Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014898.1 Kokia drynarioides strain JFW-HI SEQ_129941, whole genome shotgun sequence
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: 1273188
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 233 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:734372 original size:10 final size:11
Alignment explanation
Indices: 734339--734377 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
734329 ATAAATATTT
734339 TTTTTCTTTTCTC
1 TTTTTC-TTT-TC
734352 TTTTTCTTTTC
1 TTTTTCTTTTC
734363 TTTTTC-TTTC
1 TTTTTCTTTTC
734373 TTTTT
1 TTTTT
734378 ATGTGACTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.35
11 8 0.31
12 3 0.12
13 6 0.23
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:739495 original size:79 final size:79
Alignment explanation
Indices: 739400--739558 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
739390 AGGGCAAATG
739400 TGAAAAATTGTAAATAGGAAATTATGTGTATTAAATTGAATATTATATGAAATTGAGGTTAATAA
1 TGAAAAATTGTAAATAGGAAATTATGTGTATTAAATTGAATATTATATGAAATTGAGGTTAATAA
739465 ATAGAAATAAACTA
66 ATAGAAATAAACTA
* *
739479 TGAAAAATTGTAAATAGGAAGTTATGTGTATTAAATTGAATATTATGTGAAATTGAGGTTAATAA
1 TGAAAAATTGTAAATAGGAAATTATGTGTATTAAATTGAATATTATATGAAATTGAGGTTAATAA
739544 ATAGAAATAAACTA
66 ATAGAAATAAACTA
739558 T
1 T
739559 TTTATAGATC
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.48, C:0.01, G:0.16, T:0.35
Consensus pattern (79 bp):
TGAAAAATTGTAAATAGGAAATTATGTGTATTAAATTGAATATTATATGAAATTGAGGTTAATAA
ATAGAAATAAACTA
Found at i:743088 original size:13 final size:14
Alignment explanation
Indices: 743070--743099 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
743060 ATCAACATAA
743070 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
743083 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
743097 TCA
1 TCA
743100 ATGTATTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:744298 original size:16 final size:17
Alignment explanation
Indices: 744277--744324 Score: 71
Period size: 16 Copynumber: 2.8 Consensus size: 17
744267 TTATCAAAAA
744277 TTTCTTTCTTTTTCT-T
1 TTTCTTTCTTTTTCTAT
744293 TTTCTTTCTTTTTCTCAT
1 TTTCTTTCTTTTTCT-AT
*
744311 TTTGTTTCTTTTTC
1 TTTCTTTCTTTTTC
744325 AAATGATTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 15 0.52
18 14 0.48
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTCTTTCTTTTTCTAT
Found at i:757889 original size:27 final size:27
Alignment explanation
Indices: 757859--757959 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 27
757849 GAACACATCA
* * *
757859 AAAATGAAAGTCTTTGTGGCAATTTAT
1 AAAATGGAAGCCTTTGTGGCAATCTAT
* * * * *
757886 AAAAAGGAAGTCTTTGTTGCGATCTCT
1 AAAATGGAAGCCTTTGTGGCAATCTAT
*
757913 AAAATGGAAGCCTTTGTGGTAATCTAT
1 AAAATGGAAGCCTTTGTGGCAATCTAT
*
757940 GAAA-GGAAGCCTTTGTGGCA
1 AAAATGGAAGCCTTTGTGGCA
757960 TGCTTTAAGG
Statistics
Matches: 60, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
26 15 0.25
27 45 0.75
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (27 bp):
AAAATGGAAGCCTTTGTGGCAATCTAT
Found at i:762408 original size:19 final size:20
Alignment explanation
Indices: 762386--762423 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
762376 AATTGAAAGT
762386 TATTTTATAATAAA-AATAA
1 TATTTTATAATAAATAATAA
762405 TATTTTATAATAAATAATA
1 TATTTTATAATAAATAATA
762424 TCTTATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTTTATAATAAATAATAA
Found at i:762421 original size:17 final size:18
Alignment explanation
Indices: 762386--762430 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
762376 AATTGAAAGT
762386 TATTTTATAATAAAAATAA
1 TATTTTATAAT-AAAATAA
762405 TATTTTATAAT-AAATAA
1 TATTTTATAATAAAATAA
*
762422 TATCTTATA
1 TATTTTATA
762431 TAGATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.56
19 11 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTTATAATAAAATAA
Found at i:770585 original size:23 final size:23
Alignment explanation
Indices: 770559--770604 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
770549 TAAAATATTA
770559 TTACTTGATTTATGTTTTATGCG
1 TTACTTGATTTATGTTTTATGCG
770582 TTACTTGATTTATGTTTTATGCG
1 TTACTTGATTTATGTTTTATGCG
770605 AATACTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (23 bp):
TTACTTGATTTATGTTTTATGCG
Found at i:771061 original size:20 final size:20
Alignment explanation
Indices: 771033--771096 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
771023 GCAGTTTATC
771033 TGCAATATTGACAACTTGTT
1 TGCAATATTGACAACTTGTT
* * ** * *
771053 TGCACTATTGGCATTTTATC
1 TGCAATATTGACAACTTGTT
771073 TGCAATATTGACAACTTGTT
1 TGCAATATTGACAACTTGTT
771093 TGCA
1 TGCA
771097 CTACTGGCAG
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.41
Consensus pattern (20 bp):
TGCAATATTGACAACTTGTT
Found at i:771082 original size:40 final size:40
Alignment explanation
Indices: 771018--771115 Score: 169
Period size: 40 Copynumber: 2.5 Consensus size: 40
771008 TTGACCACAT
*
771018 TACTTGCAGTTTATCTGCAATATTGACAACTTGTTTGCAC
1 TACTGGCAGTTTATCTGCAATATTGACAACTTGTTTGCAC
* *
771058 TATTGGCATTTTATCTGCAATATTGACAACTTGTTTGCAC
1 TACTGGCAGTTTATCTGCAATATTGACAACTTGTTTGCAC
771098 TACTGGCAGTTTATCTGC
1 TACTGGCAGTTTATCTGC
771116 GTTCCTGATG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.41
Consensus pattern (40 bp):
TACTGGCAGTTTATCTGCAATATTGACAACTTGTTTGCAC
Found at i:778844 original size:22 final size:22
Alignment explanation
Indices: 778819--778863 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
778809 TGTTTAATAA
778819 TGTTTAATCGATGTTGCTATTT
1 TGTTTAATCGATGTTGCTATTT
*
778841 TGTTTAATCGATGTTGCTGTTT
1 TGTTTAATCGATGTTGCTATTT
778863 T
1 T
778864 ATCGACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.16, C:0.09, G:0.20, T:0.56
Consensus pattern (22 bp):
TGTTTAATCGATGTTGCTATTT
Found at i:780838 original size:18 final size:18
Alignment explanation
Indices: 780803--780839 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
780793 CAGCACCCCT
*
780803 TCCCTCACCCTGACCACC
1 TCCCTCACCCTGAACACC
*
780821 TCCCTCACCCTTAACACC
1 TCCCTCACCCTGAACACC
780839 T
1 T
780840 TCACTAACAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.57, G:0.03, T:0.22
Consensus pattern (18 bp):
TCCCTCACCCTGAACACC
Found at i:780867 original size:54 final size:54
Alignment explanation
Indices: 780730--780876 Score: 156
Period size: 54 Copynumber: 2.7 Consensus size: 54
780720 TAAATATCAT
* * * * * *
780730 CTTCACTAACAGTA-CCTTTACCCAAACCTTCACCAGCTCCTTCACCTTCAACAC
1 CTTCACTAACAGCACCCCTTA-CCTAACCCTCACCACCTCCCTCACCTTCAACAC
* * *
780784 CTTCACTAACAGCACCCCTTCCCTCACCCTGACCACCTCCCTCACCCTT-AACAC
1 CTTCACTAACAGCACCCCTTACCTAACCCTCACCACCTCCCTCA-CCTTCAACAC
*
780838 CTTCACTAACAGCA-CCCTTACTTGAACCCTCACCACCTC
1 CTTCACTAACAGCACCCCTTACCT-AACCCTCACCACCTC
780877 TCAAACCCTC
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
53 7 0.09
54 62 0.81
55 8 0.10
ACGTcount: A:0.25, C:0.48, G:0.04, T:0.23
Consensus pattern (54 bp):
CTTCACTAACAGCACCCCTTACCTAACCCTCACCACCTCCCTCACCTTCAACAC
Found at i:781610 original size:5 final size:5
Alignment explanation
Indices: 781600--781625 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
781590 TGGATACAGG
781600 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
781626 ATGTTAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:782679 original size:44 final size:45
Alignment explanation
Indices: 782629--782715 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
782619 CTAAGTCCCA
*
782629 AAAATCCCCAAATTT-TTAAACTTAAACCAAAATCTCCAAACCCC
1 AAAATCCCCAAATTTCTTAAACCTAAACCAAAATCTCCAAACCCC
* *
782673 AAAATCCCTAAATTTCTTAAACCTAAACCAAATTCTCCAAACC
1 AAAATCCCCAAATTTCTTAAACCTAAACCAAAATCTCCAAACC
782716 TAACAATCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 14 0.36
45 25 0.64
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (45 bp):
AAAATCCCCAAATTTCTTAAACCTAAACCAAAATCTCCAAACCCC
Found at i:784237 original size:20 final size:20
Alignment explanation
Indices: 784159--784248 Score: 58
Period size: 20 Copynumber: 4.5 Consensus size: 20
784149 GCCTAGAGCT
** *
784159 ATTTTGACTTTTTTGAAAAGC
1 ATTTTGACTTCGTT-AAAATC
**
784180 ATTTTGAGGT-GTTAAAA-C
1 ATTTTGACTTCGTTAAAATC
* * *
784198 AATTTTGACTTGGTTCAAATG
1 -ATTTTGACTTCGTTAAAATC
*
784219 ATTTTGACTTCTTTAAAATC
1 ATTTTGACTTCGTTAAAATC
*
784239 ATTTTTACTT
1 ATTTTGACTT
784249 GAATTTAAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
18 1 0.02
19 12 0.22
20 33 0.61
21 8 0.15
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (20 bp):
ATTTTGACTTCGTTAAAATC
Found at i:790977 original size:11 final size:11
Alignment explanation
Indices: 790961--790993 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
790951 TTTTTGCTAA
790961 ATATTAATTAT
1 ATATTAATTAT
790972 ATATTAATTAT
1 ATATTAATTAT
*
790983 AAATT-ATTAT
1 ATATTAATTAT
790993 A
1 A
790994 GTCAAGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATATTAATTAT
Found at i:791382 original size:12 final size:11
Alignment explanation
Indices: 791359--791397 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
791349 AAAAAAATAC
*
791359 ATTATTTAAAA
1 ATTAATTAAAA
791370 ATTAATATAAAA
1 ATTAAT-TAAAA
791382 ATTAATTAAAA
1 ATTAATTAAAA
791393 ATTAA
1 ATTAA
791398 ATGCATTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTAATTAAAA
Found at i:796578 original size:109 final size:110
Alignment explanation
Indices: 796386--796592 Score: 283
Period size: 109 Copynumber: 1.9 Consensus size: 110
796376 TAAAAAATCA
** ** *
796386 ATTTTAAATAGGATGTTCAACTACTTAGGTTCAAAGGAAAAATCATACCCTGCACGTTAGGACAC
1 ATTTTAAATAGGATACTCAACTACTTAGGTTCAAAGGAAAAATCATACCCAACACGTTAAGACAC
* *
796451 AATTTTTCGAGTCCCCTAAAATAACAGAACATTGAACATTTATCG
66 AATTTTTCGAATCCCCTAAAATAAAAGAACATTGAACATTTATCG
* * *
796496 ATTTTAAATAGGATACTCAATTATTTAGGTTCAAA-GAAAAATCATACCCAACACGTTAATACAC
1 ATTTTAAATAGGATACTCAACTACTTAGGTTCAAAGGAAAAATCATACCCAACACGTTAAGACAC
* *
796560 AATTTCTT-GAATTCCCTAAACTAAAAGAACATT
66 AATTT-TTCGAATCCCCTAAAATAAAAGAACATT
796593 ATATTTTTAA
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
109 51 0.61
110 33 0.39
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (110 bp):
ATTTTAAATAGGATACTCAACTACTTAGGTTCAAAGGAAAAATCATACCCAACACGTTAAGACAC
AATTTTTCGAATCCCCTAAAATAAAAGAACATTGAACATTTATCG
Found at i:796796 original size:18 final size:17
Alignment explanation
Indices: 796759--796815 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
796749 TAAATCAATC
* *
796759 ATAAATAAATAAA-TAA
1 ATAAATAAGTAAACAAA
*
796775 ATAAATAGGGTAAACAAA
1 ATAAATA-AGTAAACAAA
*
796793 ATAATATAAGTAAATAAA
1 ATAA-ATAAGTAAACAAA
796811 ATAAA
1 ATAAA
796816 AATATGAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
16 7 0.21
17 5 0.15
18 18 0.55
19 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (17 bp):
ATAAATAAGTAAACAAA
Found at i:797367 original size:17 final size:17
Alignment explanation
Indices: 797345--797379 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
797335 AGGCCATGGT
797345 GGCCGTCCGCCATGACC
1 GGCCGTCCGCCATGACC
797362 GGCCGTCCGCCATGACC
1 GGCCGTCCGCCATGACC
797379 G
1 G
797380 TTGATAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.46, G:0.31, T:0.11
Consensus pattern (17 bp):
GGCCGTCCGCCATGACC
Found at i:798425 original size:84 final size:84
Alignment explanation
Indices: 798284--798452 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
798274 CCGGGATAAA
798284 TTGGGCTCCAACAACTGCCCCTCTTTGCTCATTATCATGTAACGAGGTTGGAGCAAAGACGAAAA
1 TTGGGCTCCAACAACTGCCCCTCTTTGCTCATTATCATGTAACGAGGTTGGAGCAAAGACGAAAA
798349 AGGGACCAATTTCGTTCGG
66 AGGGACCAATTTCGTTCGG
798368 TTGGGCTCCAACAACTGCCCCTCTTTGCTCATTATCATGTAACGAGGTTGGAGCAAAGACGAAAA
1 TTGGGCTCCAACAACTGCCCCTCTTTGCTCATTATCATGTAACGAGGTTGGAGCAAAGACGAAAA
798433 AGGGACCAATTTCGTTCGG
66 AGGGACCAATTTCGTTCGG
798452 T
1 T
798453 CCCACTAAAC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (84 bp):
TTGGGCTCCAACAACTGCCCCTCTTTGCTCATTATCATGTAACGAGGTTGGAGCAAAGACGAAAA
AGGGACCAATTTCGTTCGG
Found at i:809300 original size:16 final size:16
Alignment explanation
Indices: 809276--809307 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
809266 TCCTTACAAA
*
809276 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
809292 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
809308 AAAAATCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:811959 original size:27 final size:27
Alignment explanation
Indices: 811929--812011 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
811919 GCGCAAAGAT
811929 AAAAAGAAGCGCAAGGAGGAATGCCCC
1 AAAAAGAAGCGCAAGGAGGAATGCCCC
** * *
811956 AAAAAGAAG-AAAAAGACG-AT-----
1 AAAAAGAAGCGCAAGGAGGAATGCCCC
811976 AAAAAGAAGCGCAAGGAGGAATGCCCC
1 AAAAAGAAGCGCAAGGAGGAATGCCCC
812003 AAAAAGAAG
1 AAAAAGAAG
812012 AAAAAGACTA
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
20 9 0.22
21 5 0.12
22 2 0.05
25 2 0.05
26 5 0.12
27 18 0.44
ACGTcount: A:0.54, C:0.16, G:0.27, T:0.04
Consensus pattern (27 bp):
AAAAAGAAGCGCAAGGAGGAATGCCCC
Found at i:811981 original size:47 final size:47
Alignment explanation
Indices: 811926--812019 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
811916 TAAGCGCAAA
811926 GATAAAAAGAAGCGCAAGGAGGAATGCCCCAAAAAGAAGAAAAAGAC
1 GATAAAAAGAAGCGCAAGGAGGAATGCCCCAAAAAGAAGAAAAAGAC
811973 GATAAAAAGAAGCGCAAGGAGGAATGCCCCAAAAAGAAGAAAAAGAC
1 GATAAAAAGAAGCGCAAGGAGGAATGCCCCAAAAAGAAGAAAAAGAC
812020 TAAGGCAGCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.55, C:0.15, G:0.26, T:0.04
Consensus pattern (47 bp):
GATAAAAAGAAGCGCAAGGAGGAATGCCCCAAAAAGAAGAAAAAGAC
Found at i:814842 original size:45 final size:46
Alignment explanation
Indices: 814636--815050 Score: 418
Period size: 45 Copynumber: 9.2 Consensus size: 46
814626 CCTTTTGTGA
* ** * **
814636 GATGGTAGCTTCAATCTACCCCTCTTGATTTAAAGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGTCCCTCTTGACTTAGGGGTAAAAGATTG
* * * *
814682 GATAGTGGCTTCAATCTG-CCTTATTGACTTA-GGGTAAAGGATTG
1 GATGGTGGCTTCAATCTGTCCCTCTTGACTTAGGGGTAAAAGATTG
* * *
814726 GATGGTGACTTCAATCT-TCCCCTCTTGATTTAAGGGT-AAAGAATTG
1 GATGGTGGCTTCAATCTGT-CCCTCTTGACTTAGGGGTAAAAG-ATTG
* * * * * * * *
814772 GATAGTGGTTTTAGTTTGTCGCTCTTTA-TTAGGGGTAAAAGATTA
1 GATGGTGGCTTCAATCTGTCCCTCTTGACTTAGGGGTAAAAGATTG
* * *
814817 GATGGTGGCTTGAATCTGTCCCTCTTGACTTAAGGGTAAAAGTTTG
1 GATGGTGGCTTCAATCTGTCCCTCTTGACTTAGGGGTAAAAGATTG
* * * *
814863 GATGGTGACTTCAATTTGTCCCTCTTGA-TTAAGGGTAAATGATTG
1 GATGGTGGCTTCAATCTGTCCCTCTTGACTTAGGGGTAAAAGATTG
*
814908 GATGGTGGCTTCAATTTG-CCCTTCTTGACTTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGTCCC-TCTTGACTTAGGGGTAAAAGATTG
* *
814954 GATGGTGGCTTCAATCT-ACTACTCTTGA-TTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGTC-CCTCTTGACTTAGGGGTAAAAGATTG
** *
814999 GATGGTGGCTTCAATCTGTCTTTCTTGA-TTAGAGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGTCCCTCTTGACTTAGGGGTAAAAGATTG
815044 GATGGTG
1 GATGGTG
815051 ACTTTAACCT
Statistics
Matches: 309, Mismatches: 48, Indels: 25
0.81 0.13 0.07
Matches are distributed among these distances:
44 29 0.09
45 155 0.50
46 123 0.40
47 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (46 bp):
GATGGTGGCTTCAATCTGTCCCTCTTGACTTAGGGGTAAAAGATTG
Found at i:814850 original size:91 final size:91
Alignment explanation
Indices: 814636--815050 Score: 434
Period size: 91 Copynumber: 4.6 Consensus size: 91
814626 CCTTTTGTGA
* ** * * * *
814636 GATGGTAGCTTCAATCTACCCCTCTTGATTTAAAGGTAAAAGATTGGATAGTGGCTTCAATCTG-
1 GATGGTGGCTTCAATCTGTCCCTCTTGACTTAAGGGTAAAAGATTGGATGGTGGCTTCAATTTGT
* *
814700 C-CTTATTGACTTA-GGGTAAAGGATTG
66 CAC-TCTTGA-TTAGGGGTAAAAGATTG
* * * * * *
814726 GATGGTGACTTCAATCT-TCCCCTCTTGATTTAAGGGT-AAAGAATTGGATAGTGGTTTTAGTTT
1 GATGGTGGCTTCAATCTGT-CCCTCTTGACTTAAGGGTAAAAG-ATTGGATGGTGGCTTCAATTT
* * *
814789 GTCGCTCTTTATTAGGGGTAAAAGATTA
64 GTCACTCTTGATTAGGGGTAAAAGATTG
* * *
814817 GATGGTGGCTTGAATCTGTCCCTCTTGACTTAAGGGTAAAAGTTTGGATGGTGACTTCAATTTGT
1 GATGGTGGCTTCAATCTGTCCCTCTTGACTTAAGGGTAAAAGATTGGATGGTGGCTTCAATTTGT
* * *
814882 CCCTCTTGATTAAGGGTAAATGATTG
66 CACTCTTGATTAGGGGTAAAAGATTG
* * *
814908 GATGGTGGCTTCAATTTG-CCCTTCTTGACTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCT-
1 GATGGTGGCTTCAATCTGTCCC-TCTTGACTTAAGGGTAAAAGATTGGATGGTGGCTTCAATTTG
*
814971 ACTACTCTTGATTAGGGGTAAAAGATTG
65 TC-ACTCTTGATTAGGGGTAAAAGATTG
**
814999 GATGGTGGCTTCAATCTGTCTTTCTTGA-TT-AGAGGTAAAAGATTGGATGGTG
1 GATGGTGGCTTCAATCTGTCCCTCTTGACTTAAG-GGTAAAAGATTGGATGGTG
815051 ACTTTAACCT
Statistics
Matches: 274, Mismatches: 40, Indels: 22
0.82 0.12 0.07
Matches are distributed among these distances:
89 5 0.02
90 78 0.28
91 184 0.67
92 7 0.03
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (91 bp):
GATGGTGGCTTCAATCTGTCCCTCTTGACTTAAGGGTAAAAGATTGGATGGTGGCTTCAATTTGT
CACTCTTGATTAGGGGTAAAAGATTG
Found at i:818853 original size:108 final size:108
Alignment explanation
Indices: 818661--818862 Score: 253
Period size: 108 Copynumber: 1.9 Consensus size: 108
818651 GTGCAAACAT
* * *
818661 TTGTTGGTATATCCAACTAGAGCTGGACTCATTATCAATATCGTCAGTTTATCTGACTAGTGCTA
1 TTGTTGGTATATCCAACTAGAGCTGGACTCACTATCAATATCATCAGTTTATCTGACTAATGCTA
818726 GACACACATTTGTCAGTTTATCCGACTAGAGCTGAGCACAATA
66 GACACACATTTGTCAGTTTATCCGACTAGAGCTGAGCACAATA
* ** * * * *
818769 TTGTTGGT-TAATCCAACTAGAGCTGGGCTCACTATTTATTTCATCAGTTTATCTTAGTAATGTT
1 TTGTTGGTAT-ATCCAACTAGAGCTGGACTCACTATCAATATCATCAGTTTATCTGACTAATGCT
* * * * *
818833 GGGCACACTTTTTTCGGTTTATCCGACTAG
65 AGACACACATTTGTCAGTTTATCCGACTAG
818863 CATTGGGCGC
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
107 1 0.01
108 77 0.99
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (108 bp):
TTGTTGGTATATCCAACTAGAGCTGGACTCACTATCAATATCATCAGTTTATCTGACTAATGCTA
GACACACATTTGTCAGTTTATCCGACTAGAGCTGAGCACAATA
Found at i:831899 original size:26 final size:27
Alignment explanation
Indices: 831870--832199 Score: 290
Period size: 26 Copynumber: 12.7 Consensus size: 27
831860 ATTGTAAACA
*
831870 AATATATAGCAGGCCTT-GAGCCGGTG
1 AATAAATAGCAGGCCTTCGAGCCGGTG
* *
831896 AATAAATAGCAGG-CTTCAAGCCAGTG
1 AATAAATAGCAGGCCTTCGAGCCGGTG
* *
831922 AATAAATATCAGG-CTTTGAGCCGGTG
1 AATAAATAGCAGGCCTTCGAGCCGGTG
* * *
831948 AATATATAGCAAGCCTT-GAGCCAGTG
1 AATAAATAGCAGGCCTTCGAGCCGGTG
* * **
831974 AATAATTAGTAGG-CTTCGAGCCAATG
1 AATAAATAGCAGGCCTTCGAGCCGGTG
832000 AATAAATAGCAGG-CTTCGAGCCGGTG
1 AATAAATAGCAGGCCTTCGAGCCGGTG
* * *
832026 AATATATAGTAGGCCTT-GAGCAGGTG
1 AATAAATAGCAGGCCTTCGAGCCGGTG
* * *
832052 AATAATTAGCAAG-CTTCGAGCCTGTG
1 AATAAATAGCAGGCCTTCGAGCCGGTG
* *
832078 AATAAATAGTAGG-CTTCGAGCCGATG
1 AATAAATAGCAGGCCTTCGAGCCGGTG
* *
832104 AACATATAGCAGGCCTT-GAGCCGGTG
1 AATAAATAGCAGGCCTTCGAGCCGGTG
* * **
832130 AATAATTAGCAGG-CTTCAAGTTGGTG
1 AATAAATAGCAGGCCTTCGAGCCGGTG
** *
832156 AATAAATAATAGG-CTTTGAGCCGGTG
1 AATAAATAGCAGGCCTTCGAGCCGGTG
* *
832182 ATTATATAGCAGG-CTTCG
1 AATAAATAGCAGGCCTTCG
832200 TGCTGGTGTA
Statistics
Matches: 241, Mismatches: 56, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
25 12 0.05
26 220 0.91
27 9 0.04
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (27 bp):
AATAAATAGCAGGCCTTCGAGCCGGTG
Found at i:832002 original size:78 final size:77
Alignment explanation
Indices: 831870--832195 Score: 420
Period size: 78 Copynumber: 4.2 Consensus size: 77
831860 ATTGTAAACA
* *
831870 AATATATAGCAGGCCTTGAGCCGGTGAATAAATAGCAGGCTTCAAGCCAGTGAATAAATATCAGG
1 AATATATAGCAGGCCTTGAGCCAGTGAATAATTAGCAGGCTTCAAGCCAGTGAATAAATAT-AGG
*
831935 CTTTGAGCCGGTG
65 CTTCGAGCCGGTG
* * * * *
831948 AATATATAGCAAGCCTTGAGCCAGTGAATAATTAGTAGGCTTCGAGCCAATGAATAAATAGCAGG
1 AATATATAGCAGGCCTTGAGCCAGTGAATAATTAGCAGGCTTCAAGCCAGTGAATAAATA-TAGG
832013 CTTCGAGCCGGTG
65 CTTCGAGCCGGTG
* * * *
832026 AATATATAGTAGGCCTTGAG-CAGGTGAATAATTAGCAAGCTTCGAGCCTGTGAATAAATAGTAG
1 AATATATAGCAGGCCTTGAGCCA-GTGAATAATTAGCAGGCTTCAAGCCAGTGAATAAATA-TAG
*
832090 GCTTCGAGCCGATG
64 GCTTCGAGCCGGTG
* * ***
832104 AACATATAGCAGGCCTTGAGCCGGTGAATAATTAGCAGGCTTCAAGTTGGTGAATAAATAATAGG
1 AATATATAGCAGGCCTTGAGCCAGTGAATAATTAGCAGGCTTCAAGCCAGTGAATAAAT-ATAGG
*
832169 CTTTGAGCCGGTG
65 CTTCGAGCCGGTG
*
832182 ATTATATAGCAGGC
1 AATATATAGCAGGC
832196 TTCGTGCTGG
Statistics
Matches: 216, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
77 2 0.01
78 212 0.98
79 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (77 bp):
AATATATAGCAGGCCTTGAGCCAGTGAATAATTAGCAGGCTTCAAGCCAGTGAATAAATATAGGC
TTCGAGCCGGTG
Found at i:843346 original size:21 final size:21
Alignment explanation
Indices: 843322--843365 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
843312 AATTGAGGAA
* * *
843322 AAGAAGGAAAATGATGAAGAG
1 AAGAAAGAAAAAGAAGAAGAG
843343 AAGAAAGAAAAAGAAGAAGAG
1 AAGAAAGAAAAAGAAGAAGAG
843364 AA
1 AA
843366 TGATGAAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.05
Consensus pattern (21 bp):
AAGAAAGAAAAAGAAGAAGAG
Found at i:843849 original size:17 final size:16
Alignment explanation
Indices: 843825--843860 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
843815 ATTTTATTTG
*
843825 TTAGTACATTTGCATT
1 TTAGTACATTTCCATT
843841 TTAGTTACATTTCCATT
1 TTAG-TACATTTCCATT
843858 TTA
1 TTA
843861 ATTAGTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.53
Consensus pattern (16 bp):
TTAGTACATTTCCATT
Found at i:844426 original size:15 final size:15
Alignment explanation
Indices: 844403--844439 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
844393 CAGTCACGTA
844403 AAAAAATAGAAAAAG
1 AAAAAATAGAAAAAG
*
844418 AAAACATAGAAAAAG
1 AAAAAATAGAAAAAG
844433 AGAAAAA
1 A-AAAAA
844440 AAACGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.05
Consensus pattern (15 bp):
AAAAAATAGAAAAAG
Found at i:850332 original size:12 final size:12
Alignment explanation
Indices: 850314--850347 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
850304 TTTTTATCAA
850314 TTTTTTCTTT-C
1 TTTTTTCTTTCC
850325 TTTATTTCTTTCC
1 TTT-TTTCTTTCC
850338 TTTTTTCTTT
1 TTTTTTCTTT
850348 TATGCGACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.14
12 14 0.67
13 4 0.19
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTCTTTCC
Found at i:851421 original size:23 final size:21
Alignment explanation
Indices: 851380--851422 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
851370 GGGTAATATT
851380 TTCTTTTTTTTCTTCCTTCTC
1 TTCTTTTTTTTCTTCCTTCTC
*
851401 TTCTTCTTATTTTCTTTCTTCT
1 TTCTT-TT-TTTTCTTCCTTCT
851423 TCCTCTACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 2 0.11
23 12 0.63
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (21 bp):
TTCTTTTTTTTCTTCCTTCTC
Found at i:866291 original size:5 final size:5
Alignment explanation
Indices: 866278--866312 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
866268 GGTCACTGTA
*
866278 CTTTC CTTTT CTTTT CTTTT CTTTTT CTTTT CTTT
1 CTTTT CTTTT CTTTT CTTTT C-TTTT CTTTT CTTT
866313 ATAAATGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:866303 original size:11 final size:11
Alignment explanation
Indices: 866283--866312 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
866273 CTGTACTTTC
866283 CTTTTC-TTTT
1 CTTTTCTTTTT
866293 CTTTTCTTTTT
1 CTTTTCTTTTT
866304 CTTTTCTTT
1 CTTTTCTTT
866313 ATAAATGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
CTTTTCTTTTT
Found at i:866303 original size:16 final size:16
Alignment explanation
Indices: 866279--866312 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
866269 GTCACTGTAC
866279 TTTCCTTTTCTTTTCT
1 TTTCCTTTTCTTTTCT
*
866295 TTTCTTTTTCTTTTCT
1 TTTCCTTTTCTTTTCT
866311 TT
1 TT
866313 ATAAATGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCCTTTTCTTTTCT
Found at i:867038 original size:15 final size:15
Alignment explanation
Indices: 867006--867034 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
866996 CTACACGAGG
867006 CTTTTTCTTCCTCCT
1 CTTTTTCTTCCTCCT
867021 CTTTTTC-TCCTCCT
1 CTTTTTCTTCCTCCT
867035 TCTTGCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (15 bp):
CTTTTTCTTCCTCCT
Found at i:873282 original size:26 final size:26
Alignment explanation
Indices: 873249--873376 Score: 166
Period size: 26 Copynumber: 4.9 Consensus size: 26
873239 AGTACTATCA
873249 CGCTCTTACGAGCCAGTACAGTATAT
1 CGCTCTTACGAGCCAGTACAGTATAT
* * **
873275 CACTCTTATGAGATAGTACAGTATAT
1 CGCTCTTACGAGCCAGTACAGTATAT
* * *
873301 TGCTCTTACAAGCCAGTACAATATAT
1 CGCTCTTACGAGCCAGTACAGTATAT
*
873327 CGCTCTTTCGAGCCAGTACAGTATAT
1 CGCTCTTACGAGCCAGTACAGTATAT
* *
873353 CTCTCTTACGAGCCAATACAGTAT
1 CGCTCTTACGAGCCAGTACAGTAT
873377 TTTCAAGTCT
Statistics
Matches: 84, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 84 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (26 bp):
CGCTCTTACGAGCCAGTACAGTATAT
Found at i:889251 original size:193 final size:191
Alignment explanation
Indices: 888842--889272 Score: 456
Period size: 195 Copynumber: 2.2 Consensus size: 191
888832 TACCATTACT
* * * * * * * * *
888842 CGATGCTGCTCACATGAGCTGTCGAGGACTCGCAACGTATGC-AGTACCCCAGCCATTAGTACGA
1 CGATGCTGCTCACACGAGCTATCGAGGACTCACAACATATGCGA-TTCCTCAGCCATCAATACGG
* * * **
888906 TGTTTGTCTGTACTATAAACTGTTCCCTAACGATGCTGCTCACATGAGCTGTCAAGTGTATGCAT
65 TATTTG--TGCA-TAT-AACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCAAGAATATGCAT
* *
888971 AAAGCATAGTCCCAGCCATCGTAGGGCCTATAATCCATTAAGGATTCATACCTCTTTCCCAAGCC
126 AAAGCATAGACCCAGCCATCGAAGGGCCTATAATCCATTAAGGATTCATACCTCTTTCCCAAGCC
889036 A
191 A
*
889037 CGATGCTGCTCACACGAGCTATCGAGGACTCATAACATATGCGATTCCTCAGCCATCAATACGGT
1 CGATGCTGCTCACACGAGCTATCGAGGACTCACAACATATGCGATTCCTCAGCCATCAATACGGT
* ** * *
889102 ATTTGTGCATATAACTGTTCCCTAACGATGCTGCTCACACGAGCTTTTGAGAATATGCACTTATG
66 ATTTGTGCATATAACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCAAGAATATGCA-TAAAG
** ** * ** *
889167 CATAGAACTTAGCCATCGAAGGGCCTATAATCCATTCTTGGATTCTTTTCTCATTT-TCAA-CTC
130 CATAG-ACCCAGCCATCGAAGGGCCTATAATCCATT-AAGGATTCATACCTC-TTTCCCAAGC-C
889230 A
191 A
* *
889231 CGATGTTGTTCACA-GAGCTATCGAGGACTCACAACATATGCG
1 CGATGCTGCTCACACGAGCTATCGAGGACTCACAACATATGCG
889273 GTACCCCAGT
Statistics
Matches: 197, Mismatches: 33, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
191 41 0.21
192 11 0.06
193 57 0.29
194 27 0.14
195 60 0.30
196 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (191 bp):
CGATGCTGCTCACACGAGCTATCGAGGACTCACAACATATGCGATTCCTCAGCCATCAATACGGT
ATTTGTGCATATAACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCAAGAATATGCATAAAGC
ATAGACCCAGCCATCGAAGGGCCTATAATCCATTAAGGATTCATACCTCTTTCCCAAGCCA
Found at i:893402 original size:17 final size:17
Alignment explanation
Indices: 893382--893418 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
893372 ATTGTCATCA
* *
893382 CATTTTTTTTGTCCCTG
1 CATTTTTATTGTCACTG
893399 CATTTTTATTGTCACTG
1 CATTTTTATTGTCACTG
893416 CAT
1 CAT
893419 CTGTATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.22, G:0.11, T:0.54
Consensus pattern (17 bp):
CATTTTTATTGTCACTG
Found at i:895054 original size:44 final size:44
Alignment explanation
Indices: 894991--895079 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
894981 TACAATTTAA
*
894991 TTTCAAATCGAGTATGATATCTATTCAATGTTTCCTTCATTATT
1 TTTCAAATCGAGTATGATATCTACTCAATGTTTCCTTCATTATT
*
895035 TTTCAGATCGAGTATGATATCTACTCAATGTTTCCTTCATTATT
1 TTTCAAATCGAGTATGATATCTACTCAATGTTTCCTTCATTATT
895079 T
1 T
895080 ATCTTTGGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (44 bp):
TTTCAAATCGAGTATGATATCTACTCAATGTTTCCTTCATTATT
Found at i:900790 original size:26 final size:26
Alignment explanation
Indices: 900761--900890 Score: 143
Period size: 26 Copynumber: 5.0 Consensus size: 26
900751 CCGTCACTAA
* *
900761 ATCGCTTTTACGAGCTAGTACAGTAT
1 ATCGCTCTTACGAGCCAGTACAGTAT
*
900787 ATCGCTCTTACGAGCTAGTACAGTAT
1 ATCGCTCTTACGAGCCAGTACAGTAT
* ** *
900813 ATTGCTCTTTTGAGCCAGTATAGTAT
1 ATCGCTCTTACGAGCCAGTACAGTAT
* * *
900839 ATAGCTCTTCCGAGCCAATACAGTAT
1 ATCGCTCTTACGAGCCAGTACAGTAT
* * *
900865 ATTGCTCTTCCGAGCCAGTATAGTAT
1 ATCGCTCTTACGAGCCAGTACAGTAT
900891 CTTCAAGTCT
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 90 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (26 bp):
ATCGCTCTTACGAGCCAGTACAGTAT
Found at i:900838 original size:52 final size:52
Alignment explanation
Indices: 900771--900890 Score: 168
Period size: 52 Copynumber: 2.3 Consensus size: 52
900761 ATCGCTTTTA
* * * * * *
900771 CGAGCTAGTACAGTATATCGCTCTTACGAGCTAGTACAGTATATTGCTCTTT
1 CGAGCCAGTATAGTATATAGCTCTTACGAGCCAATACAGTATATTGCTCTTC
* *
900823 TGAGCCAGTATAGTATATAGCTCTTCCGAGCCAATACAGTATATTGCTCTTC
1 CGAGCCAGTATAGTATATAGCTCTTACGAGCCAATACAGTATATTGCTCTTC
900875 CGAGCCAGTATAGTAT
1 CGAGCCAGTATAGTAT
900891 CTTCAAGTCT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (52 bp):
CGAGCCAGTATAGTATATAGCTCTTACGAGCCAATACAGTATATTGCTCTTC
Found at i:908653 original size:18 final size:18
Alignment explanation
Indices: 908617--908655 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
908607 ATTATTTTTT
* * *
908617 AAAAATATTTTTGATATA
1 AAAAACATTTTTAAGATA
908635 AAAAACATTTTTAAGATA
1 AAAAACATTTTTAAGATA
908653 AAA
1 AAA
908656 GTATTACTAA
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:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (18 bp):
AAAAACATTTTTAAGATA
Found at i:909918 original size:11 final size:10
Alignment explanation
Indices: 909893--909930 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
909883 AAATTAAAAA
909893 ATAAAAAATT
1 ATAAAAAATT
909903 ATAAAAAATT
1 ATAAAAAATT
909913 ATTAAAAAATT
1 A-TAAAAAATT
*
909924 CTAAAAA
1 ATAAAAA
909931 TATACAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:910026 original size:21 final size:21
Alignment explanation
Indices: 909988--910027 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
909978 AAAATTCTAA
*
909988 AATATATAAAAATTTATATTG
1 AATATATAAAAATATATATTG
* *
910009 AATATATATACATATATAT
1 AATATATAAAAATATATAT
910028 GCTAACTCGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (21 bp):
AATATATAAAAATATATATTG
Found at i:912133 original size:18 final size:18
Alignment explanation
Indices: 912106--912148 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
912096 ATTTTAATTA
*
912106 TATTTTT-AAAAATATTT
1 TATTTTTAAAAAAGATTT
912123 TATTGTTTAAAAAAGATTT
1 TATT-TTTAAAAAAGATTT
912142 TATTTTT
1 TATTTTT
912149 TGTTGACGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 6 0.26
19 13 0.57
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
TATTTTTAAAAAAGATTT
Found at i:914956 original size:21 final size:22
Alignment explanation
Indices: 914932--914974 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
914922 GAGTAGACTG
*
914932 TCTTCTCTGTCACGACA-CGAC
1 TCTTCTCTGTCACAACATCGAC
* *
914953 TCTTGTGTGTCACAACATCGAC
1 TCTTCTCTGTCACAACATCGAC
914975 CCTTGAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.21, C:0.33, G:0.16, T:0.30
Consensus pattern (22 bp):
TCTTCTCTGTCACAACATCGAC
Found at i:914979 original size:22 final size:21
Alignment explanation
Indices: 914939--914979 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
914929 CTGTCTTCTC
* *
914939 TGTCACGACACGACTCTTGTG
1 TGTCACAACACGACCCTTGTG
914960 TGTCACAACATCGACCCTTG
1 TGTCACAACA-CGACCCTTG
914980 AATGTGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.27
Consensus pattern (21 bp):
TGTCACAACACGACCCTTGTG
Found at i:920251 original size:8 final size:8
Alignment explanation
Indices: 920226--920265 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
920216 GGCTGTGATT
*
920226 TGAACATG
1 TGAATATG
*
920234 TGAAAAATG
1 TG-AATATG
920243 TGAATATG
1 TGAATATG
920251 TGAATATG
1 TGAATATG
920259 TGAATAT
1 TGAATAT
920266 CAAGATCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.33
Consensus pattern (8 bp):
TGAATATG
Found at i:920717 original size:17 final size:19
Alignment explanation
Indices: 920675--920721 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
920665 TGCATAGCAT
920675 TATTGATGA-TATATGCGA
1 TATTGATGAGTATATGCGA
*
920693 TCTT-ATGAGT-T-TGCGA
1 TATTGATGAGTATATGCGA
920709 TATTGATGAGTAT
1 TATTGATGAGTAT
920722 GTTGTTCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
16 8 0.33
17 11 0.46
18 5 0.21
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (19 bp):
TATTGATGAGTATATGCGA
Found at i:926322 original size:17 final size:17
Alignment explanation
Indices: 926302--926358 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
926292 TAATTGTCCC
*
926302 TGCATTATTAATGTCAT
1 TGCATTATTATTGTCAT
* *
926319 TGCATTTTTATTGTCGT
1 TGCATTATTATTGTCAT
*
926336 TGCATCTA-CATTGTCAT
1 TGCAT-TATTATTGTCAT
926353 TGCATT
1 TGCATT
926359 TCCATATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 1 0.03
17 31 0.94
18 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (17 bp):
TGCATTATTATTGTCAT
Found at i:933422 original size:8 final size:8
Alignment explanation
Indices: 933399--934068 Score: 471
Period size: 8 Copynumber: 83.9 Consensus size: 8
933389 AATAAGGAGT
*
933399 ATGTATGT
1 ATGTATGG
933407 ATGTATGG
1 ATGTATGG
*
933415 ATGGATGG
1 ATGTATGG
*
933423 ATGGATGG
1 ATGTATGG
*
933431 ATGGATGG
1 ATGTATGG
* *
933439 ATGGAAGG
1 ATGTATGG
*
933447 ATGGATGG
1 ATGTATGG
*
933455 ATGGATGG
1 ATGTATGG
*
933463 ATGGATGG
1 ATGTATGG
*
933471 ATGGATGG
1 ATGTATGG
*
933479 ATGGATGG
1 ATGTATGG
*
933487 ATGGATGG
1 ATGTATGG
*
933495 ATGGATGG
1 ATGTATGG
*
933503 ATGGATGG
1 ATGTATGG
*
933511 ATGTATGT
1 ATGTATGG
*
933519 ATGTATGT
1 ATGTATGG
*
933527 ATGGATGG
1 ATGTATGG
933535 A--TAT--
1 ATGTATGG
*
933539 ATGTATGT
1 ATGTATGG
933547 ATGTATGG
1 ATGTATGG
*
933555 ATGTATGT
1 ATGTATGG
*
933563 ATGTATGT
1 ATGTATGG
933571 ATGTATGG
1 ATGTATGG
*
933579 ATGGATGG
1 ATGTATGG
933587 ATGTATGG
1 ATGTATGG
*
933595 ATGTATGT
1 ATGTATGG
*
933603 ATGTATGT
1 ATGTATGG
*
933611 ATGTATGT
1 ATGTATGG
* *
933619 ATGTTTGC
1 ATGTATGG
*
933627 ATGTATGT
1 ATGTATGG
933635 ATGTATGG
1 ATGTATGG
* *
933643 ATGGATGT
1 ATGTATGG
*
933651 ATATATGTG
1 ATGTATG-G
933660 -TGTATGG
1 ATGTATGG
*
933667 ATGGATGG
1 ATGTATGG
* *
933675 ATGGATGT
1 ATGTATGG
*
933683 ATGTATGT
1 ATGTATGG
*
933691 ATGTATGC
1 ATGTATGG
*
933699 ATGGATGG
1 ATGTATGG
*
933707 ATGGATGG
1 ATGTATGG
*
933715 ATGGATGG
1 ATGTATGG
* *
933723 ATGGATGT
1 ATGTATGG
* *
933731 ACGTATGT
1 ATGTATGG
933739 ATGTATGG
1 ATGTATGG
* *
933747 ATGGATGT
1 ATGTATGG
*
933755 ATGTATGT
1 ATGTATGG
*
933763 ATGGATGG
1 ATGTATGG
*
933771 ATGGATGG
1 ATGTATGG
**
933779 ATGTATCT
1 ATGTATGG
933787 ATGTATGG
1 ATGTATGG
*
933795 ATGTATGT
1 ATGTATGG
* *
933803 CTGTATGT
1 ATGTATGG
*
933811 ATGTATGT
1 ATGTATGG
*
933819 ATGTATGT
1 ATGTATGG
933827 ATGTATGTG
1 ATGTATG-G
*
933836 -TGTATGT
1 ATGTATGG
*
933843 ATGTATGT
1 ATGTATGG
*
933851 ATGTGTGTG
1 ATGTATG-G
*
933860 -TGTATGT
1 ATGTATGG
933867 ATGTATGTG
1 ATGTATG-G
*
933876 -TGTATGT
1 ATGTATGG
933883 ATGTATGTGTG
1 ATGTA--TG-G
*
933894 TATGTATGT
1 -ATGTATGG
*
933903 ATGTATGT
1 ATGTATGG
*
933911 ATGTATGT
1 ATGTATGG
*
933919 ATGTATGT
1 ATGTATGG
933927 ATGTATGG
1 ATGTATGG
933935 ATG-ATGG
1 ATGTATGG
*
933942 ATGGATGG
1 ATGTATGG
*
933950 ATGGATGG
1 ATGTATGG
*
933958 ATGAATGTG
1 ATGTATG-G
933967 -TGTATGG
1 ATGTATGG
*
933974 ATGTATGT
1 ATGTATGG
933982 ATGTATGG
1 ATGTATGG
*
933990 ATGGATGG
1 ATGTATGG
*
933998 ATGGATGG
1 ATGTATGG
* *
934006 ATGGATGT
1 ATGTATGG
*
934014 ATGTATGT
1 ATGTATGG
*
934022 ATGTATGT
1 ATGTATGG
**
934030 ATGTATTT
1 ATGTATGG
* *
934038 TTGTATGT
1 ATGTATGG
934046 ATGTATGTG
1 ATGTATG-G
*
934055 -TGTATGT
1 ATGTATGG
934062 ATGTATG
1 ATGTATG
934069 TAAAATAGAA
Statistics
Matches: 567, Mismatches: 74, Indels: 42
0.83 0.11 0.06
Matches are distributed among these distances:
4 1 0.00
6 5 0.01
7 9 0.02
8 542 0.96
9 1 0.00
10 4 0.01
12 5 0.01
ACGTcount: A:0.24, C:0.01, G:0.35, T:0.40
Consensus pattern (8 bp):
ATGTATGG
Found at i:933426 original size:12 final size:12
Alignment explanation
Indices: 933403--934028 Score: 449
Period size: 12 Copynumber: 52.6 Consensus size: 12
933393 AGGAGTATGT
*
933403 ATGTATGTATGG
1 ATGTATGGATGG
*
933415 ATGGATGGATGG
1 ATGTATGGATGG
*
933427 ATGGATGGATGG
1 ATGTATGGATGG
* *
933439 ATGGAAGGATGG
1 ATGTATGGATGG
*
933451 ATGGATGGATGG
1 ATGTATGGATGG
*
933463 ATGGATGGATGG
1 ATGTATGGATGG
*
933475 ATGGATGGATGG
1 ATGTATGGATGG
*
933487 ATGGATGGATGG
1 ATGTATGGATGG
*
933499 ATGGATGGATGG
1 ATGTATGGATGG
* *
933511 ATGTATGTATGT
1 ATGTATGGATGG
933523 ATGTATGGATGG
1 ATGTATGGATGG
* * *
933535 ATATATGTATGT
1 ATGTATGGATGG
*
933547 ATGTATGGATGT
1 ATGTATGGATGG
* *
933559 ATGTATGTATGT
1 ATGTATGGATGG
933571 ATGTATGGATGG
1 ATGTATGGATGG
* *
933583 ATGGATGTATGG
1 ATGTATGGATGG
* *
933595 ATGTATGTATGT
1 ATGTATGGATGG
* *
933607 ATGTATGTATGT
1 ATGTATGGATGG
* * *
933619 ATGTTTGCATGT
1 ATGTATGGATGG
*
933631 ATGTATGTATGG
1 ATGTATGGATGG
* * **
933643 ATGGATGTATAT
1 ATGTATGGATGG
* *
933655 ATGTGTGTATGG
1 ATGTATGGATGG
*
933667 ATGGATGGATGG
1 ATGTATGGATGG
* *
933679 ATGTATGTATGT
1 ATGTATGGATGG
*
933691 ATGTATGCATGG
1 ATGTATGGATGG
*
933703 ATGGATGGATGG
1 ATGTATGGATGG
*
933715 ATGGATGGATGG
1 ATGTATGGATGG
* * *
933727 ATGTACGTATGT
1 ATGTATGGATGG
933739 ATGTATGGATGG
1 ATGTATGGATGG
933751 ATGTAT-G-T--
1 ATGTATGGATGG
933759 ATGTATGGATGG
1 ATGTATGGATGG
* *
933771 ATGGATGGATGT
1 ATGTATGGATGG
* *
933783 ATCTATGTATGG
1 ATGTATGGATGG
** *
933795 ATGTATGTCTGT
1 ATGTATGGATGG
* *
933807 ATGTATGTATGT
1 ATGTATGGATGG
* *
933819 ATGTATGTATGT
1 ATGTATGGATGG
* * *
933831 ATGTGTGTATGT
1 ATGTATGGATGG
*
933843 ATGTATGTATGTG
1 ATGTATGGATG-G
* * *
933856 -TGTGTGTATGT
1 ATGTATGGATGG
*
933867 ATGTATGTG-TGT
1 ATGTATG-GATGG
*
933879 ATGTATGTATGTG
1 ATGTATGGATG-G
* *
933892 -TGTATGTATGT
1 ATGTATGGATGG
* *
933903 ATGTATGTATGT
1 ATGTATGGATGG
* *
933915 ATGTATGTATGT
1 ATGTATGGATGG
933927 ATGTATGGAT-G
1 ATGTATGGATGG
*
933938 ATGGATGGATGG
1 ATGTATGGATGG
* *
933950 ATGGATGGATGA
1 ATGTATGGATGG
* *
933962 ATGTGTGTATGG
1 ATGTATGGATGG
* *
933974 ATGTATGTATGT
1 ATGTATGGATGG
*
933986 ATGGATGGATGG
1 ATGTATGGATGG
*
933998 ATGGATGGATGG
1 ATGTATGGATGG
* *
934010 ATGTATGTATGT
1 ATGTATGGATGG
934022 ATGTATG
1 ATGTATG
934029 TATGTATTTT
Statistics
Matches: 517, Mismatches: 86, Indels: 22
0.83 0.14 0.04
Matches are distributed among these distances:
8 6 0.01
9 1 0.00
10 2 0.00
11 10 0.02
12 498 0.96
ACGTcount: A:0.24, C:0.01, G:0.36, T:0.39
Consensus pattern (12 bp):
ATGTATGGATGG
Found at i:933510 original size:4 final size:4
Alignment explanation
Indices: 933511--934070 Score: 582
Period size: 4 Copynumber: 140.2 Consensus size: 4
933501 GGATGGATGG
* * * *
933511 ATGT ATGT ATGT ATGT ATGG ATGG ATAT ATGT ATGT ATGT ATGG ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
933559 ATGT ATGT ATGT ATGT ATGG ATGG ATGG ATGT ATGG ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
933607 ATGT ATGT ATGT ATGT TTGC ATGT ATGT ATGT ATGG ATGG ATGT ATAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
933655 ATGT GTGT ATGG ATGG ATGG ATGG ATGT ATGT ATGT ATGT ATGC ATGG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * *
933703 ATGG ATGG ATGG ATGG ATGG ATGG ATGT ACGT ATGT ATGT ATGG ATGG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
933751 ATGT ATGT ATGT ATGG ATGG ATGG ATGG ATGT ATCT ATGT ATGG ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
933799 ATGT CTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT GTGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
933847 ATGT ATGT GTGT GTGT ATGT ATGT ATGT GTGT ATGT ATGT ATGT GTGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
933895 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGG ATG- ATGG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
933942 ATGG ATGG ATGG ATGG ATGA ATGT GTGT ATGG ATGT ATGT ATGT ATGG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
933990 ATGG ATGG ATGG ATGG ATGG ATGT ATGT ATGT ATGT ATGT ATGT ATTT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
934038 TTGT ATGT ATGT ATGT GTGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
934071 AAATAGAAAA
Statistics
Matches: 495, Mismatches: 60, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
3 3 0.01
4 492 0.99
ACGTcount: A:0.24, C:0.01, G:0.33, T:0.42
Consensus pattern (4 bp):
ATGT
Found at i:934410 original size:29 final size:28
Alignment explanation
Indices: 934347--934418 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
934337 GAAAGGAGTG
**
934347 TAAAATTTTTTTTTCAGGTTTTAAGAGGT
1 TAAAA-TTTTTTTTCAACTTTTAAGAGGT
*
934376 TCAAATTTTTTTTCAACTTTTAAG-GCGTT
1 TAAAATTTTTTTTCAACTTTTAAGAG-G-T
934405 TAAAATATTTTTTT
1 TAAAAT-TTTTTTT
934419 TTTTCAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 1 0.03
28 18 0.50
29 10 0.28
30 7 0.19
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (28 bp):
TAAAATTTTTTTTCAACTTTTAAGAGGT
Found at i:935962 original size:12 final size:11
Alignment explanation
Indices: 935930--935965 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
935920 TATCACACGA
935930 TTTAAATTAAT
1 TTTAAATTAAT
935941 TTTAAATTAAT
1 TTTAAATTAAT
*
935952 TATTGAATTAAT
1 T-TTAAATTAAT
935964 TT
1 TT
935966 AACTTGATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (11 bp):
TTTAAATTAAT
Found at i:939208 original size:17 final size:18
Alignment explanation
Indices: 939186--939219 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
939176 AAAGTAGATT
*
939186 TTTGAT-TTTTTTTATAA
1 TTTGATGTTTATTTATAA
939203 TTTGATGTTTATTTATA
1 TTTGATGTTTATTTATA
939220 TATGTTTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (18 bp):
TTTGATGTTTATTTATAA
Found at i:939361 original size:43 final size:43
Alignment explanation
Indices: 939306--939554 Score: 205
Period size: 45 Copynumber: 5.7 Consensus size: 43
939296 CAAAATGAGA
* *
939306 AAGACCATAGTTGAAAGATACTATGACATTAGATCAGAATGAT
1 AAGACCATAGTTGAAAGATACTATGACATTACATCAGAACGAT
* * * * * *
939349 AAGACCATAGTTGAAAGTTACTATGGCATTAGACCGGAATGAT
1 AAGACCATAGTTGAAAGATACTATGACATTACATCAGAACGAT
* *
939392 AAGACCATAGTTGAAAGATACTATGGTAC-TATACA-AAAAACGAGT
1 AAGACCATAGTTGAAAGATACTAT-G-ACAT-TACATCAGAACGA-T
* * * * * * *
939437 TAGACCATAATTGAAAGATACCACGACTTTAAATCCGACACGAGT
1 AAGACCATAGTTGAAAGATACTATGACATTACATCAGA-ACGA-T
* * * *
939482 AAAACCATAGTTGAAAGATACTATGACATCACATTGATAACGAT
1 AAGACCATAGTTGAAAGATACTATGACATTACA-TCAGAACGAT
* *
939526 CAAGACTATGGTTGAAAGATACTATGACA
1 -AAGACCATAGTTGAAAGATACTATGACA
939555 CCACTTTGGG
Statistics
Matches: 164, Mismatches: 33, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
43 67 0.41
44 10 0.06
45 85 0.52
46 2 0.01
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (43 bp):
AAGACCATAGTTGAAAGATACTATGACATTACATCAGAACGAT
Found at i:939576 original size:45 final size:45
Alignment explanation
Indices: 939485--939592 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
939475 CACGAGTAAA
* * *
939485 ACCATAGTTGAAAGATACTATGACATCACATTGATAACGATCAAG
1 ACCATGGTTGAAAGATACTATGACACCACATTGAGAACGATCAAG
* * * *
939530 ACTATGGTTGAAAGATACTATGACACCACTTTGGGAATGAAT-AAG
1 ACCATGGTTGAAAGATACTATGACACCACATTGAGAACG-ATCAAG
*
939575 ACCATGGTTGGAAGATAC
1 ACCATGGTTGAAAGATAC
939593 CATGGCATCC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 51 0.96
46 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (45 bp):
ACCATGGTTGAAAGATACTATGACACCACATTGAGAACGATCAAG
Found at i:947713 original size:16 final size:17
Alignment explanation
Indices: 947684--947716 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
947674 TTCAGGGTTT
*
947684 AAATTAAAGAAAATAAA
1 AAATAAAAGAAAATAAA
947701 AAATAAAAG-AAATAAA
1 AAATAAAAGAAAATAAA
947717 GCAAGAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
AAATAAAAGAAAATAAA
Found at i:948644 original size:20 final size:20
Alignment explanation
Indices: 948604--948659 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
948594 AGAAGCAAAC
* *
948604 TTGTATCGGTATAACTAAAG
1 TTGTATCGGTAAAAGTAAAG
*
948624 TTGTATCGGTAAAAGTGAAG
1 TTGTATCGGTAAAAGTAAAG
* * *
948644 TTCTACCGGTAGAAGT
1 TTGTATCGGTAAAAGT
948660 CCCAAGGTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (20 bp):
TTGTATCGGTAAAAGTAAAG
Found at i:950246 original size:17 final size:18
Alignment explanation
Indices: 950224--950257 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
950214 ATCTTTTCTT
950224 CTTGATCCAC-CTCTTCA
1 CTTGATCCACTCTCTTCA
*
950241 CTTGATTCACTCTCTTC
1 CTTGATCCACTCTCTTC
950258 CATGGTGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.15, C:0.38, G:0.06, T:0.41
Consensus pattern (18 bp):
CTTGATCCACTCTCTTCA
Found at i:955058 original size:41 final size:41
Alignment explanation
Indices: 955001--955083 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
954991 GCAAGAGGGA
955001 AGTAAGAGAGCAAGTCGAGTTGTCTAGGAATAATATTCTCC
1 AGTAAGAGAGCAAGTCGAGTTGTCTAGGAATAATATTCTCC
955042 AGTAAGAGAGCAAGTCGAGTTGTCTAGGAATAATATTCTCC
1 AGTAAGAGAGCAAGTCGAGTTGTCTAGGAATAATATTCTCC
955083 A
1 A
955084 TTTGTTCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (41 bp):
AGTAAGAGAGCAAGTCGAGTTGTCTAGGAATAATATTCTCC
Found at i:967514 original size:23 final size:25
Alignment explanation
Indices: 967485--967539 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 25
967475 GAGATTTTAA
*
967485 AAAATAAAATAAGTA-CTAAA-AAG
1 AAAATAAAATAAATATCTAAACAAG
*
967508 GAAAT-AAATAAATATCTAAACAAG
1 AAAATAAAATAAATATCTAAACAAG
967532 AAAATAAA
1 AAAATAAA
967540 TAGATCTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 8 0.31
23 9 0.35
24 7 0.27
25 2 0.08
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.18
Consensus pattern (25 bp):
AAAATAAAATAAATATCTAAACAAG
Found at i:967541 original size:24 final size:22
Alignment explanation
Indices: 967485--967541 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
967475 GAGATTTTAA
*
967485 AAAATAAAATAAGTACTAAAAAG
1 AAAAT-AAATAAATACTAAAAAG
*
967508 GAAATAAATAAATATCTAAACAAG
1 AAAATAAATAAATA-CTAAA-AAG
967532 AAAATAAATA
1 AAAATAAATA
967542 GATCTTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.28
23 9 0.31
24 12 0.41
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.19
Consensus pattern (22 bp):
AAAATAAATAAATACTAAAAAG
Found at i:976084 original size:21 final size:21
Alignment explanation
Indices: 976042--976084 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
976032 CATTTCTCTA
* *
976042 TTTACTTTCAGTTATTTTAAT
1 TTTACTTACAGTTATTTAAAT
976063 TTTACTTAC-GTTATTTCAAAT
1 TTTACTTACAGTTATTT-AAAT
976084 T
1 T
976085 CTTTTGCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.58
Consensus pattern (21 bp):
TTTACTTACAGTTATTTAAAT
Found at i:984397 original size:18 final size:18
Alignment explanation
Indices: 984360--984408 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
984350 CAAAAATTTG
* *
984360 TTTCTTT-TTTTTTTCTT
1 TTTCTTTCTTTTTCTCCT
984377 TTTCTTTCTTTTTCTCCT
1 TTTCTTTCTTTTTCTCCT
*
984395 TTTGTTTCTTTTTC
1 TTTCTTTCTTTTTC
984409 AAATGACTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTCTTTCTTTTTCTCCT
Found at i:996130 original size:17 final size:19
Alignment explanation
Indices: 996108--996152 Score: 76
Period size: 17 Copynumber: 2.5 Consensus size: 19
996098 CTAACTTAAC
996108 AAAAATGCAATGA-CAAA-
1 AAAAATGCAATGACCAAAT
996125 AAAAATGCAATGACCAAAT
1 AAAAATGCAATGACCAAAT
996144 AAAAATGCA
1 AAAAATGCA
996153 TGAAAGCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 13 0.50
18 4 0.15
19 9 0.35
ACGTcount: A:0.62, C:0.13, G:0.11, T:0.13
Consensus pattern (19 bp):
AAAAATGCAATGACCAAAT
Found at i:996604 original size:3 final size:3
Alignment explanation
Indices: 996596--996660 Score: 121
Period size: 3 Copynumber: 21.3 Consensus size: 3
996586 CTTTTAATTT
996596 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
996644 TTC TTC TTC TTCC TTC T
1 TTC TTC TTC TT-C TTC T
996661 CTTGCCTTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 58 0.95
4 3 0.05
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:998108 original size:12 final size:12
Alignment explanation
Indices: 998091--998119 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
998081 TGAAGGTGTG
998091 GTTTTAGAAAGA
1 GTTTTAGAAAGA
998103 GTTTTAGAAAGA
1 GTTTTAGAAAGA
998115 GTTTT
1 GTTTT
998120 GATGCTCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (12 bp):
GTTTTAGAAAGA
Found at i:1003394 original size:43 final size:42
Alignment explanation
Indices: 1003341--1003465 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 42
1003331 TCAAAGTTGA
1003341 AACATTGTTTCCTAATATTGAAAGTATGTGACTGATTGAAAGG
1 AACATTGTTTCCTAATATTGAAAGTATGTGA-TGATTGAAAGG
* * * **
1003384 AACACTGTTTCCTAATATTAAAAGTATGTGATCAATTGAGTGG
1 AACATTGTTTCCTAATATTGAAAGTATGTGAT-GATTGAAAGG
* *
1003427 AACATTGTTTCCTAATATTGATAGTATGTAATTGATTGA
1 AACATTGTTTCCTAATATTGAAAGTATGTGA-TGATTGA
1003466 TAGCATGATG
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.01
43 68 0.97
44 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (42 bp):
AACATTGTTTCCTAATATTGAAAGTATGTGATGATTGAAAGG
Found at i:1012245 original size:3 final size:3
Alignment explanation
Indices: 1012237--1012262 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1012227 ATAAATTTAA
1012237 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
1012263 AAACTGGGTT
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:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:1012628 original size:39 final size:37
Alignment explanation
Indices: 1012574--1012648 Score: 98
Period size: 39 Copynumber: 2.0 Consensus size: 37
1012564 AGTATGGTTA
*
1012574 AATCACATGCAATGGTAAACTAGAAGCTTATACTAGTTG
1 AATCACATGCAATGGTAAACCAGAAG-TT-TACTAGTTG
*
1012613 AATCACATG-AGATGGTAAACCATAAGTTTACTAGTT
1 AATCACATGCA-ATGGTAAACCAGAAGTTTACTAGTT
1012649 CAAATATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 8 0.24
38 3 0.09
39 22 0.67
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (37 bp):
AATCACATGCAATGGTAAACCAGAAGTTTACTAGTTG
Found at i:1017262 original size:24 final size:24
Alignment explanation
Indices: 1017232--1017281 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
1017222 TATGTAATAA
1017232 ATTATAATATAAAATTTAATTAGC
1 ATTATAATATAAAATTTAATTAGC
*
1017256 ATTATAATATAAATTTTAATTAGC
1 ATTATAATATAAAATTTAATTAGC
1017280 AT
1 AT
1017282 AAAGCATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (24 bp):
ATTATAATATAAAATTTAATTAGC
Found at i:1021404 original size:29 final size:30
Alignment explanation
Indices: 1021349--1021428 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 30
1021339 ATATTAAAAT
*
1021349 TATATATGAATTATGATTTAATGTGTAATTG
1 TATATATGAATTTTGATTTAA-GTGTAATTG
*
1021380 TATATATGAATTTTGATTCT-A-TGTAATTT
1 TATATATGAATTTTGATT-TAAGTGTAATTG
*
1021409 TATACATGAAATTTTGATTT
1 TATATATG-AATTTTGATTT
1021429 GATCCAATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
29 15 0.34
30 10 0.23
31 18 0.41
32 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (30 bp):
TATATATGAATTTTGATTTAAGTGTAATTG
Found at i:1022190 original size:34 final size:34
Alignment explanation
Indices: 1022152--1022219 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
1022142 CCACAAATTA
1022152 ATTTTCCCAATTTCCTCCCCCAAATCAAACCCTC
1 ATTTTCCCAATTTCCTCCCCCAAATCAAACCCTC
1022186 ATTTTCCCAATTTCCTCCCCCAAATCAAACCCTC
1 ATTTTCCCAATTTCCTCCCCCAAATCAAACCCTC
1022220 CAAGTCCAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.44, G:0.00, T:0.29
Consensus pattern (34 bp):
ATTTTCCCAATTTCCTCCCCCAAATCAAACCCTC
Found at i:1026641 original size:42 final size:40
Alignment explanation
Indices: 1026594--1026671 Score: 129
Period size: 42 Copynumber: 1.9 Consensus size: 40
1026584 TGAAGAAGAA
*
1026594 AAATGGTGTTTGGCAAGAGAGAAAATGAGAAAGAAAAATGGC
1 AAATGGTGTTTGGCAAAAGAGAAAAT--GAAAGAAAAATGGC
1026636 AAATGGTGTTTGGCAAAAGAGAAAATGAAAGAAAAA
1 AAATGGTGTTTGGCAAAAGAGAAAATGAAAGAAAAA
1026672 AAATTGCAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 10 0.29
42 25 0.71
ACGTcount: A:0.51, C:0.04, G:0.28, T:0.17
Consensus pattern (40 bp):
AAATGGTGTTTGGCAAAAGAGAAAATGAAAGAAAAATGGC
Found at i:1032766 original size:5 final size:5
Alignment explanation
Indices: 1032750--1032797 Score: 60
Period size: 5 Copynumber: 9.2 Consensus size: 5
1032740 TAAACTGAAT
* *
1032750 AATAA AAGAA AATAA AATAAA AATAAA AATAA AATAG AATAA AATAA A
1 AATAA AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AATAA A
1032798 TTTTCTTCCG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 27 0.71
6 11 0.29
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:1032778 original size:22 final size:21
Alignment explanation
Indices: 1032753--1032797 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
1032743 ACTGAATAAT
1032753 AAAAGAAAATAAAATAAAAATA
1 AAAAGAAAATAAAAT-AAAATA
* *
1032775 AAAATAAAATAGAATAAAATA
1 AAAAGAAAATAAAATAAAATA
1032796 AA
1 AA
1032798 TTTTCTTCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAAGAAAATAAAATAAAATA
Found at i:1033882 original size:14 final size:15
Alignment explanation
Indices: 1033829--1033883 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 15
1033819 CAACCAAAAA
*
1033829 GTCAACAG-TCAACA
1 GTCAACAGATCAACG
*
1033843 GTCAA-TGATCAA--
1 GTCAACAGATCAACG
1033855 GTCAAC-GATCAACG
1 GTCAACAGATCAACG
1033869 GTCAACAG-TCAACG
1 GTCAACAGATCAACG
1033883 G
1 G
1033884 GTCGATTAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 11 0.31
13 1 0.03
14 22 0.63
15 1 0.03
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.16
Consensus pattern (15 bp):
GTCAACAGATCAACG
Found at i:1038923 original size:35 final size:35
Alignment explanation
Indices: 1038880--1039019 Score: 132
Period size: 35 Copynumber: 4.1 Consensus size: 35
1038870 CCCTTTACAT
*
1038880 TTTATCTATTTATTTAA-TTGACAGGATTTTATTTA
1 TTTATCTATTTATTTAATTTG-CAGGATTTTAATTA
*
1038915 TTTATCTATTTATTTAATTTGCATGATTTTAATTA
1 TTTATCTATTTATTTAATTTGCAGGATTTTAATTA
* * *
1038950 --T-T-T-TTTGTTTAATTGGCATGATTTTTAATTA
1 TTTATCTATTTATTTAATTTGCAGGA-TTTTAATTA
* * * *
1038981 TTT-TTTATTTGTTTAATTTGAATGATTTTAATTA
1 TTTATCTATTTATTTAATTTGCAGGATTTTAATTA
1039015 TTTAT
1 TTTAT
1039020 TTGCTACTCG
Statistics
Matches: 92, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
30 16 0.17
31 10 0.11
32 1 0.01
33 3 0.03
34 13 0.14
35 46 0.50
36 3 0.03
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (35 bp):
TTTATCTATTTATTTAATTTGCAGGATTTTAATTA
Found at i:1038961 original size:65 final size:66
Alignment explanation
Indices: 1038881--1039022 Score: 189
Period size: 65 Copynumber: 2.2 Consensus size: 66
1038871 CCTTTACATT
* * * *
1038881 TTATCTATTTATTTAATTGACAGGA-TTTTATTTATTTATCTATTTATTTAATTTGCATGATTTT
1 TTATTTATTTGTTTAATTGACAGGATTTTTAATTATTT-TCTATTTATTTAATTTGAATGATTTT
1038945 AA
65 AA
* * * *
1038947 TTATTT-TTTGTTTAATTGGCATGATTTTTAATTATTTTTTATTTGTTTAATTTGAATGATTTTA
1 TTATTTATTTGTTTAATTGACAGGATTTTTAATTATTTTCTATTTATTTAATTTGAATGATTTTA
1039011 A
66 A
1039012 TTATTTATTTG
1 TTATTTATTTG
1039023 CTACTCGTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
65 46 0.70
66 20 0.30
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (66 bp):
TTATTTATTTGTTTAATTGACAGGATTTTTAATTATTTTCTATTTATTTAATTTGAATGATTTTA
A
Found at i:1038979 original size:31 final size:31
Alignment explanation
Indices: 1038911--1039022 Score: 136
Period size: 31 Copynumber: 3.5 Consensus size: 31
1038901 CAGGATTTTA
* * *
1038911 TTTATTTATCTATTTATTTAATTTGCATGAT
1 TTTAATTATTTATTTGTTTAATTTGCATGAT
*
1038942 TTTAATTATTT-TTTGTTTAATTGGCATGATT
1 TTTAATTATTTATTTGTTTAATTTGCATGA-T
*
1038973 TTTAATTATTTTTTATTTGTTTAATTTGAATGAT
1 TTTAATTA---TTTATTTGTTTAATTTGCATGAT
1039007 TTTAATTATTTATTTG
1 TTTAATTATTTATTTG
1039023 CTACTCGTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
30 16 0.23
31 26 0.37
34 12 0.17
35 16 0.23
ACGTcount: A:0.25, C:0.03, G:0.09, T:0.63
Consensus pattern (31 bp):
TTTAATTATTTATTTGTTTAATTTGCATGAT
Found at i:1047551 original size:52 final size:52
Alignment explanation
Indices: 1047489--1047595 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
1047479 CGTAGAAGAG
*
1047489 AAGGTAGATTTACTCTTGACGAGGAGCCTTAAGTGTAACGCAAGAGGGAAGT
1 AAGGTAGATTTACTCTTAACGAGGAGCCTTAAGTGTAACGCAAGAGGGAAGT
*
1047541 AAGGTAGATTTGCTCTTAACGAGGAGCCTTAAGTGTAACGCAAGAGGGAAGT
1 AAGGTAGATTTACTCTTAACGAGGAGCCTTAAGTGTAACGCAAGAGGGAAGT
1047593 AAG
1 AAG
1047596 AGAGCAAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (52 bp):
AAGGTAGATTTACTCTTAACGAGGAGCCTTAAGTGTAACGCAAGAGGGAAGT
Found at i:1050572 original size:5 final size:5
Alignment explanation
Indices: 1050555--1050592 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
1050545 TATTATTGAA
1050555 TTTAT TATTAT TTTAT TTTAT TTTAT TTTAT TTT-T TTT
1 TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1050593 GCTTTTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.12
5 23 0.72
6 5 0.16
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:1050572 original size:15 final size:15
Alignment explanation
Indices: 1050544--1050587 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
1050534 GTCGATTTTT
**
1050544 TTATTATTGAATTTA
1 TTATTATTTTATTTA
1050559 TTATTATTTTATTTTA
1 TTATTATTTTA-TTTA
1050575 TT-TTATTTTATTT
1 TTATTATTTTATTT
1050588 TTTTTGCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 3 0.12
15 17 0.65
16 6 0.23
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
TTATTATTTTATTTA
Found at i:1050833 original size:17 final size:17
Alignment explanation
Indices: 1050813--1050861 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
1050803 CACATTTCCT
*
1050813 TTGTCATTGCATTTTTA
1 TTGTCATTGCATTTTAA
* * *
1050830 TTGTCACTGCATCTAAA
1 TTGTCATTGCATTTTAA
1050847 TTGTCATTGCATTTT
1 TTGTCATTGCATTTT
1050862 CATATATCAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.12, T:0.51
Consensus pattern (17 bp):
TTGTCATTGCATTTTAA
Found at i:1053116 original size:49 final size:50
Alignment explanation
Indices: 1053050--1053368 Score: 228
Period size: 49 Copynumber: 6.5 Consensus size: 50
1053040 GTCTTCAGTC
* * *
1053050 TATCCCTC-TTCAGTTTTAGGGTGTTAAG-TTTACCGTTACGGCTTCAACT
1 TATCCCTCTTTGA-TTTTAAGGTGTTAAGATCTACCGTTACGGCTTCAACT
* * * **
1053099 TATCCCTCTTTGATTTTAATGTG-TAAGATCCATCGTTGTGGCTTCAA-T
1 TATCCCTCTTTGATTTTAAGGTGTTAAGATCTACCGTTACGGCTTCAACT
* * * * ** * * *
1053147 ATTTCCCTATTCGATTTTAAGGTGTT-AGGTAAACCATTGCGGCTTCAACC
1 -TATCCCTCTTTGATTTTAAGGTGTTAAGATCTACCGTTACGGCTTCAACT
* * ** *
1053197 TATCCCTCTTCGATTTTAAGGTG-TAAGATCTACTGTTGTGACTTCAATCT
1 TATCCCTCTTTGATTTTAAGGTGTTAAGATCTACCGTTACGGCTTCAA-CT
* * * * *
1053247 T-TTCCTCTTCGATTTTAGGGTGTT-AGGTCTACCATTACGGCTTCAACT
1 TATCCCTCTTTGATTTTAAGGTGTTAAGATCTACCGTTACGGCTTCAACT
* * * *
1053295 TATCCCTATTTAATTTTAA-G-GTAAAGATCTACCGTTACAGCTTCAATCT
1 TATCCCTCTTTGATTTTAAGGTGTTAAGATCTACCGTTACGGCTTCAA-CT
* *
1053344 T-TCCCTCTTTGGTTTTAGGGTGTTA
1 TATCCCTCTTTGATTTTAAGGTGTTA
1053369 GGTACGCCAT
Statistics
Matches: 206, Mismatches: 51, Indels: 25
0.73 0.18 0.09
Matches are distributed among these distances:
47 2 0.01
48 42 0.20
49 152 0.74
50 10 0.05
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (50 bp):
TATCCCTCTTTGATTTTAAGGTGTTAAGATCTACCGTTACGGCTTCAACT
Found at i:1053204 original size:98 final size:96
Alignment explanation
Indices: 1053035--1053401 Score: 387
Period size: 98 Copynumber: 3.8 Consensus size: 96
1053025 TGTATCGACA
* * * * ** * *
1053035 GTTGTGTCTTCAGTCTATCCCTCTTC-AGTTTTAGGGTGTTAAGTTTACCGTTACGGCTTCAACT
1 GTTGTGGCTTCAATCTTTCCCTCTTCGA-TTTTAGGGTGTTAGGTAAACCATTACGGCTTCAACC
*
1053099 TATCCCTCTTTGATTTTAATGTGTAAGATCCATC
65 TATCCCTCTTTGATTTTAA-GTGTAAGATCTA-C
* * * *
1053133 GTTGTGGCTTCAATATTTCCCTATTCGATTTTAAGGTGTTAGGTAAACCATTGCGGCTTCAACCT
1 GTTGTGGCTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGGTAAACCATTACGGCTTCAACCT
*
1053198 ATCCCTCTTCGATTTTAAGGTGTAAGATCTAC
66 ATCCCTCTTTGATTTTAA-GTGTAAGATCTAC
* * ** *
1053230 TGTTGTGACTTCAATCTTTTCCTCTTCGATTTTAGGGTGTTAGGTCTACCATTACGGCTTCAACT
1 -GTTGTGGCTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGGTAAACCATTACGGCTTCAACC
* *
1053295 TATCCCTATTTAATTTTAAG-GTAAAGATCTACC
65 TATCCCTCTTTGATTTTAAGTGT-AAGATCTA-C
*** * * ** * *
1053328 GTTACAGCTTCAATCTTTCCCTCTTTGGTTTTAGGGTGTTAGGTACGCCATTACAGCTTGAACCT
1 GTTGTGGCTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGGTAAACCATTACGGCTTCAACCT
1053393 ATCCCTCTT
66 ATCCCTCTT
1053402 CAACTCTAGG
Statistics
Matches: 224, Mismatches: 41, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
96 2 0.01
97 70 0.31
98 151 0.67
99 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (96 bp):
GTTGTGGCTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGGTAAACCATTACGGCTTCAACCT
ATCCCTCTTTGATTTTAAGTGTAAGATCTAC
Found at i:1055229 original size:39 final size:39
Alignment explanation
Indices: 1055175--1055253 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
1055165 GGATATTTTC
1055175 TGGCATTCCATACCGACATATGATTTCTTTCTTCAAGAA
1 TGGCATTCCATACCGACATATGATTTCTTTCTTCAAGAA
1055214 TGGCATTCCATACCGACATATGATTTCTTTCTTCAAGAA
1 TGGCATTCCATACCGACATATGATTTCTTTCTTCAAGAA
1055253 T
1 T
1055254 TTACTGACCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.37
Consensus pattern (39 bp):
TGGCATTCCATACCGACATATGATTTCTTTCTTCAAGAA
Found at i:1064407 original size:42 final size:42
Alignment explanation
Indices: 1064303--1064482 Score: 218
Period size: 42 Copynumber: 4.3 Consensus size: 42
1064293 TGATGTATAA
* * * * *
1064303 AAAGGAATACTCATGTCTCAAGTTGAGCATGAGAATT-TGAAT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAG-ATTATGATT
1064345 AAATGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
1 AAA-GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
* *
1064388 AAAGGAAGACTCATATCTCGAGAAGAGAATGAGATTATGATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
* * * *
1064430 AAAGGAAGACTCATGTCTTGGGATGAGAATGAGAATATAATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
* *
1064472 TATGGAAGACT
1 AAAGGAAGACT
1064483 TAAGACTTAT
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 88 0.73
43 33 0.27
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
Found at i:1066803 original size:17 final size:17
Alignment explanation
Indices: 1066783--1066830 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
1066773 CATATTCTCG
*
1066783 TTGTCATTACATTT-TAA
1 TTGTCATTGCATTTGT-A
*
1066800 TTGTCACTGCATTTGTA
1 TTGTCATTGCATTTGTA
1066817 TTGTCATTGCATTT
1 TTGTCATTGCATTT
1066831 CCATTTGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 26 0.96
18 1 0.04
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (17 bp):
TTGTCATTGCATTTGTA
Found at i:1081356 original size:98 final size:98
Alignment explanation
Indices: 1081186--1081684 Score: 477
Period size: 98 Copynumber: 5.1 Consensus size: 98
1081176 TCCTAGAGTT
*
1081186 GAAGAGGGATAGGTTGAAGCCATAATAGT-GTACCTAACACCCTAAAA-CTGAAGAGGGAAAGAT
1 GAAGAGGGATAGGTTGAAGCCATAATGGTAG-ACCTAACACCCTAAAATC-GAAGAGGGAAAGAT
*
1081249 TGAAGCCACAACGGTAGATCTTACACCTTAAAA-C
64 TGAAGCCACAATGGTAGATCTTACACCTTAAAATC
*
1081283 TGAAGAGGGATAGGTTGAAGCCATAATGGTAGACCTAGCACCCTAAAATCGAAGAGGGAAAGATT
1 -GAAGAGGGATAGGTTGAAGCCATAATGGTAGACCTAACACCCTAAAATCGAAGAGGGAAAGATT
* * *
1081348 AAAACCACAATAGTAGATCTTACACCTTAAAATC
65 GAAGCCACAATGGTAGATCTTACACCTTAAAATC
* * * * * * * *
1081382 GAAGAGGGATAGGTTGAAACCGTAATGGTGGACCTAACACCTTAAAATCAAATAGGAAAATATTG
1 GAAGAGGGATAGGTTGAAGCCATAATGGTAGACCTAACACCCTAAAATCGAAGAGGGAAAGATTG
*** ** * *
1081447 AAGCTGTAATAATAAATCTTACACCTTAAAATA
66 AAGCCACAATGGTAGATCTTACACCTTAAAATC
* * ** * ** *
1081480 AAATAGGGATAACTTAAAGCCATAATGACAGACCTAACACCCTAAAA-CTGAAGAGGGATAGATT
1 GAAGAGGGATAGGTTGAAGCCATAATGGTAGACCTAACACCCTAAAATC-GAAGAGGGAAAGATT
* * * *
1081544 GAAGCAACAATGGCAGATCTAACATC-TAACAATC
65 GAAGCCACAATGGTAGATCTTACACCTTAA-AATC
* *** * * * * * *
1081578 GAAGACGGATAGGTTGAAGTTGTAACGGTGGACCTAATACCCTAAAATTGAAAAGGGATAGATTG
1 GAAGAGGGATAGGTTGAAGCCATAATGGTAGACCTAACACCCTAAAATCGAAGAGGGAAAGATTG
* * * * * *
1081643 AAGCCGCAACGGCAGATCTAACACCCTACAATC
66 AAGCCACAATGGTAGATCTTACACCTTAAAATC
1081676 GAAGAGGGA
1 GAAGAGGGA
1081685 ACAGATTGAA
Statistics
Matches: 323, Mismatches: 71, Indels: 14
0.79 0.17 0.03
Matches are distributed among these distances:
97 4 0.01
98 314 0.97
99 5 0.02
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.20
Consensus pattern (98 bp):
GAAGAGGGATAGGTTGAAGCCATAATGGTAGACCTAACACCCTAAAATCGAAGAGGGAAAGATTG
AAGCCACAATGGTAGATCTTACACCTTAAAATC
Found at i:1081566 original size:49 final size:49
Alignment explanation
Indices: 1081186--1081723 Score: 343
Period size: 49 Copynumber: 11.0 Consensus size: 49
1081176 TCCTAGAGTT
* * *
1081186 GAAGAGGGATAGGTTGAAGCCATAATAGT-GTACCTAACACCCTAAAA-C
1 GAAGAGGGATAGATTGAAGCCATAATGGTAG-ATCTAACACCCTAAAATC
* * * * *
1081234 TGAAGAGGGAAAGATTGAAGCCACAACGGTAGATCTTACACCTTAAAA-C
1 -GAAGAGGGATAGATTGAAGCCATAATGGTAGATCTAACACCCTAAAATC
* * *
1081283 TGAAGAGGGATAGGTTGAAGCCATAATGGTAGACCTAGCACCCTAAAATC
1 -GAAGAGGGATAGATTGAAGCCATAATGGTAGATCTAACACCCTAAAATC
* * * * * * *
1081333 GAAGAGGGAAAGATTAAAACCACAATAGTAGATCTTACACCTTAAAATC
1 GAAGAGGGATAGATTGAAGCCATAATGGTAGATCTAACACCCTAAAATC
* * * * * *
1081382 GAAGAGGGATAGGTTGAAACCGTAATGGTGGACCTAACACCTTAAAATC
1 GAAGAGGGATAGATTGAAGCCATAATGGTAGATCTAACACCCTAAAATC
* * * * * ** ** * * * *
1081431 AAATAGGAAAATATTGAAGCTGTAATAATAAATCTTACACCTTAAAATA
1 GAAGAGGGATAGATTGAAGCCATAATGGTAGATCTAACACCCTAAAATC
* * * ** *
1081480 AAATAGGGATA-ACTTAAAGCCATAATGACAGACCTAACACCCTAAAA-C
1 GAAGAGGGATAGA-TTGAAGCCATAATGGTAGATCTAACACCCTAAAATC
* * * *
1081528 TGAAGAGGGATAGATTGAAGCAACAATGGCAGATCTAACA-TCTAACAATC
1 -GAAGAGGGATAGATTGAAGCCATAATGGTAGATCTAACACCCTAA-AATC
* * *** * * * * *
1081578 GAAGACGGATAGGTTGAAGTTGTAACGGTGGACCTAATACCCTAAAATT
1 GAAGAGGGATAGATTGAAGCCATAATGGTAGATCTAACACCCTAAAATC
* ** * * *
1081627 GAAAAGGGATAGATTGAAGCCGCAACGGCAGATCTAACACCCTACAATC
1 GAAGAGGGATAGATTGAAGCCATAATGGTAGATCTAACACCCTAAAATC
* * * * *
1081676 GAAGAGGGAACAGATTGAAGTCGTAACGGT-GAATCTTACACCCTAAAA
1 GAAGAGGG-ATAGATTGAAGCCATAATGGTAG-ATCTAACACCCTAAAA
1081724 AAACTGAACA
Statistics
Matches: 377, Mismatches: 102, Indels: 19
0.76 0.20 0.04
Matches are distributed among these distances:
48 5 0.01
49 333 0.88
50 39 0.10
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.20
Consensus pattern (49 bp):
GAAGAGGGATAGATTGAAGCCATAATGGTAGATCTAACACCCTAAAATC
Found at i:1083296 original size:35 final size:35
Alignment explanation
Indices: 1083239--1083305 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
1083229 TTTTACATTT
*
1083239 TATTTATTTATTTGACAGGATTTTATTTATTTATC
1 TATTTATTTATTTGACAGGATTTTAATTATTTATC
*
1083274 TATTTATTTAATTTG-CATGATTTTAATTATTT
1 TATTTATTT-ATTTGACAGGATTTTAATTATTT
1083306 TTTAATTGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 24 0.83
36 5 0.17
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.61
Consensus pattern (35 bp):
TATTTATTTATTTGACAGGATTTTAATTATTTATC
Found at i:1083298 original size:27 final size:26
Alignment explanation
Indices: 1083274--1083336 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 26
1083264 TTTATTTATC
*
1083274 TATTTATTTAATTTGCATGATTTTAAT
1 TATTT-TTTAATTGGCATGATTTTAAT
1083301 TATTTTTTAATTGGCATGATTTTTAAT
1 TATTTTTTAATTGGCATGA-TTTTAAT
1083328 TATTTTTTA
1 TATTTTTTA
1083337 TTTGTTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (26 bp):
TATTTTTTAATTGGCATGATTTTAAT
Found at i:1083339 original size:34 final size:35
Alignment explanation
Indices: 1083295--1083373 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
1083285 TTTGCATGAT
* *
1083295 TTTAATTATTT-TTTAATTGGCATGATTTTTAATTA
1 TTTATTTATTTGTTTAATTGACATG-TTTTTAATTA
*
1083330 TTT-TTTATTTGTTTAATTTACATGTTTTTAATTA
1 TTTATTTATTTGTTTAATTGACATGTTTTTAATTA
1083364 TTTATTTATT
1 TTTATTTATT
1083374 GCCCATATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
34 19 0.49
35 20 0.51
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.66
Consensus pattern (35 bp):
TTTATTTATTTGTTTAATTGACATGTTTTTAATTA
Found at i:1083347 original size:61 final size:62
Alignment explanation
Indices: 1083259--1083394 Score: 170
Period size: 61 Copynumber: 2.2 Consensus size: 62
1083249 TTTGACAGGA
* * *
1083259 TTTTATTTATTTATCTATTTATTTAATTTGCATGATTTTAATTATTT-TTTAATTG-GCATGAT
1 TTTTAATTATTTATCTATTTATTTAATTTACATGATTTTAATTATTTATTT-ATTGCCCAT-AT
* * *
1083321 TTTTAATTATTT-TTTATTTGTTTAATTTACATGTTTTTAATTATTTATTTATTGCCCATAT
1 TTTTAATTATTTATCTATTTATTTAATTTACATGATTTTAATTATTTATTTATTGCCCATAT
*
1083382 TTTTCATTATTTA
1 TTTTAATTATTTA
1083395 CATATTTGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
61 47 0.73
62 17 0.27
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (62 bp):
TTTTAATTATTTATCTATTTATTTAATTTACATGATTTTAATTATTTATTTATTGCCCATAT
Found at i:1097236 original size:3 final size:3
Alignment explanation
Indices: 1097228--1097277 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
1097218 GGCCAAGAGA
1097228 AAG AAG AAG AAG AAG AAG AATG -AG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG
1097273 AAG AA
1 AAG AA
1097278 AATGAAAAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 1 0.02
3 43 0.96
4 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:1098382 original size:15 final size:16
Alignment explanation
Indices: 1098342--1098385 Score: 65
Period size: 15 Copynumber: 2.8 Consensus size: 16
1098332 TCAATTACTT
1098342 GAAAAAGAA-AAATGA
1 GAAAAAGAAGAAATGA
1098357 GAAAAATGAAGAAA-GA
1 GAAAAA-GAAGAAATGA
1098373 GAAAAAGAAGAAA
1 GAAAAAGAAGAAA
1098386 AAAATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 13 0.48
16 11 0.41
17 3 0.11
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.05
Consensus pattern (16 bp):
GAAAAAGAAGAAATGA
Found at i:1112641 original size:19 final size:20
Alignment explanation
Indices: 1112614--1112653 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1112604 GGTAATACGC
* *
1112614 TTTTTATTTTGTTT-AATGA
1 TTTTCATTTCGTTTGAATGA
1112633 TTTTCATTTCGTTTGAATGA
1 TTTTCATTTCGTTTGAATGA
1112653 T
1 T
1112654 AATTGATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.20, C:0.05, G:0.12, T:0.62
Consensus pattern (20 bp):
TTTTCATTTCGTTTGAATGA
Found at i:1116000 original size:14 final size:15
Alignment explanation
Indices: 1115975--1116019 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
1115965 ATAGATTTAC
1115975 ATATA-ATTAATTAT
1 ATATATATTAATTAT
*
1115989 ATA-ATGTTAATTAT
1 ATATATATTAATTAT
1116003 ATATATATTAAATTAT
1 ATATATATT-AATTAT
1116019 A
1 A
1116020 CAGTTAGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 14 0.54
15 4 0.15
16 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATATATATTAATTAT
Found at i:1116853 original size:13 final size:13
Alignment explanation
Indices: 1116835--1116859 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1116825 TAACAAATGA
1116835 TTTTAAAATTATT
1 TTTTAAAATTATT
1116848 TTTTAAAATTAT
1 TTTTAAAATTAT
1116860 AAAATTATTT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAAATTATT
Found at i:1116886 original size:21 final size:21
Alignment explanation
Indices: 1116838--1116884 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
1116828 CAAATGATTT
*
1116838 TAAAATTATTTTTTAAAATTA
1 TAAAATTATTTTTTAAAATAA
*
1116859 TAAAATTATTTTTTTGAAATAA
1 TAAAATTA-TTTTTTAAAATAA
1116881 TAAA
1 TAAA
1116885 TTCATTAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TAAAATTATTTTTTAAAATAA
Found at i:1118087 original size:31 final size:30
Alignment explanation
Indices: 1118052--1118125 Score: 130
Period size: 30 Copynumber: 2.4 Consensus size: 30
1118042 ATTAAAATTA
1118052 TTTAATAATTTTATTATTTCAAAAAAATAAT
1 TTTAATAATTTTA-TATTTCAAAAAAATAAT
*
1118083 TTTAATAATTTTATATTTTAAAAAAATAAT
1 TTTAATAATTTTATATTTCAAAAAAATAAT
1118113 TTTAATAATTTTA
1 TTTAATAATTTTA
1118126 AAATCATTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 29 0.69
31 13 0.31
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (30 bp):
TTTAATAATTTTATATTTCAAAAAAATAAT
Found at i:1118110 original size:21 final size:23
Alignment explanation
Indices: 1118086--1118128 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
1118076 AAATAATTTT
1118086 AATAATTTT-AT-ATTTTAAAAA
1 AATAATTTTAATAATTTTAAAAA
1118107 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
1118129 TCATTTATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AATAATTTTAATAATTTTAAAAA
Found at i:1118975 original size:24 final size:24
Alignment explanation
Indices: 1118948--1119024 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
1118938 TTCATTGTTC
1118948 AATTTCCCTATTTATTTTCTTACA
1 AATTTCCCTATTTATTTTCTTACA
* * ** * *
1118972 AATTCACCCCATCAATTTT-ATCCTA
1 AATT-TCCCTATTTATTTTCTTAC-A
*
1118997 ATTTTCCCTATTTATTTTCTTACA
1 AATTTCCCTATTTATTTTCTTACA
1119021 AATT
1 AATT
1119025 CACCCCATCA
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
24 20 0.56
25 16 0.44
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.49
Consensus pattern (24 bp):
AATTTCCCTATTTATTTTCTTACA
Found at i:1118989 original size:25 final size:25
Alignment explanation
Indices: 1118961--1119039 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
1118951 TTCCCTATTT
1118961 ATTTTCTTACAAATTCACCCCATCA
1 ATTTTCTTACAAATTCACCCCATCA
* * * ** * **
1118986 ATTTT-ATCCTAATTTTCCCTATTT
1 ATTTTCTTACAAATTCACCCCATCA
1119010 ATTTTCTTACAAATTCACCCCATCA
1 ATTTTCTTACAAATTCACCCCATCA
1119035 ATTTT
1 ATTTT
1119040 ATTTTTTTAT
Statistics
Matches: 37, Mismatches: 16, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
24 16 0.43
25 21 0.57
ACGTcount: A:0.28, C:0.27, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTTTCTTACAAATTCACCCCATCA
Found at i:1119297 original size:14 final size:14
Alignment explanation
Indices: 1119274--1119366 Score: 50
Period size: 14 Copynumber: 6.4 Consensus size: 14
1119264 TTTAATCCCT
*
1119274 TTTATATGTATTTA
1 TTTATTTGTATTTA
1119288 TTTATTTGTA-TTA
1 TTTATTTGTATTTA
*
1119301 TTTTATTTGTTTTGGGTA
1 -TTTATTTGTATT---TA
* *
1119319 TTGAATGTGTATTTA
1 TT-TATTTGTATTTA
*
1119334 TCTA-TTGCT-TTTA
1 TTTATTTG-TATTTA
1119347 TTT-TATTGTATTTA
1 TTTAT-TTGTATTTA
1119361 TTTATT
1 TTTATT
1119367 CATTCATTCT
Statistics
Matches: 59, Mismatches: 9, Indels: 22
0.66 0.10 0.24
Matches are distributed among these distances:
13 12 0.20
14 31 0.53
15 5 0.08
17 2 0.03
18 9 0.15
ACGTcount: A:0.20, C:0.02, G:0.12, T:0.66
Consensus pattern (14 bp):
TTTATTTGTATTTA
Found at i:1121457 original size:22 final size:20
Alignment explanation
Indices: 1121418--1121463 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
1121408 AAAATAAAAT
**
1121418 AAAAAAATACAATTAAATACA
1 AAAAAAATACAAACAAATA-A
1121439 AAAAATAATACAAACAAATAA
1 AAAAA-AATACAAACAAATAA
1121460 AAAA
1 AAAA
1121464 TAGTTGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAAAAATACAAACAAATAA
Found at i:1121686 original size:13 final size:12
Alignment explanation
Indices: 1121611--1121700 Score: 56
Period size: 13 Copynumber: 7.0 Consensus size: 12
1121601 AATATGTAAT
1121611 TAAATAA-AAAA
1 TAAATAATAAAA
*
1121622 TAAAAAATATAAA
1 TAAATAATA-AAA
** *
1121635 TGGCATAAAAATAA
1 T-AAATAATAA-AA
1121649 TAAATAAATAAAA
1 TAAAT-AATAAAA
*
1121662 TTAAATACTAAAA
1 -TAAATAATAAAA
1121675 TAAATGAATAAATA
1 TAAAT-AATAAA-A
*
1121689 CAAATAATAAAA
1 TAAATAATAAAA
1121701 AATAAAAGGG
Statistics
Matches: 60, Mismatches: 11, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
11 6 0.10
12 7 0.12
13 26 0.43
14 21 0.35
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (12 bp):
TAAATAATAAAA
Found at i:1121693 original size:26 final size:26
Alignment explanation
Indices: 1121612--1121700 Score: 67
Period size: 26 Copynumber: 3.4 Consensus size: 26
1121602 ATATGTAATT
*
1121612 AAATAA-AAAATAAA-AAATATAAATG
1 AAATAATAAAATAAATAAATA-AAATC
** * *
1121637 GCATAAAAATAATAAATAAATAAAATT
1 AAATAATAA-AATAAATAAATAAAATC
* *
1121664 AAATACTAAAATAAATGAAT-AAATAC
1 AAATAATAAAATAAATAAATAAAAT-C
1121690 AAATAATAAAA
1 AAATAATAAAA
1121701 AATAAAAGGG
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
25 8 0.16
26 22 0.44
27 15 0.30
28 5 0.10
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (26 bp):
AAATAATAAAATAAATAAATAAAATC
Found at i:1121704 original size:20 final size:19
Alignment explanation
Indices: 1121641--1121706 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
1121631 TAAATGGCAT
1121641 AAAAAT-AATA-AATAAAT-
1 AAAAATAAATACAA-AAATA
* *
1121658 AAAATTAAATACTAAAATA
1 AAAAATAAATACAAAAATA
*
1121677 AATGAATAAATACAAATAATA
1 AA-AAATAAATACAAA-AATA
1121698 AAAAATAAA
1 AAAAATAAA
1121707 AGGGACTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
17 5 0.13
18 8 0.21
19 3 0.08
20 16 0.42
21 6 0.16
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAATAAATACAAAAATA
Found at i:1123805 original size:51 final size:51
Alignment explanation
Indices: 1123657--1124167 Score: 244
Period size: 51 Copynumber: 10.1 Consensus size: 51
1123647 GCTCTATTAT
* * * *
1123657 AACTTCAGAGAGATAAA-ATTTGCTTCTATAGCTTCAATCCGATCCACTGC
1 AACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTTAATTCGATCCACTGC
* * * * * * * * * *
1123707 CACTTCAAGGATAT-AGGATTTGATGTC-GTAGCTTCATTTTGCTCCACTAC
1 AACTTCAGGGAGATAAAGATTTGCT-TCTGTAGCTTTAATTCGATCCACTGC
* *
1123757 AACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTTAATTCGACCCACTGT
1 AACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTTAATTCGATCCACTGC
* * * * * * *
1123808 AACTTTAGGG-GTATAAA-ATTTGGGGTT-T-TAGC-TTCATCTTGTTCTACTGT
1 AACTTCAGGGAG-ATAAAGATTT--GCTTCTGTAGCTTTAAT-TCGATCCACTGC
* * * *
1123858 AACTTCAGAGAGATAAAGATTTGCTACTGT-GACTTTAATCCCATCCACTGC
1 AACTTCAGGGAGATAAAGATTTGCTTCTGTAG-CTTTAATTCGATCCACTGC
* ** * * * * * * *
1123909 CACTTCAGGGTTAT-AGGATTTGATGTC-GTAGC-TTCATCTTGCTCTACTAC
1 AACTTCAGGGAGATAAAGATTTGCT-TCTGTAGCTTTAAT-TCGATCCACTGC
* * * * * *
1123959 AACTTCAAGGAGAT-AAGATTTGGTTCTGAAACTTTCAATCCGATCCATTGC
1 AACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTT-AATTCGATCCACTGC
* * * * * * * * *
1124010 AACTTCAAGGATAT-AGGATTCGATT-TGCAGCTTT-ATCTTGCTCCACTGT
1 AACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTTAAT-TCGATCCACTGC
* * * * * *
1124059 AACTTCAGGGAGATAAAAACTTGCTACTGTAGCTTTAATCCAATCCACTGT
1 AACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTTAATTCGATCCACTGC
* * * * * *
1124110 AACTTCAAGGAGATAAAGACTTGCTACTGTAGCTTTAATCCAATCCACTGT
1 AACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTTAATTCGATCCACTGC
1124161 AACTTCA
1 AACTTCA
1124168 AGGATATAGG
Statistics
Matches: 340, Mismatches: 97, Indels: 47
0.70 0.20 0.10
Matches are distributed among these distances:
48 2 0.01
49 32 0.09
50 128 0.38
51 167 0.49
52 11 0.03
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (51 bp):
AACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTTAATTCGATCCACTGC
Found at i:1123829 original size:101 final size:101
Alignment explanation
Indices: 1123643--1124120 Score: 487
Period size: 101 Copynumber: 4.8 Consensus size: 101
1123633 TATAGTTTCG
* * * * * *
1123643 TCTTGCTCTATTATAACTTCAGAGAGATAAA-ATTTGCTTCTATAGCTTCAATCCGATCCACTGC
1 TCTTGCTCCACTACAACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTTAATCCGATCCACTGC
*
1123707 CACTTCAAGGATATAGGATTTGATGTCGTAGCTTCA
66 AACTTCAAGGATATAGGATTTGATGTCGTAGCTTCA
* * * *
1123743 TTTTGCTCCACTACAACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTTAATTCGACCCACTGT
1 TCTTGCTCCACTACAACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTTAATCCGATCCACTGC
* * * ** ** **
1123808 AACTTTAGGGGTATAAAATTTGGGGTTTTAGCTTCA
66 AACTTCAAGGATATAGGATTTGATGTCGTAGCTTCA
* * ** * * *
1123844 TCTTGTTCTACTGTAACTTCAGAGAGATAAAGATTTGCTACTGT-GACTTTAATCCCATCCACTG
1 TCTTGCTCCACTACAACTTCAGGGAGATAAAGATTTGCTTCTGTAG-CTTTAATCCGATCCACTG
* * *
1123908 CCACTTCAGGGTTATAGGATTTGATGTCGTAGCTTCA
65 CAACTTCAAGGATATAGGATTTGATGTCGTAGCTTCA
* * * * * *
1123945 TCTTGCTCTACTACAACTTCAAGGAGAT-AAGATTTGGTTCTGAAACTTTCAATCCGATCCATTG
1 TCTTGCTCCACTACAACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTT-AATCCGATCCACTG
* * * *
1124009 CAACTTCAAGGATATAGGATTCGAT-TTGCAGCTTTA
65 CAACTTCAAGGATATAGGATTTGATGTCGTAGCTTCA
** * * * * *
1124045 TCTTGCTCCACTGTAACTTCAGGGAGATAAAAACTTGCTACTGTAGCTTTAATCCAATCCACTGT
1 TCTTGCTCCACTACAACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTTAATCCGATCCACTGC
1124110 AACTTCAAGGA
66 AACTTCAAGGA
1124121 GATAAAGACT
Statistics
Matches: 302, Mismatches: 71, Indels: 10
0.79 0.19 0.03
Matches are distributed among these distances:
100 98 0.32
101 204 0.68
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (101 bp):
TCTTGCTCCACTACAACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTTAATCCGATCCACTGC
AACTTCAAGGATATAGGATTTGATGTCGTAGCTTCA
Found at i:1123912 original size:202 final size:200
Alignment explanation
Indices: 1123620--1124120 Score: 576
Period size: 201 Copynumber: 2.5 Consensus size: 200
1123610 ATTTAGGGAG
* * * * * * * *
1123620 ATAAGATTTGGTTTATAGTTTCGTCTTGCTCTATTATAACTTCAGAGAGATAAAATTTGCTTCTA
1 ATAAAATTCGGTTTATAGCTTCATCTTGCTCTACTGTAACTTCAGAGAGATAAAATTTGCTACTG
* * *
1123685 TAGCTTCAATCCGATCCACTGCCACTTCAAGGATATAGGATTTGATGTCGTAGCTTCATTTTGCT
66 TAGCTTTAATCCAATCCACTGCCACTTCAAGGATATAGGATTTGATGTCGTAGCTTCATCTTGCT
* * * * * *
1123750 CCACTACAACTTCAGGGAGATAAAGATTTGCTTCTGTAGCTTT-AATTCGACCCACTGTAACTTT
131 CCACTACAACTTCAAGGAGAT-AAGATTTGCTTCTGAAACTTTCAATCCGACCCACTGCAACTTC
* *
1123814 AGGGGT
195 AAGGAT
* *
1123820 ATAAAATTTGGGGTTT-TAGCTTCATCTTGTTCTACTGTAACTTCAGAGAGATAAAGATTTGCTA
1 ATAAAA-TT-CGGTTTATAGCTTCATCTTGCTCTACTGTAACTTCAGAGAGATAAA-ATTTGCTA
* * *
1123884 CTGT-GACTTTAATCCCATCCACTGCCACTTCAGGGTTATAGGATTTGATGTCGTAGCTTCATCT
63 CTGTAG-CTTTAATCCAATCCACTGCCACTTCAAGGATATAGGATTTGATGTCGTAGCTTCATCT
* * * *
1123948 TGCTCTACTACAACTTCAAGGAGATAAGATTTGGTTCTGAAACTTTCAATCCGATCCATTGCAAC
127 TGCTCCACTACAACTTCAAGGAGATAAGATTTGCTTCTGAAACTTTCAATCCGACCCACTGCAAC
1124013 TTCAAGGAT
192 TTCAAGGAT
** * ** * * * *
1124022 ATAGGATTCGATTTGCAGCTTTATCTTGCTCCACTGTAACTTCAGGGAGATAAAAACTTGCTACT
1 ATAAAATTCGGTTTATAGCTTCATCTTGCTCTACTGTAACTTCAGAGAGAT-AAAATTTGCTACT
**
1124087 GTAGCTTTAATCCAATCCACTGTAACTTCAAGGA
65 GTAGCTTTAATCCAATCCACTGCCACTTCAAGGA
1124121 GATAAAGACT
Statistics
Matches: 252, Mismatches: 41, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
200 9 0.04
201 124 0.49
202 119 0.47
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (200 bp):
ATAAAATTCGGTTTATAGCTTCATCTTGCTCTACTGTAACTTCAGAGAGATAAAATTTGCTACTG
TAGCTTTAATCCAATCCACTGCCACTTCAAGGATATAGGATTTGATGTCGTAGCTTCATCTTGCT
CCACTACAACTTCAAGGAGATAAGATTTGCTTCTGAAACTTTCAATCCGACCCACTGCAACTTCA
AGGAT
Found at i:1146432 original size:23 final size:23
Alignment explanation
Indices: 1146406--1146450 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
1146396 GTCAATTGTT
*
1146406 AACGGTCCTGTTCGATCAAAGTC
1 AACGGTCCTATTCGATCAAAGTC
1146429 AACGGTCCTATTCGATCAAAGT
1 AACGGTCCTATTCGATCAAAGT
1146451 TAATGGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (23 bp):
AACGGTCCTATTCGATCAAAGTC
Done.