAACC
1 TAAACC
32380402 TTAAAATGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.09
14 16 0.50
15 10 0.31
16 3 0.09
ACGTcount: A:0.49, C:0.33, G:0.02, T:0.16
Consensus pattern (13 bp):
TAAACCATAACCA
Found at i:32380691 original size:40 final size:41
Alignment explanation
Indices: 32380638--32380751 Score: 106
Period size: 41 Copynumber: 2.8 Consensus size: 41
32380628 ATCTCTTAGC
*
32380638 ATTAGCGGAGCTTTTTAGAAAACGCAGCTAAA-AATAGAGA
1 ATTAGCGGCGCTTTTTAGAAAACGCAGCTAAAGAATAGAGA
* * * ** * *
32380678 ATTCGCGGCGCTTTATCA-AAAACGCTGCTAAAGCCTTGAGC
1 ATTAGCGGCGCTTT-TTAGAAAACGCAGCTAAAGAATAGAGA
* * *
32380719 ATTAGCGGCGCTTTCTCGAAAACGTAGCTAAAG
1 ATTAGCGGCGCTTTTTAGAAAACGCAGCTAAAG
32380752 CCCTGAGCAT
Statistics
Matches: 57, Mismatches: 14, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
40 25 0.44
41 32 0.56
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTAGAAAACGCAGCTAAAGAATAGAGA
Found at i:32380793 original size:81 final size:82
Alignment explanation
Indices: 32380635--32380835 Score: 212
Period size: 81 Copynumber: 2.5 Consensus size: 82
32380625 TAAATCTCTT
* * ** * * *
32380635 AGCATTAGCGG-AGCTTTTTAGAAAACGCAGCTAAA--AATAGAGAATTCGCGGCGCTTTATCAA
1 AGCATTAGCGGCA-CTTTCTAAAAAACGCAGCTAAAGCCCT-GAGCATTAGCGTCGCTTTATCAA
* * *
32380697 AAACGCTGCTAAAGCCTTG
64 AAACACCGCTAAAGCCCTG
* ** * *
32380716 AGCATTAGCGGCGCTTTCTCGAAAACGTAGCTAAAGCCCTGAGCATTAGCGTCGCTTTCTCAAAA
1 AGCATTAGCGGCACTTTCTAAAAAACGCAGCTAAAGCCCTGAGCATTAGCGTCGCTTTATCAAAA
32380781 ACACCGCT-AAGCCCTG
66 ACACCGCTAAAGCCCTG
*
32380797 AGCATTAGCGGCACTTTCTAAAAAACGCCGCTAAAGCCC
1 AGCATTAGCGGCACTTTCTAAAAAACGCAGCTAAAGCCC
32380836 CCGAAAACTC
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
81 71 0.72
82 27 0.27
83 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (82 bp):
AGCATTAGCGGCACTTTCTAAAAAACGCAGCTAAAGCCCTGAGCATTAGCGTCGCTTTATCAAAA
ACACCGCTAAAGCCCTG
Found at i:32380804 original size:40 final size:41
Alignment explanation
Indices: 32380682--32380835 Score: 211
Period size: 41 Copynumber: 3.8 Consensus size: 41
32380672 TAGAGAATTC
* * *
32380682 GCGGCGCTTTATCAAAAACGCTGCTAAAGCCTTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* **
32380723 GCGGCGCTTTCTCGAAAACGTAGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
32380764 GCGTCGCTTTCTCAAAAACACCGCT-AAGCCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
32380804 GCGGCACTTTCTAAAAAACGCCGCTAAAGCCC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCC
32380836 CCGAAAACTC
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 36 0.37
41 62 0.63
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:32381029 original size:12 final size:12
Alignment explanation
Indices: 32381012--32381037 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32381002 TTTTTTATCC
32381012 AAACGCCGCTAA
1 AAACGCCGCTAA
32381024 AAACGCCGCTAA
1 AAACGCCGCTAA
32381036 AA
1 AA
32381038 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:32385294 original size:49 final size:51
Alignment explanation
Indices: 32385180--32385302 Score: 121
Period size: 49 Copynumber: 2.5 Consensus size: 51
32385170 TCATCAGAGG
* * * **
32385180 TCCCATGTAAGACC-TTGTCTGGGATATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATTGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * *
32385230 TCCCCCT-TAAAACCATT-T-TGGGACATGGCATGGGCACCGATATGAGAAC
1 T-CCCATGTAAGACCATTGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
*
32385279 TCCCATGTAAGACCA-TATCTGGGA
1 TCCCATGTAAGACCATTGTCTGGGA
32385303 TATGACATTG
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
48 5 0.09
49 34 0.59
50 13 0.22
51 6 0.10
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (51 bp):
TCCCATGTAAGACCATTGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:32385581 original size:12 final size:12
Alignment explanation
Indices: 32385564--32385602 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
32385554 ATGAGTTATT
32385564 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
32385576 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
32385588 TAAGTGAGTAAG
1 TAAGTAAGCAAG
32385600 TAA
1 TAA
32385603 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:32389890 original size:49 final size:51
Alignment explanation
Indices: 32389776--32389898 Score: 121
Period size: 49 Copynumber: 2.5 Consensus size: 51
32389766 TCATCAGAGG
* * * **
32389776 TCCCATGTAAGACC-TTGTCTGGGATATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATTGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * *
32389826 TCCCCCT-TAAAACCATT-T-TGGGACATGGCATGGGCACCGATATGAGAAC
1 T-CCCATGTAAGACCATTGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
*
32389875 TCCCATGTAAGACCA-TATCTGGGA
1 TCCCATGTAAGACCATTGTCTGGGA
32389899 TATGACATTG
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
48 5 0.09
49 34 0.59
50 13 0.22
51 6 0.10
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (51 bp):
TCCCATGTAAGACCATTGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:32390177 original size:12 final size:12
Alignment explanation
Indices: 32390160--32390198 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
32390150 ATGAGTTATT
32390160 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
32390172 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
32390184 TAAGTGAGTAAG
1 TAAGTAAGCAAG
32390196 TAA
1 TAA
32390199 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:32397623 original size:12 final size:12
Alignment explanation
Indices: 32397606--32397644 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
32397596 ATGAGTTATT
32397606 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
32397618 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
32397630 TAAGTGAGAAAG
1 TAAGTAAGCAAG
32397642 TAA
1 TAA
32397645 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.54, C:0.05, G:0.23, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:32404948 original size:14 final size:14
Alignment explanation
Indices: 32404929--32404965 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
32404919 AAAATCCTCA
32404929 TGGTTTAACTTGAT
1 TGGTTTAACTTGAT
32404943 TGGTTTAACTTGAT
1 TGGTTTAACTTGAT
32404957 TGGTTTAAC
1 TGGTTTAAC
32404966 GAACCAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.08, G:0.22, T:0.49
Consensus pattern (14 bp):
TGGTTTAACTTGAT
Found at i:32428970 original size:15 final size:15
Alignment explanation
Indices: 32428950--32428980 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32428940 TTACATCTTC
32428950 ACTTTTTAAATAAAT
1 ACTTTTTAAATAAAT
32428965 ACTTTTTAAATAAAT
1 ACTTTTTAAATAAAT
32428980 A
1 A
32428981 TAAATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
ACTTTTTAAATAAAT
Found at i:32429446 original size:19 final size:17
Alignment explanation
Indices: 32429419--32429461 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
32429409 TTTTTCCTCA
*
32429419 AAAAATTTAATTATATTT
1 AAAAATTTAATT-TAATT
32429437 AAATAATTTAATTTAATT
1 AAA-AATTTAATTTAATT
32429455 AAAAATT
1 AAAAATT
32429462 ATATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 10 0.43
19 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAAATTTAATTTAATT
Found at i:32432928 original size:465 final size:465
Alignment explanation
Indices: 32432057--32432986 Score: 1842
Period size: 465 Copynumber: 2.0 Consensus size: 465
32432047 TTGGAAGGAC
32432057 GGGATAATTTCCCTTTTGGTCCTCCGATGTCACGCGCGCATTCAATTGGGTCCTTTCTTTTTTAA
1 GGGATAATTTCCCTTTTGGTCCTCCGATGTCACGCGCGCATTCAATTGGGTCCTTTCTTTTTTAA
32432122 ATTTATTCTAAATCCGCCCATTTCTTTCGTTTTTAATTCAATTCAATCCATTTTAGTTTCTTATC
66 ATTTATTCTAAATCCGCCCATTTCTTTCGTTTTTAATTCAATTCAATCCATTTTAGTTTCTTATC
32432187 ATAATTATGCTATACCCTTATTTTATTTTATTTATTGTTATTATTGTTAACATTATTATTATTAT
131 ATAATTATGCTATACCCTTATTTTATTTTATTTATTGTTATTATTGTTAACATTATTATTATTAT
**
32432252 TATTCACACACTTTTAAACTTTTTTTTTTAATACTCATATTTTATACAAACTTACACTTTTTTTT
196 TATTCACACACTTTTAAACTTTTTTTTCAAATACTCATATTTTATACAAACTTACACTTTTTTTT
32432317 ACTTTGTAAATATATACGTATATATATAATTTTATATTTTTATTTTATTGATTCACGACACATAT
261 ACTTTGTAAATATATACGTATATATATAATTTTATATTTTTATTTTATTGATTCACGACACATAT
32432382 TTTATATATTTTATTATTATATTATCTTAGTTTTTTATATATAGTTTATATATACATATATATAT
326 TTTATATATTTTATTATTATATTATCTTAGTTTTTTATATATAGTTTATATATACATATATATAT
32432447 ACATTTACATTTTATAATACATATGCATTCTTCCATTTTATAATTCATTCACATTTTCATATACA
391 ACATTTACATTTTATAATACATATGCATTCTTCCATTTTATAATTCATTCACATTTTCATATACA
32432512 TATATATATT
456 TATATATATT
32432522 GGGATAATTTCCCTTTTGGTCCTCCGATGTCACGCGCGCATTCAATTGGGTCCTTTCTTTTTTAA
1 GGGATAATTTCCCTTTTGGTCCTCCGATGTCACGCGCGCATTCAATTGGGTCCTTTCTTTTTTAA
32432587 ATTTATTCTAAATCCGCCCATTTCTTTCGTTTTTAATTCAATTCAATCCATTTTAGTTTCTTATC
66 ATTTATTCTAAATCCGCCCATTTCTTTCGTTTTTAATTCAATTCAATCCATTTTAGTTTCTTATC
32432652 ATAATTATGCTATACCCTTATTTTATTTTATTTATTGTTATTATTGTTAACATTATTATTATTAT
131 ATAATTATGCTATACCCTTATTTTATTTTATTTATTGTTATTATTGTTAACATTATTATTATTAT
32432717 TATTCACACACTTTTAAACTTTTTTTTCAAATACTCATATTTTATACAAACTTACACTTTTTTTT
196 TATTCACACACTTTTAAACTTTTTTTTCAAATACTCATATTTTATACAAACTTACACTTTTTTTT
32432782 ACTTTGTAAATATATACGTATATATATAATTTTATATTTTTATTTTATTGATTCACGACACATAT
261 ACTTTGTAAATATATACGTATATATATAATTTTATATTTTTATTTTATTGATTCACGACACATAT
32432847 TTTATATATTTTATTATTATATTATCTTAGTTTTTTATATATAGTTTATATATACATATATATAT
326 TTTATATATTTTATTATTATATTATCTTAGTTTTTTATATATAGTTTATATATACATATATATAT
32432912 ACATTTACATTTTATAATACATATGCATTCTTCCATTTTATAATTCATTCACATTTTCATATACA
391 ACATTTACATTTTATAATACATATGCATTCTTCCATTTTATAATTCATTCACATTTTCATATACA
32432977 TATATATATT
456 TATATATATT
32432987 TTCGTAGTTT
Statistics
Matches: 463, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
465 463 1.00
ACGTcount: A:0.29, C:0.14, G:0.06, T:0.51
Consensus pattern (465 bp):
GGGATAATTTCCCTTTTGGTCCTCCGATGTCACGCGCGCATTCAATTGGGTCCTTTCTTTTTTAA
ATTTATTCTAAATCCGCCCATTTCTTTCGTTTTTAATTCAATTCAATCCATTTTAGTTTCTTATC
ATAATTATGCTATACCCTTATTTTATTTTATTTATTGTTATTATTGTTAACATTATTATTATTAT
TATTCACACACTTTTAAACTTTTTTTTCAAATACTCATATTTTATACAAACTTACACTTTTTTTT
ACTTTGTAAATATATACGTATATATATAATTTTATATTTTTATTTTATTGATTCACGACACATAT
TTTATATATTTTATTATTATATTATCTTAGTTTTTTATATATAGTTTATATATACATATATATAT
ACATTTACATTTTATAATACATATGCATTCTTCCATTTTATAATTCATTCACATTTTCATATACA
TATATATATT
Found at i:32437520 original size:6 final size:6
Alignment explanation
Indices: 32437500--32437535 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
32437490 GTGATGTGAA
32437500 AAAATG AAAAGATG AAAATG AAAATG AAAATG AAAA
1 AAAATG -AAA-ATG AAAATG AAAATG AAAATG AAAA
32437536 ATGGAGAGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 19 0.68
7 6 0.21
8 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:32438893 original size:50 final size:50
Alignment explanation
Indices: 32438834--32439008 Score: 147
Period size: 50 Copynumber: 3.5 Consensus size: 50
32438824 AAAAGTAAAA
32438834 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCAGTACAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCAGTACAGTGGAGC
* * ** * ** * * ** **
32438884 AGATTGAAGCTACGACGGCGGATC-TGGTTTCTCTGATATTGC-GATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCT-TGGCAGTACAG-TGGAGC
* * * *
32438934 AGGTTGAAGCCACAACGACAGATCTTACTTCCTTGGCAGTACAGCGGAGC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCAGTACAGTGGAGC
* *
32438984 AGATTGAAGCTACGACGGCGGATCT
1 AGATTGAAGCCACAACGGCGGATCT
32439009 GGTTTCCCTG
Statistics
Matches: 86, Mismatches: 35, Indels: 8
0.67 0.27 0.06
Matches are distributed among these distances:
49 6 0.07
50 74 0.86
51 6 0.07
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCAGTACAGTGGAGC
Found at i:32439002 original size:100 final size:100
Alignment explanation
Indices: 32438829--32439529 Score: 502
Period size: 100 Copynumber: 6.9 Consensus size: 100
32438819 GGTTGAAAAG
* * *
32438829 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCAGTACAGTGGAGCAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCTTGGCAGTACAGCGGAGCAGATTGAAGC
*
32438894 TACGACGGCGGATCTGGTTTCTCTGATATTGCGAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCGAT
*
32438929 TAAAAAGGTTGAAGCCACAACGACAGATCTTACTTCCTTGGCAGTACAGCGGAGCAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCTTGGCAGTACAGCGGAGCAGATTGAAGC
32438994 TACGACGGCGGATCTGGTTTCCCTGATATTGCGAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCGAT
* * * *
32439029 TAAAAAGATTGAAGCCACAACGACAGATCTTATTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCTTGGCAGTACAGCGGAGCAGATTGAAGC
******************************
32439094 TACGATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
66 TACGA-------------CGGCGGATCTGGTTTCCCTGATATTGCGAT
*********** * * * * * * ** *
32439142 NNNNNNNNNNAAAGCCACAACGGCAGATCTTATTTCCTTAGTAGTGCAGCAGAATAAATTGAAGC
1 TAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCTTGGCAGTACAGCGGAGCAGATTGAAGC
*
32439207 TACGACGGCGGATGTGGTTTCCCTGATATTGCGAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCGAT
* * ** *
32439242 TAAAAAGATTGAAGCCACAACGACAGATCTTATTTCCTTAGCAGTGTAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCTTGGCAGTACAGCGGAGCAGATTGAAGC
* * *
32439307 TACGACTGTGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCGAT
* *** * * * * *
32439342 TAATAAGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTAAAGC
1 TAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCTTGGCAGTACAGCGGAGCAGATTGAAGC
* *
32439407 TATGACGGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCGAT
* * * * * * * *
32439442 TAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCCTGACGGTGCGGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCTTGGCAGTACAGCGGAGCAGATTGAAGC
32439507 TACGACGGCGGATCTGGTTTCCC
66 TACGACGGCGGATCTGGTTTCCC
32439530 CGACATTGTA
Statistics
Matches: 460, Mismatches: 128, Indels: 26
0.75 0.21 0.04
Matches are distributed among these distances:
100 406 0.88
113 54 0.12
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.24
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCTTGGCAGTACAGCGGAGCAGATTGAAGC
TACGACGGCGGATCTGGTTTCCCTGATATTGCGAT
Found at i:32439038 original size:50 final size:50
Alignment explanation
Indices: 32438884--32439043 Score: 137
Period size: 50 Copynumber: 3.2 Consensus size: 50
32438874 ACAGTGGAGC
*
32438884 AGATTGAAGCTACGACGGCGGATCTGGTTTCTCTGATATTGCGATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCGATTAAAA
* * * * * *** * ** * **
32438934 AGGTTGAAGCCACAACGACAGATCTTACTTCCTTGGCAGTACAGCG---GAGC
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCT-G-A-TATTGCGATTAAAA
32438984 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCGATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCGATTAAAA
32439034 AGATTGAAGC
1 AGATTGAAGC
32439044 CACAACGACA
Statistics
Matches: 75, Mismatches: 29, Indels: 12
0.65 0.25 0.10
Matches are distributed among these distances:
47 5 0.07
48 1 0.01
49 1 0.01
50 61 0.81
51 1 0.01
52 1 0.01
53 5 0.07
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCGATTAAAA
Found at i:32439065 original size:50 final size:50
Alignment explanation
Indices: 32438884--32439065 Score: 127
Period size: 50 Copynumber: 3.6 Consensus size: 50
32438874 ACAGTGGAGC
* * * * * *
32438884 AGATTGAAGCTACGACGGCGGATCTGGTTTCTCTGATATTGCGATTAAAA
1 AGATTGAAGCCACAACGACAGATCTGATTTCCCTGATATTGCGATTAAAA
* * * * ** * **
32438934 AGGTTGAAGCCACAACGACAGATCTTACTTCCTTGGCAGTACAGCG---GAGC
1 AGATTGAAGCCACAACGACAGATCTGATTTCCCT-G-A-TATTGCGATTAAAA
* * * * *
32438984 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCGATTAAAA
1 AGATTGAAGCCACAACGACAGATCTGATTTCCCTGATATTGCGATTAAAA
*
32439034 AGATTGAAGCCACAACGACAGATCTTATTTCC
1 AGATTGAAGCCACAACGACAGATCTGATTTCC
32439066 TTAGCAGTGC
Statistics
Matches: 91, Mismatches: 35, Indels: 12
0.66 0.25 0.09
Matches are distributed among these distances:
47 5 0.05
48 1 0.01
49 1 0.01
50 77 0.85
51 1 0.01
52 1 0.01
53 5 0.05
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCCACAACGACAGATCTGATTTCCCTGATATTGCGATTAAAA
Found at i:32439088 original size:50 final size:49
Alignment explanation
Indices: 32438937--32439093 Score: 127
Period size: 50 Copynumber: 3.1 Consensus size: 49
32438927 ATTAAAAAGG
* * *
32438937 TTGAAGCCACAACGACAGATCTTACTTCCTTGGCAGTACAGCGGAGCAGA
1 TTGAAGCCACAACGACAGATCTTATTTCCTT-GCAGTGCAGCGGAACAGA
* * * * ** * * * *** *
32438987 TTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGC-GATTAAAAAGA
1 TTGAAGCCACAACGACAGATCTTATTTCCTTG-CAGTGCAG-CGGAACAGA
32439037 TTGAAGCCACAACGACAGATCTTATTTCCTTAGCAGTGCAGCGGAACAGA
1 TTGAAGCCACAACGACAGATCTTATTTCCTT-GCAGTGCAGCGGAACAGA
32439087 TTGAAGC
1 TTGAAGC
32439094 TACGATNNNN
Statistics
Matches: 74, Mismatches: 29, Indels: 8
0.67 0.26 0.07
Matches are distributed among these distances:
49 2 0.03
50 70 0.95
51 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (49 bp):
TTGAAGCCACAACGACAGATCTTATTTCCTTGCAGTGCAGCGGAACAGA
Found at i:32439547 original size:50 final size:50
Alignment explanation
Indices: 32439199--32439551 Score: 219
Period size: 50 Copynumber: 7.1 Consensus size: 50
32439189 AGCAGAATAA
* * * *
32439199 ATTGAAGCTACGACGGCGGATGTGGTTTCCCTGATATTGC-GATTAAAAAG
1 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAG-TTGAACAG
* * * * ** * * * **
32439249 ATTGAAGCCACAACGACAGATCTTATTT-CCTTAGCAGTGTAGCGGAACAG
1 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-CATTGCAGTTGAACAG
* * * * *
32439299 ATTGAAGCTACGACTGTGGATCTGGTTTCCCTGATATTGCAATT-AATAAG
1 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTTGAA-CAG
* * * *** * * *
32439349 ATTGAAGCCACAACGGTGGATCTTACTT-CCTTAGCAGTGCAGTGGAACAG
1 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-CATTGCAGTTGAACAG
* * * * * *
32439399 ATTAAAGCTATGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAG
1 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTTGAACAG
* * * *** ** * *
32439449 ATTGAAGCCACAACGACGGATCTTACTTCCCTGACGGTGCGGTGGAACAG
1 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTTGAACAG
* *
32439499 ATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGTAGTTGAACAG
1 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTTGAACAG
32439549 ATT
1 ATT
32439552 AAAGATTACA
Statistics
Matches: 210, Mismatches: 86, Indels: 14
0.68 0.28 0.05
Matches are distributed among these distances:
49 10 0.05
50 189 0.90
51 11 0.05
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (50 bp):
ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTTGAACAG
Found at i:32439551 original size:100 final size:100
Alignment explanation
Indices: 32439153--32439529 Score: 522
Period size: 100 Copynumber: 3.8 Consensus size: 100
32439143 NNNNNNNNNA
* * * * ** * *
32439153 AAGCCACAACGGCAGATCTTATTTCCTTAGTAGTGCAGCAGAATAAATTGAAGCTACGACGGCGG
1 AAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGG
* *
32439218 ATGTGGTTTCCCTGATATTGCGATTAAAAAGATTG
66 ATCTGGTTTCCCTGATATTGCAATTAAAAAGATTG
* * * * * *
32439253 AAGCCACAACGACAGATCTTATTTCCTTAGCAGTGTAGCGGAACAGATTGAAGCTACGACTGTGG
1 AAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGG
*
32439318 ATCTGGTTTCCCTGATATTGCAATTAATAAGATTG
66 ATCTGGTTTCCCTGATATTGCAATTAAAAAGATTG
** * *
32439353 AAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTAAAGCTATGACGGCGG
1 AAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGG
32439418 ATCTGGTTTCCCTGATATTGCAATTAAAAAGATTG
66 ATCTGGTTTCCCTGATATTGCAATTAAAAAGATTG
* * *
32439453 AAGCCACAACGACGGATCTTACTTCCCT-GACGGTGCGGTGGAACAGATTGAAGCTACGACGGCG
1 AAGCCACAACGACGGATCTTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAGCTACGACGGCG
32439517 GATCTGGTTTCCC
65 GATCTGGTTTCCC
32439530 CGACATTGTA
Statistics
Matches: 247, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
99 1 0.00
100 246 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (100 bp):
AAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGG
ATCTGGTTTCCCTGATATTGCAATTAAAAAGATTG
Found at i:32439919 original size:132 final size:132
Alignment explanation
Indices: 32439547--32439921 Score: 554
Period size: 132 Copynumber: 2.8 Consensus size: 132
32439537 GTAGTTGAAC
* * *
32439547 AGATTAAAGATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGGTCAAAGACGGCAGATTTT
1 AGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
* * *
32439612 ACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCCACTTCCCTGGACAGCAGCAGA
66 ACCTCCTTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCCTGGACAGCAGCAGA
32439677 AT
131 AT
* * * * *
32439679 AGATTCAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGG-TGAATTT
1 AGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAG-ATTT
* *
32439743 TACCTCCCTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCCTGGACAGCAGCGG
65 TACCTCCTTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCCTGGACAGCAGCAG
32439808 AAT
130 AAT
* * *
32439811 AGATTAAAGATGACATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATCTT
1 AGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
** * *
32439876 ACCTCCTTGAAGTTGCAGTGGAGTATATTGAAGCCAGGAATTCTAT
66 ACCTCCTTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTAT
32439922 CCCCCGATCG
Statistics
Matches: 215, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
131 1 0.00
132 213 0.99
133 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (132 bp):
AGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
ACCTCCTTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCCTGGACAGCAGCAGA
AT
Found at i:32440007 original size:44 final size:45
Alignment explanation
Indices: 32439947--32440040 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 45
32439937 CGAATCGATT
** *
32439947 GAAGAAAGTAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGAAAGTAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
* *
32439991 GAAGAAAGTAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
1 GAAGAAAGTAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
32440036 GAAGA
1 GAAGA
32440041 TACAAGTCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 27 0.61
45 17 0.39
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (45 bp):
GAAGAAAGTAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
Found at i:32440683 original size:14 final size:14
Alignment explanation
Indices: 32440664--32440690 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32440654 CGCCCACACG
32440664 CCGCACTCGTCGCT
1 CCGCACTCGTCGCT
32440678 CCGCACTCGTCGC
1 CCGCACTCGTCGC
32440691 GCGCTTCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.52, G:0.22, T:0.19
Consensus pattern (14 bp):
CCGCACTCGTCGCT
Found at i:32441861 original size:18 final size:19
Alignment explanation
Indices: 32441817--32441870 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 19
32441807 TTATATATAG
32441817 TTTATATATACATAT--A-
1 TTTATATATACATATACAT
* *
32441833 TATATATATACATTTACAT
1 TTTATATATACATATACAT
32441852 TTTATA-ATACATATACAT
1 TTTATATATACATATACAT
32441870 T
1 T
32441871 CTTTCATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 13 0.42
18 13 0.42
19 5 0.16
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTATATATACATATACAT
Found at i:32445212 original size:18 final size:19
Alignment explanation
Indices: 32445177--32445221 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
32445167 TATAGTTTAT
*
32445177 ATATACA-TATATATATAC
1 ATATACATTTTATATATAC
*
32445195 ATTTACATTTTATA-ATAC
1 ATATACATTTTATATATAC
32445213 ATATACATT
1 ATATACATT
32445222 CTTCCATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATACATTTTATATATAC
Found at i:32446501 original size:29 final size:30
Alignment explanation
Indices: 32446442--32446502 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
32446432 AACCTATAAA
*
32446442 TTTATAATTTTTAAAAGATCAAATTAATTT
1 TTTATAATTTTTAAAAGATCAAAGTAATTT
* *
32446472 TTTATCATTTTT-AAGGAT-AAAGTACATTT
1 TTTATAATTTTTAAAAGATCAAAGTA-ATTT
32446501 TT
1 TT
32446503 ACTATTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.19
29 11 0.41
30 11 0.41
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.51
Consensus pattern (30 bp):
TTTATAATTTTTAAAAGATCAAAGTAATTT
Found at i:32450344 original size:434 final size:434
Alignment explanation
Indices: 32449520--32450361 Score: 1386
Period size: 434 Copynumber: 1.9 Consensus size: 434
32449510 TCGCGACAAC
*
32449520 AATTTCGCCCCTACATTATTGTCGAAACAAAGATAATTCATTAATTAACACGTAGATTTAAGGTT
1 AATTTCGCCCCTACATTATTGTCGAAACAAAGATAATTCATTAATTAACACATAGATTTAAGGTT
32449585 TGGTTGATGAATACTATTTTTTTACTATTTTCTCTATTTTAAACATGTAGAACATACTATTCCGT
66 TGGTTGATGAATACTATTTTTTTACTATTTTCTCTATTTTAAACATGTAGAACATACTATTCCGT
* *
32449650 TGAAGATGAGCAAACGAGTGTGAAATTTTATCCATTACAATGGTCAAATTTGTGAGACCAAAATT
131 TCAAGATGAGCAAACGAGTGTGAAATTTTATCCATTACAATGCTCAAATTTGTGAGACCAAAATT
* * *
32449715 GGCTCCGTTTTTGTATTAGCGCAATCCGTAGATCTGGCATTCAACCGGACCAGTTAACGGAGCTT
196 GGCTCCGTTTTTGTATTAGCACAAACCGCAGATCTGGCATTCAACCGGACCAGTTAACGGAGCTT
* * *
32449780 CGGACAAGGATTAGGCGTAAAGTAGGGATCTGGAGAAGAATTTTGAGCTTCAAATGTAGATATCT
261 CGGACAAGGATTAAGCGTAAAGTAGGGATCTAGAGAAGAATTTCGAGCTTCAAATGTAGATATCT
* *
32449845 TTCATCATTGGAACCCACTACATATGCCATTTTTTTAGATCAAGCAAGACAACGATCTGGAGCAG
326 TTCATCATTGGAACCCAATACATATGCCATTTTTTTAGATCAAGCAAGACAACGATCTAGAGCAG
*
32449910 GTGATTGAATCCCATTGTGAGACCGACGTTGTCGTGAAAACTTG
391 GTGATCGAATCCCATTGTGAGACCGACGTTGTCGTGAAAACTTG
* * ** *
32449954 AATTTCGCCCCTACATTATTGT-TAAAGCAAAGATAATTCATTAATTTACGTATAGATTTAGGGT
1 AATTTCGCCCCTACATTATTGTCGAAA-CAAAGATAATTCATTAATTAACACATAGATTTAAGGT
* * *
32450018 TTGGTTGATGAATACTATTTTTTTACTATTTTCTCTATTTTAAACATGTGGAACATGCTATTTCG
65 TTGGTTGATGAATACTATTTTTTTACTATTTTCTCTATTTTAAACATGTAGAACATACTATTCCG
* *
32450083 TTCAAGATGAG-AAGACGAGTGTGAACTTTTATCCATTACAATGCTTAAATTTGTGAGACCAAAA
130 TTCAAGATGAGCAA-ACGAGTGTGAAATTTTATCCATTACAATGCTCAAATTTGTGAGACCAAAA
32450147 TTGGC-CCTGTTTTTGTATTAGCACAAACCGCAGATCTGGCATTCAACCGGACCAGTTGAA-GGA
194 TTGGCTCC-GTTTTTGTATTAGCACAAACCGCAGATCTGGCATTCAACCGGACCAGTT-AACGGA
*
32450210 GCTTTGGACAAGGATTAAGCGTAAAGTAGGGATCTAGAGAAGAATTTCGAGCTTCAAATGTAGAT
257 GCTTCGGACAAGGATTAAGCGTAAAGTAGGGATCTAGAGAAGAATTTCGAGCTTCAAATGTAGAT
* * *
32450275 ATCTTTCATCATTGGAACCCAATAGATATGCCATTTTTTTAGATCAAGCGAGACAATGATCTAGA
322 ATCTTTCATCATTGGAACCCAATACATATGCCATTTTTTTAGATCAAGCAAGACAACGATCTAGA
32450340 GCAGGTGATCGAATCCCATTGT
387 GCAGGTGATCGAATCCCATTGT
32450362 TCTAGTGGGA
Statistics
Matches: 378, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
433 7 0.02
434 369 0.98
435 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (434 bp):
AATTTCGCCCCTACATTATTGTCGAAACAAAGATAATTCATTAATTAACACATAGATTTAAGGTT
TGGTTGATGAATACTATTTTTTTACTATTTTCTCTATTTTAAACATGTAGAACATACTATTCCGT
TCAAGATGAGCAAACGAGTGTGAAATTTTATCCATTACAATGCTCAAATTTGTGAGACCAAAATT
GGCTCCGTTTTTGTATTAGCACAAACCGCAGATCTGGCATTCAACCGGACCAGTTAACGGAGCTT
CGGACAAGGATTAAGCGTAAAGTAGGGATCTAGAGAAGAATTTCGAGCTTCAAATGTAGATATCT
TTCATCATTGGAACCCAATACATATGCCATTTTTTTAGATCAAGCAAGACAACGATCTAGAGCAG
GTGATCGAATCCCATTGTGAGACCGACGTTGTCGTGAAAACTTG
Found at i:32458022 original size:47 final size:48
Alignment explanation
Indices: 32457965--32458077 Score: 142
Period size: 47 Copynumber: 2.4 Consensus size: 48
32457955 CCACCAATAA
* * *
32457965 TGCAAATAAACTGCCACTTAATAATATTA-TGGACAAGCCACCAC-TTT
1 TGCAAATAAACTGCCACATAAAAATA-TAGTGGACAAGCCACCACAGTT
* *
32458012 TGCAAATAAACTGCCACATAAAAATATAGTGGACAAGGCACCTCAGTT
1 TGCAAATAAACTGCCACATAAAAATATAGTGGACAAGCCACCACAGTT
*
32458060 T-CAGATAAACTGCCACAT
1 TGCAAATAAACTGCCACAT
32458078 CTTCTACTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 2 0.03
47 53 0.91
48 3 0.05
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (48 bp):
TGCAAATAAACTGCCACATAAAAATATAGTGGACAAGCCACCACAGTT
Found at i:32461007 original size:19 final size:19
Alignment explanation
Indices: 32460983--32461020 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
32460973 ATATGGCCAC
32460983 AAAAATC-ATTTTTTCACTT
1 AAAAATCAATTTTTT-ACTT
32461002 AAAAATCAATTTTTTACTT
1 AAAAATCAATTTTTTACTT
32461021 TGGCATGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAAATCAATTTTTTACTT
Found at i:32461128 original size:18 final size:20
Alignment explanation
Indices: 32461088--32461129 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
32461078 TAACATGCAA
32461088 ATCACATATATTCATATTAT
1 ATCACATATATTCATATTAT
* *
32461108 ATCA-ATAT-TTCTTATTCT
1 ATCACATATATTCATATTAT
32461126 ATCA
1 ATCA
32461130 TTCATGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.48
Consensus pattern (20 bp):
ATCACATATATTCATATTAT
Found at i:32463843 original size:62 final size:62
Alignment explanation
Indices: 32463774--32463921 Score: 287
Period size: 62 Copynumber: 2.4 Consensus size: 62
32463764 TGCTTCTGTT
32463774 TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
1 TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
32463836 TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
1 TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
*
32463898 TTTCTTCCTTTGTTTTCTGTAACA
1 TTTCTTTCTTTGTTTTCTGTAACA
32463922 GACCCAGAAG
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 85 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.43
Consensus pattern (62 bp):
TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
Found at i:32466627 original size:9 final size:9
Alignment explanation
Indices: 32466609--32466643 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
32466599 TCCACTCTTC
32466609 TAAA-TTTT
1 TAAATTTTT
32466617 TAAATTTTT
1 TAAATTTTT
32466626 TAAATTTTT
1 TAAATTTTT
32466635 TAAATTTTT
1 TAAATTTTT
32466644 GTTGTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TAAATTTTT
Found at i:32467121 original size:188 final size:188
Alignment explanation
Indices: 32466804--32467180 Score: 709
Period size: 188 Copynumber: 2.0 Consensus size: 188
32466794 ATAAATTATC
32466804 AAATTATAAAATGACACTCAATTGACATAATTATTCATAAAGAGTTTGTTCCTTTTTCAAATGCA
1 AAATTATAAAATGACACTCAATTGACATAATTATTCATAAAGAGTTTGTTCCTTTTTCAAATGCA
*
32466869 TTTAATGTTAATTACTCATGTTTTTGTTGCATCAACGGGGAAAATGTTCTAAAAATTAAAATTGA
66 TTTAATGTTAATTACTCATGTTTTTGTTGCATCAACGGAGAAAATGTTCTAAAAATTAAAATTGA
* *
32466934 TAAAATCTTACTGAAGATTAACAACATCTCAACAAAAATTTAATGAATTATCTATTTT
131 TAAAATCTTACTGAAGATTAACAACATCTCAACAAAAATTGAATGAATGATCTATTTT
*
32466992 AAATTATAAAATGACACTCAATTGACATAATTATTCATAAAGAGTTTGTTCCTTTTTCAAATGCG
1 AAATTATAAAATGACACTCAATTGACATAATTATTCATAAAGAGTTTGTTCCTTTTTCAAATGCA
32467057 TTTAATGTTAATTACTCATGTTTTTGTTGCATCAACGGAGAAAATGTTCTAAAAATTAAAATTGA
66 TTTAATGTTAATTACTCATGTTTTTGTTGCATCAACGGAGAAAATGTTCTAAAAATTAAAATTGA
*
32467122 TAAAATCTTATTGAAGATTAACAACATCTCAACAAAAATTGAATGAATGATCTATTTT
131 TAAAATCTTACTGAAGATTAACAACATCTCAACAAAAATTGAATGAATGATCTATTTT
32467180 A
1 A
32467181 TTAATTGAAA
Statistics
Matches: 184, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
188 184 1.00
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (188 bp):
AAATTATAAAATGACACTCAATTGACATAATTATTCATAAAGAGTTTGTTCCTTTTTCAAATGCA
TTTAATGTTAATTACTCATGTTTTTGTTGCATCAACGGAGAAAATGTTCTAAAAATTAAAATTGA
TAAAATCTTACTGAAGATTAACAACATCTCAACAAAAATTGAATGAATGATCTATTTT
Found at i:32482769 original size:18 final size:17
Alignment explanation
Indices: 32482741--32482775 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32482731 AATTATAAGA
*
32482741 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
32482758 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
32482776 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:32482925 original size:18 final size:17
Alignment explanation
Indices: 32482897--32482931 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32482887 AATTATAAGA
*
32482897 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
32482914 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
32482932 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:32483007 original size:156 final size:156
Alignment explanation
Indices: 32482723--32483200 Score: 920
Period size: 156 Copynumber: 3.1 Consensus size: 156
32482713 NNNNNNNNNN
32482723 TTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATT
1 TTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATT
32482788 ATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAT
66 ATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAT
*
32482853 TAACAATAATCATTTACCAAAACAAA
131 TAACAATAATCATTTACCAAAACAAT
32482879 TTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATT
1 TTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATT
32482944 ATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAT
66 ATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAT
32483009 TAACAATAATCATTTACCAAAACAAT
131 TAACAATAATCATTTACCAAAACAAT
*
32483035 TTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATAATT
1 TTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATT
*
32483100 ATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAA
66 ATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAT
32483165 TAACAATAATCATTTACCAAAACAAT
131 TAACAATAATCATTTACCAAAACAAT
*
32483191 TTTATGCTAA
1 TTTCTGCTAA
32483201 GGGTATTATA
Statistics
Matches: 318, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 318 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (156 bp):
TTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATT
ATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAT
TAACAATAATCATTTACCAAAACAAT
Found at i:32483081 original size:18 final size:18
Alignment explanation
Indices: 32483053--32483101 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
32483043 AATTATAAGA
32483053 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
32483070 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
32483086 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
32483102 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:32483087 original size:16 final size:16
Alignment explanation
Indices: 32483053--32483107 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
32483043 AATTATAAGA
32483053 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
32483070 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
32483086 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
32483100 ATGTTTAA
1 AT-TTTAA
32483108 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:32483308 original size:44 final size:45
Alignment explanation
Indices: 32483245--32483332 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 45
32483235 CTATTACACC
* *
32483245 TCTATTCCATTCAACCAAACACAAGATTA-CTATTACGCCTCTAT
1 TCTATTACATTCAACCAAACACAAGATTAGCTATTACACCTCTAT
***
32483289 TCTATTACATTCAACCAAACAGTGGATTAGCTATTACACCTCTA
1 TCTATTACATTCAACCAAACACAAGATTAGCTATTACACCTCTA
32483333 ATCCAATACA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 25 0.66
45 13 0.34
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (45 bp):
TCTATTACATTCAACCAAACACAAGATTAGCTATTACACCTCTAT
Found at i:32483344 original size:16 final size:16
Alignment explanation
Indices: 32483323--32483358 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
32483313 GATTAGCTAT
32483323 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
32483339 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
32483355 TACA
1 TACA
32483359 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:32484607 original size:23 final size:24
Alignment explanation
Indices: 32484563--32484609 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
32484553 TCTGTTAAAG
32484563 CTTTCATCTTTAGTGTTATTGTTT
1 CTTTCATCTTTAGTGTTATTGTTT
32484587 CTTT-ATCTTT-GTGTTAGTTGTTT
1 CTTTCATCTTTAGTGTTA-TTGTTT
32484610 TTAATTTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 12 0.55
24 4 0.18
ACGTcount: A:0.11, C:0.11, G:0.15, T:0.64
Consensus pattern (24 bp):
CTTTCATCTTTAGTGTTATTGTTT
Found at i:32491224 original size:32 final size:33
Alignment explanation
Indices: 32491149--32491231 Score: 105
Period size: 32 Copynumber: 2.5 Consensus size: 33
32491139 ACTTAGTATG
* * *
32491149 CCAACTTACTTAACACATAGGCGTATACTGTGCG
1 CCAACTTACTTAACACATA-GCGAATACTGTACA
* *
32491183 CCAACTTACTTAACACAT-GTGAATATTGTACA
1 CCAACTTACTTAACACATAGCGAATACTGTACA
32491215 CCAACTTACTTAACACA
1 CCAACTTACTTAACACA
32491232 ACTTAGACAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
32 26 0.59
34 18 0.41
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.28
Consensus pattern (33 bp):
CCAACTTACTTAACACATAGCGAATACTGTACA
Found at i:32492670 original size:47 final size:47
Alignment explanation
Indices: 32492617--32492771 Score: 184
Period size: 47 Copynumber: 3.3 Consensus size: 47
32492607 AGTAACAAAA
*
32492617 ATAAACTACCAATAATCAATATCGTGGATAAGCCACCAAAATTGTAG
1 ATAAACTACCAATAATCAATATCGTGGAAAAGCCACCAAAATTGTAG
* * * * * ***
32492664 ATAAACTGCCATTAATCAATATCATGGAAAAGCAACCAAACTCACAG
1 ATAAACTACCAATAATCAATATCGTGGAAAAGCCACCAAAATTGTAG
** * *
32492711 ATAAACTACTGATAATCAATATCGTGGACAAGCCACCAAAATTGTAA
1 ATAAACTACCAATAATCAATATCGTGGAAAAGCCACCAAAATTGTAG
*
32492758 ATAAACTGCCAATA
1 ATAAACTACCAATA
32492772 GCTTCAACCT
Statistics
Matches: 84, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
47 84 1.00
ACGTcount: A:0.46, C:0.21, G:0.12, T:0.22
Consensus pattern (47 bp):
ATAAACTACCAATAATCAATATCGTGGAAAAGCCACCAAAATTGTAG
Found at i:32521352 original size:20 final size:21
Alignment explanation
Indices: 32521329--32521377 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
32521319 ACACACTTTA
*
32521329 TTAAATTTAACT-AAACTTAC
1 TTAAATGTAACTAAAACTTAC
*
32521349 TTAAATGTAATTAAAACTTAAC
1 TTAAATGTAACTAAAACTT-AC
*
32521371 TAAAATG
1 TTAAATG
32521378 CTTATGTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.42
21 6 0.25
22 8 0.33
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (21 bp):
TTAAATGTAACTAAAACTTAC
Found at i:32526785 original size:29 final size:29
Alignment explanation
Indices: 32526722--32526789 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
32526712 TAATCAACCG
32526722 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
32526751 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
32526780 CGCACACTTA
1 CGCACACTTA
32526790 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:32526901 original size:174 final size:174
Alignment explanation
Indices: 32526611--32526938 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
32526601 AACTCAAGGT
* *
32526611 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
32526676 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
32526741 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
32526785 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
32526850 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
32526915 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
32526939 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:32526930 original size:29 final size:30
Alignment explanation
Indices: 32526891--32526969 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
32526881 CTTAATAATC
32526891 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
32526921 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
32526950 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
32526970 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:32530977 original size:3 final size:3
Alignment explanation
Indices: 32530969--32530994 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32530959 TTCTTTGTCT
32530969 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
32530995 TTTTAAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:32535561 original size:13 final size:13
Alignment explanation
Indices: 32535540--32535571 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
32535530 TAAAATAATG
*
32535540 AAATCAGCAGGAA
1 AAATAAGCAGGAA
32535553 AAATAAGCAGGAA
1 AAATAAGCAGGAA
32535566 AAATAA
1 AAATAA
32535572 ATTTATCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.62, C:0.09, G:0.19, T:0.09
Consensus pattern (13 bp):
AAATAAGCAGGAA
Found at i:32541078 original size:26 final size:25
Alignment explanation
Indices: 32541049--32541118 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 25
32541039 CTAGTGTGAG
32541049 ATCAACACATATATAATCACATACAT
1 ATCAACACATATATAATCACAT-CAT
* *
32541075 ATCAA-A-ATAT-CAATCTCATCAT
1 ATCAACACATATATAATCACATCAT
32541097 ATCAATCATCATA-ATAATCACA
1 ATCAA-CA-CATATATAATCACA
32541119 AGTTCTATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
22 8 0.23
23 7 0.20
24 5 0.14
25 1 0.03
26 14 0.40
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.29
Consensus pattern (25 bp):
ATCAACACATATATAATCACATCAT
Found at i:32541097 original size:22 final size:22
Alignment explanation
Indices: 32541059--32541101 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32541049 ATCAACACAT
32541059 ATATAATCACATACATATCAAA
1 ATATAATCACATACATATCAAA
*
32541081 ATATCAATCTCAT-CATATCAA
1 ATAT-AATCACATACATATCAA
32541102 TCATCATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (22 bp):
ATATAATCACATACATATCAAA
Found at i:32545880 original size:13 final size:13
Alignment explanation
Indices: 32545859--32545888 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32545849 ATCGTTAATA
*
32545859 TAATTTATAAGGT
1 TAATGTATAAGGT
32545872 TAATGTATAAGGT
1 TAATGTATAAGGT
32545885 TAAT
1 TAAT
32545889 TTAGTAAATT
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:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (13 bp):
TAATGTATAAGGT
Found at i:32548151 original size:21 final size:23
Alignment explanation
Indices: 32548106--32548152 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
32548096 TCACCTGCAA
* *
32548106 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
32548129 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
32548150 TAA
1 TAA
32548153 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:32559188 original size:40 final size:39
Alignment explanation
Indices: 32559090--32559352 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
32559080 TCCTCGTTCA
* * * *
32559090 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
32559129 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
32559168 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
32559208 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
32559248 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
32559288 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
32559329 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32559353 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:32559312 original size:120 final size:119
Alignment explanation
Indices: 32559090--32559352 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
32559080 TCCTCGTTCA
* * *
32559090 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
32559155 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
32559208 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
32559273 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
32559329 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
32559353 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Done.