Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 22 of 216
Found at i:6691438 original size:10 final size:11
Alignment explanation
Indices: 6691412--6691437 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6691402 AAAAAATAAA
6691412 AAAAATATTTT
1 AAAAATATTTT
6691423 AAAAATATTTT
1 AAAAATATTTT
6691434 AAAA
1 AAAA
6691438 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:6693841 original size:23 final size:21
Alignment explanation
Indices: 6693775--6693884 Score: 132
Period size: 23 Copynumber: 5.1 Consensus size: 21
6693765 TATGATCAGT
*
6693775 ATACGACACAT-AAGTGTCTG
1 ATACGACACATAAAGTGCCTG
* * * *
6693795 AAACGACATACAAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
6693816 ATACGACACATAAAGTGCCTAAG
1 ATACGACACATAAAGTGCCT--G
6693839 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
6693860 ATGTACGACACATAAAGTGCCTG
1 A--TACGACACATAAAGTGCCTG
6693883 AT
1 AT
6693885 CGGCAAAGCC
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.11
21 26 0.34
23 42 0.55
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:6693870 original size:46 final size:42
Alignment explanation
Indices: 6693775--6693883 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 42
6693765 TATGATCAGT
* * *
6693775 ATACGACACAT-AAGTGTCTGAAACGACATACAAGGTGCCTG
1 ATACGACACATAAAGTGCCTGAAACGACACACAAAGTGCCTG
* *
6693816 ATACGACACATAAAGTGCCTAAGATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCT--GAAACGACACACAAAGTGCCTG
6693860 ATGTACGACACATAAAGTGCCTGA
1 A--TACGACACATAAAGTGCCTGA
6693884 TCGGCAAAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
41 11 0.19
42 7 0.12
44 21 0.36
46 19 0.33
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (42 bp):
ATACGACACATAAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:6694821 original size:18 final size:18
Alignment explanation
Indices: 6694779--6694836 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
6694769 TGTTTTCGTC
* *
6694779 TCTTTCTCTGTTTCT-TT
1 TCTTTTTCTTTTTCTGTT
*
6694796 TC-TGTTCTTCTTT-TGTT
1 TCTTTTTCTT-TTTCTGTT
*
6694813 TCTTTTTCTTTTTCTTTT
1 TCTTTTTCTTTTTCTGTT
6694831 TCTTTT
1 TCTTTT
6694837 ACTTACTTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
16 5 0.16
17 12 0.38
18 15 0.47
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.76
Consensus pattern (18 bp):
TCTTTTTCTTTTTCTGTT
Found at i:6694822 original size:6 final size:6
Alignment explanation
Indices: 6694811--6694836 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6694801 TCTTCTTTTG
6694811 TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TT
6694837 ACTTACTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:6694831 original size:22 final size:22
Alignment explanation
Indices: 6694787--6694830 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
6694777 TCTCTTTCTC
6694787 TGTTTCTTTTCTGTTCTTCTTT
1 TGTTTCTTTTCTGTTCTTCTTT
6694809 TGTTTCTTTTTCT-TT-TTCTTT
1 TGTTTC-TTTTCTGTTCTTCTTT
6694830 T
1 T
6694831 TCTTTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 8 0.38
23 6 0.29
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.77
Consensus pattern (22 bp):
TGTTTCTTTTCTGTTCTTCTTT
Found at i:6694877 original size:3 final size:3
Alignment explanation
Indices: 6694869--6694925 Score: 73
Period size: 3 Copynumber: 19.7 Consensus size: 3
6694859 ATGCATTAGT
* * *
6694869 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAT TTA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6694916 T-A TAA TAA TA
1 TAA TAA TAA TA
6694926 TTTTATTCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
2 4 0.09
3 43 0.91
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:6695080 original size:28 final size:27
Alignment explanation
Indices: 6695048--6695116 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
6695038 ATTTGTTTCC
*
6695048 TATAA-TATATTAGTTTAATTTTAATTAA
1 TATAATTATAATAGTTTAA-TTTAA-TAA
*
6695076 TATAATTTATAATATTTTAATTTAATAA
1 TATAA-TTATAATAGTTTAATTTAATAA
**
6695104 TATTTTTATAATA
1 TATAATTATAATA
6695117 TAAATCAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 8 0.23
28 11 0.31
29 5 0.14
30 11 0.31
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (27 bp):
TATAATTATAATAGTTTAATTTAATAA
Found at i:6695096 original size:15 final size:16
Alignment explanation
Indices: 6695078--6695109 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6695068 TTAATTAATA
6695078 TAATTT-ATAATATTT
1 TAATTTAATAATATTT
6695093 TAATTTAATAATATTT
1 TAATTTAATAATATTT
6695109 T
1 T
6695110 TATAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTAATAATATTT
Found at i:6695108 original size:25 final size:25
Alignment explanation
Indices: 6695065--6695117 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 25
6695055 TATTAGTTTA
6695065 ATTTTAATTAATATAA-TTTATAAT
1 ATTTTAATTAATATAATTTTATAAT
*
6695089 ATTTTAATTTAATAATATTTTTATAAT
1 ATTTTAA-TTAAT-ATAATTTTATAAT
6695116 AT
1 AT
6695118 AAATCAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 3 0.12
27 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTTAATTAATATAATTTTATAAT
Found at i:6697265 original size:20 final size:20
Alignment explanation
Indices: 6697225--6697265 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6697215 AAGTTGAGTC
* **
6697225 ATGTTATTTTATATTGGAAT
1 ATGTAATTTTATATTCAAAT
6697245 ATGTAATTTTATATTCAAAT
1 ATGTAATTTTATATTCAAAT
6697265 A
1 A
6697266 ATTCTAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (20 bp):
ATGTAATTTTATATTCAAAT
Found at i:6697333 original size:33 final size:34
Alignment explanation
Indices: 6697286--6697367 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
6697276 TCTATTCAGA
6697286 TTAAATTAA-TTAATTAGGTT-GATTACTTTT-TAT
1 TTAAA-TAATTTAATTAGGTTGGATT-CTTTTATAT
* * *
6697319 TTGAATAATTTAATTGGGTTGGATTGTTTTATAT
1 TTAAATAATTTAATTAGGTTGGATTCTTTTATAT
*
6697353 TTAAATATTTTAATT
1 TTAAATAATTTAATT
6697368 TTTGGGTTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 3 0.07
33 18 0.44
34 20 0.49
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (34 bp):
TTAAATAATTTAATTAGGTTGGATTCTTTTATAT
Found at i:6697740 original size:23 final size:23
Alignment explanation
Indices: 6697713--6697791 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
6697703 TAGTCTAGTG
*
6697713 ATGCCATGTAATAGCTTTTCAGT
1 ATGCCATGTAATAGCTTCTCAGT
*
6697736 ATGCCACGTGGCAA-AGCTAGTCT-AGT
1 ATGCCA--T-GTAATAGCT--TCTCAGT
*
6697762 GATGCCATGTAATAGCCTCTCAGT
1 -ATGCCATGTAATAGCTTCTCAGT
6697786 ATGCCA
1 ATGCCA
6697792 CGTGGCAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
23 15 0.34
24 6 0.14
25 9 0.20
26 6 0.14
27 8 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (23 bp):
ATGCCATGTAATAGCTTCTCAGT
Found at i:6697775 original size:50 final size:50
Alignment explanation
Indices: 6697700--6697800 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
6697690 TGACACTGCT
* *
6697700 AGCTAGTCTAGTGATGCCATGTAATAGCTTTTCAGTATGCCACGTGGCAA
1 AGCTAGTCTAGTGATGCCATGTAATAGCCTCTCAGTATGCCACGTGGCAA
6697750 AGCTAGTCTAGTGATGCCATGTAATAGCCTCTCAGTATGCCACGTGGCAA
1 AGCTAGTCTAGTGATGCCATGTAATAGCCTCTCAGTATGCCACGTGGCAA
6697800 A
1 A
6697801 CATAAATTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (50 bp):
AGCTAGTCTAGTGATGCCATGTAATAGCCTCTCAGTATGCCACGTGGCAA
Found at i:6705762 original size:42 final size:42
Alignment explanation
Indices: 6705715--6705796 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
6705705 GTGTCCTAGC
* *
6705715 CCATGTCTTAAACCGTGT-AACTCATTGACTTAATACACACGG
1 CCATGTCATAAACCGTGTGAA-TCACTGACTTAATACACACGG
* * *
6705757 CCATGTCATAGACTGTGTGAATCACTGACTTGATACACAC
1 CCATGTCATAAACCGTGTGAATCACTGACTTAATACACAC
6705797 AACTGTGTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
CCATGTCATAAACCGTGTGAATCACTGACTTAATACACACGG
Found at i:6707136 original size:28 final size:26
Alignment explanation
Indices: 6707092--6707150 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
6707082 AAATTATTAA
* *
6707092 ATATATAAAAAAATATGAAAATATGT
1 ATATACAAAAAAATATGAAAATAGGT
* *
6707118 ATATACAAAAAAATGTATGTATATAGGT
1 ATATACAAAAAAA--TATGAAAATAGGT
6707146 ATATA
1 ATATA
6707151 TATATGTACG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.44
28 15 0.56
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (26 bp):
ATATACAAAAAAATATGAAAATAGGT
Found at i:6709177 original size:44 final size:44
Alignment explanation
Indices: 6709122--6710271 Score: 1068
Period size: 44 Copynumber: 25.8 Consensus size: 44
6709112 ACCAGTATGG
* * * * * *
6709122 GAAGACGAGATCTGCTCTCTTTGATTTATTTCATGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * *
6709166 GAAGACAAGATCTGCTTTTTTCAATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
6709210 GAAGACAAGATCTGCTTTCTTCGATCTACTTTACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * *
6709254 AAAGACAAGATCTGCTTTCTTCGATCTACTTCA--CCACTAGTAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATA-CAT
6709297 GGGAAGACAAGATC--CATTGTAC-TCGATCTACTTCACGCCAATACAT
1 --GAAGACAAGATCTGC-TT-T-CTTCGATCTACTTCACGCCAATACAT
*
6709343 GAAGACAAGATCTGCTTTCTTCGATTTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* *
6709387 GAAGACAAAATCTGCTTTCTTCGATCTACTTCACACCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
6709431 GAAGACAAGATCTGCTTTCTTCAATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
6709475 AAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
6709519 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * ***
6709563 GAAGACAAGATCTACTTT-TTCCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTT-CGATCTACTTC-ACGCCAATACAT
6709608 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * *
6709652 GAAGACAATATCTGCTTTTTTCGATCTACTT--CGCCACCAGA-AT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA--ATACAT
* * *
6709695 CGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCTAATACAT
1 --GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * * *
6709741 GAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCCAGTACAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-GCCAATACAT
* * * ***
6709786 GAAGACAAGATCTG-TTATCTTCGATCTACTTCTCCACCAGTATGG
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTC-ACGCCAATACAT
* * * * *
6709831 GAAGACAAGATCTACTATCTTTCGATCTACTTCATGCTAGTACAT
1 GAAGACAAGATCTGCTTTC-TTCGATCTACTTCACGCCAATACAT
* * * ***
6709876 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * ***
6709921 GAAGACGAGATCTTCTTTCTTCGATCTACTT-A-GCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA--A-TACAT
* * * * * ***
6709966 GAAAACAAGATCTGCTATCTTCGATCTTCTCCTTCACCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGA---TCTACTTCA-CGCCAATACAT
* * * *
6710014 GAAGACAAGATCTACTATCTTTCGATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGCTTTC-TTCGATCTACTTCACGCCAATACAT
* ** * *
6710059 GAAGACAAAATCTATTTTCTTCGATCTACTTCA--CCACTAGTAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATA-CAT
* * * * * *
6710102 GGAAAGACGAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATAG
1 -G-AAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * * *
6710149 GAAGACAAAATCTACTATCTTCGATCTACTTCACGTCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * * **
6710193 GAAGACAAGATCTGCTGTATTTGATCTACTTCGCTGCCAGTACGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-GCCAATACAT
** *
6710238 GAAGACAAGATCTATTTTCGTCGATCTACTTCAC
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCAC
6710272 CATCAGTATG
Statistics
Matches: 922, Mismatches: 140, Indels: 87
0.80 0.12 0.08
Matches are distributed among these distances:
42 18 0.02
43 10 0.01
44 473 0.51
45 336 0.36
46 32 0.03
47 11 0.01
48 33 0.04
49 6 0.01
51 3 0.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:6709341 original size:89 final size:84
Alignment explanation
Indices: 6709151--6710295 Score: 834
Period size: 89 Copynumber: 12.8 Consensus size: 84
6709141 TTTGATTTAT
* * * *
6709151 TTCATGCCAATACATGAAGACAAGATCTGCTTTTTTCAATCTACTTCATGCCAATACATGAAGAC
1 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA--CCAATATATGAAGAC
6709216 AAGATCTGCTTTCTTCGATCTAC
64 AAGATCT-CTTTC-TCGATCTAC
* * *
6709239 TTTACGCCAATACATAAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACTAGTATGGGAAGA
1 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCAATA-TAT--GAAGA
6709304 CAAGATC-CATTGTACTCGATCTAC
63 CAAGATCTC-TT-T-CTCGATCTAC
* *
6709328 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATTTACTTCACGCCAATACATGAAGAC
1 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA--CCAATATATGAAGAC
*
6709393 AAAATCTGCTTTCTTCGATCTAC
64 AAGATCT-CTTTC-TCGATCTAC
* * * *
6709416 TTCACACCAATACATGAAGACAAGATCTGCTTTCTTCAATCTACTTCACGCCAATACATAAAGAC
1 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA--CCAATATATGAAGAC
6709481 AAGATCTGCTTTCTTCGATCTAC
64 AAGATCT-CTTTC-TCGATCTAC
*
6709504 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
1 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA--CCAATATATGAAGAC
*
6709569 AAGATCTACTTTTTCCGATCTAC
64 AAGATCT-CTTTCT-CGATCTAC
* * * *** *
6709592 TTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGA
1 TTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA--CCAATATATGAAGA
* *
6709657 CAATATCTGCTTTTTTCGATCTAC
63 CAAGATCT-C-TTTCTCGATCTAC
* * * *
6709681 TT--CGCCACCAGA-ATCGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCTAATACATGA
1 TTCACGCCA--ATACAT--GAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-C-AATATATGA
*
6709743 AGACAAGATCTGCTATAT-TTGATCTAC
60 AGACAAGATCT-CT-T-TCTCGATCTAC
* * * * **
6709770 TTCGCTGCCAGTACAGGAAGACAAGATCTG-TTATCTTCGATCTACTTCTCCACCAGTATGGGAA
1 TTCAC-GCCAATACATGAAGACAAGATCTGCTT-TCTTCGATCTAC-T-T-CACCAATATATGAA
*
6709834 GACAAGATCTACTATCTTTCGATCTAC
61 GACAAGATCT-CT-T-TCTCGATCTAC
* * * * **
6709861 TTCATGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGA
1 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT---CACCAATATATGAAGA
*
6709926 CGAGATCTTCTTTCTTCGATCTAC
63 CAAGATC-TCTTTC-TCGATCTAC
*** * * * *
6709950 TT-A-GCCACCAGTATGGGAAAACAAGATCTGCTATCTTCGATCTTCTCCTTCACCACCAGTATG
1 TTCACGCCA--A-TACATGAAGACAAGATCTGCTTTCTTCGA---TCTACTTCACCA--A-TATA
* *
6710013 GGAAGACAAGATCTACTATCTTTCGATCTAC
57 TGAAGACAAGATCT-CT-T-TCTCGATCTAC
* * * ** *
6710044 TTCATGCCAGTACATGAAGACAAAATCTATTTTCTTCGATCTACTTCACCACTAGTATGGAAAGA
1 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCAATA-TAT-G-AAGA
*
6710109 CGAGATCTGCTTTCTTCGATCTAC
63 CAAGATCT-CTTTC-TCGATCTAC
* * * * * * * * *
6710133 TTCGCCACCAGTATAGGAAGACAAAATCTACTATCTTCGATCTACTTCACGTCAATACATGAAGA
1 TTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC--CAATATATGAAGA
*
6710198 CAAGATCTGCTGTAT-TTGATCTAC
63 CAAGATCT-CT-T-TCTCGATCTAC
* * ** ** *
6710222 TTCGCTGCCAGTACGGGAAGACAAGATCTATTTTCGTCGATCTACTTCACC-ATCAGTATGGGAA
1 TTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCAAT-A-TAT--GAA
6710286 GACAAGATCT
61 GACAAGATCT
6710296 GCTGCTTTTC
Statistics
Matches: 888, Mismatches: 105, Indels: 126
0.79 0.09 0.11
Matches are distributed among these distances:
86 11 0.01
87 13 0.01
88 245 0.28
89 319 0.36
90 199 0.22
91 26 0.03
92 12 0.01
93 45 0.05
94 12 0.01
95 2 0.00
96 4 0.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (84 bp):
TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCAATATATGAAGACAA
GATCTCTTTCTCGATCTAC
Found at i:6711613 original size:7 final size:7
Alignment explanation
Indices: 6711601--6711643 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
6711591 TTTTCCGTTC
6711601 TTCATTT
1 TTCATTT
6711608 TTCA-TT
1 TTCATTT
*
6711614 TTCACTT
1 TTCATTT
6711621 TTCA-TT
1 TTCATTT
6711627 TTCATTT
1 TTCATTT
6711634 TATCATTT
1 T-TCATTT
6711642 TT
1 TT
6711644 TACGACTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 12 0.36
7 14 0.42
8 7 0.21
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (7 bp):
TTCATTT
Found at i:6711617 original size:6 final size:6
Alignment explanation
Indices: 6711601--6711634 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
6711591 TTTTCCGTTC
6711601 TTCATTT TTCATT TTCACTT TTCATT TTCATT TT
1 TTCA-TT TTCATT TTCA-TT TTCATT TTCATT TT
6711635 ATCATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.62
7 10 0.38
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCATT
Found at i:6711622 original size:13 final size:13
Alignment explanation
Indices: 6711583--6711642 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
6711573 TTAGCCTCTC
6711583 CATTTT-ACTTTT
1 CATTTTCACTTTT
* *
6711595 CCGTTCTTCATTTTT
1 -CATT-TTCACTTTT
6711610 CATTTTCACTTTT
1 CATTTTCACTTTT
*
6711623 CATTTTCATTTTAT
1 CATTTTCACTTT-T
6711637 CATTTT
1 CATTTT
6711643 TTACGACTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
13 22 0.56
14 12 0.31
15 5 0.13
ACGTcount: A:0.15, C:0.20, G:0.02, T:0.63
Consensus pattern (13 bp):
CATTTTCACTTTT
Found at i:6716919 original size:18 final size:18
Alignment explanation
Indices: 6716896--6716931 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6716886 CATTGTACAA
6716896 AATTACGTCACCGAATGC
1 AATTACGTCACCGAATGC
*
6716914 AATTACGTCATCGAATGC
1 AATTACGTCACCGAATGC
6716932 CATCTTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (18 bp):
AATTACGTCACCGAATGC
Found at i:6718287 original size:23 final size:22
Alignment explanation
Indices: 6718252--6718297 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
6718242 TAACTTTATG
6718252 AAAAGACTTGATG-AAAAGCTTA
1 AAAAGACTTGATGCAAAA-CTTA
6718274 AAAAGAACTTGATGCAAAACTTA
1 AAAAG-ACTTGATGCAAAACTTA
6718297 A
1 A
6718298 TAAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (22 bp):
AAAAGACTTGATGCAAAACTTA
Found at i:6718354 original size:14 final size:13
Alignment explanation
Indices: 6718320--6718361 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
6718310 CTTGGTAATT
6718320 AAAAACTTGAT-A
1 AAAAACTTGATGA
6718332 AAAGAACTTGATGA
1 AAA-AACTTGATGA
*
6718346 AAAACACTTGAAGA
1 AAAA-ACTTGATGA
6718360 AA
1 AA
6718362 GAAAACACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 3 0.12
13 9 0.35
14 14 0.54
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.19
Consensus pattern (13 bp):
AAAAACTTGATGA
Found at i:6719058 original size:23 final size:22
Alignment explanation
Indices: 6719022--6719098 Score: 100
Period size: 23 Copynumber: 3.4 Consensus size: 22
6719012 CAACAGAGAA
*
6719022 AGGTGTTTATCTCGTATCACTGC
1 AGGTGTTTACCTCGTA-CACTGC
*
6719045 AGTTGTTTACCTCGTACCACTGC
1 AGGTGTTTACCTCGTA-CACTGC
6719068 AGGTGTTTACCTCGTACTACTGC
1 AGGTGTTTACCTCGTAC-ACTGC
*
6719091 AGGGGTTT
1 AGGTGTTT
6719099 TCTTTTTGGG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 1 0.02
23 47 0.98
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (22 bp):
AGGTGTTTACCTCGTACACTGC
Found at i:6721988 original size:17 final size:17
Alignment explanation
Indices: 6721966--6722026 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
6721956 ATTTTAATCC
6721966 TTAGTTTAATTATTATT
1 TTAGTTTAATTATTATT
**
6721983 TTAGTTT-ATTAGCAATT
1 TTAGTTTAATTA-TTATT
*
6722000 AAATAGTTTAATTATTATT
1 --TTAGTTTAATTATTATT
6722019 TTAGTTTA
1 TTAGTTTA
6722027 TTAGCAATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
16 4 0.12
17 17 0.50
19 9 0.26
20 4 0.12
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (17 bp):
TTAGTTTAATTATTATT
Found at i:6722007 original size:36 final size:36
Alignment explanation
Indices: 6721967--6722038 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
6721957 TTTTAATCCT
6721967 TAGTTTAATTATTATTTTAGTTTATTAGCAATTAAA
1 TAGTTTAATTATTATTTTAGTTTATTAGCAATTAAA
6722003 TAGTTTAATTATTATTTTAGTTTATTAGCAATTAAA
1 TAGTTTAATTATTATTTTAGTTTATTAGCAATTAAA
6722039 AATATCTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (36 bp):
TAGTTTAATTATTATTTTAGTTTATTAGCAATTAAA
Found at i:6732932 original size:13 final size:13
Alignment explanation
Indices: 6732914--6732938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6732904 AATGACTATT
6732914 TGACTATTTGAAA
1 TGACTATTTGAAA
6732927 TGACTATTTGAA
1 TGACTATTTGAA
6732939 TGTATTTGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
TGACTATTTGAAA
Found at i:6738006 original size:20 final size:21
Alignment explanation
Indices: 6737971--6738024 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
6737961 AATCAAGAAC
6737971 TTTATTAAACTTTTTTAAAAT
1 TTTATTAAACTTTTTTAAAAT
* *
6737992 TTTATT-AATTTTTTTATAA-
1 TTTATTAAACTTTTTTAAAAT
6738011 TTT-TTAAACTTTTT
1 TTTATTAAACTTTTT
6738025 CAATAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 2 0.07
19 10 0.34
20 11 0.38
21 6 0.21
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATTAAACTTTTTTAAAAT
Found at i:6738030 original size:20 final size:20
Alignment explanation
Indices: 6737975--6738032 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
6737965 AAGAACTTTA
6737975 TTAAACTTTTTTAA-AATTT
1 TTAAACTTTTTTAATAATTT
* *
6737994 TATTAA-TTTTTTTATAATTT
1 T-TAAACTTTTTTAATAATTT
*
6738014 TTAAACTTTTTCAATAATT
1 TTAAACTTTTTTAATAATT
6738033 AAAGCAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (20 bp):
TTAAACTTTTTTAATAATTT
Found at i:6739231 original size:6 final size:6
Alignment explanation
Indices: 6739220--6739256 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
6739210 TACCCTCTAG
6739220 CCATTT CCATTT CCATTT CCATTT CCATTT CCATTT C
1 CCATTT CCATTT CCATTT CCATTT CCATTT CCATTT C
6739257 ATTAGAGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.49
Consensus pattern (6 bp):
CCATTT
Found at i:6748063 original size:13 final size:13
Alignment explanation
Indices: 6748045--6748076 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6748035 TTTCTAGAAA
6748045 TTATGAATTTATT
1 TTATGAATTTATT
6748058 TTATGAATTTATT
1 TTATGAATTTATT
*
6748071 TGATGA
1 TTATGA
6748077 TGATCCAAGC
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:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:6748284 original size:50 final size:50
Alignment explanation
Indices: 6748171--6748412 Score: 277
Period size: 50 Copynumber: 4.7 Consensus size: 50
6748161 ATTTGGGTAA
* *
6748171 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGA-C--G
* * *
6748227 AGAGGTCCCCTGCAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
6748277 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * * *
6748327 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCTTGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
**
6748377 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
6748413 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 92 0.56
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
Found at i:6748361 original size:100 final size:103
Alignment explanation
Indices: 6748171--6748420 Score: 344
Period size: 100 Copynumber: 2.4 Consensus size: 103
6748161 ATTTGGGTAA
6748171 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
6748236 CTGCAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTACAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * *
6748277 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
* * *
6748339 TAAGACCATGTCTGGGACATGGCTTGGGCACCAACATG
66 CAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* *
6748377 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
6748421 GTTATAATCA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
100 49 0.38
101 39 0.30
105 2 0.02
106 40 0.31
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
CAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
Found at i:6750279 original size:22 final size:23
Alignment explanation
Indices: 6750219--6750268 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
6750209 CTATCATATA
6750219 AAAAAAAGACTAGTTTGTAAAAT
1 AAAAAAAGACTAGTTTGTAAAAT
6750242 AAAAAAAGACTAGTTTGTAAAAT
1 AAAAAAAGACTAGTTTGTAAAAT
6750265 AAAA
1 AAAA
6750269 GTTGTTAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.24
Consensus pattern (23 bp):
AAAAAAAGACTAGTTTGTAAAAT
Found at i:6750638 original size:28 final size:28
Alignment explanation
Indices: 6750598--6750655 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
6750588 AGACATTCAC
6750598 ATTATATATAATAACGTAATATCTTAAT
1 ATTATATATAATAACGTAATATCTTAAT
*
6750626 ATTATATATAATAACTTAATATCTTAAT
1 ATTATATATAATAACGTAATATCTTAAT
6750654 AT
1 AT
6750656 AAAGGAGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (28 bp):
ATTATATATAATAACGTAATATCTTAAT
Found at i:6752310 original size:86 final size:86
Alignment explanation
Indices: 6752213--6752384 Score: 301
Period size: 86 Copynumber: 2.0 Consensus size: 86
6752203 TTAATACAAT
*
6752213 TAACAATTAATAATTTGAT-ATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAAT
1 TAACAATTAATAA-TTAATAATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAAT
6752277 AATTTTACTAAAAAAATGTTAG
65 AATTTTACTAAAAAAATGTTAG
*
6752299 TAACAATTAATAATTAATAATAATTTGATAATTTTAGTAACAATTAATACAATTAACAATTAATA
1 TAACAATTAATAATTAATAATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATA
*
6752364 ATTTTACTAACAAAATGTTAG
66 ATTTTACTAAAAAAATGTTAG
6752385 ATTTTACAAA
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
85 4 0.05
86 78 0.95
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (86 bp):
TAACAATTAATAATTAATAATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATA
ATTTTACTAAAAAAATGTTAG
Found at i:6752449 original size:16 final size:16
Alignment explanation
Indices: 6752430--6752486 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
6752420 AATTTGATAC
6752430 AATTTTAATAACAATT
1 AATTTTAATAACAATT
* *
6752446 AATTTTGATAATAATT
1 AATTTTAATAACAATT
6752462 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
6752478 AGTTTTAAT
1 AATTTTAAT
6752487 TTTAATATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:6752507 original size:22 final size:23
Alignment explanation
Indices: 6752457--6752507 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
6752447 ATTTTGATAA
6752457 TAATTAATTTTAATAACAATTAGT
1 TAATTAATTTTAATAACAATTA-T
**
6752481 T--TTAATTTTAATATTAATT-T
1 TAATTAATTTTAATAACAATTAT
6752501 TAATTAA
1 TAATTAA
6752508 AAACGGGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
20 2 0.09
22 20 0.87
24 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TAATTAATTTTAATAACAATTAT
Found at i:6755080 original size:33 final size:32
Alignment explanation
Indices: 6755042--6755114 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
6755032 AGTTGGGAGA
* * * * *
6755042 AAATTTTTTTAGATGCTTTAAAAGTTCGTAAAC
1 AAATTTTTTGAG-TACTTTAAAAATTAGAAAAC
6755075 AAATTTTTTGAGTACTTTAAAAATTAGAAAAC
1 AAATTTTTTGAGTACTTTAAAAATTAGAAAAC
6755107 AATATTTT
1 AA-ATTTT
6755115 GAACTCCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 18 0.53
33 16 0.47
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (32 bp):
AAATTTTTTGAGTACTTTAAAAATTAGAAAAC
Found at i:6755988 original size:6 final size:6
Alignment explanation
Indices: 6755977--6756028 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
6755967 TCATTTTGGA
6755977 GCAGTT GCAGTT GCAGTT GCAGTT GCAGTT GCAGTT GCAGTT GCAGTT
1 GCAGTT GCAGTT GCAGTT GCAGTT GCAGTT GCAGTT GCAGTT GCAGTT
6756025 GCAG
1 GCAG
6756029 GAAGCTCAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.17, C:0.17, G:0.35, T:0.31
Consensus pattern (6 bp):
GCAGTT
Found at i:6757017 original size:17 final size:17
Alignment explanation
Indices: 6756995--6757028 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6756985 ATCCACTAAT
*
6756995 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
6757012 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
6757029 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:6761656 original size:17 final size:17
Alignment explanation
Indices: 6761634--6761667 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6761624 ATCCACTAAT
*
6761634 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
6761651 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
6761668 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:6762217 original size:24 final size:24
Alignment explanation
Indices: 6762165--6762217 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
6762155 GAAATGATCC
* **
6762165 ATGTGAAGACAAAAAGCTCCATCT
1 ATGTGAAGACAAAAAGCTACATAA
6762189 ATGTGAAGACAAAAAGC-ACATAA
1 ATGTGAAGACAAAAAGCTACATAA
6762212 AGTGTG
1 A-TGTG
6762218 GCTCCGCAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (24 bp):
ATGTGAAGACAAAAAGCTACATAA
Found at i:6763309 original size:25 final size:24
Alignment explanation
Indices: 6763226--6763334 Score: 118
Period size: 22 Copynumber: 4.6 Consensus size: 24
6763216 TTATTATGCA
*
6763226 CTAATGAACAGAGAGCACTAAAGTG
1 CTAAT-AACAGAGAGCACTAACGTG
* *
6763251 CT-AT-ACAGAGAGCACAAATGTG
1 CTAATAACAGAGAGCACTAACGTG
*
6763273 CT-A-AACAGAGAGCACTGACGTG
1 CTAATAACAGAGAGCACTAACGTG
*
6763295 CTAATAATCAGAGAGCACCAACGTG
1 CTAATAA-CAGAGAGCACTAACGTG
6763320 CTAATAATCAGAGAG
1 CTAATAA-CAGAGAG
6763335 TGCGCTAAAG
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
22 36 0.49
23 1 0.01
24 4 0.05
25 32 0.44
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (24 bp):
CTAATAACAGAGAGCACTAACGTG
Found at i:6766122 original size:38 final size:38
Alignment explanation
Indices: 6766080--6766155 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
6766070 TCAAATCTAC
* *
6766080 TCATCCTTTAAATGATTTAAGGATTCTTTTTCTTTTAA
1 TCATCCTTTAAATGATCTAAAGATTCTTTTTCTTTTAA
6766118 TCATCCTTTAAATGATCTAAAGATTCTTTTTCTTTTAA
1 TCATCCTTTAAATGATCTAAAGATTCTTTTTCTTTTAA
6766156 AATTCCGATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (38 bp):
TCATCCTTTAAATGATCTAAAGATTCTTTTTCTTTTAA
Found at i:6774269 original size:21 final size:22
Alignment explanation
Indices: 6774243--6774304 Score: 80
Period size: 20 Copynumber: 3.0 Consensus size: 22
6774233 ATTCAAGAAC
6774243 TTTATTAAACTTTTTTTA-AAT
1 TTTATTAAACTTTTTTTATAAT
6774264 TTTATT-AAC-TTTTTTATAAT
1 TTTATTAAACTTTTTTTATAAT
*
6774284 TTTA--AAACTTTTTTAATAAT
1 TTTATTAAACTTTTTTTATAAT
6774304 T
1 T
6774305 AAAGCAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 10 0.27
20 21 0.57
21 6 0.16
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTATTAAACTTTTTTTATAAT
Found at i:6775644 original size:13 final size:13
Alignment explanation
Indices: 6775626--6775657 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
6775616 GCAAGATGCA
6775626 AAGTTTTTACACG
1 AAGTTTTTACACG
6775639 AAGTTTTTACACG
1 AAGTTTTTACACG
6775652 AAGTTT
1 AAGTTT
6775658 CTTTTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (13 bp):
AAGTTTTTACACG
Found at i:6776441 original size:24 final size:24
Alignment explanation
Indices: 6776412--6776475 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
6776402 ATATCTATTC
*
6776412 ATTTTATTTATATGAATAAATAAA
1 ATTTTATTTATTTGAATAAATAAA
6776436 ATTTTATTTATTTGAATAAATAAA
1 ATTTTATTTATTTGAATAAATAAA
6776460 ATTTTATTTATTTGAA
1 ATTTTATTTATTTGAA
6776476 ATTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (24 bp):
ATTTTATTTATTTGAATAAATAAA
Found at i:6780166 original size:125 final size:126
Alignment explanation
Indices: 6780019--6780252 Score: 310
Period size: 125 Copynumber: 1.9 Consensus size: 126
6780009 ATATAATGCC
* * * *
6780019 ATATTTTGCGCTTTAGAAATTCGAGAAATTGTACCCTAACTTACGGGGTCTCAATTTTCTCGTTA
1 ATATTTTGCGCTTTAGAAATTCGAGAAATCGTACCCTAACTTACAGGATCTCAATTTTCTCGCTA
*
6780084 AAACT-AATAGCAAAATATCCTTTTAAGA-TTTCAAAAATGAAAGGAATTTTGATAAGGCA
66 AAACTAAATAGCAAAATATCCTTTTAAAATTTTCAAAAATGAAAGGAATTTTGATAAGGCA
* ** * * **
6780143 ATATATTTGCGTTTTAGTGATTCGAGAGATCGTACCCTAACTTACAGGATTTCGGTTTTCTCGCT
1 ATAT-TTTGCGCTTTAGAAATTCGAGAAATCGTACCCTAACTTACAGGATCTCAATTTTCTCGCT
* * *
6780208 AAACCTAAATAGCAAAGTATCCTTTTAAAATTTTCAACAATGAAA
65 AAAACTAAATAGCAAAATATCCTTTTAAAATTTTCAAAAATGAAA
6780253 TAAATTTCGT
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
124 4 0.04
125 54 0.59
126 21 0.23
127 13 0.14
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (126 bp):
ATATTTTGCGCTTTAGAAATTCGAGAAATCGTACCCTAACTTACAGGATCTCAATTTTCTCGCTA
AAACTAAATAGCAAAATATCCTTTTAAAATTTTCAAAAATGAAAGGAATTTTGATAAGGCA
Found at i:6780505 original size:22 final size:22
Alignment explanation
Indices: 6780477--6780520 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
6780467 AATAAGCGGG
6780477 TCTTTAACTCATTTTCAAATTT
1 TCTTTAACTCATTTTCAAATTT
6780499 TCTTTAACTCATTTTCAAATTT
1 TCTTTAACTCATTTTCAAATTT
6780521 ACTCAAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (22 bp):
TCTTTAACTCATTTTCAAATTT
Found at i:6783723 original size:17 final size:17
Alignment explanation
Indices: 6783701--6783740 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
6783691 TCAGTGGAGG
* *
6783701 AAAAAAAACAGAAAAAT
1 AAAAAAAACAAAAAAAC
*
6783718 AAAAAAAATAAAAAAAC
1 AAAAAAAACAAAAAAAC
6783735 AAAAAA
1 AAAAAA
6783741 CCTCTACCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.88, C:0.05, G:0.03, T:0.05
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAC
Found at i:6784153 original size:16 final size:17
Alignment explanation
Indices: 6784131--6784178 Score: 71
Period size: 16 Copynumber: 2.8 Consensus size: 17
6784121 TACTTCACTT
6784131 GAAAAAAAAGAAAAGAA
1 GAAAAAAAAGAAAAGAA
6784148 -AAAAAAAAGAAAAGAA
1 GAAAAAAAAGAAAAGAA
*
6784164 GAATGAAAAAGAAAA
1 GAA-AAAAAAGAAAA
6784179 AGGAGAGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 16 0.57
17 2 0.07
18 10 0.36
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (17 bp):
GAAAAAAAAGAAAAGAA
Found at i:6784165 original size:24 final size:24
Alignment explanation
Indices: 6784133--6784180 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6784123 CTTCACTTGA
6784133 AAAAAAAGAAAAGAAAAA-AAAAAG
1 AAAAAAAG-AAAGAAAAAGAAAAAG
* *
6784157 AAAAGAAGAATGAAAAAGAAAAAG
1 AAAAAAAGAAAGAAAAAGAAAAAG
6784181 GAGAGGCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (24 bp):
AAAAAAAGAAAGAAAAAGAAAAAG
Found at i:6785344 original size:100 final size:100
Alignment explanation
Indices: 6785210--6785848 Score: 775
Period size: 100 Copynumber: 6.4 Consensus size: 100
6785200 TCTTTGGCAG
* * *
6785210 TGCAGCGGAACAGATTGAAGCTACGACGACGAATCTTGCTTCCCTGACATTGCAATTAAAAAGAT
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGAT
*
6785275 TGAAGCCACAACGACGAATCTTACCTCCCTGGCGA
66 TGAAGCCACAACGGCGAATCTTACCTCCCTGGCGA
* ** * **
6785310 TGCAGTGGAATAGATTGAAGCTATAACGACGAATCTTACTTCCCCAACATTGCAATT--AAAGAT
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGAT
*
6785373 TGAAGCCACAACGGTGAATCTTACCTCCCTGGCGA
66 TGAAGCCACAACGGCGAATCTTACCTCCCTGGCGA
* * * * * * * *
6785408 TGTAGT-GAATATATTGACGCTACGACGGTGAAT-TTCATTTTCCTGACATTGCAATTAAAAAAA
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTT-ACTTCCCTGACATTGCAATTAAAAAGA
* *
6785471 TTGAAGCCACAACGGCAAATCTTACCTCCCTAGCGA
65 TTGAAGCCACAACGGCGAATCTTACCTCCCTGGCGA
** * * * * *
6785507 TGCAGTTAAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGTAATTAAAAAGAT
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGAT
* *
6785572 TGAAGCCACAACGGTGAATCTTACCTTCCTGGCGA
66 TGAAGCCACAACGGCGAATCTTACCTCCCTGGCGA
* * * * *
6785607 TACAGTGGAATAGATTGAAGCTACGACGGTGAATCTCATTTCCCTGACATTGCAATTAAAAAGAT
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGAT
* ** *
6785672 TGAAGCCACAACGGCGAATCTTACTTCCCCAGCGG
66 TGAAGCCACAACGGCGAATCTTACCTCCCTGGCGA
** * * * * *
6785707 TATAGTGGAACAGATTGAAGCTGCGATGGCGAATCTCATTTCCCTGACATTGCAATTAAAAATAT
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGAT
* *
6785772 TGAAGCCACAACGGCGAATCTTACTTCCCTGGCGG
66 TGAAGCCACAACGGCGAATCTTACCTCCCTGGCGA
* * *
6785807 TGTAGTGGAACAGATTGAAGCTACAACAGCGAATC-TACTTCC
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTTACTTCC
6785849 TTGATGAACC
Statistics
Matches: 459, Mismatches: 75, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
96 2 0.00
97 37 0.08
98 44 0.10
99 47 0.10
100 327 0.71
101 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (100 bp):
TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGAT
TGAAGCCACAACGGCGAATCTTACCTCCCTGGCGA
Found at i:6785824 original size:50 final size:50
Alignment explanation
Indices: 6785221--6785848 Score: 407
Period size: 50 Copynumber: 12.6 Consensus size: 50
6785211 GCAGCGGAAC
* * *
6785221 AGATTGAAGCTACGACGACGAATCTTGCTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA
* * * * * ** *
6785271 AGATTGAAGCCACAACGACGAATCTTACCTCCCTGGCGA-TGCAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGAC-ATTGCAATTAAAA
* * **
6785321 AGATTGAAGCTATAACGACGAATCTTACTTCCCCAACATTGCAATT--AA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA
* * * * * * * *
6785369 AGATTGAAGCCACAACGGTGAATCTTACCTCCCTGGCGA-TG-TAGTGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGAC-ATTGCAATTAAAA
* * * * * *
6785418 ATATTGACGCTACGACGGTGAAT-TTCATTTTCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTT-ACTTCCCTGACATTGCAATTAAAA
* * * * * *
6785468 AAATTGAAGCCACAACGGCAAATCTTACCTCCCT-AGCGA-TGCAGTTAAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGA-C-ATTGCAATTAAAA
* * * *
6785518 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGTAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA
* * * * * ** *
6785568 AGATTGAAGCCACAACGGTGAATCTTACCTT-CCTGGCGA-TACAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTA-CTTCCCTGAC-ATTGCAATTAAAA
* * * *
6785618 AGATTGAAGCTACGACGGTGAATCTCATTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA
* * ** ** * ** *
6785668 AGATTGAAGCCACAACGGCGAATCTTACTTCCC-CAGCGGTATAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGA-CATTGCAATTAAAA
* * * * *
6785718 AGATTGAAGCTGCGATGGCGAATCTCATTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA
* * * ** * * ** *
6785768 ATATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA
*
6785818 AGATTGAAGCTACAACAGCGAATC-TACTTCC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCC
6785849 TTGATGAACC
Statistics
Matches: 428, Mismatches: 131, Indels: 39
0.72 0.22 0.07
Matches are distributed among these distances:
47 2 0.00
48 35 0.08
49 44 0.10
50 337 0.79
51 10 0.02
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAA
Found at i:6786153 original size:41 final size:41
Alignment explanation
Indices: 6786095--6786297 Score: 165
Period size: 41 Copynumber: 4.9 Consensus size: 41
6786085 AAACCACAGA
* * * ***
6786095 TCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCCAG
* * * * *
6786136 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACAAAAGCCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCCAG
* * *
6786177 TCCTGTCTCCCTGAAGTTGCAGTGGAGC-GAATTAAAACCACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-A-TAAAATC-CAG
* * * * ** *
6786220 ATCTTATCTCTCTAAAGTCGCAGTAGAGCAGATAGCATCAAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCCAG
*
6786262 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAA
6786298 GCCACAAATC
Statistics
Matches: 124, Mismatches: 33, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
40 1 0.01
41 86 0.69
42 7 0.06
43 6 0.05
44 23 0.19
45 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCCAG
Found at i:6786171 original size:148 final size:148
Alignment explanation
Indices: 6785903--6786199 Score: 567
Period size: 148 Copynumber: 2.0 Consensus size: 148
6785893 GAATCTTACT
6785903 TCCTTAACGGTACAGTGGAACATATTGAAGCTATAAACCACAGATCTTATCTCTCTGAAGTTGCA
1 TCCTTAACGGTACAGTGGAACATATTGAAGCTATAAACCACAGATCTTATCTCTCTGAAGTTGCA
*
6785968 GTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAAAAGCCAATCCT
66 GTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACAAAAGCCAATCCT
6786033 GTCTCCCTGAAGTTGCAG
131 GTCTCCCTGAAGTTGCAG
* *
6786051 TCCTTAATGGTACAGTGGAACATATTGAAGCTATAAACCACAGATCTTATCTCTCTGAAGTTGTA
1 TCCTTAACGGTACAGTGGAACATATTGAAGCTATAAACCACAGATCTTATCTCTCTGAAGTTGCA
6786116 GTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACAAAAGCCAATCCT
66 GTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACAAAAGCCAATCCT
6786181 GTCTCCCTGAAGTTGCAG
131 GTCTCCCTGAAGTTGCAG
6786199 T
1 T
6786200 GGAGCGAATT
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
148 146 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (148 bp):
TCCTTAACGGTACAGTGGAACATATTGAAGCTATAAACCACAGATCTTATCTCTCTGAAGTTGCA
GTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACAAAAGCCAATCCT
GTCTCCCTGAAGTTGCAG
Found at i:6787067 original size:26 final size:24
Alignment explanation
Indices: 6787038--6787086 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
6787028 GATCGTCTTT
6787038 CTTT-TTTTTCTATTTTCTATTTTATG
1 CTTTCTTTTT-TA-TTT-TATTTTATG
6787064 CTTTCTTTTTTATTTTATTTTAT
1 CTTTCTTTTTTATTTTATTTTAT
6787087 TTATTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 8 0.36
25 3 0.14
26 6 0.27
27 5 0.23
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (24 bp):
CTTTCTTTTTTATTTTATTTTATG
Found at i:6788734 original size:125 final size:127
Alignment explanation
Indices: 6788568--6788818 Score: 337
Period size: 125 Copynumber: 2.0 Consensus size: 127
6788558 AAAAAATGAA
* * *
6788568 AATTTCGATATAAGGCCATATTTTGCGCTTTGGAAATTCGAGAAATTGTACCCTAACTTACGGGG
1 AATTTCGA-ATAAGGCAATATTTTGCGCTTTAGAAATTCGAGAAATCGTACCCTAACTTACGGGG
* *
6788633 TCTCAATTTTCTCGTTAAAACT-AATAGCAAAATATCCTTTTAAGA-TTTCAAAAATGAAAGG
65 TCTCAATTTTCTCGCTAAAACTAAATAGCAAAATATCCTTTTAAAATTTTCAAAAATGAAAGG
* ** *
6788694 AATTTCG-ATAAGGCAATATCTTTGCGTTTTAGTGATTCGAGAGATCGTACCCTAACTTACGGGG
1 AATTTCGAATAAGGCAATAT-TTTGCGCTTTAGAAATTCGAGAAATCGTACCCTAACTTACGGGG
* * * * *
6788758 TTTCGATTTTCTCGCTAAACCTAAATAGCAAAGTATCCTTTTAAAATTTTCAACAATGAAA
65 TCTCAATTTTCTCGCTAAAACTAAATAGCAAAATATCCTTTTAAAATTTTCAAAAATGAAA
6788819 TAAATTTTGT
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
124 11 0.10
125 56 0.52
126 28 0.26
127 13 0.12
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (127 bp):
AATTTCGAATAAGGCAATATTTTGCGCTTTAGAAATTCGAGAAATCGTACCCTAACTTACGGGGT
CTCAATTTTCTCGCTAAAACTAAATAGCAAAATATCCTTTTAAAATTTTCAAAAATGAAAGG
Found at i:6788898 original size:129 final size:124
Alignment explanation
Indices: 6788606--6788895 Score: 303
Period size: 125 Copynumber: 2.3 Consensus size: 124
6788596 TTTGGAAATT
** * *
6788606 CGAGAAATTGTACCCTAACTTACGGGGTCTCAATTTTCTCGTTAAAACTAATAGCAAAATATCCT
1 CGAGAAATCATACCCTAACTTACGGGGT-TCCATTTTCTCGCTAAAACTAATAGCAAAATATCCT
* * * * **
6788671 TTTAAGATTTCAAAAATGAAAGGAATTTCGATAAGGCAATATCTTTGCGTTTTAGTGATT
65 TTTAAAATTTCAAAAATGAAAGAAATTTCGATAAGGCAACATCTTTGCGTTTTAGTAACC
* * * * *
6788731 CGAGAGATCGTACCCTAACTTACGGGGTTTCGATTTTCTCGCTAAACCTAAATAGCAAAGTATCC
1 CGAGAAATCATACCCTAACTTACGGGG-TTCCATTTTCTCGCTAAAACT-AATAGCAAAATATCC
* * * * * * *
6788796 TTTTAAAATTTTCAACAATGAAATAAATTTTGTTATGAGGTAACA-CTTTGTGTTTTGGTAACC
64 TTTTAAAA-TTTCAAAAATGAAAGAAATTTCG--ATAAGGCAACATCTTTGCGTTTTAGTAACC
*
6788859 CGAGAAAATCATATCCTAACTTACGGGGTTCCATTTT
1 CGAG-AAATCATACCCTAACTTACGGGGTTCCATTTT
6788896 TCTTATTAAA
Statistics
Matches: 136, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
125 42 0.31
126 22 0.16
127 19 0.14
128 25 0.18
129 28 0.21
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (124 bp):
CGAGAAATCATACCCTAACTTACGGGGTTCCATTTTCTCGCTAAAACTAATAGCAAAATATCCTT
TTAAAATTTCAAAAATGAAAGAAATTTCGATAAGGCAACATCTTTGCGTTTTAGTAACC
Found at i:6790822 original size:16 final size:18
Alignment explanation
Indices: 6790792--6790834 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
6790782 TGATAATATT
*
6790792 TTTATTATACTATTT-TG
1 TTTATTATACAATTTATG
6790809 TTTA-TATACAATTTATG
1 TTTATTATACAATTTATG
6790826 TTTAATTAT
1 TTT-ATTAT
6790835 TTTTATCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 9 0.41
17 9 0.41
18 1 0.05
19 3 0.14
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTATTATACAATTTATG
Found at i:6792581 original size:16 final size:16
Alignment explanation
Indices: 6792560--6792595 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6792550 TTGTGTTTTG
6792560 TTTTGACTGCATGACA
1 TTTTGACTGCATGACA
* *
6792576 TTTTGATTGCATGGCA
1 TTTTGACTGCATGACA
6792592 TTTT
1 TTTT
6792596 ATCATAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.47
Consensus pattern (16 bp):
TTTTGACTGCATGACA
Found at i:6794368 original size:29 final size:29
Alignment explanation
Indices: 6794335--6794393 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
6794325 TTTATTTTTG
6794335 AGCTAATATTCTTTCATTCTTTTCGAATA
1 AGCTAATATTCTTTCATTCTTTTCGAATA
*
6794364 AGCTAATATTCTTTCATTTTTTTCGAATA
1 AGCTAATATTCTTTCATTCTTTTCGAATA
6794393 A
1 A
6794394 TCATTTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (29 bp):
AGCTAATATTCTTTCATTCTTTTCGAATA
Found at i:6795211 original size:8 final size:8
Alignment explanation
Indices: 6795198--6795239 Score: 75
Period size: 8 Copynumber: 5.1 Consensus size: 8
6795188 AAAAAAAGAG
6795198 AAATCAAA
1 AAATCAAA
6795206 AAATCAAA
1 AAATCAAA
6795214 AAATCAAAA
1 AAATC-AAA
6795223 AAATCAAA
1 AAATCAAA
6795231 AAATCAAA
1 AAATCAAA
6795239 A
1 A
6795240 TCAAAATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 25 0.76
9 8 0.24
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (8 bp):
AAATCAAA
Found at i:6795222 original size:6 final size:6
Alignment explanation
Indices: 6795222--6795270 Score: 80
Period size: 6 Copynumber: 7.8 Consensus size: 6
6795212 AAAAATCAAA
6795222 AAAATC AAAAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT
1 AAAATC -AA-AATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT
6795271 AGAAAAATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
6 33 0.80
7 4 0.10
8 4 0.10
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATC
Found at i:6795226 original size:17 final size:17
Alignment explanation
Indices: 6795198--6795239 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
6795188 AAAAAAAGAG
6795198 AAATC-AAAAAATCAAA
1 AAATCAAAAAAATCAAA
6795214 AAATCAAAAAAATCAAA
1 AAATCAAAAAAATCAAA
6795231 AAATCAAAA
1 AAATCAAAA
6795240 TCAAAATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
AAATCAAAAAAATCAAA
Found at i:6795320 original size:18 final size:19
Alignment explanation
Indices: 6795289--6795325 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
6795279 AAAAATAATG
6795289 AAAAGAAAAGGAAAAAAGA
1 AAAAGAAAAGGAAAAAAGA
6795308 AAAAGAAAA-GAAAAAAGA
1 AAAAGAAAAGGAAAAAAGA
6795326 GAGGCCAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAGGAAAAAAGA
Found at i:6796315 original size:46 final size:45
Alignment explanation
Indices: 6796242--6796328 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 45
6796232 AGAAGGGACC
*
6796242 AAGGTGAAAACCCACAAATGGCACTTTGATTCCTAAAAAAAAGACT
1 AAGGTGAAAACCCACAAATGGCACTTTGAGTCC-AAAAAAAAGACT
* *
6796288 AAGGTGAAAACCCGCAAA-GAGCGCTTTGAGTCCAAAAAAAA
1 AAGGTGAAAACCCACAAATG-GCACTTTGAGTCCAAAAAAAA
6796329 TAATAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 9 0.24
46 28 0.76
ACGTcount: A:0.46, C:0.20, G:0.18, T:0.16
Consensus pattern (45 bp):
AAGGTGAAAACCCACAAATGGCACTTTGAGTCCAAAAAAAAGACT
Found at i:6796361 original size:10 final size:9
Alignment explanation
Indices: 6796321--6796366 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
6796311 CTTTGAGTCC
6796321 AAAAAAAAT
1 AAAAAAAAT
*
6796330 --AATAAAT
1 AAAAAAAAT
6796337 AAACCAAAAAT
1 AAA--AAAAAT
6796348 AAAAAAAAT
1 AAAAAAAAT
6796357 AAAAAAAAT
1 AAAAAAAAT
6796366 A
1 A
6796367 GAGAGGCCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
7 6 0.19
9 17 0.55
11 8 0.26
ACGTcount: A:0.83, C:0.04, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:6796517 original size:42 final size:42
Alignment explanation
Indices: 6796439--6796518 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
6796429 CCCGAAAAGG
*
6796439 GCAGCTCAAATATTGATCAGAATGGGATATGAGGTGATAAGA
1 GCAGCTCAAATATTGATCAGAATGGGACATGAGGTGATAAGA
* * * * *
6796481 GCAGCTCAAATTTTGATCTGATTGGGGCATGTGGTGAT
1 GCAGCTCAAATATTGATCAGAATGGGACATGAGGTGAT
6796519 CTTGCTATAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.29
Consensus pattern (42 bp):
GCAGCTCAAATATTGATCAGAATGGGACATGAGGTGATAAGA
Found at i:6798122 original size:259 final size:259
Alignment explanation
Indices: 6797660--6798160 Score: 745
Period size: 259 Copynumber: 1.9 Consensus size: 259
6797650 GATTGAAGAC
* *
6797660 ACCAGTCTCACTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTAACGGTAGCGAATCTTGTTTC
1 ACCAGTCTCACTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTAAAGGTAACGAATCTTGTTTC
6797725 CCTAGCGTTGCAGTGGAATGAAATAGCTAAAGTAGAGCAGATTAAAGCTGAGGGCAGCGAATCCT
66 CCTAGCGTTGCAGTGGAATGAAATAGCTAAAGTAGAGCAGATTAAAGCTGAGGGCAGCGAATCCT
* * *
6797790 ATCTCTTTGGCATTACAGTAGAATATATTAAAGCTAAAGGTAGCAAATCTGGTTTCCCTGGTATT
131 ATCTCTTTGGCATTACAGTAGAATAGATTAAAGATAAAGGTAGCAAATCTGGTTTCCCTGGGATT
* *
6797855 GTAGCGGAGCAGATTAAAGCTAAGGGCAACGGATCTTATCTCCCTGGTGTTAAGGCTGAAAGTA
196 GCAGCGGAGCAGATTAAAGCTAAGGGCAACGAATCTTATCTCCCTGGTGTTAAGGCTGAAAGTA
* * ** * *
6797919 ACCAGTCTTACTTCTCTAGCGTTGTAGTGGAACAGATTAAAGCTAAAGGTAATGAATCTTGTTTC
1 ACCAGTCTCACTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTAAAGGTAACGAATCTTGTTTC
* * * * * * * *
6797984 CCTGGCGTTGCAGTGGAATGGAATAGCTGAAGTGGAGCGGATTAAAGTTGTGGGCAGTGAATCCT
66 CCTAGCGTTGCAGTGGAATGAAATAGCTAAAGTAGAGCAGATTAAAGCTGAGGGCAGCGAATCCT
*
6798049 ATCTCTTTGGCATTACAGT-GAAATAGATTAAAGATAAAGGTAGCAAATCTTGTTTCCCTGGCGA
131 ATCTCTTTGGCATTACAGTAG-AATAGATTAAAGATAAAGGTAGCAAATCTGGTTTCCCTGG-GA
* **
6798113 -TGCAGCGGAGTAGATTAAAGCTAAGGGCAGTGAATCTTATCTCCCTGG
194 TTGCAGCGGAGCAGATTAAAGCTAAGGGCAACGAATCTTATCTCCCTGG
6798161 CTTGGAATAG
Statistics
Matches: 215, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
258 1 0.00
259 213 0.99
260 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (259 bp):
ACCAGTCTCACTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTAAAGGTAACGAATCTTGTTTC
CCTAGCGTTGCAGTGGAATGAAATAGCTAAAGTAGAGCAGATTAAAGCTGAGGGCAGCGAATCCT
ATCTCTTTGGCATTACAGTAGAATAGATTAAAGATAAAGGTAGCAAATCTGGTTTCCCTGGGATT
GCAGCGGAGCAGATTAAAGCTAAGGGCAACGAATCTTATCTCCCTGGTGTTAAGGCTGAAAGTA
Found at i:6798758 original size:125 final size:126
Alignment explanation
Indices: 6798457--6798758 Score: 340
Period size: 126 Copynumber: 2.4 Consensus size: 126
6798447 GCAATATTTT
* * * * *
6798457 GCGTTTTGGAAATTCGAGAAATTGTACCCTAACTTACGGGGTTTCAATTTTCTCGTTAAACAGAG
1 GCGTTTTGGTAATTCGAGAAATCGTACCCTAACTTACGGGGTTTCAGTTTTCTCGCTAAACAGAA
* * * * *
6798522 ATAACGAAGTATCCTTTTAAGATTTCAAAAGTAAAAGGAATCTCGATAAGGAAATATCTTT
66 ATAACAAAGTATCCTTTTAAGATTTCAAAAATAAAAGAAATCTCGATAAGGAAACATCTTC
* * **
6798583 GCGTTTTGGTAATTCGAGAGATCGTACCCTAACTTACGGGGTTTCGGTTTTCTCGCTAAACCTAA
1 GCGTTTTGGTAATTCGAGAAATCGTACCCTAACTTACGGGGTTTCAGTTTTCTCGCTAAACAGAA
* * * * * *
6798648 ATAGCAAAGTATCCTTTTAAAGTTTTCAAAAATGAAATAAATTTCG-TTA-GATAACA-CTTC
66 ATAACAAAGTATCCTTTT-AAGATTTCAAAAATAAAAGAAATCTCGATAAGGA-AACATCTTC
* * * * *
6798708 GTGTTTTGGTAATTCGAGAAACCATACCTTAACTTACGGGGTTTTAGTTTT
1 GCGTTTTGGTAATTCGAGAAATCGTACCCTAACTTACGGGGTTTCAGTTTT
6798759 TCTCATTAAA
Statistics
Matches: 147, Mismatches: 27, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
125 49 0.33
126 77 0.52
127 21 0.14
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (126 bp):
GCGTTTTGGTAATTCGAGAAATCGTACCCTAACTTACGGGGTTTCAGTTTTCTCGCTAAACAGAA
ATAACAAAGTATCCTTTTAAGATTTCAAAAATAAAAGAAATCTCGATAAGGAAACATCTTC
Found at i:6799082 original size:47 final size:47
Alignment explanation
Indices: 6799015--6799110 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
6799005 ACGTTAAGAC
*
6799015 ATTAATTAATCAACTAGGTACCAATTTTGGGCGTTACGAGGGTGCTA
1 ATTAATTAATCAACTAGGTACCAATTTTGGGCATTACGAGGGTGCTA
6799062 ATTAATTAATCAACTAGGTACCAATTTTGGGCATTACGAGGGTGCTA
1 ATTAATTAATCAACTAGGTACCAATTTTGGGCATTACGAGGGTGCTA
6799109 AT
1 AT
6799111 CCTTTCTCGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (47 bp):
ATTAATTAATCAACTAGGTACCAATTTTGGGCATTACGAGGGTGCTA
Found at i:6802153 original size:14 final size:15
Alignment explanation
Indices: 6802134--6802164 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
6802124 TAGAAAATAC
6802134 TTAAAAAAAA-CTCA
1 TTAAAAAAAACCTCA
6802148 TTAAAAAAAACCTCA
1 TTAAAAAAAACCTCA
6802163 TT
1 TT
6802165 CGTACTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (15 bp):
TTAAAAAAAACCTCA
Found at i:6802932 original size:29 final size:28
Alignment explanation
Indices: 6802900--6803024 Score: 99
Period size: 29 Copynumber: 4.2 Consensus size: 28
6802890 AAAAATAAAA
6802900 AAATTACATTTTGA-CCCTAAAACTTTTTG
1 AAATTACATTTTGACCCCT-AAA-TTTTTG
* *
6802929 AAATTTCATTTTGACCCCTAAATTTTCCTA
1 AAATTACATTTTGACCCCTAAATTTT--TG
* * *
6802959 AAATTATATTTTTGACCCTTAAAATTTTTT
1 AAATTACA-TTTTGACCCCT-AAATTTTTG
* * *
6802989 AAACTACATTATAACCCCTAAATTTTCTTG
1 AAATTACATTTTGACCCCTAAA-TTT-TTG
6803019 AAATTA
1 AAATTA
6803025 TGTTTTGGCC
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
28 7 0.09
29 27 0.36
30 25 0.33
31 10 0.13
32 7 0.09
ACGTcount: A:0.35, C:0.18, G:0.04, T:0.43
Consensus pattern (28 bp):
AAATTACATTTTGACCCCTAAATTTTTG
Found at i:6803006 original size:60 final size:60
Alignment explanation
Indices: 6802899--6803030 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 60
6802889 AAAAAATAAA
* * * * *
6802899 AAAATTACA-TTTTGACCCTAAAACTTTTTGAAATTTCATTTTGACCCCTAAATTTTCCT
1 AAAATTATATTTTTGACCCTAAAACTTTTTGAAACTACATTATAACCCCTAAATTTTCCT
* *
6802958 AAAATTATATTTTTGACCCTTAAAA-TTTTTTAAACTACATTATAACCCCTAAATTTTCTT
1 AAAATTATATTTTTGACCC-TAAAACTTTTTGAAACTACATTATAACCCCTAAATTTTCCT
* *
6803018 GAAATTATGTTTT
1 AAAATTATATTTT
6803031 GGCCCCATAA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 8 0.13
60 49 0.79
61 5 0.08
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.45
Consensus pattern (60 bp):
AAAATTATATTTTTGACCCTAAAACTTTTTGAAACTACATTATAACCCCTAAATTTTCCT
Found at i:6803387 original size:7 final size:7
Alignment explanation
Indices: 6803375--6803440 Score: 55
Period size: 7 Copynumber: 8.9 Consensus size: 7
6803365 GGTTTTTGAA
6803375 AAAAAAG
1 AAAAAAG
6803382 AAAAAA-
1 AAAAAAG
6803388 AAGAAGAAGG
1 AA-AA-AA-G
6803398 AAGAAGAAG
1 AA-AA-AAG
*
6803407 AAGAAAG
1 AAAAAAG
6803414 AAAAAAAG
1 -AAAAAAG
6803422 AAAAAAG
1 AAAAAAG
6803429 -AAAAAG
1 AAAAAAG
6803435 AAAAAA
1 AAAAAA
6803441 AAAGGAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
6 8 0.16
7 23 0.45
8 9 0.18
9 3 0.06
10 8 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:6803388 original size:10 final size:10
Alignment explanation
Indices: 6803373--6803460 Score: 63
Period size: 10 Copynumber: 8.5 Consensus size: 10
6803363 AGGGTTTTTG
6803373 AAAAAAAAG-
1 AAAAAAAAGA
6803382 AAAAAAAAGA
1 AAAAAAAAGA
*
6803392 AGAAGGAAGAAGA
1 A-AA--AAAAAGA
* *
6803405 AGAAGAAAGA
1 AAAAAAAAGA
6803415 AAAAAAGAA-A
1 AAAAAA-AAGA
6803425 AAAGAAAAAGA
1 AAA-AAAAAGA
*
6803436 AAAAAAAAGG
1 AAAAAAAAGA
* *
6803446 AAAAAGAATA
1 AAAAAAAAGA
6803456 AAAAA
1 AAAAA
6803461 TTAATAGTCG
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
9 9 0.15
10 34 0.55
11 11 0.18
12 1 0.02
13 7 0.11
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:6803417 original size:28 final size:27
Alignment explanation
Indices: 6803374--6803460 Score: 58
Period size: 28 Copynumber: 3.2 Consensus size: 27
6803364 GGGTTTTTGA
*
6803374 AAAAAAAGAA-AAAAAAGAAGAAGGAAG
1 AAAAAAAGAAGAAAAAAGAA-AAAGAAG
*
6803401 AAGAAGAAGAAAGAAAAAA-AGAAAA-AAG
1 AA-AAAAAG-AAGAAAAAAGA-AAAAGAAG
* *
6803429 AAAAAGAA-AA-AAAAAGGAAAAAGAAT
1 AAAAA-AAGAAGAAAAAAGAAAAAGAAG
6803455 AAAAAA
1 AAAAAA
6803461 TTAATAGTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
25 10 0.21
26 10 0.21
27 4 0.08
28 12 0.25
29 5 0.10
30 7 0.15
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.01
Consensus pattern (27 bp):
AAAAAAAGAAGAAAAAAGAAAAAGAAG
Found at i:6803421 original size:31 final size:31
Alignment explanation
Indices: 6803373--6803460 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 31
6803363 AGGGTTTTTG
* * *
6803373 AAAAAAAAGAAAAAAAAGAAGAAGGAAGAAGA
1 AAAAAAAAG-AAAAAAAGAAAAAAGAAAAAGA
* *
6803405 AGAAGAAAGAAAAAAAGAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAAAGAAAAAAGAAAAAGA
*
6803436 AAAAAAAAGGAAAAAGAATAAAAAA
1 AAAAAAAA-GAAAAA-AAGAAAAAA
6803461 TTAATAGTCG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
31 25 0.54
32 13 0.28
33 8 0.17
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (31 bp):
AAAAAAAAGAAAAAAAGAAAAAAGAAAAAGA
Found at i:6803437 original size:6 final size:6
Alignment explanation
Indices: 6803372--6803453 Score: 62
Period size: 6 Copynumber: 13.5 Consensus size: 6
6803362 TAGGGTTTTT
* * * *
6803372 GAAAAA -AAAGAA AAAAAA GAAGAAG GAAGAA GAAGAA GAAAGAA -AAAAA
1 GAAAAA GAAA-AA GAAAAA GAA-AAA GAAAAA GAAAAA GAAA-AA GAAAAA
*
6803421 GAAAAAA GAAAAA GAAAAA -AAAAG GAAAAA GAA
1 G-AAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAA
6803454 TAAAAAATTA
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
5 9 0.15
6 37 0.60
7 16 0.26
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:6803438 original size:13 final size:13
Alignment explanation
Indices: 6803372--6803440 Score: 74
Period size: 13 Copynumber: 5.5 Consensus size: 13
6803362 TAGGGTTTTT
6803372 GAAAAAA-AAGAA
1 GAAAAAAGAAGAA
6803384 -AAAAAAGAAGAA
1 GAAAAAAGAAGAA
* *
6803396 GGAAGAAGAAGAA
1 GAAAAAAGAAGAA
6803409 GAAAGAAA-AA-AA
1 GAAA-AAAGAAGAA
*
6803421 GAAAAAAGAAAAA
1 GAAAAAAGAAGAA
6803434 GAAAAAA
1 GAAAAAA
6803441 AAAGGAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
11 9 0.19
12 13 0.27
13 24 0.50
14 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
GAAAAAAGAAGAA
Found at i:6803717 original size:12 final size:11
Alignment explanation
Indices: 6803691--6803759 Score: 61
Period size: 11 Copynumber: 6.0 Consensus size: 11
6803681 AAGGCAGGCC
6803691 AGAAAAAAAAG
1 AGAAAAAAAAG
6803702 AGAGGAGAAAAAAG
1 AGA--A-AAAAAAG
6803716 AGAAAAAAAAG
1 AGAAAAAAAAG
**
6803727 -GAAAAAGGAG
1 AGAAAAAAAAG
6803737 A-AAAGAGAAAAG
1 AGAAA-A-AAAAG
6803749 AGAAAAAAAAG
1 AGAAAAAAAAG
6803760 GTTCAATTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
10 11 0.23
11 16 0.34
12 6 0.13
13 4 0.09
14 10 0.21
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:6803720 original size:9 final size:9
Alignment explanation
Indices: 6803706--6803759 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
6803696 AAAAAGAGAG
6803706 GAGAAAAAA
1 GAGAAAAAA
6803715 GAGAAAAAA
1 GAGAAAAAA
* *
6803724 AAGGAAAAA
1 GAGAAAAAA
*
6803733 G-GAGAAAA
1 GAGAAAAAA
*
6803741 GAGAAAAGA
1 GAGAAAAAA
*
6803750 GAAAAAAAA
1 GAGAAAAAA
6803759 G
1 G
6803760 GTTCAATTTG
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
8 6 0.17
9 29 0.83
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (9 bp):
GAGAAAAAA
Found at i:6803732 original size:33 final size:33
Alignment explanation
Indices: 6803695--6803760 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
6803685 CAGGCCAGAA
**
6803695 AAAAAAGAGAGGAGAAAAAAGAGAAAAAAAAGG
1 AAAAAAGAGAAAAGAAAAAAGAGAAAAAAAAGG
* *
6803728 AAAAAGGAGAAAAGAGAAAAGAGAAAAAAAAGG
1 AAAAAAGAGAAAAGAAAAAAGAGAAAAAAAAGG
6803761 TTCAATTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (33 bp):
AAAAAAGAGAAAAGAAAAAAGAGAAAAAAAAGG
Found at i:6803748 original size:7 final size:7
Alignment explanation
Indices: 6803697--6803754 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
6803687 GGCCAGAAAA
6803697 AAAAGAG
1 AAAAGAG
** *
6803704 AGGAGAA
1 AAAAGAG
6803711 AAAAGAG
1 AAAAGAG
6803718 AAAA-A-
1 AAAAGAG
*
6803723 AAAGGA-
1 AAAAGAG
6803729 AAAAGGAG
1 AAAA-GAG
6803737 AAAAGAG
1 AAAAGAG
6803744 AAAAGAG
1 AAAAGAG
6803751 AAAA
1 AAAA
6803755 AAAAGGTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
5 3 0.08
6 5 0.12
7 28 0.70
8 4 0.10
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:6803757 original size:26 final size:25
Alignment explanation
Indices: 6803711--6803760 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
6803701 GAGAGGAGAA
6803711 AAAAGAGAAAAAAAAGGAAAAAGGAG
1 AAAAGAGAAAAAAAA-GAAAAAGGAG
6803737 AAAAGAGAAAAGAGAAA-AAAAAGG
1 AAAAGAGAAAA-A-AAAGAAAAAGG
6803761 TTCAATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 18 0.82
27 1 0.05
28 3 0.14
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (25 bp):
AAAAGAGAAAAAAAAGAAAAAGGAG
Found at i:6804183 original size:13 final size:13
Alignment explanation
Indices: 6804118--6804183 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
6804108 AGTTCTTCAT
*
6804118 TGCTTTTGAAGAG
1 TGCTTTTGAAAAG
*
6804131 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
* * *
6804144 TGCTGTGGAAAAA
1 TGCTTTTGAAAAG
* *
6804157 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
6804170 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
6804183 T
1 T
6804184 TTGGTTTAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:6805917 original size:12 final size:11
Alignment explanation
Indices: 6805875--6805919 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
6805865 TATTAATCAT
6805875 TTAATAAAATA
1 TTAATAAAATA
* *
6805886 ATAATAAAAATC
1 TTAAT-AAAATA
6805898 TTAATAAAATA
1 TTAATAAAATA
*
6805909 TTAATTAAATA
1 TTAATAAAATA
6805920 ATATTTATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
TTAATAAAATA
Found at i:6807998 original size:26 final size:26
Alignment explanation
Indices: 6807951--6808000 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
6807941 AGGGTGAGCC
* *
6807951 TCGCGCCGCAACCAGGATCTTCACGT
1 TCGCGCCGCAACCACGACCTTCACGT
*
6807977 TCGCGCCGCAACCCCGACCTTCAC
1 TCGCGCCGCAACCACGACCTTCAC
6808001 ATGAACAGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.46, G:0.20, T:0.16
Consensus pattern (26 bp):
TCGCGCCGCAACCACGACCTTCACGT
Found at i:6808277 original size:17 final size:17
Alignment explanation
Indices: 6808254--6808287 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
6808244 TTAATCTACA
6808254 GTTTTTTTTAT-TATAT
1 GTTTTTTTTATCTATAT
6808270 GTTTTTTTTATCTATAT
1 GTTTTTTTTATCTATAT
6808287 G
1 G
6808288 CAAAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (17 bp):
GTTTTTTTTATCTATAT
Found at i:6809027 original size:4 final size:4
Alignment explanation
Indices: 6809018--6809054 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
6809008 AATTATAATT
6809018 TTTA TTTA -TT- TTTA TTTA TTTA TTCTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TT
6809055 GATTAATGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 4 0.13
4 22 0.73
5 4 0.13
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:6809048 original size:13 final size:13
Alignment explanation
Indices: 6809018--6809054 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
6809008 AATTATAATT
*
6809018 TTTATTTATTTTTA
1 TTTATTTA-TTCTA
6809032 TTTATTTATTCTA
1 TTTATTTATTCTA
6809045 TTTATTTATT
1 TTTATTTATT
6809055 GATTAATGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATTCTA
Found at i:6809121 original size:19 final size:19
Alignment explanation
Indices: 6809083--6809127 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6809073 GTAATTATTA
*
6809083 TTTTATATATATACATATT
1 TTTTATATATATACAAATT
* *
6809102 TTTTATATATGTATAAATT
1 TTTTATATATATACAAATT
6809121 TATTTAT
1 T-TTTAT
6809128 TTTTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTATATATATACAAATT
Found at i:6813538 original size:25 final size:26
Alignment explanation
Indices: 6813491--6813539 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
6813481 CAGAATTTGT
6813491 TTGTTCTTGTAATACTTTATTCTTCA
1 TTGTTCTTGTAATACTTTATTCTTCA
6813517 TTGTTCTTG-AATATCTTT-TTCTT
1 TTGTTCTTGTAATA-CTTTATTCTT
6813540 TTCAAGACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.61
Consensus pattern (26 bp):
TTGTTCTTGTAATACTTTATTCTTCA
Found at i:6814850 original size:268 final size:267
Alignment explanation
Indices: 6814263--6815053 Score: 1129
Period size: 268 Copynumber: 3.0 Consensus size: 267
6814253 GAGATCATAA
** * *
6814263 AGTCTTACTTCCCTGGCGTTGTAATGAAGCAGATTGAAGCCACGACAACGAATCTTATCTCCCTA
1 AGTCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACAGCGAATCTTATCTCCCTA
* *
6814328 ACGTTAAGGCTTGGATTAGTTGAAGTATAGCGAATTAAAGCTGTGGGCAGCGAATCCTATCTCTT
66 GCGTTAAGGCTTGGATTAGTTGAAGTAGAGCGAATTAAAGCTGTGGGCAGCGAATCCTATCTCTT
* **
6814393 TAGCATTACAGT-GAGCAGATTAAAACCACGATAGTGAATCTTTCTCCCTTGGCGGTGTAGTGGA
131 TAGCATTACAGTAGAGCAGATTGAAACCACGACGGTGAATCTTTCTCCC-TGGCGGTGTAGTGGA
* * * *
6814457 ACGGATTGAAGCTACAATGGCGAATCTTG-TTTCCTCAACATTACAATTTAAAAGACTGAAGCCG
195 ACAGATTGAAGCTACGATGGCGAATCTTGTTTTCCTCAACATTGCAATTTAAAAGAATGAAGCCG
*
6814521 CGACGGCG
260 CAACGGCG
* * ** *
6814529 AGTCTTACTTCCCTGGTGTTGTAGCGGAGTAGACAGAAGCCACGACGGCGAATCTTATCTCCCTA
1 AGTCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACAGCGAATCTTATCTCCCTA
** * ** * * *
6814594 GCGTTAAGGAATGGATTAGTTGAAGTGGAGAAAATTAAAGCTGTGGGTAGTGAGTCCTATCTCTT
66 GCGTTAAGGCTTGGATTAGTTGAAGTAGAGCGAATTAAAGCTGTGGGCAGCGAATCCTATCTCTT
* *
6814659 TAGCATTACAGTAGAGTAGATTGAAACCACGACGGTGAATCTTTCTCCCATGGCAGTGTAGTGGA
131 TAGCATTACAGTAGAGCAGATTGAAACCACGACGGTGAATCTTTCTCCC-TGGCGGTGTAGTGGA
6814724 ACAGATTGAAGCTACGATGGCGAATCTTGTTTTCCTCAACATTGCAATTTAAAAGAATGAAGCCG
195 ACAGATTGAAGCTACGATGGCGAATCTTGTTTTCCTCAACATTGCAATTTAAAAGAATGAAGCCG
6814789 CAACGGCG
260 CAACGGCG
* * * *
6814797 AGTCTTGCTTCCCTGGCATTGTAGCGGAGCAGATTGAAGCCACAACAGCGAATCTTATATCCCTA
1 AGTCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACAGCGAATCTTATCTCCCTA
* * * * *
6814862 GCGTTAAGGCTTAGATTAGCTGAAGTAGAGCGGATTGAAGCTGGGGGCAGCGAATCCTATCTCTT
66 GCGTTAAGGCTTGGATTAGTTGAAGTAGAGCGAATTAAAGCTGTGGGCAGCGAATCCTATCTCTT
* * * * *
6814927 TGGAATTACAGTAGAGCGGATTGAAACCACGACGGTGAATCTTACTCCTCTAGCGGTGTAGTGGA
131 TAGCATTACAGTAGAGCAGATTGAAACCACGACGGTGAATCTTTCTCC-CTGGCGGTGTAGTGGA
*
6814992 ACAGATTGAAGCTACGATGGCGAATCTTGTTTTCC-CAACATTGCAATTTAAAAAAACTGAAG
195 ACAGATTGAAGCTACGATGGCGAATCTTGTTTTCCTCAACATTGCAATTTAAAAGAA-TGAAG
6815054 ATGGCGAATC
Statistics
Matches: 461, Mismatches: 60, Indels: 6
0.87 0.11 0.01
Matches are distributed among these distances:
266 123 0.27
267 93 0.20
268 244 0.53
269 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (267 bp):
AGTCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACAGCGAATCTTATCTCCCTA
GCGTTAAGGCTTGGATTAGTTGAAGTAGAGCGAATTAAAGCTGTGGGCAGCGAATCCTATCTCTT
TAGCATTACAGTAGAGCAGATTGAAACCACGACGGTGAATCTTTCTCCCTGGCGGTGTAGTGGAA
CAGATTGAAGCTACGATGGCGAATCTTGTTTTCCTCAACATTGCAATTTAAAAGAATGAAGCCGC
AACGGCG
Found at i:6815125 original size:44 final size:44
Alignment explanation
Indices: 6815072--6815171 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
6815062 TCTTATCCCT
*
6815072 CTGAAGTTGCAGTGGAGTAGATTAAAACCA-ATAATCCTATCTCC
1 CTGAAGTTGCAGCGGAGTAGATTAAAACCACA-AATCCTATCTCC
* * * *
6815116 CTGAAGTTGCAGCGGAGTGGATTAAAATCACAAATCTTATCTCT
1 CTGAAGTTGCAGCGGAGTAGATTAAAACCACAAATCCTATCTCC
*
6815160 TTGAAGTTGCAG
1 CTGAAGTTGCAG
6815172 AGAGCAGATC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
44 48 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
CTGAAGTTGCAGCGGAGTAGATTAAAACCACAAATCCTATCTCC
Found at i:6815295 original size:45 final size:45
Alignment explanation
Indices: 6815188--6815346 Score: 150
Period size: 44 Copynumber: 3.6 Consensus size: 45
6815178 GATCGCATCC
*
6815188 AGTCTTATCTCCCTGAAGTTGTAGT-AGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGCA
* *
6815232 AGTCTTATC-CTCCTGAAGTTACAGTGAG-GCAGACTGAAG-AGGGCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAGTA-AGC-A
* * *
6815278 A-TCTTATCTCCCTGAAGTTGCAGTG-GAGAAGACTAAATAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGCA
* * * *
6815321 AATCCTATCTCCCTAAAGTTGTAGTG
1 AGTCTTATCTCCCTGAAGTTGCAGTG
6815347 GAGTGGATTA
Statistics
Matches: 95, Mismatches: 11, Indels: 18
0.77 0.09 0.15
Matches are distributed among these distances:
43 3 0.03
44 54 0.57
45 35 0.37
46 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAAGCA
Found at i:6816931 original size:13 final size:13
Alignment explanation
Indices: 6816915--6816939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6816905 AATTAATTTT
6816915 TATTTATTTATTC
1 TATTTATTTATTC
6816928 TATTTATTTATT
1 TATTTATTTATT
6816940 GATTAATGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTATTTATTC
Found at i:6820609 original size:33 final size:34
Alignment explanation
Indices: 6820528--6820613 Score: 83
Period size: 33 Copynumber: 2.6 Consensus size: 34
6820518 TTTTCCCTCC
* *
6820528 AAATTTTTT-AAAAATTCTCAATTATACTTTTTT
1 AAATTTTTTGAAAAATTCTCAATTATACTATCTT
* *
6820561 TAATTTTCTTG-AAAATT-TTAATTAGT-CTATCTT
1 AAATTTT-TTGAAAAATTCTCAATTA-TACTATCTT
6820594 AAATTTTTTGAAAAA-TCTCA
1 AAATTTTTTGAAAAATTCTCA
6820614 TCAATCTCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
32 4 0.10
33 29 0.69
34 9 0.21
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.51
Consensus pattern (34 bp):
AAATTTTTTGAAAAATTCTCAATTATACTATCTT
Found at i:6824134 original size:13 final size:13
Alignment explanation
Indices: 6824107--6824143 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
6824097 GTTTAATGAT
*
6824107 ATAATAA-AAAAA
1 ATAATAATAGAAA
6824119 ATAATAATAGAAA
1 ATAATAATAGAAA
6824132 ATAATAAT-GAAA
1 ATAATAATAGAAA
6824144 TTTTAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (13 bp):
ATAATAATAGAAA
Found at i:6824206 original size:3 final size:3
Alignment explanation
Indices: 6824198--6824222 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6824188 AAAAGGGTAA
6824198 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
6824223 TTTTGAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6824769 original size:6 final size:7
Alignment explanation
Indices: 6824753--6824777 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6824743 GTGTTCGAGG
6824753 TTTTTCT
1 TTTTTCT
6824760 TTTTTCT
1 TTTTTCT
6824767 TTTTTCT
1 TTTTTCT
6824774 TTTT
1 TTTT
6824778 ACTTCTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:6825265 original size:14 final size:15
Alignment explanation
Indices: 6825238--6825268 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
6825228 TTGGGTTTGG
6825238 TTGGGCTAAGGTTAT
1 TTGGGCTAAGGTTAT
6825253 TTGGGCT-AGGTTAT
1 TTGGGCTAAGGTTAT
6825267 TT
1 TT
6825269 TTGTCTTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.16, C:0.06, G:0.32, T:0.45
Consensus pattern (15 bp):
TTGGGCTAAGGTTAT
Found at i:6826447 original size:42 final size:42
Alignment explanation
Indices: 6826386--6826476 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
6826376 CACGGTCTGT
* * * * **
6826386 GACACGATTGTGTGTATCAAGTTAGTGAGTCACATGGTTTGC
1 GACACGGTCGTGTGCATCAAGTCAGTGAGTCACATGGTTTAA
*
6826428 GACACGGTCGTGTGCATCAAGTCAGTGAGTTACATGGTTTAA
1 GACACGGTCGTGTGCATCAAGTCAGTGAGTCACATGGTTTAA
6826470 GACACGG
1 GACACGG
6826477 GCTGGGGCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (42 bp):
GACACGGTCGTGTGCATCAAGTCAGTGAGTCACATGGTTTAA
Found at i:6829043 original size:6 final size:6
Alignment explanation
Indices: 6829032--6829062 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
6829022 TACCCTCTAG
6829032 CCATTT CCATTT CCATTT CCATTT CCATTT C
1 CCATTT CCATTT CCATTT CCATTT CCATTT C
6829063 ATTAGAGCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.48
Consensus pattern (6 bp):
CCATTT
Found at i:6830761 original size:14 final size:16
Alignment explanation
Indices: 6830732--6830764 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
6830722 AAATTAATTA
6830732 TAAAATATATAAATAT
1 TAAAATATATAAATAT
6830748 TAAAATA-A-AAATAT
1 TAAAATATATAAATAT
6830762 TAA
1 TAA
6830765 TTTTTTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 1 0.06
16 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAATATATAAATAT
Found at i:6837417 original size:75 final size:76
Alignment explanation
Indices: 6837293--6837435 Score: 243
Period size: 75 Copynumber: 1.9 Consensus size: 76
6837283 TTATTTTGAG
*
6837293 AATGACTTGTGGGAAAAAGAATTTTTGGTAATGGCATTTTGGGAATTGTATGTATGAATTTTGTT
1 AATGACTTGTGGGAAAAAGAATTTTTGGCAATGGCATTTTGGGAATTGTATGTATGAATTTTGTT
6837358 TTTTTTGACAT
66 TTTTTTGACAT
* * *
6837369 AATGACTTGTGGG-AAAAGAGTTTTTGGCAATGGCATTTTGGTAATTGTATGTATGACTTTTGTT
1 AATGACTTGTGGGAAAAAGAATTTTTGGCAATGGCATTTTGGGAATTGTATGTATGAATTTTGTT
6837433 TTT
66 TTT
6837436 GTTTTATTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 50 0.79
76 13 0.21
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (76 bp):
AATGACTTGTGGGAAAAAGAATTTTTGGCAATGGCATTTTGGGAATTGTATGTATGAATTTTGTT
TTTTTTGACAT
Found at i:6837781 original size:15 final size:15
Alignment explanation
Indices: 6837757--6837790 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6837747 CGTGTATATG
*
6837757 TATTTATTTATTGTT
1 TATTTATTTATTATT
*
6837772 TATTTGTTTATTATT
1 TATTTATTTATTATT
6837787 TATT
1 TATT
6837791 AAGATTGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (15 bp):
TATTTATTTATTATT
Found at i:6837852 original size:23 final size:23
Alignment explanation
Indices: 6837796--6837883 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
6837786 TTATTAAGAT
* *
6837796 TGTTCACGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCGATTA-A
*
6837820 TGTTCATGAACATGTTCGTTTAA
1 TGTTCATGAACATGTTCGATTAA
*
6837843 TGTTCGTGAACATGTTCGATTAA
1 TGTTCATGAACATGTTCGATTAA
* *
6837866 -GTTAAAAGAACATGTTCG
1 TGTT-CATGAACATGTTCG
6837884 TGAACATTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 3 0.05
23 33 0.60
24 19 0.35
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.38
Consensus pattern (23 bp):
TGTTCATGAACATGTTCGATTAA
Found at i:6837859 original size:12 final size:12
Alignment explanation
Indices: 6837819--6837860 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
6837809 GTTCAATTAT
*
6837819 ATGTTCATGAAC
1 ATGTTCGTGAAC
**
6837831 ATGTTCGTTTA-
1 ATGTTCGTGAAC
6837842 ATGTTCGTGAAC
1 ATGTTCGTGAAC
6837854 ATGTTCG
1 ATGTTCG
6837861 ATTAAGTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (12 bp):
ATGTTCGTGAAC
Found at i:6837893 original size:23 final size:23
Alignment explanation
Indices: 6837850--6837894 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6837840 TAATGTTCGT
* *
6837850 GAACATGTTCGATTAAGTTAAAA
1 GAACATGTTCGATGAAATTAAAA
6837873 GAACATGTTCG-TGAACATTAAA
1 GAACATGTTCGATGAA-ATTAAA
6837895 CAAACAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (23 bp):
GAACATGTTCGATGAAATTAAAA
Found at i:6843215 original size:23 final size:24
Alignment explanation
Indices: 6843180--6843228 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
6843170 TTGATATTTT
*
6843180 CTTTCCTCTTTTCCTTC-CTTTTCC
1 CTTTCCTCTTTT-CTTCTCTATTCC
6843204 CTTTCC-CTTTTCTTCTCTATTCC
1 CTTTCCTCTTTTCTTCTCTATTCC
6843227 CT
1 CT
6843229 CACCTCACGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 13 0.57
24 6 0.26
ACGTcount: A:0.02, C:0.41, G:0.00, T:0.57
Consensus pattern (24 bp):
CTTTCCTCTTTTCTTCTCTATTCC
Found at i:6848613 original size:18 final size:18
Alignment explanation
Indices: 6848592--6848627 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
6848582 AAATTTATTT
6848592 TTTCTTTTC-GATTTCTTC
1 TTTCTTTTCTG-TTTCTTC
6848610 TTTCTTTTCTGTTTCTTC
1 TTTCTTTTCTGTTTCTTC
6848628 AATATTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.03, C:0.22, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTCTTTTCTGTTTCTTC
Found at i:6854346 original size:15 final size:15
Alignment explanation
Indices: 6854326--6854402 Score: 70
Period size: 15 Copynumber: 5.1 Consensus size: 15
6854316 GTTCAGATTC
6854326 AATAAAAAAAATCAA
1 AATAAAAAAAATCAA
6854341 AATAAAAAAAAGT-AA
1 AATAAAAAAAA-TCAA
*
6854356 AGTAAAAAAAATCAA
1 AATAAAAAAAATCAA
* *
6854371 AA-AAATCAAAATGAA
1 AATAAA-AAAAATCAA
*
6854386 AA-AGAAAAAAATGAA
1 AATA-AAAAAAATCAA
6854401 AA
1 AA
6854403 AGAAAAAAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
14 4 0.08
15 46 0.87
16 3 0.06
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (15 bp):
AATAAAAAAAATCAA
Found at i:6854387 original size:21 final size:21
Alignment explanation
Indices: 6854362--6854409 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
6854352 GTAAAGTAAA
*
6854362 AAAAATCAAAAAAATCAAAATG
1 AAAAA-CAAAAAAATCAAAAAG
* *
6854384 AAAAAGAAAAAAATGAAAAAG
1 AAAAACAAAAAAATCAAAAAG
6854405 AAAAA
1 AAAAA
6854410 AGAAAAAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.79, C:0.04, G:0.08, T:0.08
Consensus pattern (21 bp):
AAAAACAAAAAAATCAAAAAG
Found at i:6854403 original size:15 final size:15
Alignment explanation
Indices: 6854360--6854410 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
6854350 AAGTAAAGTA
*
6854360 AAAAAAATCAAAAA-
1 AAAAAAATGAAAAAG
*
6854374 AATCAAAATGAAAAAG
1 AA-AAAAATGAAAAAG
6854390 AAAAAAATGAAAAAG
1 AAAAAAATGAAAAAG
6854405 AAAAAA
1 AAAAAA
6854411 GAAAAAGGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 2 0.06
15 28 0.88
16 2 0.06
ACGTcount: A:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAAATGAAAAAG
Found at i:6854410 original size:22 final size:21
Alignment explanation
Indices: 6854369--6854416 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
6854359 AAAAAAAATC
*
6854369 AAAAAAATCAAAATGAAAAAG
1 AAAAAAATCAAAAAGAAAAAG
*
6854390 AAAAAAATGAAAAAGAAAAAAG
1 AAAAAAATCAAAAAG-AAAAAG
6854412 AAAAA
1 AAAAA
6854417 GGAGAGGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.81, C:0.02, G:0.10, T:0.06
Consensus pattern (21 bp):
AAAAAAATCAAAAAGAAAAAG
Found at i:6856736 original size:44 final size:44
Alignment explanation
Indices: 6856643--6856737 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
6856633 GATATCAGTC
* * **
6856643 CTATCTCCCTGGACAGCAATGGAATAGGTTGGAGATTGTAAATT
1 CTATCTCCCTGGACAGCAATGGAATAGGTCGAAGATTACAAATT
* * *
6856687 CTATCTCCTTGGATAGCAGTGGAATAGGTCGAAGATTACAAA-T
1 CTATCTCCCTGGACAGCAATGGAATAGGTCGAAGATTACAAATT
6856730 CTTATCTC
1 C-TATCTC
6856738 TCTAAGCAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 2 0.05
44 41 0.95
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (44 bp):
CTATCTCCCTGGACAGCAATGGAATAGGTCGAAGATTACAAATT
Done.