Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold349
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: 1036866
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 4 of 6
Found at i:551109 original size:13 final size:13
Alignment explanation
Indices: 551079--551108 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
551069 ATGATTCCAC
551079 AAAAAGCAAAAGG
1 AAAAAGCAAAAGG
551092 AAAAAG-AAAAGG
1 AAAAAGCAAAAGG
551104 AAAAA
1 AAAAA
551109 ATTAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAGCAAAAGG
Found at i:555374 original size:389 final size:389
Alignment explanation
Indices: 554645--555435 Score: 1314
Period size: 389 Copynumber: 2.0 Consensus size: 389
554635 TGAAGTTCAT
* * * * *
554645 GAATAATAATCGTTAAAATGTAGTCATTTGAAGTTCATTAAAAAGTTCAAAGATTTCTTGCATTC
1 GAATAATTATCATTAAAATGCAGTCATTTAAAGTTCATTAAAAAGTTCAAAGATTTCTTACATTC
* * *
554710 ATTTGTAAGCAATTAAGCACATGTGAGATTATGAGTAGATAAGACATACAAACTATCATTAAAAT
66 ATTCGTAAGCAAATAAGCACATGTAAGATTATGAGTAGATAAGACATACAAACTATCATTAAAAT
*
554775 AAATGCCAATTATTGTCTATACGCATAATTAATACCTATTATAGAAATTTTAGTTTACATATGCA
131 AAATGCCAATTATTATCTATACGCATAATTAATACCTATTATAGAAATTTTAGTTTACATATGCA
* * * *
554840 TACTACTCATAAACAATCAACTCTATGGAAAATTAAAATCTTTTTCAAGTAAGACATAGGAAGCT
196 TACTACTCATAAACAATCAACTCTAAGGAAAATTAAAATATTTTTCAAGTAAGACATAGCAAACT
*
554905 TCCGTAGGTTAGAAAATTATATGCTCATGCAGGATATTTGACAACAAAATCTATAGACACCTAAT
261 TCCATAGGTTAGAAAATTATATGCTCATGCAGGATATTTGACAACAAAATCTATAGACACCTAAT
554970 TTTGTTCGGGTCTTTGTACTAGCATCTCAAGGCATCATCTAAGCTATATGTCCAAGCTTGAGTC
326 TTTGTTCGGGTCTTTGTACTAGCATCTCAAGGCATCATCTAAGCTATATGTCCAAGCTTGAGTC
* * * * *
555034 TAATAATTATCATTAAAATGCAGTCATTTAAATTTCATTAAAGAGTTCAAAGATTTTTTATATTC
1 GAATAATTATCATTAAAATGCAGTCATTTAAAGTTCATTAAAAAGTTCAAAGATTTCTTACATTC
* * * * *
555099 ATTCGTAAGCAAATAAGTACATTTAAGATTATGAGTAGATAAGACATACTAATTATTATTAAAAT
66 ATTCGTAAGCAAATAAGCACATGTAAGATTATGAGTAGATAAGACATACAAACTATCATTAAAAT
* *
555164 AAATGCCAATTATTATCTATATGCATAATTGATACCTATTATAGAAATTTTAGTTTACATATGCA
131 AAATGCCAATTATTATCTATACGCATAATTAATACCTATTATAGAAATTTTAGTTTACATATGCA
555229 TACTACTCATAAACAATCAAC-CATAAGGAAAATTAAAATATTTTTCAAGTAAGACATAGCAAAC
196 TACTACTCATAAACAATCAACTC-TAAGGAAAATTAAAATATTTTTCAAGTAAGACATAGCAAAC
* *
555293 TTCCATAGGTTAGAAAATTATATGCTCATGTAGGATATTTGACAATAAAATCTATAGACACCTAA
260 TTCCATAGGTTAGAAAATTATATGCTCATGCAGGATATTTGACAACAAAATCTATAGACACCTAA
555358 TTTTGTTCGGGTCTTTGTACTAGCATCTCAAGGCATCATCTAAGCTATATGTCCAAGCTTGAGTC
325 TTTTGTTCGGGTCTTTGTACTAGCATCTCAAGGCATCATCTAAGCTATATGTCCAAGCTTGAGTC
555423 GAATAATTATCAT
1 GAATAATTATCAT
555436 CTTGAGCTAA
Statistics
Matches: 372, Mismatches: 29, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
388 1 0.00
389 371 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (389 bp):
GAATAATTATCATTAAAATGCAGTCATTTAAAGTTCATTAAAAAGTTCAAAGATTTCTTACATTC
ATTCGTAAGCAAATAAGCACATGTAAGATTATGAGTAGATAAGACATACAAACTATCATTAAAAT
AAATGCCAATTATTATCTATACGCATAATTAATACCTATTATAGAAATTTTAGTTTACATATGCA
TACTACTCATAAACAATCAACTCTAAGGAAAATTAAAATATTTTTCAAGTAAGACATAGCAAACT
TCCATAGGTTAGAAAATTATATGCTCATGCAGGATATTTGACAACAAAATCTATAGACACCTAAT
TTTGTTCGGGTCTTTGTACTAGCATCTCAAGGCATCATCTAAGCTATATGTCCAAGCTTGAGTC
Found at i:558657 original size:14 final size:15
Alignment explanation
Indices: 558638--558675 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
558628 TTACTATAAA
*
558638 TTTCAAT-TAGATGT
1 TTTCAATATAGAAGT
558652 TTTCAATATAGAAGT
1 TTTCAATATAGAAGT
*
558667 ATTCAATAT
1 TTTCAATAT
558676 GACACTTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.45
Consensus pattern (15 bp):
TTTCAATATAGAAGT
Found at i:559730 original size:12 final size:13
Alignment explanation
Indices: 559708--559737 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
559698 AAGATTCCAC
559708 AAAAAGCAAAAGG
1 AAAAAGCAAAAGG
559721 AAAAAG-AAAAGG
1 AAAAAGCAAAAGG
559733 AAAAA
1 AAAAA
559738 ATAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAGCAAAAGG
Found at i:563812 original size:13 final size:13
Alignment explanation
Indices: 563794--563820 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
563784 ACATAAAGTG
563794 TTGTATCGATACA
1 TTGTATCGATACA
563807 TTGTATCGATACA
1 TTGTATCGATACA
563820 T
1 T
563821 AAGTTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:563835 original size:32 final size:33
Alignment explanation
Indices: 563774--563838 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
563764 TTTCAACGAT
563774 TTGTATCGATACATAAAGTGTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
*
563807 TTGTATCGATACAT-AAGTTTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
563839 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATAAAGTGTTGTATCGATACA
Found at i:563899 original size:13 final size:13
Alignment explanation
Indices: 563881--563905 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
563871 ATTACTCAAA
563881 TGTATCGATACAT
1 TGTATCGATACAT
563894 TGTATCGATACA
1 TGTATCGATACA
563906 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:563957 original size:52 final size:52
Alignment explanation
Indices: 563914--564042 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
563904 CACTGATCTT
* *
563914 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
563966 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
564018 TATATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
564043 TCATATTTCC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:580274 original size:21 final size:21
Alignment explanation
Indices: 580244--580290 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
580234 ATATTCCATG
580244 TTATG-TATGATTCATGCATT
1 TTATGATATGATTCATGCATT
580264 TTATGATATGATTCATGCATT
1 TTATGATATGATTCATGCATT
580285 TTATGA
1 TTATGA
580291 CATTTTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.49
Consensus pattern (21 bp):
TTATGATATGATTCATGCATT
Found at i:580641 original size:59 final size:58
Alignment explanation
Indices: 580543--580657 Score: 151
Period size: 59 Copynumber: 2.0 Consensus size: 58
580533 TTCTTGCATA
* * * *
580543 TTAGGGATTTTTGTGTTATTTCATGCATTTCTATGTCATTCTAGTCATTTGCCATGGC
1 TTAGGGATTTTTATGTCATTCCATGCATTTCTATCTCATTCTAGTCATTTGCCATGGC
* *
580601 TTAGGGATTTTTAATGTCATTCCATGCATTT-TGATCTCATTTTAGTCATTTTCCATG
1 TTAGGGATTTTT-ATGTCATTCCATGCATTTCT-ATCTCATTCTAGTCATTTGCCATG
580658 ACATAAGGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
58 13 0.27
59 36 0.73
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.49
Consensus pattern (58 bp):
TTAGGGATTTTTATGTCATTCCATGCATTTCTATCTCATTCTAGTCATTTGCCATGGC
Found at i:580693 original size:29 final size:29
Alignment explanation
Indices: 580661--580750 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
580651 TTCCATGACA
*
580661 TAAGGACTTCTATGCAATTTCATGCATTT
1 TAAGGACTTTTATGCAATTTCATGCATTT
* * * *
580690 TAAGGTCTTTTAGGTCATTTTTCATG-A-TC
1 TAAGGACTTTTATG-CA-ATTTCATGCATTT
*
580719 TAGGGA-TTTTAATGCAATTTCATGCATTT
1 TAAGGACTTTT-ATGCAATTTCATGCATTT
580748 TAA
1 TAA
580751 AGTCTAGGTT
Statistics
Matches: 45, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
27 7 0.16
28 7 0.16
29 21 0.47
30 3 0.07
31 7 0.16
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (29 bp):
TAAGGACTTTTATGCAATTTCATGCATTT
Found at i:580707 original size:58 final size:57
Alignment explanation
Indices: 580640--580779 Score: 155
Period size: 58 Copynumber: 2.5 Consensus size: 57
580630 TTTGATCTCA
*
580640 TTTTAGTCATTTTCCATGA-CATAAGGACTTCT-ATGCAATTTCATGCATTTTAAGGTC
1 TTTTAGTCATTTTCCATGATC-TAAGGA-TTCTAATGCAATTTCATGCATTTTAAAGTC
* * *
580697 TTTTAGGTCATTTTTCATGATCTAGGGATTTTAATGCAATTTCATGCATTTTAAAGTC
1 TTTTA-GTCATTTTCCATGATCTAAGGATTCTAATGCAATTTCATGCATTTTAAAGTC
* *
580755 ---TAGGTTATTTTCCATAATCTAAGGA
1 TTTTA-GTCATTTTCCATGATCTAAGGA
580780 AATTTCTAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
55 21 0.29
57 8 0.11
58 42 0.58
59 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (57 bp):
TTTTAGTCATTTTCCATGATCTAAGGATTCTAATGCAATTTCATGCATTTTAAAGTC
Found at i:585074 original size:20 final size:20
Alignment explanation
Indices: 585046--585084 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
585036 TCAAGTGCAT
*
585046 GTATAGATACATTATAAAAA
1 GTATAGATACATAATAAAAA
*
585066 GTATCGATACATAATAAAA
1 GTATAGATACATAATAAAA
585085 GGAATGCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (20 bp):
GTATAGATACATAATAAAAA
Found at i:591851 original size:13 final size:13
Alignment explanation
Indices: 591832--591862 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
591822 GCAATTCATC
591832 ATGTATCGATACA
1 ATGTATCGATACA
*
591845 TTGTATCGATACA
1 ATGTATCGATACA
591858 ATGTA
1 ATGTA
591863 CCATGTATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:591868 original size:33 final size:33
Alignment explanation
Indices: 591813--591876 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
591803 TTAGAAGCAA
* * *
591813 TGTATCGATGCAATTCATCATGTATCGATACAT
1 TGTATCGATACAATTCACCATGTATCAATACAT
591846 TGTATCGATACAATGT-ACCATGTATCAATAC
1 TGTATCGATACAAT-TCACCATGTATCAATAC
591877 GACAGTGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATTCACCATGTATCAATACAT
Found at i:591949 original size:19 final size:19
Alignment explanation
Indices: 591906--591956 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
591896 CTACCAGTTT
*
591906 CATGTATCGATACAATTGT
1 CATGTATCGATACAATTGA
591925 CTATGTATCGATAC-ATTGAA
1 C-ATGTATCGATACAATTG-A
591945 CATGTATCGATA
1 CATGTATCGATA
591957 TAATGTATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
CATGTATCGATACAATTGA
Found at i:592928 original size:13 final size:13
Alignment explanation
Indices: 592910--592934 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
592900 CATAAAGTGT
592910 TGTATCGATACAA
1 TGTATCGATACAA
592923 TGTATCGATACA
1 TGTATCGATACA
592935 TATTTTTTTG
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:592932 original size:33 final size:33
Alignment explanation
Indices: 592890--592956 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
592880 TTCAACGATT
592890 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
592923 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
592956 T
1 T
592957 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:593015 original size:13 final size:13
Alignment explanation
Indices: 592997--593058 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
592987 ATTACTCAAA
592997 TGTATCGATACAT
1 TGTATCGATACAT
593010 TGTATCGATACA-
1 TGTATCGATACAT
593022 T-TACTC-A-A-A-
1 TGTA-TCGATACAT
593031 TGTATCGATACAT
1 TGTATCGATACAT
*
593044 TGTATCAATACAT
1 TGTATCGATACAT
593057 TG
1 TG
593059 ATCTTTGTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
9 4 0.10
10 4 0.10
11 4 0.10
12 4 0.10
13 26 0.62
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:593019 original size:34 final size:34
Alignment explanation
Indices: 592976--593057 Score: 155
Period size: 34 Copynumber: 2.4 Consensus size: 34
592966 TGCCAAAAAA
592976 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
593010 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
*
593044 TGTATCAATACATT
1 TGTATCGATACATT
593058 GATCTTTGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (34 bp):
TGTATCGATACATTACTCAAATGTATCGATACAT
Found at i:593120 original size:52 final size:52
Alignment explanation
Indices: 593064--593188 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
593054 CATTGATCTT
*
593064 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
593116 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
593168 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
593189 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:603833 original size:13 final size:13
Alignment explanation
Indices: 603814--603844 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
603804 ACAATTCATT
603814 ATGTATCGATACA
1 ATGTATCGATACA
*
603827 TTGTATCGATACA
1 ATGTATCGATACA
603840 ATGTA
1 ATGTA
603845 CCATGTATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:603851 original size:33 final size:33
Alignment explanation
Indices: 603795--603857 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
603785 TTAGAAGCAA
**
603795 TGTATCGATACAATTCATTATGTATCGATACAT
1 TGTATCGATACAATTCACCATGTATCGATACAT
603828 TGTATCGATACAATGT-ACCATGTATCGATA
1 TGTATCGATACAAT-TCACCATGTATCGATA
603858 TAGGTAGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATTCACCATGTATCGATACAT
Found at i:603915 original size:20 final size:20
Alignment explanation
Indices: 603889--603975 Score: 77
Period size: 19 Copynumber: 4.8 Consensus size: 20
603879 CCACCAGTTT
*
603889 CATGTATCGATACAATTG-T
1 CATGTATCGATACAATTGAA
603908 CTATGTATCGATAC-ATTGAA
1 C-ATGTATCGATACAATTGAA
*
603928 CATGTATTGATACAA-TG--
1 CATGTATCGATACAATTGAA
603945 C----ATCGATAC-ATTGAA
1 CATGTATCGATACAATTGAA
603960 CATGTATCGATACAAT
1 CATGTATCGATACAAT
603976 GTATCGATAC
Statistics
Matches: 54, Mismatches: 3, Indels: 21
0.69 0.04 0.27
Matches are distributed among these distances:
12 1 0.02
13 9 0.17
15 1 0.02
17 1 0.02
19 26 0.48
20 16 0.30
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:603955 original size:32 final size:32
Alignment explanation
Indices: 603914--603986 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
603904 TTGTCTATGT
*
603914 ATCGATACATTGAACATGTATTGATACAATGC
1 ATCGATACATTGAACATGTATCGATACAATGC
*
603946 ATCGATACATTGAACATGTATCGATACAATGT
1 ATCGATACATTGAACATGTATCGATACAATGC
603978 ATCGATACA
1 ATCGATACA
603987 AAGCATAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (32 bp):
ATCGATACATTGAACATGTATCGATACAATGC
Found at i:603979 original size:13 final size:13
Alignment explanation
Indices: 603961--603987 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
603951 TACATTGAAC
603961 ATGTATCGATACA
1 ATGTATCGATACA
603974 ATGTATCGATACA
1 ATGTATCGATACA
603987 A
1 A
603988 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:607084 original size:20 final size:20
Alignment explanation
Indices: 607038--607086 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
607028 CATTGTATTG
*
607038 ATACATAGTAAAAAGTATCC
1 ATACATTGTAAAAAGTATCC
607058 ATACATTGTAAAAAGTATCC
1 ATACATTGTAAAAAGTATCC
607078 ATACATTGT
1 ATACATTGT
607087 GCCCAACGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (20 bp):
ATACATTGTAAAAAGTATCC
Found at i:607518 original size:23 final size:23
Alignment explanation
Indices: 607491--607534 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
607481 GCATACAACC
*
607491 TTGGGTTATAATCTCTT-AAGAAT
1 TTGGGGTATAAT-TCTTGAAGAAT
607514 TTGGGGTATAATTCTTGAAGA
1 TTGGGGTATAATTCTTGAAGA
607535 GATTAAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.41
Consensus pattern (23 bp):
TTGGGGTATAATTCTTGAAGAAT
Found at i:609208 original size:20 final size:21
Alignment explanation
Indices: 609183--609236 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
609173 AGAAAGAAAT
609183 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGCAA
***
609203 TGTATCGATACATGCTTGCAA
1 TGTATCGATACATAAGTGCAA
609224 TGTATCGATACAT
1 TGTATCGATACAT
609237 TTCTCAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATAAGTGCAA
Found at i:609300 original size:50 final size:50
Alignment explanation
Indices: 609222--609316 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
609212 ACATGCTTGC
609222 AATGTATCGATACATTTCTCAATATATCGATACATTCTGGGTTTTAATCA
1 AATGTATCGATACATTTCTCAATATATCGATACATTCTGGGTTTTAATCA
* * *
609272 AATGTATCGATACATTTCTCATTGTATCGATACATTCTTGGTTTT
1 AATGTATCGATACATTTCTCAATATATCGATACATTCTGGGTTTT
609317 TGACACAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (50 bp):
AATGTATCGATACATTTCTCAATATATCGATACATTCTGGGTTTTAATCA
Found at i:609355 original size:52 final size:50
Alignment explanation
Indices: 609222--609358 Score: 161
Period size: 50 Copynumber: 2.7 Consensus size: 50
609212 ACATGCTTGC
* *
609222 AATGTATCGATACATTTCTCAATATATCGATACATTCTGGGTTTTAATCA
1 AATGCATCGATACATTTCTCAATGTATCGATACATTCTGGGTTTTAATCA
* * *
609272 AATGTATCGATACATTTCTCATTGTATCGATACATTCTTGGTTTTTGACA-CA
1 AATGCATCGATACATTTCTCAATGTATCGATACATTC-TGGGTTTT-A-ATCA
* *
609324 ATTGCCTCGATACA-TTCTTCAATGTATCGATACAT
1 AATGCATCGATACATTTC-TCAATGTATCGATACAT
609359 GCATGCTATT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
50 35 0.46
51 10 0.13
52 30 0.39
53 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (50 bp):
AATGCATCGATACATTTCTCAATGTATCGATACATTCTGGGTTTTAATCA
Found at i:611871 original size:81 final size:79
Alignment explanation
Indices: 611738--612033 Score: 269
Period size: 81 Copynumber: 3.7 Consensus size: 79
611728 ACATTAACCC
* * * * * *
611738 CCCCATTTTCACTTCTAAAATATCAAA-TTTTCATC-TC-AGGGACATTGCAACCCCATCATTTT
1 CCCCGTTTT-ACTTCCAAAATATCAAATTTTTCACCATCGA-GGATACTCCAACCCCATCATTTT
611800 CAAGGGGATACTCCAA
64 CAAGGGGATACTCCAA
* * *
611816 CCCCGTTTCTCCTTCCAAAAGCATCAAATTTTTCACCATC-AGTGGTACTCCAACCCCATCA-TT
1 CCCCGTTT-TACTTCCAAAA-TATCAAATTTTTCACCATCGAG-GATACTCCAACCCCATCATTT
611879 TCTAAGGGGATACTCCAA
63 TC-AAGGGGATACTCCAA
** * * * * *
611897 TCCTGGTTTTACTTCCATAATATTGAATTTTTTCACCATCGAGGATAATCCAACCCCAACATTTT
1 -CCCCGTTTTACTTCCAAAATA-TCAAATTTTTCACCATCGAGGATACTCCAACCCCATCATTTT
* * *
611962 CGAGGGAATACTCTAA
64 CAAGGGGATACTCCAA
** * *
611978 CCCTATTTTTACTTCCAAAATATCAAAATTTTCACTATCGAGGATACTCCAACCCC
1 CCC-CGTTTTACTTCCAAAATATCAAATTTTTCACCATCGAGGATACTCCAACCCC
612034 GTTTCTCTTT
Statistics
Matches: 176, Mismatches: 31, Indels: 20
0.78 0.14 0.09
Matches are distributed among these distances:
78 15 0.09
79 7 0.04
80 44 0.25
81 98 0.56
82 12 0.07
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (79 bp):
CCCCGTTTTACTTCCAAAATATCAAATTTTTCACCATCGAGGATACTCCAACCCCATCATTTTCA
AGGGGATACTCCAA
Found at i:612032 original size:52 final size:53
Alignment explanation
Indices: 611969--612088 Score: 136
Period size: 53 Copynumber: 2.3 Consensus size: 53
611959 TTTCGAGGGA
* * * *
611969 ATACTCTAACCCTATTTTTAC-TTCCAAAA-TATCAAAATTTTCACTATCGAGG
1 ATACTCCAACCCTATTTCT-CTTTCCAAAAGCATCAAAATTTTCACCATCGAGG
** * *
612021 ATACTCCAACCCCGTTTCTCTTTCCAAAAGCATCAAATTTTTCACCATCGGGG
1 ATACTCCAACCCTATTTCTCTTTCCAAAAGCATCAAAATTTTCACCATCGAGG
*
612074 ATACTTCAACCCTAT
1 ATACTCCAACCCTAT
612089 CATTCTCGAG
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
51 1 0.02
52 23 0.42
53 31 0.56
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.33
Consensus pattern (53 bp):
ATACTCCAACCCTATTTCTCTTTCCAAAAGCATCAAAATTTTCACCATCGAGG
Found at i:612064 original size:133 final size:133
Alignment explanation
Indices: 611925--612166 Score: 367
Period size: 133 Copynumber: 1.8 Consensus size: 133
611915 AATATTGAAT
* * *
611925 TTTTTCACCATCGAGGATAATCCAACCCCAACATTTTCGAGGGAATACTCTAACCCTATTTTTAC
1 TTTTTCACCATCGAGGATAATCCAACCCCAACATTCTCGAGGGAATACTCCAACCCCATTTTTAC
*
611990 TTCCAAAATATCAAAATTTTCACTATCGAGGATACTCCAACCCCGTTTCTCTTTCCAAAAGCATC
66 TTCCAAAATATCAAAATTTTCACCATCGAGGATACTCCAACCCCGTTTCTCTTTCCAAAAGCATC
612055 AAA
131 AAA
* * * * * * *
612058 TTTTTCACCATCGGGGATACTTCAACCCTATCATTCTCGAGGGGATACTCCAACCCCGTTTTTAC
1 TTTTTCACCATCGAGGATAATCCAACCCCAACATTCTCGAGGGAATACTCCAACCCCATTTTTAC
* *
612123 TTTCAAAATATCAAAATTTTCACCATCGGGGATACTCCAACCCC
66 TTCCAAAATATCAAAATTTTCACCATCGAGGATACTCCAACCCC
612167 ATTATTTCTG
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 96 1.00
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.31
Consensus pattern (133 bp):
TTTTTCACCATCGAGGATAATCCAACCCCAACATTCTCGAGGGAATACTCCAACCCCATTTTTAC
TTCCAAAATATCAAAATTTTCACCATCGAGGATACTCCAACCCCGTTTCTCTTTCCAAAAGCATC
AAA
Found at i:612108 original size:81 final size:81
Alignment explanation
Indices: 612019--612521 Score: 418
Period size: 80 Copynumber: 6.3 Consensus size: 81
612009 TCACTATCGA
* * *
612019 GGATACTCCAACCCCGTTTCT-CTTTCCAAAAGCATCAAATTTTTCACCATCGGGGATACTTCAA
1 GGATACTCCAACCCCATTTTTACTTTCCAAAA-CATCAAATTTTTCACCATCGGGGATACTCCAA
*
612083 CCCTATCATTCTCGAGG
65 CCCTATCATTTTCGAGG
* * *
612100 GGATACTCCAACCCCGTTTTTACTTT-CAAAATATCAAAATTTTCACCATCGGGGATACTCCAAC
1 GGATACTCCAACCCCATTTTTACTTTCCAAAACATCAAATTTTTCACCATCGGGGATACTCCAAC
* *
612164 CCCATTA-TTTCTGAGG
66 CCTATCATTTTC-GAGG
* *** * * **
612180 GAATACTCCAACCTTGTTTCT-CCTTCCAAAAGCATTGAATTTTTCACCATCGGGGATACTCCAA
1 GGATACTCCAACCCCATTTTTACTTTCCAAAA-CATCAAATTTTTCACCATCGGGGATACTCCAA
* **
612244 TCCC-ATCATTTTCTAAA
65 -CCCTATCATTTTCGAGG
* * * * * * *
612261 GGATACTCCAACCACATTTTTAC-TTCTAAAATATTAAAATTTTCACCGTTGGGGATACTCCAAC
1 GGATACTCCAACCCCATTTTTACTTTCCAAAACATCAAATTTTTCACCATCGGGGATACTCCAAC
* **
612325 CCCATCATTTTTTA-G
66 CCTATCATTTTCGAGG
* * * ** * *
612340 GGATACTCCAACCCTATTTTTAC-ATCTAAAAGCATTGAATTTTTCACCATCGAGGATAATCCAA
1 GGATACTCCAACCCCATTTTTACTTTCCAAAA-CATCAAATTTTTCACCATCGGGGATACTCCAA
** *
612404 CCCTAAAATTTTTGAGG
65 CCCTATCATTTTCGAGG
* * * * ** *
612421 GGATACTCAAACCCCATTTTTA-TTTCCAAAATATC-GATATTTT-ACCATTGGACATACTCTAA
1 GGATACTCCAACCCCATTTTTACTTTCCAAAACATCAAAT-TTTTCACCATCGGGGATACTCCAA
612483 CCCCT-TCATTTTCGAGG
65 -CCCTATCATTTTCGAGG
* *
612500 GGATACTCTAACCCCTTTTTTA
1 GGATACTCCAACCCCATTTTTA
612522 ACTACCGAAA
Statistics
Matches: 344, Mismatches: 65, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
79 81 0.24
80 144 0.42
81 107 0.31
82 12 0.03
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.33
Consensus pattern (81 bp):
GGATACTCCAACCCCATTTTTACTTTCCAAAACATCAAATTTTTCACCATCGGGGATACTCCAAC
CCTATCATTTTCGAGG
Found at i:612188 original size:161 final size:158
Alignment explanation
Indices: 612019--612514 Score: 552
Period size: 161 Copynumber: 3.1 Consensus size: 158
612009 TCACTATCGA
** *
612019 GGATACTCCAACCCCGTTTCTCTTTCCAAAAGCATCAAATTTTTCACCATCGGGGATACTTCAAC
1 GGATACTCCAACCCCGTTTCTC-TTCCAAAAGCATTGAATTTTTCACCATCGGGGATACTCCAAC
* *
612084 CCTATCATTCTCGAGGGGATACTCCAACCCCGTTTTTACTTTCAAAATATCAAAATTTTCACCAT
65 CCTATCATTTTCGAGGGGATACTCCAACCCCATTTTTACTTTCAAAATATCAAAATTTTCACCAT
*
612149 CGGGGATACTCCAACCCCATTATTTCTGAG
130 TGGGGATACTCCAACCCCATTATTT-TGAG
**
612179 GGAATACTCCAACCTTGTTTCTCCTTCCAAAAGCATTGAATTTTTCACCATCGGGGATACTCCAA
1 GG-ATACTCCAACCCCGTTTCT-CTTCCAAAAGCATTGAATTTTTCACCATCGGGGATACTCCAA
* ** * *
612244 TCCC-ATCATTTTCTAAAGGATACTCCAACCACATTTTTAC-TTCTAAAATATTAAAATTTTCAC
64 -CCCTATCATTTTCGAGGGGATACTCCAACCCCATTTTTACTTTC-AAAATATCAAAATTTTCAC
* * *
612307 CGTTGGGGATACTCCAACCCCATCATTTTTTAG
127 CATTGGGGATACTCCAACCCCATTA-TTTTGAG
** * * * * *
612340 GGATACTCCAACCCTATTTTTACATCTAAAAGCATTGAATTTTTCACCATCGAGGATAATCCAAC
1 GGATACTCCAACCCCGTTTCT-CTTCCAAAAGCATTGAATTTTTCACCATCGGGGATACTCCAAC
** * * * *
612405 CCTAAAATTTTTGAGGGGATACTCAAACCCCATTTTTA-TTTCCAAAATATCGATATTTT-ACCA
65 CCTATCATTTTCGAGGGGATACTCCAACCCCATTTTTACTTT-CAAAATATCAAAATTTTCACCA
** *
612468 TTGGACATACTCTAACCCC-TTCATTTTCGAGG
129 TTGGGGATACTCCAACCCCATT-ATTTT-GA-G
*
612500 GGATACTCTAACCCC
1 GGATACTCCAACCCC
612515 TTTTTTAACT
Statistics
Matches: 282, Mismatches: 43, Indels: 22
0.81 0.12 0.06
Matches are distributed among these distances:
158 5 0.02
159 24 0.09
160 115 0.41
161 131 0.46
162 7 0.02
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.32
Consensus pattern (158 bp):
GGATACTCCAACCCCGTTTCTCTTCCAAAAGCATTGAATTTTTCACCATCGGGGATACTCCAACC
CTATCATTTTCGAGGGGATACTCCAACCCCATTTTTACTTTCAAAATATCAAAATTTTCACCATT
GGGGATACTCCAACCCCATTATTTTGAG
Found at i:612226 original size:214 final size:214
Alignment explanation
Indices: 611805--612243 Score: 562
Period size: 214 Copynumber: 2.1 Consensus size: 214
611795 ATTTTCAAGG
*
611805 GGATACTCCAACCCCGTTTCTCCTTCCAAAAGCATCAAATTTTTCACCATCAGTGGTACTCCAAC
1 GGATACTCCAACCCCGTTTCTCCTTCCAAAAGCATCAAATTTTTCACCATCAGGGGTACTCCAAC
* * * * **
611870 CCCATCATTTCTAAGGGGATACTCCAATCCTGGTTTTACTTCCATAATATTGAATTTTTTCACCA
66 CCCATCATTTCTAAGGGGATACTCCAACCCCGGTTTTACTTCCAAAATATTCAAAATTTTCACCA
* * *
611935 TCGAGGATAATCCAACCCCAACATTTTCGAGGGAATACTCTAACCCTATTTTTACTTCCAAAATA
131 TCGAGGATAATCCAACCCCAACATTTTCGAGGGAATACTCCAACCCTATTTCTACTTCCAAAACA
*
612000 TCAAAATTTTCACTATCGA
196 TCAAAATTTTCACCATCGA
* *
612019 GGATACTCCAACCCCGTTTCTCTTTCCAAAAGCATCAAATTTTTCACCATC-GGGGATACTTCAA
1 GGATACTCCAACCCCGTTTCTCCTTCCAAAAGCATCAAATTTTTCACCATCAGGGG-TACTCCAA
* * * *
612083 CCCTATCA-TTCTCGAGGGGATACTCCAACCCCGTTTTTACTTTCAAAATA-TCAAAATTTTCAC
65 CCCCATCATTTCT-AAGGGGATACTCCAACCCCGGTTTTACTTCCAAAATATTCAAAATTTTCAC
* * ** * * *
612146 CATCGGGGATACTCCAACCCCATTA-TTTCTGAGGGAATACTCCAACCTTGTTTCTCCTTCCAAA
129 CATCGAGGATAATCCAACCCCAACATTTTC-GAGGGAATACTCCAACCCTATTTCTACTTCCAAA
** * *
612210 AGCATTGAATTTTTCACCATCGG
193 A-CATCAAAATTTTCACCATCGA
612233 GGATACTCCAA
1 GGATACTCCAA
612244 TCCCATCATT
Statistics
Matches: 193, Mismatches: 28, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
212 4 0.02
213 68 0.35
214 121 0.63
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (214 bp):
GGATACTCCAACCCCGTTTCTCCTTCCAAAAGCATCAAATTTTTCACCATCAGGGGTACTCCAAC
CCCATCATTTCTAAGGGGATACTCCAACCCCGGTTTTACTTCCAAAATATTCAAAATTTTCACCA
TCGAGGATAATCCAACCCCAACATTTTCGAGGGAATACTCCAACCCTATTTCTACTTCCAAAACA
TCAAAATTTTCACCATCGA
Found at i:614087 original size:13 final size:15
Alignment explanation
Indices: 614059--614091 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
614049 AAGATTTCAT
614059 AAAAAGCAAAACGAA
1 AAAAAGCAAAACGAA
614074 AAAAAG-AAAA-GAA
1 AAAAAGCAAAACGAA
614087 AAAAA
1 AAAAA
614092 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 4 0.22
15 6 0.33
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAGCAAAACGAA
Found at i:615715 original size:48 final size:49
Alignment explanation
Indices: 615642--615739 Score: 128
Period size: 48 Copynumber: 2.0 Consensus size: 49
615632 AAAAACCATG
*
615642 TTTATAGCTAAATTTTAGGCCATGATCTTTAACT-ATTTTCTTTTGTTT
1 TTTATAGCTAAATTTTAGGCCATGATCTTTAAATGATTTTCTTTTGTTT
* * * *
615690 TTTATGGCTAAATCTTTA-GCTATGATCTTTAAATGTTTTTTTTTTGTTT
1 TTTATAGCTAAAT-TTTAGGCCATGATCTTTAAATGATTTTCTTTTGTTT
615739 T
1 T
615740 CTTTCTAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
48 26 0.60
49 17 0.40
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.57
Consensus pattern (49 bp):
TTTATAGCTAAATTTTAGGCCATGATCTTTAAATGATTTTCTTTTGTTT
Found at i:619453 original size:50 final size:51
Alignment explanation
Indices: 619399--619532 Score: 191
Period size: 51 Copynumber: 2.6 Consensus size: 51
619389 TGCCTGCATG
619399 TATCGATACATTGAAGAATGTATCGATACATTT-GGTCAAAA-ACCAGAATA
1 TATCGATACATTGAAGAATGTATCGATACATTTGGGTCAAAACA-CAGAATA
* * *
619449 TATCGATACAATGAAGAATGTATCGATACATTTGGGTCAAAACATAGAATG
1 TATCGATACATTGAAGAATGTATCGATACATTTGGGTCAAAACACAGAATA
* * *
619500 TATCGATACATTGAAAAATATATTGATACATTT
1 TATCGATACATTGAAGAATGTATCGATACATTT
619533 TCATTCTAGA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 32 0.43
51 42 0.56
52 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.31
Consensus pattern (51 bp):
TATCGATACATTGAAGAATGTATCGATACATTTGGGTCAAAACACAGAATA
Found at i:619508 original size:51 final size:50
Alignment explanation
Indices: 619396--619532 Score: 195
Period size: 50 Copynumber: 2.7 Consensus size: 50
619386 AATTGCCTGC
619396 ATGTATCGATACATTGAAGAATGTATCGATACATTTGGTCAAAAACCAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATTTGGTCAAAAACCAGA
* * *
619446 ATATATCGATACAATGAAGAATGTATCGATACATTTGGGTC-AAAACATAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATTT-GGTCAAAAAC-CAGA
* * *
619497 ATGTATCGATACATTGAAAAATATATTGATACATTT
1 ATGTATCGATACATTGAAGAATGTATCGATACATTT
619533 TCATTCTAGA
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
50 39 0.51
51 38 0.49
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.31
Consensus pattern (50 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATTTGGTCAAAAACCAGA
Found at i:619613 original size:20 final size:20
Alignment explanation
Indices: 619588--619629 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
619578 CATTTTAGAC
*
619588 ATGTATCAATATATTCACTT
1 ATGTATCAATACATTCACTT
* *
619608 ATGTATCGATACATTCGCTT
1 ATGTATCAATACATTCACTT
619628 AT
1 AT
619630 TGCATCGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.43
Consensus pattern (20 bp):
ATGTATCAATACATTCACTT
Found at i:620587 original size:33 final size:32
Alignment explanation
Indices: 620477--621136 Score: 449
Period size: 33 Copynumber: 20.8 Consensus size: 32
620467 TAAAAGGAGA
* * *
620477 TGCCACCGACTTATGTGGGCTTTTG-AGAAGGT
1 TGCCACTGACTTGTGTGGGC-TTTGAAAAAGGT
* * * *
620509 TGCTAGC-GACTTATGTGGGCTTTTGGAAGAGGAT
1 TGCCA-CTGACTTGTGTGGGC-TTTGAAAAAGG-T
*
620543 TGCCACTGACTTGTGTGAGCTTTAGAAAAAGGT
1 TGCCACTGACTTGTGTGGGCTTT-GAAAAAGGT
* * * * *
620576 TGCCACCGACTTGTATAGGCTTCAGAAAAGGGT
1 TGCCACTGACTTGTGTGGGCTT-TGAAAAAGGT
* * * *
620609 TGCCACTAACTTGTGTGGACTTCGAAAGAGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAAGGT
* * **
620641 TGCCATTGATTTGTGTGGG-TTTGGCAAAGGAT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAAGG-T
* * *
620673 TGCCACTGATTTGGGTGGACTTTGAAAAAGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAAGGT
** * * *
620705 TGCCACCAACTTGTGAGGGC-TTCAAAAGGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAAGGT
* * *
620736 TGCCATCT-ACTTGTGTGGTCTTTAAAAAAAGGG
1 TGCCA-CTGACTTGTGTGGGCTTT-GAAAAAGGT
* *
620769 TGCCACTGACTTATGTGGGCTTTAAAAAAAGGGT
1 TGCCACTGACTTGTGTGGGCTTT-GAAAAA-GGT
* * * *
620803 TGCCACTGACTTGTATCGG-TTT-TAGAAGGTT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAAGG-T
*
620834 TGCCATTGACTTGTGTGGGCTTTG-AAAAGG-
1 TGCCACTGACTTGTGTGGGCTTTGAAAAAGGT
620864 TGCCACTGA-TT-TGTGGGCTTTG-AAAAGG-
1 TGCCACTGACTTGTGTGGGCTTTGAAAAAGGT
*
620892 TGCCACTGA-TT-TATGGGCTTT-AAAAAGGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAA-GGT
* * *
620922 TGCCACCGACTT-TATGGGCTTTGAAAAAAGGGG
1 TGCCACTGACTTGTGTGGGCTTTG-AAAAA-GGT
* *
620955 TGGCA-TCGACTTGTGTAGGCTTTAGAAAAAGGGT
1 TGCCACT-GACTTGTGTGGGCTTT-GAAAAA-GGT
* *
620989 TAG-CACCGACTTCTGTGGGCTTT-AGAAAA-GT
1 T-GCCACTGACTTGTGTGGGCTTTGA-AAAAGGT
* *
621020 TGCCACCGACTTGTGTGGGCTTTG-AAAAGGG
1 TGCCACTGACTTGTGTGGGCTTTGAAAAAGGT
* * *
621051 TGCCACTGA-TT-TTTGGGCTTT-AAAAATGA
1 TGCCACTGACTTGTGTGGGCTTTGAAAAAGGT
621080 TGCCACTGAC-T-TGTGGGCTTTG-AAAAGTGT
1 TGCCACTGACTTGTGTGGGCTTTGAAAAAG-GT
* *
621110 TGCCACTGACTTGTATGGCCTTTGAAA
1 TGCCACTGACTTGTGTGGGCTTTGAAA
621137 TTGTGCCACT
Statistics
Matches: 506, Mismatches: 84, Indels: 75
0.76 0.13 0.11
Matches are distributed among these distances:
28 41 0.08
29 41 0.08
30 36 0.07
31 95 0.19
32 99 0.20
33 119 0.24
34 73 0.14
35 2 0.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (32 bp):
TGCCACTGACTTGTGTGGGCTTTGAAAAAGGT
Found at i:620655 original size:32 final size:31
Alignment explanation
Indices: 620602--620903 Score: 114
Period size: 32 Copynumber: 9.6 Consensus size: 31
620592 AGGCTTCAGA
* *
620602 AAAGGGTTGCCACTAACTTGTGTGGACTTCG
1 AAAGGGTTGCCACTGATTTGTGTGGACTTCG
* ** *
620633 AAAGAGGTTGCCATTGATTTGTGTGGGTTTGG
1 AAAG-GGTTGCCACTGATTTGTGTGGACTTCG
* * *
620665 CAAAGGATTGCCACTGATTTGGGTGGACTTTG
1 -AAAGGGTTGCCACTGATTTGTGTGGACTTCG
* ** * * * *
620697 AAAAAGGTTGCCACCAACTTGTGAGGGCTTCA
1 -AAAGGGTTGCCACTGATTTGTGTGGACTTCG
* * **
620729 AAAGGGTTGCCATCT-ACTTGTGTGGTCTTTAAAA
1 AAAGGGTTGCCA-CTGATTTGTGTGGAC-TT--CG
* * * **
620763 AAAGGG-TGCCACTGACTTATGTGGGCTTTAAAA
1 AAAGGGTTGCCACTGATTTGTGTGGAC-TT--CG
* * ** *
620796 AAAGGGTTGCCACTGACTTGTATCGGTTTTAG
1 AAAGGGTTGCCACTGATTTGTGT-GGACTTCG
* * * * *
620828 -AAGGTTTGCCATTGACTTGTGTGGGCTTTG
1 AAAGGGTTGCCACTGATTTGTGTGGACTTCG
* *
620858 AAAAGG-TGCCACTGATTTGTG-GG-CTTTG
1 AAAGGGTTGCCACTGATTTGTGTGGACTTCG
*
620886 AAAAGG-TGCCACTGATTT
1 AAAGGGTTGCCACTGATTT
620904 ATGGGCTTTA
Statistics
Matches: 216, Mismatches: 45, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
28 23 0.11
29 2 0.01
30 18 0.08
31 47 0.22
32 69 0.32
33 32 0.15
34 23 0.11
35 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (31 bp):
AAAGGGTTGCCACTGATTTGTGTGGACTTCG
Found at i:620719 original size:64 final size:64
Alignment explanation
Indices: 620477--621136 Score: 305
Period size: 64 Copynumber: 10.4 Consensus size: 64
620467 TAAAAGGAGA
* * * * * * * *
620477 TGCCACCGACTTATGTGGGCTTTTG-AGAAGGTTGCTAGCGACTTATGTGGGCTTTTGGAAGAGG
1 TGCCACTGACTTGTGTGGAC-TTTGAAAAAGGTTGCCACCGACTTGTGTAGGC-TTTGGAA-AGG
620541 AT
63 AT
* * *
620543 TGCCACTGACTTGTGT-GAGCTTTAGAAAAAGGTTGCCACCGACTTGTATAGGCTTCAGAAAAGG
1 TGCCACTGACTTGTGTGGA-CTTT-GAAAAAGGTTGCCACCGACTTGTGTAGGCTT-TGGAAAGG
*
620607 GT
63 AT
* * * ** * *
620609 TGCCACTAACTTGTGTGGACTTCGAAAGAGGTTGCCATTGATTTGTGT-GGGTTTGGCAAAGGAT
1 TGCCACTGACTTGTGTGGACTTTGAAAAAGGTTGCCACCGACTTGTGTAGGCTTTGG-AAAGGAT
* * * ** *
620673 TGCCACTGATTTGGGTGGACTTTGAAAAAGGTTGCCACCAACTTGTG-AGGGC-TTCAAAAGGGT
1 TGCCACTGACTTGTGTGGACTTTGAAAAAGGTTGCCACCGACTTGTGTA-GGCTTTGGAAAGGAT
* * * * * * **
620736 TGCCATCT-ACTTGTGTGGTCTTTAAAAAAAGGGTGCCACTGACTTATGTGGGCTTTAAAAAAAG
1 TGCCA-CTGACTTGTGTGGACTTT-GAAAAAGGTTGCCACCGACTTGTGTAGGCTTT--GGAAAG
*
620800 GGT
62 GAT
* * * ** * *
620803 TGCCACTGACTTGTATCGG--TTT-TAGAAGGTTTGCCATTGACTTGTGTGGGCTTTGAAAAGG-
1 TGCCACTGACTTGTGT-GGACTTTGAAAAAGG-TTGCCACCGACTTGTGTAGGCTTTGGAAAGGA
620864 -
64 T
* * * * ** *
620864 TGCCACTGA-TT-TGTGGGCTTTG-AAAAGG-TGCCACTGA-TT-TATGGGCTTTAAAAAGGGT
1 TGCCACTGACTTGTGTGGACTTTGAAAAAGGTTGCCACCGACTTGTGTAGGCTTTGGAAAGGAT
* * * * * * *
620922 TGCCACCGACTT-TATGGGCTTTGAAAAAAGGGGTGGCATCGACTTGTGTAGGCTTTAGAAAAAG
1 TGCCACTGACTTGTGTGGACTTTG-AAAAA-GGTTGCCACCGACTTGTGTAGGCTTT-G-GAAAG
*
620986 GGT
62 GAT
* * * * *
620989 TAG-CACCGACTTCTGTGGGCTTT-AGAAAA-GTTGCCACCGACTTGTGTGGGCTTTGAAAAGG-
1 T-GCCACTGACTTGTGTGGACTTTGA-AAAAGGTTGCCACCGACTTGTGTAGGCTTTGGAAAGGA
*
621050 G
64 T
* * * * * *
621051 TGCCACTGA-TT-TTTGGGCTTT-AAAAATGATGCCACTGACTTGTG--GGCTTTGAAAAGTG-T
1 TGCCACTGACTTGTGTGGACTTTGAAAAAGGTTGCCACCGACTTGTGTAGGCTTTGGAAAG-GAT
* *
621110 TGCCACTGACTTGTATGGCCTTTGAAA
1 TGCCACTGACTTGTGTGGACTTTGAAA
621137 TTGTGCCACT
Statistics
Matches: 475, Mismatches: 79, Indels: 84
0.74 0.12 0.13
Matches are distributed among these distances:
56 15 0.03
57 2 0.00
58 30 0.06
59 28 0.06
60 37 0.08
61 24 0.05
62 11 0.02
63 42 0.09
64 82 0.17
65 78 0.16
66 46 0.10
67 68 0.14
68 12 0.03
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (64 bp):
TGCCACTGACTTGTGTGGACTTTGAAAAAGGTTGCCACCGACTTGTGTAGGCTTTGGAAAGGAT
Found at i:620884 original size:28 final size:29
Alignment explanation
Indices: 620600--621287 Score: 281
Period size: 31 Copynumber: 22.5 Consensus size: 29
620590 ATAGGCTTCA
* * *
620600 GAAAAGGGTTGCCACTAACTTGTGTGGACTTC
1 GAAAAGGG-TGCCACTGA-TT-TGTGGGCTTT
* * *
620632 GAAAGAGGTTGCCATTGATTTGTGTGGGTTT
1 GAAA-AGGGTGCCACTGATTTGTG-GGCTTT
* * *
620663 GGCAAAGGATTGCCACTGATTTGGGTGGACTTT
1 -GAAAAGG-GTGCCACTGATTT--GTGGGCTTT
* ** *
620696 GAAAAAGGTTGCCACCAACTTGTGAGGGC-TT
1 G-AAAAGGGTGCCACTGA-TT-TGTGGGCTTT
* *
620727 CAAAAGGGTTGCCATCT-ACTTGTGTGGTCTTT
1 GAAAAGGG-TGCCA-CTGA-TT-TGTGGGCTTT
*
620759 AAAAAAAGGGTGCCACTGACTTATGTGGGCTTT
1 --GAAAAGGGTGCCACTGA-TT-TGTGGGCTTT
* * *
620792 AAAAAAAGGGTTGCCACTGACTTGTATCGG-TTT
1 --GAAAAGGG-TGCCACTGA-TT-TGTGGGCTTT
* * * *
620825 TAGAAGGTTTGCCATTGACTTGTGTGGGCTTT
1 GAAAAGG-GTGCCACTGA-TT-TGTGGGCTTT
620857 GAAAA-GGTGCCACTGATTTGTGGGCTTT
1 GAAAAGGGTGCCACTGATTTGTGGGCTTT
*
620885 GAAAA-GGTGCCACTGATTTATGGGCTTT
1 GAAAAGGGTGCCACTGATTTGTGGGCTTT
* * *
620913 AAAAAGGGTTGCCACCGACTTTATGGGCTTT
1 GAAAAGGG-TGCCACTGA-TTTGTGGGCTTT
* *
620944 GAAAAAAGGGGTGGCA-TCGACTTGTGTAGGCTTT
1 G--AAAA-GGGTGCCACT-GA-TT-TGTGGGCTTT
*
620978 AGAAAAAGGGTTAG-CACCGACTTCTGTGGGCTTT
1 -G-AAAAGGG-T-GCCACTGA-TT-TGTGGGCTTT
* *
621012 AGAAAA-GTTGCCACCGACTTGTGTGGGCTTT
1 -GAAAAGGGTGCCACTGA-TT-TGTGGGCTTT
*
621043 GAAAAGGGTGCCACTGATTTTTGGGCTTT
1 GAAAAGGGTGCCACTGATTTGTGGGCTTT
* * * *
621072 AAAAATGATGCCACTGACTTGTGGGCTTT
1 GAAAAGGGTGCCACTGATTTGTGGGCTTT
* * *
621101 GAAAAGTGTTGCCACTGACTTGTATGGCCTTT
1 GAAAAG-GGTGCCACTGA-TT-TGTGGGCTTT
** * * * *
621133 G-AAATTGTGCCACTAACTTGCGGACTTT
1 GAAAAGGGTGCCACTGATTTGTGGGCTTT
* *** *
621161 AAAAAAAATGCCA-TGGAGTTGTGGGCTTT
1 GAAAAGGGTGCCACT-GATTTGTGGGCTTT
* * * *
621190 -AAAAGGGTACCACCGAGTTATGGGCTTT
1 GAAAAGGGTGCCACTGATTTGTGGGCTTT
*
621218 -AAAA-GGTGTCA-TGGATTTGTGGGCTTT
1 GAAAAGGGTGCCACT-GATTTGTGGGCTTT
* * *
621245 -AAAAGGGTGACACAGAGTTGTGGGCTTTT
1 GAAAAGGGTGCCACTGATTTGTGGGC-TTT
621274 GAAAAGGGTGCCAC
1 GAAAAGGGTGCCAC
621288 AGAGTTATGG
Statistics
Matches: 519, Mismatches: 94, Indels: 88
0.74 0.13 0.13
Matches are distributed among these distances:
27 21 0.04
28 90 0.17
29 63 0.12
30 64 0.12
31 92 0.18
32 60 0.12
33 65 0.13
34 62 0.12
35 2 0.00
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (29 bp):
GAAAAGGGTGCCACTGATTTGTGGGCTTT
Found at i:620978 original size:186 final size:185
Alignment explanation
Indices: 620542--621136 Score: 544
Period size: 186 Copynumber: 3.2 Consensus size: 185
620532 TGGAAGAGGA
* * * * * * *
620542 TTGCCACTGACTTGTGTGAG-CTTT-AGAAAAAGGTTGCCACCGACTTGTATAGGC-TTCAGAAA
1 TTGCCACCGACTTGTATG-GCCTTTGAAAAAAAGGGTGCCA-CGACTTGTGTAGGCTTTAAAAAA
* * * * *
620604 AGGGTTGCCACTAACTTGTGTGGACTTCGAAAGAGGTTGCCATTGATTTGTGTGGG-TTTGGCAA
64 AGGGTTGCCACTGACTTGTGTGGATTTAG-AA-AGGTTGCCATTGACTTGTGTGGGCTTT-GAAA
* ** *
620668 AGGATTGCCACTGATTTGGGTGGACTTTGAAAAAGGTTGCCACCAACTTGTGA-GGGC-TTCAAA
126 AGG--TGCCACTGATTT--GTGGGCTTTG-AAAAGG-TGCCACTGA-TT-T-ATGGGCTTTAAAA
620731 AGGG
182 AGGG
* * * * * *
620735 TTGCCATCTACTTGTGTGGTCTTT-AAAAAAAGGGTGCCACTGACTTATGTGGGCTTTAAAAAAA
1 TTGCCACCGACTTGTATGGCCTTTGAAAAAAAGGGTGCCAC-GACTTGTGTAGGCTTTAAAAAAA
* *
620799 GGGTTGCCACTGACTTGTATCGGTTTTAG-AAGGTTTGCCATTGACTTGTGTGGGCTTTGAAAAG
65 GGGTTGCCACTGACTTGTGT-GGATTTAGAAAGG-TTGCCATTGACTTGTGTGGGCTTTGAAAAG
620863 GTGCCACTGATTTGTGGGCTTTGAAAAGGTGCCACTGATTTATGGGCTTTAAAAAGGG
128 GTGCCACTGATTTGTGGGCTTTGAAAAGGTGCCACTGATTTATGGGCTTTAAAAAGGG
* * * *
620921 TTGCCACCGACTT-TATGGGCTTTGAAAAAAGGGGTGGCATCGACTTGTGTAGGCTTTAGAAAAA
1 TTGCCACCGACTTGTATGGCCTTTGAAAAAAAGGGTGCCA-CGACTTGTGTAGGCTTTAAAAAAA
* * * * **
620985 GGGTTAG-CACCGACTTCTGTGGGCTTTAGAAAAGTTGCCACCGACTTGTGTGGGCTTTGAAAAG
65 GGGTT-GCCACTGACTTGTGT-GGATTTAGAAAGGTTGCCATTGACTTGTGTGGGCTTTGAAAA-
* * * * * * *
621049 GGTGCCACTGATTTTTGGGCTTTAAAAATGATGCCACTGACTTGTGGGCTTTGAAAAGTG
127 GGTGCCACTGATTTGTGGGCTTTGAAAA-GGTGCCACTGATTTATGGGCTTTAAAAAGGG
*
621109 TTGCCACTGACTTGTATGGCCTTTGAAA
1 TTGCCACCGACTTGTATGGCCTTTGAAA
621137 TTGTGCCACT
Statistics
Matches: 340, Mismatches: 47, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
184 1 0.00
185 13 0.04
186 104 0.31
187 38 0.11
188 44 0.13
189 22 0.06
191 12 0.04
192 5 0.01
193 68 0.20
194 28 0.08
195 5 0.01
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (185 bp):
TTGCCACCGACTTGTATGGCCTTTGAAAAAAAGGGTGCCACGACTTGTGTAGGCTTTAAAAAAAG
GGTTGCCACTGACTTGTGTGGATTTAGAAAGGTTGCCATTGACTTGTGTGGGCTTTGAAAAGGTG
CCACTGATTTGTGGGCTTTGAAAAGGTGCCACTGATTTATGGGCTTTAAAAAGGG
Found at i:621152 original size:30 final size:30
Alignment explanation
Indices: 620833--621152 Score: 124
Period size: 30 Copynumber: 10.5 Consensus size: 30
620823 TTTAGAAGGT
* *
620833 TTGCCATTGACTTGTGTGGGCTTTGAAAAG-G
1 TTGCCACTGAC-T-TGTGGCCTTTGAAAAGTG
* *
620864 -TGCCACTGATTTGTGGGCTTTGAAAAG-G
1 TTGCCACTGACTTGTGGCCTTTGAAAAGTG
* * * * *
620892 -TGCCACTGATTTATGGGCTTTAAAAAGGG
1 TTGCCACTGACTTGTGGCCTTTGAAAAGTG
* * * *
620921 TTGCCACCGACTTTATGGGCTTTGAAAAAAGGG
1 TTGCCACTGAC-TTGTGGCCTTTG--AAAAGTG
* * * *
620954 GTGGCA-TCGACTTGTGTAGGCTTTAGAAAAAGGG
1 TTGCCACT-GACTTGTG--GCCTTT-G-AAAAGTG
* *
620988 TTAG-CACCGACTTCTGTGGGCTTTAGAAAA--G
1 TT-GCCACTGAC-T-TGTGGCCTTT-GAAAAGTG
* *
621019 TTGCCACCGACTTGTGTGGGCTTTGAAAAG-G
1 TTGCCACTGAC-T-TGTGGCCTTTGAAAAGTG
* * * * *
621050 GTGCCACTGATTTTTGGGCTTT-AAAAATG
1 TTGCCACTGACTTGTGGCCTTTGAAAAGTG
* *
621079 ATGCCACTGACTTGTGGGCTTTGAAAAGTG
1 TTGCCACTGACTTGTGGCCTTTGAAAAGTG
*
621109 TTGCCACTGACTTGTATGGCCTTTG-AAATTG
1 TTGCCACTGACTTG--TGGCCTTTGAAAAGTG
*
621140 -TGCCACTAACTTG
1 TTGCCACTGACTTG
621153 CGGACTTTAA
Statistics
Matches: 243, Mismatches: 27, Indels: 39
0.79 0.09 0.13
Matches are distributed among these distances:
28 46 0.19
29 31 0.13
30 54 0.22
31 47 0.19
32 12 0.05
33 18 0.07
34 28 0.12
35 3 0.01
36 4 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (30 bp):
TTGCCACTGACTTGTGGCCTTTGAAAAGTG
Found at i:621350 original size:28 final size:28
Alignment explanation
Indices: 621176--622017 Score: 516
Period size: 28 Copynumber: 29.0 Consensus size: 28
621166 AAATGCCATG
* * *
621176 GAGTTGTGGGCTTTAAAAGGGTACCACC
1 GAGTTGTGGACTTTAAAAGGGTGCCACA
* * * **
621204 GAGTTATGGGCTTTAAAA-GGTGTCATG
1 GAGTTGTGGACTTTAAAAGGGTGCCACA
* * *
621231 GATTTGTGGGCTTTAAAAGGGTGACACA
1 GAGTTGTGGACTTTAAAAGGGTGCCACA
*
621259 GAGTTGTGGGCTTTTGAAAAGGGTGCCACA
1 GAGTTGTGGAC-TTT-AAAAGGGTGCCACA
* * *
621289 GAGTTATGGACTTTAAAAATGGTGCTAC-
1 GAGTTGTGGACTTT-AAAAGGGTGCCACA
* * *
621317 GAAGTTGTGGACTTTGAGAGGGTGCCATA
1 G-AGTTGTGGACTTTAAAAGGGTGCCACA
621346 GAGTTGTGGACTTTAAAAAAAAAGGTGTGCCACA
1 GAGTTGTGGACTTT-----AAAAGG-GTGCCACA
* * * *
621380 AAATTATGGAC-TT---A--GTGCCACG
1 GAGTTGTGGACTTTAAAAGGGTGCCACA
* * *
621402 GAATTATGGAC-TT--AA---TGCCACG
1 GAGTTGTGGACTTTAAAAGGGTGCCACA
*
621424 GAGTTGTGGACTTTAAAAAGGTGCCACA
1 GAGTTGTGGACTTTAAAAGGGTGCCACA
* *
621452 GAGTTGTGGACTTTAATACAAAAGGTGCCACG
1 GAGTTGTGGAC-TT--TA-AAAGGGTGCCACA
*
621484 GAGTTGTGGACTTTAAGAA-GGTGCCACG
1 GAGTTGTGGACTTTAA-AAGGGTGCCACA
*
621512 GAGTTGTGGACTTTAAGAA-GGTGCCACG
1 GAGTTGTGGACTTTAA-AAGGGTGCCACA
*
621540 GAGTTGTGGACTTTAAAAAAGGGTGCCACG
1 GAGTTGTGGACTTT--AAAAGGGTGCCACA
*
621570 GAGTTGTGGACTTTAAAAAAGGGTGCCACG
1 GAGTTGTGGACTTT--AAAAGGGTGCCACA
* *
621600 GAGTTATGGACTTTTGAAAAGGGTGCCATA
1 GAGTTGTGGAC-TTT-AAAAGGGTGCCACA
* * **
621630 GAGTTGTGGATTTTAAAAGGGTACCATG
1 GAGTTGTGGACTTTAAAAGGGTGCCACA
* *
621658 GTGTTGTGGACTTTAAAAAAGGGTACCACA
1 GAGTTGTGGACTTT--AAAAGGGTGCCACA
* * *
621688 GAGTTATGGACTTTTGGAAAGGGTGCCATA
1 GAGTTGTGGAC-TTT-AAAAGGGTGCCACA
* * *
621718 GAGTTATGGACTTAAGAAAAAGGGTGCCA-T
1 GAGTTGTGGACTT---TAAAAGGGTGCCACA
* * **
621748 GAAGTTTTGGAATTTAAAAGGGTGCCATG
1 G-AGTTGTGGACTTTAAAAGGGTGCCACA
* *
621777 GAGTTGTGGACTTTGAAAAAGGTTCCAC-
1 GAGTTGTGGACTTT-AAAAGGGTGCCACA
* **
621805 GAAGTTGTGTACTTTAAGAAAAGGGGTGCCATG
1 G-AGTTGTGGACTTT---AAAA-GGGTGCCACA
* * *
621838 GAGTTGTGTACTTTAGAAAAAGGGTGTCACG
1 GAGTTGTGGACTTT---AAAAGGGTGCCACA
*
621869 GAGTTGTGGACTTTAGAAAAAGGGTGCCACG
1 GAGTTGTGGACTTT---AAAAGGGTGCCACA
* *
621900 GAGTTGTGGACTTAAAAAGGGTGCCACG
1 GAGTTGTGGACTTTAAAAGGGTGCCACA
* *
621928 GAGTTGTGGACTTAAAAAAGAGGGTGCCATA
1 GAGTTGTGGACTT--TAAA-AGGGTGCCACA
*
621959 GAGTTATGGA-TTTAAAACAAAGGGTGCCACA
1 GAGTTGTGGACTTT---A-AAAGGGTGCCACA
*
621990 AAGTTGTGGACTTTAAAAGTGGTGCCAC
1 GAGTTGTGGACTTTAAAAG-GGTGCCAC
622018 GAAGTCATGG
Statistics
Matches: 681, Mismatches: 83, Indels: 99
0.79 0.10 0.11
Matches are distributed among these distances:
22 35 0.05
23 3 0.00
25 3 0.00
27 21 0.03
28 203 0.30
29 75 0.11
30 144 0.21
31 123 0.18
32 52 0.08
33 7 0.01
34 15 0.02
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.27
Consensus pattern (28 bp):
GAGTTGTGGACTTTAAAAGGGTGCCACA
Found at i:621397 original size:22 final size:22
Alignment explanation
Indices: 621372--621422 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
621362 AAAAAAAGGT
621372 GTGCCACAAAATTATGGACTTA
1 GTGCCACAAAATTATGGACTTA
**
621394 GTGCCACGGAATTATGGACTTA
1 GTGCCACAAAATTATGGACTTA
*
621416 ATGCCAC
1 GTGCCAC
621423 GGAGTTGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (22 bp):
GTGCCACAAAATTATGGACTTA
Found at i:621423 original size:22 final size:22
Alignment explanation
Indices: 621381--621436 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
621371 TGTGCCACAA
*
621381 AATTATGGACTTAGTGCCACGG
1 AATTATGGACTTAATGCCACGG
621403 AATTATGGACTTAATGCCACGG
1 AATTATGGACTTAATGCCACGG
* *
621425 AGTTGTGGACTT
1 AATTATGGACTT
621437 TAAAAAGGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (22 bp):
AATTATGGACTTAATGCCACGG
Found at i:621537 original size:88 final size:90
Alignment explanation
Indices: 621417--622032 Score: 640
Period size: 88 Copynumber: 6.9 Consensus size: 90
621407 ATGGACTTAA
*
621417 TGCCACGGAGTTGTGGACTTT-AAAAA-GGTGCCACAGAGTTGTGGACTTTAATACAAAAGGTGC
1 TGCCACGGAGTTGTGGACTTTGAAAAAGGGTGCCACAGAGTTGTGGACTTTAA-A-AAAGGGTGC
*
621480 CACGGAGTTGTGGACTTT-AAGAA-GG
64 CACGGAGTTGTGGACTTTAAAAAAGGG
* *
621505 TGCCACGGAGTTGTGGACTTT-AAGAA-GGTGCCACGGAGTTGTGGACTTTAAAAAAGGGTGCCA
1 TGCCACGGAGTTGTGGACTTTGAAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAAAGGGTGCCA
621568 CGGAGTTGTGGACTTTAAAAAAGGG
66 CGGAGTTGTGGACTTTAAAAAAGGG
* * * *
621593 TGCCACGGAGTTATGGACTTTTG-AAAAGGGTGCCATAGAGTTGTGGA-TTT-TAAAAGGGTACC
1 TGCCACGGAGTTGTGGAC-TTTGAAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAAAGGGTGCC
* *
621655 ATGGTGTTGTGGACTTTAAAAAAGGG
65 ACGGAGTTGTGGACTTTAAAAAAGGG
* * * * * * *
621681 TACCACAGAGTTATGGACTTTTG-GAAAGGGTGCCATAGAGTTATGGACTTAAGAAAAAGGGTGC
1 TGCCACGGAGTTGTGGAC-TTTGAAAAAGGGTGCCACAGAGTTGTGGACTTTA-AAAAAGGGTGC
* * * *
621745 CATGAAGTTTTGGAATTT--AAAAGGG
64 CACGGAGTTGTGGACTTTAAAAAAGGG
* * *
621770 TGCCATGGAGTTGTGGACTTTGAAAAA-GGTTCCAC-GAAGTTGTGTACTTTAAGAAAAGGGGTG
1 TGCCACGGAGTTGTGGACTTTGAAAAAGGGTGCCACAG-AGTTGTGGACTTTAA-AAAA-GGGTG
* *
621833 CCATGGAGTTGTGTACTTTAGAAAAAGGG
63 CCACGGAGTTGTGGACTTTA-AAAAAGGG
* *
621862 TGTCACGGAGTTGTGGACTTTAGAAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAAGGGTGCC
1 TGCCACGGAGTTGTGGACTTT-GAAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAAAGGGTGCC
*
621925 ACGGAGTTGTGGACTTAAAAAAGAGGG
65 ACGGAGTTGTGGACTTTAAAAA-AGGG
** * * *
621952 TGCCATAGAGTTATGGA-TTTAAAACAAAGGGTGCCACAAAGTTGTGGACTTT--AAAAGTGGTG
1 TGCCACGGAGTTGTGGACTTT-GAA-AAAGGGTGCCACAGAGTTGTGGACTTTAAAAAAG-GGTG
* **
622014 CCACGAAGTCATGGACTTT
63 CCACGGAGTTGTGGACTTT
622033 GAGAATAGAT
Statistics
Matches: 451, Mismatches: 55, Indels: 41
0.82 0.10 0.07
Matches are distributed among these distances:
86 26 0.06
87 7 0.02
88 170 0.38
89 65 0.14
90 83 0.18
91 48 0.11
92 27 0.06
93 8 0.02
94 16 0.04
95 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (90 bp):
TGCCACGGAGTTGTGGACTTTGAAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAAAGGGTGCCA
CGGAGTTGTGGACTTTAAAAAAGGG
Found at i:621664 original size:118 final size:117
Alignment explanation
Indices: 621417--622032 Score: 663
Period size: 118 Copynumber: 5.2 Consensus size: 117
621407 ATGGACTTAA
* *
621417 TGCCACGGAGTTGTGGACTTTAAAAA-GGTGCCACAGAGTTGTGGACTTTAATACAAAAGGTGCC
1 TGCCACGGAGTTGTGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTAA-A-AAAGGGTGCC
* * * *
621481 ACGGAGTTGTGGACTTTA-AGAA-GGTGCCACGGAGTTGTGGACTTTAAGAA-GG
64 ATGGAGTTATGGACTTTAGAAAAGGGTGCCACAGAGTTGTGGACTTTAA-AAGGG
621533 TGCCACGGAGTTGTGGACTTTAAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAAGGGTGCCA
1 TGCCACGGAGTTGTGGACTTT-AAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAAGGGTGCCA
* * * *
621598 CGGAGTTATGGACTTTTGAAAAGGGTGCCATAGAGTTGTGGATTTTAAAAGGG
65 TGGAGTTATGGACTTTAGAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGG
* * * * * * ***
621651 TACCATGGTGTTGTGGACTTTAAAAAAGGGTACCACAGAGTTATGGACTTTTGGAAAGGGTGCCA
1 TGCCACGGAGTTGTGGACTTT-AAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAAGGGTGCCA
* * * * *
621716 TAGAGTTATGGACTTAAGAAAAAGGGTGCCA-TGAAGTTTTGGAATTTAAAAGGG
65 TGGAGTTATGGACTTTAG-AAAAGGGTGCCACAG-AGTTGTGGACTTTAAAAGGG
* * * *
621770 TGCCATGGAGTTGTGGACTTTGAAAAA-GGTTCCACGAAGTTGTGTACTTTAAGAAAAGGGGTGC
1 TGCCACGGAGTTGTGGACTTT-AAAAAGGGTGCCACGGAGTTGTGGACTTTAA-AAAA-GGGTGC
* * * *
621834 CATGGAGTTGTGTACTTTAGAAAAAGGGTGTCACGGAGTTGTGGACTTTAGAAAAAGGG
63 CATGGAGTTATGGACTTTAG-AAAAGGGTGCCACAGAGTTGTGGACTTT---AAAAGGG
*
621893 TGCCACGGAGTTGTGGAC-TTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAAGAGGGTGCCA
1 TGCCACGGAGTTGTGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAA-AGGGTGCCA
* * *
621957 TAGAGTTATGGA-TTTAAAACAAAGGGTGCCACAAAGTTGTGGACTTTAAAAGTGG
65 TGGAGTTATGGACTTT-AGA-AAAGGGTGCCACAGAGTTGTGGACTTTAAAAG-GG
* **
622012 TGCCACGAAGTCATGGACTTT
1 TGCCACGGAGTTGTGGACTTT
622033 GAGAATAGAT
Statistics
Matches: 423, Mismatches: 58, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
116 46 0.11
117 11 0.03
118 142 0.34
119 74 0.17
120 51 0.12
121 51 0.12
122 24 0.06
123 24 0.06
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (117 bp):
TGCCACGGAGTTGTGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAAGGGTGCCAT
GGAGTTATGGACTTTAGAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGG
Found at i:621743 original size:31 final size:30
Alignment explanation
Indices: 621417--622032 Score: 625
Period size: 28 Copynumber: 20.7 Consensus size: 30
621407 ATGGACTTAA
621417 TGCCACGGAGTTGTGGACTTT-AAAAA-GG
1 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
* *
621445 TGCCACAGAGTTGTGGACTTTAATACAAAAGG
1 TGCCACGGAGTTGTGGACTTTAA-A-AAAGGG
*
621477 TGCCACGGAGTTGTGGACTTT-AAGAA-GG
1 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
*
621505 TGCCACGGAGTTGTGGACTTT-AAGAA-GG
1 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
621533 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
621563 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
* **
621593 TGCCACGGAGTTATGGACTTTTGAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
** *
621623 TGCCATAGAGTTGTGGA-TTT-TAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
* * *
621651 TACCATGGTGTTGTGGACTTTAAAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
* * * ***
621681 TACCACAGAGTTATGGACTTTTGGAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
** * *
621711 TGCCATAGAGTTATGGACTTAAGAAAAAGGG
1 TGCCACGGAGTTGTGGACTTTA-AAAAAGGG
* * * *
621742 TGCCATGAAGTTTTGGAATTT--AAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
* *
621770 TGCCATGGAGTTGTGGACTTTGAAAAA-GG
1 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
* * *
621799 TTCCACGAAGTTGTGTACTTTAAGAAAAGGGG
1 TGCCACGGAGTTGTGGACTTTAA-AAAA-GGG
* *
621831 TGCCATGGAGTTGTGTACTTTAGAAAAAGGG
1 TGCCACGGAGTTGTGGACTTTA-AAAAAGGG
*
621862 TGTCACGGAGTTGTGGACTTTAGAAAAAGGG
1 TGCCACGGAGTTGTGGACTTTA-AAAAAGGG
621893 TGCCACGGAGTTGTGGAC-TT-AAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAAAGGG
*
621921 TGCCACGGAGTTGTGGACTTAAAAAAGAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAA-AGGG
** *
621952 TGCCATAGAGTTATGGA-TTTAAAACAAAGGG
1 TGCCACGGAGTTGTGGACTTT-AAA-AAAGGG
**
621983 TGCCACAAAGTTGTGGACTTT--AAAAGTGG
1 TGCCACGGAGTTGTGGACTTTAAAAAAG-GG
* **
622012 TGCCACGAAGTCATGGACTTT
1 TGCCACGGAGTTGTGGACTTT
622033 GAGAATAGAT
Statistics
Matches: 507, Mismatches: 59, Indels: 43
0.83 0.10 0.07
Matches are distributed among these distances:
28 147 0.29
29 55 0.11
30 139 0.27
31 113 0.22
32 52 0.10
33 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (30 bp):
TGCCACGGAGTTGTGGACTTTAAAAAAGGG
Found at i:622054 original size:30 final size:30
Alignment explanation
Indices: 622012--622124 Score: 174
Period size: 30 Copynumber: 3.8 Consensus size: 30
622002 TTAAAAGTGG
*
622012 TGCCAC-GAAGTCATGGACTTTGAGAATAGA
1 TGCCACTG-AGTCATGGACTTTGAGAAGAGA
622042 TGCCACTGAGTCATGGACTTTGAGAAGAGA
1 TGCCACTGAGTCATGGACTTTGAGAAGAGA
*
622072 TGTCACTGAGTCATGGACTTTGAGAAGAGA
1 TGCCACTGAGTCATGGACTTTGAGAAGAGA
* *
622102 TGCCACTAAGTCGTGGACTTTGA
1 TGCCACTGAGTCATGGACTTTGA
622125 AAAGGTTACT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
30 76 0.99
31 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (30 bp):
TGCCACTGAGTCATGGACTTTGAGAAGAGA
Found at i:623299 original size:277 final size:277
Alignment explanation
Indices: 622800--623336 Score: 822
Period size: 277 Copynumber: 1.9 Consensus size: 277
622790 TTTTGACTTT
622800 TGATATAATATCAAGATATCCTAAGGCAAATTTTACTCGATTATCAAATATTATCAGCTAAATGA
1 TGATATAATATCAAGATATCCTAAGGCAAATTTTACTCGATTATCAAATATTATCAGCTAAATGA
* * * *
622865 AAAATGCAGAGATGTTGTATAAGGTATAGAGAGAGGAAAGGTAGTCTAATATGATTCTTTTTTGA
66 AAAATGCAGAAATGTTGTACAAGGTATAGAGAGAAGAAAGGTAGTCTAATATGATTCATTTTTGA
* * *
622930 CAAAAGGCTTGCTTATCAAGAAACAAGATTATTTTTGACAAGAAACGTAATGGTTTGGATCATTT
131 CAAAAGGCCTACTTATCAAGAAACAAGATCATTTTTGACAAGAAACGTAATGGTTTGGATCATTT
* * *
622995 CCGACAAAATGGTCTGATGACCAGAAATGTGATGCAATTTGGGTCATTGATGCCCTTGATAATCA
196 CCGACAAAATGGTCTGATGACCAGAAATATGATGCAATTTGGGTCATTGATACCCCTGATAATCA
623060 TGACACGAATATGCTTC
261 TGACACGAATATGCTTC
* * * * *
623077 TGATGTAATATCAAGATATCCTGATGTAGATTTTACTCGATTATCAAATATTATCAGCTAAATGA
1 TGATATAATATCAAGATATCCTAAGGCAAATTTTACTCGATTATCAAATATTATCAGCTAAATGA
* * * *
623142 CAAATGCAGAAATGTTTTACAAGGTATGGAGAGAAGAAAGGTAGTCTAATTTGATTCATTTTTGA
66 AAAATGCAGAAATGTTGTACAAGGTATAGAGAGAAGAAAGGTAGTCTAATATGATTCATTTTTGA
* * * * * *
623207 CAAAAGGCCTACTTGTCAAGAAACATGATCATTTTTGACAAGAAAGGTGATGGTTTGGTTTATTT
131 CAAAAGGCCTACTTATCAAGAAACAAGATCATTTTTGACAAGAAACGTAATGGTTTGGATCATTT
* * *
623272 CTGGCAAAATGGTTTGATGACCAGAAATATGATGCAATTTGGGTCATTGATACCCCTGATAATCA
196 CCGACAAAATGGTCTGATGACCAGAAATATGATGCAATTTGGGTCATTGATACCCCTGATAATCA
623337 CGATATGAAT
Statistics
Matches: 232, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
277 232 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (277 bp):
TGATATAATATCAAGATATCCTAAGGCAAATTTTACTCGATTATCAAATATTATCAGCTAAATGA
AAAATGCAGAAATGTTGTACAAGGTATAGAGAGAAGAAAGGTAGTCTAATATGATTCATTTTTGA
CAAAAGGCCTACTTATCAAGAAACAAGATCATTTTTGACAAGAAACGTAATGGTTTGGATCATTT
CCGACAAAATGGTCTGATGACCAGAAATATGATGCAATTTGGGTCATTGATACCCCTGATAATCA
TGACACGAATATGCTTC
Found at i:629786 original size:625 final size:629
Alignment explanation
Indices: 628575--629803 Score: 1674
Period size: 625 Copynumber: 2.0 Consensus size: 629
628565 ATTGATGTGA
628575 GTGAGGATGGTAAAGATGTAGAAGTGTTCGTGCCATGACATTGTCTAAGAAAGGTAAAAAAAAGG
1 GTGAGGATGGTAAAGATGTAGAAGTGTTCGTGCCATGACATTGTCTAAGAAAGGTAAAAAAAAGG
** * * * *
628640 TTCTGAGACTGATCGGGGCTATTCAGAGACAATCAAATGTCTCAGGATGGAGCTCGGGAAAATAA
66 TTCCAAGACTAATCGGGGCAATTCAGAGACAATCAAATGTCTCAGGATGGAGCTCAGAAAAATAA
*
628705 CTCAAATTTGCCCTAAACCAAAAATAGGGGATAACATCACGCTATCCCACTTTTCAAATTTATTT
131 CTCAAATTTGCCCTAAACCAAAAATAGGGGACAACATCACGCTATCCCACTTTTCAAATTTATTT
* * * * *
628770 TAGGTTGATTTGAAGGTTCTAGAGGGTTGATAAGGTATCGTTAAAAAGGTAACTCGATGAGAGTC
196 TAGGTTGATTTAAAAGTTCTAGAGGGTGGATAAGGTACCATTAAAAAGGTAACTCGA-GAGAGTC
*
628835 CATCTAGAAATATCCCAAAAATTCCAAAAAATTATTTTCTAGGAGGAATAAATTCTTGAAATCGG
260 AATCTAGAAATATCCCAAAAATTCCAAAAAATTATTTTCTAGGAGGAATAAATTCTTGAAATCGG
* * * * * * *
628900 GTGAATTGTGCTGTTGGCAAAGCATGTAAGAAAACGAGTGTGTCAAGCTTTGAAAAATCATCTCG
325 GTGAATTATGCTGCTAGCAAAGCATGCAACAAAACGAGTGTATCAAACTTTGAAAAATCATCTCG
* * * * *
628965 AGCTCATTTGTTATTGAAAAATTACAAATGATACCTTTCCGAAAAGGGAACTTCATGAATATTTG
390 AGCTCATTTGGTATCGAAAAATTACAAATGATACATTTCCAAAAAGGGAACTTCACGAATATTTG
* ** * *
629030 AGGAAAAATGTGTGAAAAATTTGGAAAAATCATCTAGTAGGCCTAGATAGCCCAACCAGAATGCA
455 AGGAAAAAGGTGTGAAAAATTTAAAAAAATCATCTAGTAGGCCTAAACAGCCCAACCAGAATGCA
* *
629095 TTTTGCTAATTCTAAGGGTTCTAGATAGCTTAGGTTTGAAAAATCGTAACTCCCTCATTCGGAAT
520 TTTTACTAATTCCAAGGGTTCTAGATAGCTTAGGTTTGAAAAATCGTAACTCCCTCATTCGGAAT
* *
629160 GATCTAGAGGCAAATAAGACACCGTTAGAAAAATATTAGAAGTTT
585 GATCCAAAGGCAAATAAGACACCGTTAGAAAAATATTAGAAGTTT
* * * *
629205 GTGAGGATGGTAAAGGT-TAGAAGTGTTTGTGCCTTGACA-TGATCTAAGAAAGGTAAAAAAGAG
1 GTGAGGATGGTAAAGATGTAGAAGTGTTCGTGCCATGACATTG-TCTAAGAAAGGTAAAAAAAAG
* * * *
629268 GTTCCAAGATTAATTGGGGCAATT-TGAAGACAATCAAATGTCTCGGGATGGAGCTCAGAAAAAT
65 GTTCCAAGACTAATCGGGGCAATTCAG-AGACAATCAAATGTCTCAGGATGGAGCTCAGAAAAAT
* * * *
629332 AACTCAAATTTGCCC-ACAACCAAAAATAGGGGACAGCATCGCGCTATCCTAC-TTTCTGAATTT
129 AACTCAAATTTGCCCTA-AACCAAAAATAGGGGACAACATCACGCTATCCCACTTTTC-AAATTT
* * * ** *
629395 AGTTTT-GGTTGATTTAAAAGTTCTAGTGGGTGGATGAGGTACCATTAGAAAGGTCTCTC-A-AT
192 A-TTTTAGGTTGATTTAAAAGTTCTAGAGGGTGGATAAGGTACCATTAAAAAGGTAACTCGAGAG
*
629457 AGTCAATCT-GAAAATATCCCAAAAATT-CAAAAAATTGTTTTCTAGGAGGAATAAATTCTTGAA
256 AGTCAATCTAG-AAATATCCCAAAAATTCCAAAAAATTATTTTCTAGGAGGAATAAATTCTTGAA
* *
629520 ATCGGGTGAATTATGCTGCTAGCAAAGCATGCAACACAAC-AGGTGTATCAAACTTTGAAAAATT
320 ATCGGGTGAATTATGCTGCTAGCAAAGCATGCAACAAAACGA-GTGTATCAAACTTTGAAAAATC
* * * *
629584 ATCTCGGGCTCATTTGGTATCGAAATATTGCAAATTATACATGTT-CAAAAAGGGAACTTCACGA
384 ATCTCGAGCTCATTTGGTATCGAAAAATTACAAATGATACAT-TTCCAAAAAGGGAACTTCACGA
* * *
629648 ATATTTGAGGAAAAAGGTTTGAAAAATTTTAAAAAAATCATCTAGTA-TCCTAAACGGCCCAACC
448 ATATTTGAGGAAAAAGGTGTGAAAAA-TTTAAAAAAATCATCTAGTAGGCCTAAACAGCCCAACC
* * * *
629712 AGAATGTATTTTACTAATTCCAAGGGTTCTAGATAGCTTAGGTTTGAAAATTTGTAACTCTCTCA
512 AGAATGCATTTTACTAATTCCAAGGGTTCTAGATAGCTTAGGTTTGAAAAATCGTAACTCCCTCA
*
629777 TTTGGAATGATCCAAAGGCAAATAAGA
577 TTCGGAATGATCCAAAGGCAAATAAGA
629804 TGCTATTAGA
Statistics
Matches: 523, Mismatches: 67, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
624 1 0.00
625 261 0.50
626 45 0.09
628 9 0.02
629 187 0.36
630 20 0.04
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (629 bp):
GTGAGGATGGTAAAGATGTAGAAGTGTTCGTGCCATGACATTGTCTAAGAAAGGTAAAAAAAAGG
TTCCAAGACTAATCGGGGCAATTCAGAGACAATCAAATGTCTCAGGATGGAGCTCAGAAAAATAA
CTCAAATTTGCCCTAAACCAAAAATAGGGGACAACATCACGCTATCCCACTTTTCAAATTTATTT
TAGGTTGATTTAAAAGTTCTAGAGGGTGGATAAGGTACCATTAAAAAGGTAACTCGAGAGAGTCA
ATCTAGAAATATCCCAAAAATTCCAAAAAATTATTTTCTAGGAGGAATAAATTCTTGAAATCGGG
TGAATTATGCTGCTAGCAAAGCATGCAACAAAACGAGTGTATCAAACTTTGAAAAATCATCTCGA
GCTCATTTGGTATCGAAAAATTACAAATGATACATTTCCAAAAAGGGAACTTCACGAATATTTGA
GGAAAAAGGTGTGAAAAATTTAAAAAAATCATCTAGTAGGCCTAAACAGCCCAACCAGAATGCAT
TTTACTAATTCCAAGGGTTCTAGATAGCTTAGGTTTGAAAAATCGTAACTCCCTCATTCGGAATG
ATCCAAAGGCAAATAAGACACCGTTAGAAAAATATTAGAAGTTT
Found at i:631558 original size:51 final size:51
Alignment explanation
Indices: 631492--631626 Score: 182
Period size: 51 Copynumber: 2.6 Consensus size: 51
631482 TGCCAGCATA
* * *
631492 TATCGATACATTGAAGAATGTATCAATACATTTGGATCGAAAACC-AGAATG
1 TATCGATACAATGAAGAATGTATCGATACATTTGGAT-GAAAACCTAAAATG
* * *
631543 TATTGATACAATGAAGAATGTATCGATACATTTGGGTTAAAACCTAAAATG
1 TATCGATACAATGAAGAATGTATCGATACATTTGGATGAAAACCTAAAATG
* *
631594 TATCGATACAATAAAAAATGTATCGATACATTT
1 TATCGATACAATGAAGAATGTATCGATACATTT
631627 TCATTCTAGA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 6 0.08
51 68 0.92
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (51 bp):
TATCGATACAATGAAGAATGTATCGATACATTTGGATGAAAACCTAAAATG
Found at i:631707 original size:19 final size:20
Alignment explanation
Indices: 631683--631735 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 20
631673 CATTTCAGAC
631683 ATGTATCAATACA-TCACTT
1 ATGTATCAATACATTCACTT
*
631702 ATGTATCGATACATTCACTT
1 ATGTATCAATACATTCACTT
631722 ATTGTATCAATACA
1 A-TGTATCAATACA
631736 AATTGTAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.40
20 7 0.23
21 11 0.37
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.38
Consensus pattern (20 bp):
ATGTATCAATACATTCACTT
Found at i:632318 original size:58 final size:57
Alignment explanation
Indices: 632221--632336 Score: 137
Period size: 58 Copynumber: 2.0 Consensus size: 57
632211 TTTTATATCA
*
632221 TTTTAGTCATTTTTCATGACATAGGAACTTCTATGCAATTTCATGTATTAT-AAGGTC
1 TTTTAGTCATTTTTCATGACATAGGAACTTCTATGCAATTTCATGCATT-TGAAGGTC
** * * *
632278 TTTTAGGTCATTTTTCATGATTTAGGGA-TTTTAATTCAATTTCATGCATTTGAAGGTC
1 TTTTA-GTCATTTTTCATGACATAGGAACTTCT-ATGCAATTTCATGCATTTGAAGGTC
632336 T
1 T
632337 AGGTTAATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
57 9 0.18
58 41 0.82
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.47
Consensus pattern (57 bp):
TTTTAGTCATTTTTCATGACATAGGAACTTCTATGCAATTTCATGCATTTGAAGGTC
Found at i:637840 original size:9 final size:9
Alignment explanation
Indices: 637826--637856 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
637816 AAATGACTTC
637826 AAATCATCA
1 AAATCATCA
637835 AAATCATCA
1 AAATCATCA
*
637844 AAATCATGA
1 AAATCATCA
637853 AAAT
1 AAAT
637857 AATCTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.58, C:0.16, G:0.03, T:0.23
Consensus pattern (9 bp):
AAATCATCA
Found at i:644118 original size:57 final size:57
Alignment explanation
Indices: 644024--644132 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
644014 ACCATTTTAC
644024 TCATTTTCCATGACATAGGGACTTTTATGCAATTTCATGCATTTTAAGGTCTTTTAAG
1 TCATTTTCCATGACATAGGGA-TTTTATGCAATTTCATGCATTTTAAGGTCTTTTAAG
* * *
644082 TCATTTTTCATGATC-TAGGG-TTTTATTGTAATTTCATGCGTTTTAAGGTCT
1 TCATTTTCCATGA-CATAGGGATTTTA-TGCAATTTCATGCATTTTAAGGTCT
644133 AGGTTAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
56 5 0.11
57 23 0.50
58 17 0.37
59 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.47
Consensus pattern (57 bp):
TCATTTTCCATGACATAGGGATTTTATGCAATTTCATGCATTTTAAGGTCTTTTAAG
Found at i:644204 original size:58 final size:58
Alignment explanation
Indices: 644139--644269 Score: 165
Period size: 58 Copynumber: 2.3 Consensus size: 58
644129 GTCTAGGTTA
* * ** * *
644139 ATTTTCCATAATCTAAGGACATTTTTGA-AATTTCATATATTTTGGGATTATTCAAGTT
1 ATTTTCCATGATCTAAAGAC-TTTTACATAATTTCATATATGTTGGGATCATTCAAGTT
* * *
644197 ATTTTCCATGATCTAAAGACTTTTACATAATTTCATGTATGTTGGGGTCATTTAAGTT
1 ATTTTCCATGATCTAAAGACTTTTACATAATTTCATATATGTTGGGATCATTCAAGTT
644255 ATTTTCCATGATCTA
1 ATTTTCCATGATCTA
644270 GAAACTTGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 5 0.08
58 58 0.92
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (58 bp):
ATTTTCCATGATCTAAAGACTTTTACATAATTTCATATATGTTGGGATCATTCAAGTT
Found at i:644287 original size:58 final size:58
Alignment explanation
Indices: 644167--644322 Score: 179
Period size: 58 Copynumber: 2.7 Consensus size: 58
644157 ACATTTTTGA
* * * * * * *
644167 AATTTCATATATTTTGGGATTATTCAAGTTATTTTCCATGATCTAAAGACTTTTACAT
1 AATTTCATGTATGTTGGGGTCATTTAAGTTATTTTCCATGATCTAAAGACTTGTACAC
**
644225 AATTTCATGTATGTTGGGGTCATTTAAGTTATTTTCCATGATCTAGAA-ACTTGTATGC
1 AATTTCATGTATGTTGGGGTCATTTAAGTTATTTTCCATGATCTA-AAGACTTGTACAC
** * *
644283 AATTTCATGTATGTTAAGGTCATTTAGGTTATTTTTCATG
1 AATTTCATGTATGTTGGGGTCATTTAAGTTATTTTCCATG
644323 TTCCCGGGAC
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
58 82 0.98
59 2 0.02
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (58 bp):
AATTTCATGTATGTTGGGGTCATTTAAGTTATTTTCCATGATCTAAAGACTTGTACAC
Found at i:646411 original size:27 final size:27
Alignment explanation
Indices: 646380--646434 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
646370 TTTCTGTTTC
*
646380 AAATTTCCACCCATGGAATTTTTAATT
1 AAATTCCCACCCATGGAATTTTTAATT
***
646407 AAATTCCCATGTATGGAATTTTTAATT
1 AAATTCCCACCCATGGAATTTTTAATT
646434 A
1 A
646435 TCTTTTTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.42
Consensus pattern (27 bp):
AAATTCCCACCCATGGAATTTTTAATT
Found at i:648834 original size:23 final size:24
Alignment explanation
Indices: 648808--648854 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
648798 GATAATAATT
648808 TGTTAAAATAAGAAATATT-AAAG
1 TGTTAAAATAAGAAATATTCAAAG
* * *
648831 TGTTTAACTAAGACATATTCAAAG
1 TGTTAAAATAAGAAATATTCAAAG
648855 ATTTATAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (24 bp):
TGTTAAAATAAGAAATATTCAAAG
Found at i:648859 original size:23 final size:23
Alignment explanation
Indices: 648816--648859 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
648806 TTTGTTAAAA
*
648816 TAAGAAATATTAAAGTGTTTAAC
1 TAAGAAATATTAAAGTATTTAAC
*
648839 TAAGACATATTCAAAG-ATTTA
1 TAAGAAATATT-AAAGTATTTA
648860 TAGAAAGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (23 bp):
TAAGAAATATTAAAGTATTTAAC
Found at i:651201 original size:57 final size:57
Alignment explanation
Indices: 651125--651443 Score: 218
Period size: 58 Copynumber: 5.5 Consensus size: 57
651115 AATTCCTAAG
* * ** * *
651125 TCATGGAAAATTACTTAAAT-ATTTTCAAAATGTATGAAATTGATAAAAGTCCGTAGA
1 TCATGGAAAATGACCTAAATGACATT-AAAATGAATGAAATTGATAAAAGTCCCTAGA
* * ** * *
651182 TCATGAAAAATAACCTAAATGACCCTAATAT-ACATGAAATTACATAAAAGTCCCTAGA
1 TCATGGAAAATGACCTAAATGACATTAAAATGA-ATGAAATT-GATAAAAGTCCCTAGA
* *
651240 TCAT-GAAAATGACGTAAATGACATTAAAATGAATGAAA-TGACATAAAAGTCCCAAGA
1 TCATGGAAAATGACCTAAATGACATTAAAATGAATGAAATTG--ATAAAAGTCCCTAGA
* ** ** *
651297 TCATGGAAAATGACCTAAATGACATCAAAATTCACAAAATT-A-AACTTAAGTCCTTAGA
1 TCATGGAAAATGACCTAAATGACATTAAAATGAATGAAATTGATAA---AAGTCCCTAGA
* * ** ** ** *
651355 TCATGGTAAATGACCTAAATGACATCAAAATTCACAAAATTGCATCTAAGTCCCTAAA
1 TCATGGAAAATGACCTAAATGACATTAAAATGAATGAAATTG-ATAAAAGTCCCTAGA
** * *
651413 TCATAAAAAATAACCTAAATGACATCAAAAT
1 TCATGGAAAATGACCTAAATGACATTAAAAT
651444 AAAAGTCTTT
Statistics
Matches: 213, Mismatches: 35, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
55 2 0.01
56 2 0.01
57 73 0.34
58 134 0.63
59 1 0.00
60 1 0.00
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.26
Consensus pattern (57 bp):
TCATGGAAAATGACCTAAATGACATTAAAATGAATGAAATTGATAAAAGTCCCTAGA
Found at i:651337 original size:115 final size:116
Alignment explanation
Indices: 651149--651444 Score: 307
Period size: 116 Copynumber: 2.6 Consensus size: 116
651139 TTAAATATTT
* ** * *
651149 TCAAAATGTATGAAATTG-ATAAAAGTCCGTAGATCATGAAAAATAACCTAAATGAC-CCTAATA
1 TCAAAATGAATGAAATTGCATAAAAGTCCCAAGATCATGAAAAATAACCTAAATGACATC-AAAA
** * *
651212 TACATGAAATTACA-TAAAAGTCCCTAGATCAT-GAAAATGACGTAAATGACA
65 TACACAAAATTAAACT-AAAGTCCCTAGATCATGGAAAATGACCTAAATGACA
* * *
651263 TTAAAATGAATGAAA-TGACATAAAAGTCCCAAGATCATGGAAAATGACCTAAATGACATCAAAA
1 TCAAAATGAATGAAATTG-CATAAAAGTCCCAAGATCATGAAAAATAACCTAAATGACATCAAAA
* * * *
651327 TTCACAAAATTAAACTTAAGTCCTTAGATCATGGTAAATGACCTAAATGACA
65 TACACAAAATTAAACTAAAGTCCCTAGATCATGGAAAATGACCTAAATGACA
** ** ** *
651379 TCAAAATTCACAAAATTGCATCTAAGTCCCTAA-ATCATAAAAAATAACCTAAATGACATCAAAA
1 TCAAAATGAATGAAATTGCATAAAAGTCCC-AAGATCATGAAAAATAACCTAAATGACATCAAAA
651443 TA
65 TA
651445 AAAGTCTTTA
Statistics
Matches: 148, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
113 2 0.01
114 13 0.09
115 61 0.41
116 68 0.46
117 4 0.03
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.24
Consensus pattern (116 bp):
TCAAAATGAATGAAATTGCATAAAAGTCCCAAGATCATGAAAAATAACCTAAATGACATCAAAAT
ACACAAAATTAAACTAAAGTCCCTAGATCATGGAAAATGACCTAAATGACA
Found at i:651525 original size:101 final size:102
Alignment explanation
Indices: 651344--651549 Score: 263
Period size: 101 Copynumber: 2.0 Consensus size: 102
651334 AATTAAACTT
* * *
651344 AAGTCCTTAGATCATGGTAAATGACCTAAATGACATCAAAATTCACAAAATTGCATCTAAGTCCC
1 AAGTCCTTAGATCATGGTAAATGACCTAAATGACATCAAAATTCAAAAAATTACATCCAAGTCCC
*
651409 TAAATCATAAAAAATAACCTAAATGACATCAAAATAA
66 TAAATAATAAAAAATAACCTAAATGACATCAAAATAA
* * * *
651446 AAGTCTTTAGATCATGAG-AAATG-GCTAAATGACATCAAAATTTAAAAAATTACATCCAAGTCG
1 AAGTCCTTAGATCATG-GTAAATGACCTAAATGACATCAAAATTCAAAAAATTACATCCAAGTCC
* * * * * *
651509 CTAGATAATGATAAATAACTTAAATGGCATCATAATAA
65 CTAAATAATAAAAAATAACCTAAATGACATCAAAATAA
651547 AAG
1 AAG
651550 AAATCATGTG
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
101 68 0.76
102 20 0.22
103 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.26
Consensus pattern (102 bp):
AAGTCCTTAGATCATGGTAAATGACCTAAATGACATCAAAATTCAAAAAATTACATCCAAGTCCC
TAAATAATAAAAAATAACCTAAATGACATCAAAATAA
Found at i:653105 original size:21 final size:21
Alignment explanation
Indices: 653079--653184 Score: 108
Period size: 21 Copynumber: 5.1 Consensus size: 21
653069 AAACACAATA
653079 TTGTATCGATACCATATGGCC
1 TTGTATCGATACCATATGGCC
** *
653100 TTGTATCGATATAATA-GGCA
1 TTGTATCGATACCATATGGCC
**
653120 TTGTATTAATACCATATGGCC
1 TTGTATCGATACCATATGGCC
** *
653141 TTGTATCGATATAATA-GGCA
1 TTGTATCGATACCATATGGCC
**
653161 TTGTATTAATACCATATGGCC
1 TTGTATCGATACCATATGGCC
653182 TTG
1 TTG
653185 CATCAATATA
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
20 30 0.46
21 35 0.54
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (21 bp):
TTGTATCGATACCATATGGCC
Found at i:653135 original size:41 final size:41
Alignment explanation
Indices: 653078--653196 Score: 202
Period size: 41 Copynumber: 2.9 Consensus size: 41
653068 AAAACACAAT
**
653078 ATTGTATCGATACCATATGGCCTTGTATCGATATAATAGGC
1 ATTGTATTAATACCATATGGCCTTGTATCGATATAATAGGC
653119 ATTGTATTAATACCATATGGCCTTGTATCGATATAATAGGC
1 ATTGTATTAATACCATATGGCCTTGTATCGATATAATAGGC
* *
653160 ATTGTATTAATACCATATGGCCTTGCATCAATATAAT
1 ATTGTATTAATACCATATGGCCTTGTATCGATATAAT
653197 GCATGTTTCA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (41 bp):
ATTGTATTAATACCATATGGCCTTGTATCGATATAATAGGC
Found at i:657830 original size:80 final size:79
Alignment explanation
Indices: 657682--657919 Score: 234
Period size: 80 Copynumber: 3.0 Consensus size: 79
657672 ATATTTCCCG
* * * * *
657682 ATGAGAAATTTAATATTTTG-GAGATAATAA-CGGGGTTGGAGTGTCCCCT-TGAAAATGACGGG
1 ATGAGAAA-TCAATATTTAGAGA-ATAA-AACCGGGGTTGGAGTATCCCCTCAG-AAATAACGGG
* *
657744 GCTGGAGTATCCCCGGTT
62 GTTGGAGTATCCCCGATT
* * *
657762 GTGAGAAATCGATGA-TTAGAGAA-AAAACATCGGGATTGGAGTATCCCCTCAGAAATAACGGGG
1 ATGAGAAATCAAT-ATTTAGAGAATAAAAC--CGGGGTTGGAGTATCCCCTCAGAAATAACGGGG
*
657825 TTGGAGTATCCCCAATT
63 TTGGAGTATCCCCGATT
* * * **
657842 ATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCAGAGGTAACGGGGTTG
1 ATGAGAAATCAATATTTAGAGAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
657907 GAGTATCCCCGAT
66 GAGTATCCCCGAT
657920 GAAATAATGA
Statistics
Matches: 130, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
77 2 0.02
78 2 0.02
79 53 0.41
80 68 0.52
81 5 0.04
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (79 bp):
ATGAGAAATCAATATTTAGAGAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
GAGTATCCCCGATT
Found at i:658001 original size:53 final size:52
Alignment explanation
Indices: 657930--658101 Score: 206
Period size: 52 Copynumber: 3.3 Consensus size: 52
657920 GAAATAATGA
* *
657930 GGTTGGAGTA-CCCTCGATTGTGAAAAAATTGGTCTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCC-CGATTGTGAAAAAATTGGT-GTTTTGGAAATAAAACCGG
* * * *
657983 AGCTGGAGTATCCCCGA-T-TAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGAA--AAAATTGGTGTTTTGGAAATAAAACCGG
* * *
658035 GGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTGGAAATAAAACCGG
658087 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
658102 AATTATGAGA
Statistics
Matches: 101, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
51 3 0.03
52 71 0.70
53 21 0.21
54 6 0.06
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTGGAAATAAAACCGG
Found at i:658145 original size:51 final size:52
Alignment explanation
Indices: 658024--658152 Score: 163
Period size: 51 Copynumber: 2.5 Consensus size: 52
658014 GTGTTTTGAA
* * * * *
658024 AATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGC
1 AATAAAACCGGGGTTGGAGTATCCCCAATTATGAAAAAATCAATATTTTAGC
*
658076 AATAAAACCGGGGTTGGAGTATCCCCAATTATG-AGAAATCAATATTTTAAG-
1 AATAAAACCGGGGTTGGAGTATCCCCAATTATGAAAAAATCAATATTTT-AGC
* *
658127 AATAAAGCAGGGGTTGGAGTATCCCC
1 AATAAAACCGGGGTTGGAGTATCCCC
658153 TCGAAAATAA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 35 0.51
52 33 0.49
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (52 bp):
AATAAAACCGGGGTTGGAGTATCCCCAATTATGAAAAAATCAATATTTTAGC
Found at i:658198 original size:27 final size:27
Alignment explanation
Indices: 658136--658210 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
658126 GAATAAAGCA
658136 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTAT-CCC-CGATAAATAAC
* *
658164 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATAAATAAC
658191 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
658211 TGTGAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 3 0.07
27 28 0.64
28 13 0.30
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATAAATAAC
Found at i:658274 original size:53 final size:51
Alignment explanation
Indices: 658194--658315 Score: 147
Period size: 51 Copynumber: 2.4 Consensus size: 51
658184 GATTAACGGG
* * * *
658194 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTG--TTTTGAAAATAAAATCAGA
*
658247 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATTAGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGAAAATAAAATCAGA
* *
658298 GATGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
658316 GCGGAGAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
51 32 0.52
52 1 0.02
53 28 0.46
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCAGA
Found at i:660696 original size:13 final size:13
Alignment explanation
Indices: 660678--660703 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
660668 ACAAAGATCC
660678 ATGTATCGATACA
1 ATGTATCGATACA
660691 ATGTATCGATACA
1 ATGTATCGATACA
660704 TGGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:660763 original size:13 final size:13
Alignment explanation
Indices: 660741--660798 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
660731 GGCAGTAACT
*
660741 TTGTAGCGATACA
1 TTGTATCGATACA
660754 TTGTATCGATACATCA
1 TTGTATCGAT--A-CA
660770 CTTGTGTATCGATACA
1 --T-TGTATCGATACA
660786 TTGTATCGATACA
1 TTGTATCGATACA
660799 ACATTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
15 1 0.03
16 4 0.11
17 1 0.03
18 1 0.03
19 9 0.24
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:660788 original size:32 final size:31
Alignment explanation
Indices: 660738--660817 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 31
660728 CTTGGCAGTA
* *
660738 ACTTTGTAGCGATACATTGTATCGATACATC
1 ACTTTGTATCGATACATTGTATCGATACAAC
660769 ACTTGTGTATCGATACATTGTATCGATACAAC
1 ACTT-TGTATCGATACATTGTATCGATACAAC
*
660801 ATTTATGTATCGATACA
1 ACTT-TGTATCGATACA
660818 AATCGCTGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 4 0.09
32 40 0.91
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (31 bp):
ACTTTGTATCGATACATTGTATCGATACAAC
Found at i:661796 original size:110 final size:113
Alignment explanation
Indices: 661603--662372 Score: 792
Period size: 110 Copynumber: 6.7 Consensus size: 113
661593 AAAAAGTGTA
* * *
661603 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT-G-AAAGGCGTCCTGTTC
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCTC
*
661666 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAG-AGGTG
65 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAAGGCG
*
661713 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-G-AAAGGTGTCCTGCTC
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCTC
* * * *
661776 TTTGGGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-GA-AAGGTG
65 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAAGGCG
* * * * *
661823 TCTTACTCTTTGAGGACTGGAAAAAGCCACCAACTTGTATGGGCTTT-G-AAAGGTGTCCTGCTC
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCTC
* * * *
661886 TTTGGGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTGAAAAGAAAAAGCA
65 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAG--AAGGCG
** *
661939 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCTGC
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT---AGAAAAGGCGTCCTGC
* * * *
662004 TTTTTGAGGACT-CAAGGTGCCACTAACTTGTGTGAGCTTTAAAAGAAAAGGCG
63 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAG--AAGGCG
* ** * * *
662057 TCCTGCTCTTTAAGGACTGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAGGCATCTTGC
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT---AGAAAAGGCGTCCTGC
*
662122 TCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACG
63 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAG--AAGGCG
** * *
662175 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGTGTCCTGC
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT---AGAAAAGGCGTCCTGC
** * *
662240 TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTAAAAGAAAAGGTG
63 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAG--AAGGCG
* *
662294 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGGGGGCTTTTAAAAGGAAAAGGCATCC
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGC-TTT---A-GAAAAGGCGTCC
662359 TGCTC-TTGAGGACT
60 TGCTCTTTGAGGACT
662373 AAAAAGCGGA
Statistics
Matches: 583, Mismatches: 59, Indels: 25
0.87 0.09 0.04
Matches are distributed among these distances:
110 193 0.33
111 4 0.01
113 1 0.00
115 23 0.04
116 19 0.03
118 191 0.33
119 78 0.13
120 44 0.08
121 16 0.03
122 14 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (113 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCTCT
TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAAGGCG
Found at i:661928 original size:29 final size:29
Alignment explanation
Indices: 661848--661928 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 29
661838 ACTGGAAAAA
661848 GCCACCAACTTGTATGGGCTTTGAAAGGT
1 GCCACCAACTTGTATGGGCTTTGAAAGGT
** * *
661877 GTCCTGC-TCTT-T-GGGGAC--TGAAAGGT
1 G-CCACCAACTTGTATGGG-CTTTGAAAGGT
661903 GCCACCAACTTGTATGGGCTTTGAAA
1 GCCACCAACTTGTATGGGCTTTGAAA
661929 AGAAAAAGCA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
25 3 0.08
26 12 0.32
27 5 0.14
28 5 0.14
29 9 0.24
30 3 0.08
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (29 bp):
GCCACCAACTTGTATGGGCTTTGAAAGGT
Found at i:662014 original size:59 final size:59
Alignment explanation
Indices: 661603--662372 Score: 881
Period size: 59 Copynumber: 13.3 Consensus size: 59
661593 AAAAAGTGTA
* * *
661603 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
661658 TCCTGTTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** *
661713 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
661768 TCCTGCTCTTTGGGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *** * *
661823 TCTTACTCTTTGAGGACTGGAAAAAGCCACCAACTTGTATGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
661878 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
*
661939 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
661998 TCCTGCTTTTTGAGGACTCAAGGTGCCACTAACTTGTGTGAGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
662057 TCCTGCTCTTTAAGGACTGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
662116 TCTTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGACG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
662175 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** * *
662234 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** * *
662294 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGGGGGCTTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGC-TTTAAAA-GAAAAGGCG
662356 TCCTGCTC-TTGAGGACT
1 TCCTGCTCTTTGAGGACT
662373 AAAAAGCGGA
Statistics
Matches: 637, Mismatches: 59, Indels: 32
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.00
54 2 0.00
55 230 0.36
56 2 0.00
57 1 0.00
59 245 0.38
60 102 0.16
61 39 0.06
62 15 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:663380 original size:23 final size:23
Alignment explanation
Indices: 663348--663393 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
663338 CTTTTCTCTC
663348 TTTTTCTTTGCTTTATTTTTTTTG
1 TTTTTCTTTGCTTT-TTTTTTTTG
663372 TTTTT-TTTGCTTTTTTTTTTTG
1 TTTTTCTTTGCTTTTTTTTTTTG
663394 AAGAGAAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 9 0.41
23 8 0.36
24 5 0.23
ACGTcount: A:0.02, C:0.07, G:0.09, T:0.83
Consensus pattern (23 bp):
TTTTTCTTTGCTTTTTTTTTTTG
Found at i:673237 original size:15 final size:15
Alignment explanation
Indices: 673217--673246 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
673207 ATATCCCCAT
673217 GTCTCTTGGTAAAAG
1 GTCTCTTGGTAAAAG
673232 GTCTCTTGGTAAAAG
1 GTCTCTTGGTAAAAG
673247 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (15 bp):
GTCTCTTGGTAAAAG
Found at i:673254 original size:16 final size:15
Alignment explanation
Indices: 673218--673254 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
673208 TATCCCCATG
*
673218 TCTCTTGGTAAAAGG
1 TCTCTTGGTAAAAGC
673233 TCTCTTGGTAAAAGAC
1 TCTCTTGGTAAAAG-C
673249 TCTCTT
1 TCTCTT
673255 TTGGCATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (15 bp):
TCTCTTGGTAAAAGC
Found at i:676111 original size:50 final size:52
Alignment explanation
Indices: 675892--676113 Score: 166
Period size: 52 Copynumber: 4.3 Consensus size: 52
675882 GAAATAACGA
* * * * * ** * *
675892 GGTTGGAGTATCCTCGATTGTGAAAAAATTAGTGTTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGGAAAAATAAGTG-ATTTAAAAATAAAACCGG
* * * ** *
675945 AGCTGGAGTATCCCCGATTAAAGG-AAAATTGGTG-TTTCGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAAATAAGTGATTT-AAAAATAAAACCGG
* * ** *
675997 GGTTGGAGTATCCCCGATTGTGGAAAAATAAGTGTTTTAGCAATAAAACCGA
1 GGTTGGAGTATCCCCGATTATGGAAAAATAAGTGATTTAAAAATAAAACCGG
* * *
676049 GGTTGGAGTATCCCCGATTAT-GAGAAATCAA-T-ATTTAAAAATAAAGCAGG
1 GGTTGGAGTATCCCCGATTATGGAAAAAT-AAGTGATTTAAAAATAAAACCGG
676099 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
676114 TCGGAAATAA
Statistics
Matches: 136, Mismatches: 28, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
50 27 0.20
51 12 0.09
52 68 0.50
53 28 0.21
54 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTATGGAAAAATAAGTGATTTAAAAATAAAACCGG
Found at i:676193 original size:53 final size:51
Alignment explanation
Indices: 676128--676250 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 51
676118 AAATAACGGG
* * **
676128 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTAG-AAAATTAGTG--TTTTGAAAATAAAATCAAA
*
676181 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCAAA
1 GTTGGAGTATCCCCGATTGTAGAAAATTAGTGTTTTGAAAATAAAATCAAA
* *
676232 GATGGAATATCCCCGATTG
1 GTTGGAGTATCCCCGATTG
676251 CGGAGAATTG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
51 32 0.52
53 28 0.46
54 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTAGAAAATTAGTGTTTTGAAAATAAAATCAAA
Found at i:678614 original size:13 final size:13
Alignment explanation
Indices: 678596--678621 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
678586 ACAAAGATCC
678596 ATGTATCGATACA
1 ATGTATCGATACA
678609 ATGTATCGATACA
1 ATGTATCGATACA
678622 TGGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:678681 original size:13 final size:13
Alignment explanation
Indices: 678659--678716 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
678649 GGCAGTAGCT
*
678659 TTGTAGCGATACA
1 TTGTATCGATACA
678672 TTGTATCGATACATCA
1 TTGTATCGAT--A-CA
678688 CTTGTGTATCGATACA
1 --T-TGTATCGATACA
678704 TTGTATCGATACA
1 TTGTATCGATACA
678717 ACACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
15 1 0.03
16 4 0.11
17 1 0.03
18 1 0.03
19 9 0.24
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:678706 original size:32 final size:32
Alignment explanation
Indices: 678660--678735 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
678650 GCAGTAGCTT
* * *
678660 TGTAGCGATACATTGTATCGATACATCACTTG
1 TGTATCGATACATTGTATCGATACAACACTTA
678692 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
*
678724 TGTATCAATACA
1 TGTATCGATACA
678736 AATCGCTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:678729 original size:19 final size:18
Alignment explanation
Indices: 678672--678736 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 18
678662 TAGCGATACA
*
678672 TTGTATCGATACATCACT
1 TTGTATCGATACAACACT
678690 TGTGTATCGAT---ACA--
1 T-TGTATCGATACAACACT
678704 TTGTATCGATACAACACT
1 TTGTATCGATACAACACT
*
678722 TATGTATCAATACAA
1 T-TGTATCGATACAA
678737 ATCGCTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 5 0.13
18 2 0.05
19 21 0.55
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (18 bp):
TTGTATCGATACAACACT
Found at i:678799 original size:21 final size:21
Alignment explanation
Indices: 678773--678849 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
678763 GTTGGGACCT
* *
678773 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
678794 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
678815 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
678836 TGTATCGATACATT
1 TGTATCGATACATT
678850 TGGATAAAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:682435 original size:57 final size:58
Alignment explanation
Indices: 682361--682666 Score: 214
Period size: 57 Copynumber: 5.5 Consensus size: 58
682351 TCTATGCATT
*
682361 TTTATGTCATTTTCCATGACTTTGGAACTTTGATGCAATTTTATGAATTTTGATGTCA
1 TTTATGTCATTTTCCATGACTTAGGAACTTTGATGCAATTTTATGAATTTTGATGTCA
* * *
682419 TTTAGGTCA-TTTCCATGACTTAAGG-ACTTTGATACAATTTTGTGAATTTTGATGTCA
1 TTTATGTCATTTTCCATGACTT-AGGAACTTTGATGCAATTTTATGAATTTTGATGTCA
* * * * * *
682476 TTAATGTCATTTTCCATGA-TCTAGCAATTTTAATGTAATTTTATGTA-TTT--TG--A
1 TTTATGTCATTTTCCATGACT-TAGGAACTTTGATGCAATTTTATGAATTTTGATGTCA
* * * *
682529 ---A-GTCATTTTCCACGACTTAAGG-ACTTTTATGCAATTTTATGAATGATTG-GGTCA
1 TTTATGTCATTTTCCATGACTT-AGGAACTTTGATGCAATTTTATGAAT-TTTGATGTCA
* * * * * * * **
682583 TTTAGGTCATTTTTCATGATTTAGGGACTTTCATGTAA-TTCAT-ATATTTTAGAAAT-A
1 TTTATGTCATTTTCCATGACTTAGGAACTTTGATGCAATTTTATGA-ATTTT-GATGTCA
* *
682640 TTTAAGTCATTTTTCATGACTTAGGAA
1 TTTATGTCATTTTCCATGACTTAGGAA
682667 TTATTATGCA
Statistics
Matches: 196, Mismatches: 33, Indels: 39
0.73 0.12 0.15
Matches are distributed among these distances:
49 31 0.16
50 4 0.02
51 2 0.01
52 1 0.01
53 1 0.01
54 1 0.01
55 2 0.01
56 3 0.02
57 91 0.46
58 60 0.31
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.46
Consensus pattern (58 bp):
TTTATGTCATTTTCCATGACTTAGGAACTTTGATGCAATTTTATGAATTTTGATGTCA
Found at i:682619 original size:107 final size:106
Alignment explanation
Indices: 682424--682622 Score: 247
Period size: 107 Copynumber: 1.9 Consensus size: 106
682414 TGTCATTTAG
* * * * *
682424 GTCATTTCCATGACTTAAGGACTTTGATACAATTTTGTGAATTTTGATGTCATTAATGTCATTTT
1 GTCATTTCCACGACTTAAGGACTTTGATACAATTTTATGAATATTGAGGTCATTAAGGTCATTTT
*
682489 CCATGATCTAGCAATTTTAATGTAATTTTATGTATTTTGAA
66 CCATGATCTAGCAACTTTAATGTAATTTTATGTATTTTGAA
* * *
682530 GTCATTTTCCACGACTTAAGGACTTTTATGCAATTTTATGAATGATTG-GGTCATTTAGGTCATT
1 GTCA-TTTCCACGACTTAAGGACTTTGATACAATTTTATGAAT-ATTGAGGTCATTAAGGTCATT
* * ** *
682594 TTTCATGATTTAGGGACTTTCATGTAATT
64 TTCCATGATCTAGCAACTTTAATGTAATT
682623 CATATATTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
106 4 0.05
107 70 0.91
108 3 0.04
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (106 bp):
GTCATTTCCACGACTTAAGGACTTTGATACAATTTTATGAATATTGAGGTCATTAAGGTCATTTT
CCATGATCTAGCAACTTTAATGTAATTTTATGTATTTTGAA
Found at i:683008 original size:18 final size:18
Alignment explanation
Indices: 682985--683023 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
682975 AATAAGTAAA
682985 TCAGAAGTTTCAATTTTC
1 TCAGAAGTTTCAATTTTC
683003 TCAGAAGTTTCAATTTTC
1 TCAGAAGTTTCAATTTTC
683021 TCA
1 TCA
683024 AAAATAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (18 bp):
TCAGAAGTTTCAATTTTC
Found at i:685194 original size:67 final size:67
Alignment explanation
Indices: 685086--685220 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
685076 TTATGATTTC
685086 AGCCTAAGGTTTGTATTATTTGGTATCAGAGCTTTGGTTCTTGAAAGTCAAGTATAATCCATCTT
1 AGCCTAAGGTTTGTATTATTTGGTATCAGAGCTTTGGTTCTTGAAAGTCAAGTATAATCCATCTT
685151 TT
66 TT
685153 AGCCTAAGGTTTGTATTATTTGGTATCAGAGCTTTGGTTCTTGAAAGTCAAGTATAATCCATCTT
1 AGCCTAAGGTTTGTATTATTTGGTATCAGAGCTTTGGTTCTTGAAAGTCAAGTATAATCCATCTT
685218 TT
66 TT
685220 A
1 A
685221 ATCCTATAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (67 bp):
AGCCTAAGGTTTGTATTATTTGGTATCAGAGCTTTGGTTCTTGAAAGTCAAGTATAATCCATCTT
TT
Found at i:692654 original size:19 final size:20
Alignment explanation
Indices: 692626--692673 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
692616 TAATTCAGTG
692626 TGTATCGATACCAAG-AACA
1 TGTATCGATACCAAGTAACA
* * *
692645 TGTATTGATACTAAGTAATA
1 TGTATCGATACCAAGTAACA
692665 TGTATCGAT
1 TGTATCGAT
692674 GCATCTGGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (20 bp):
TGTATCGATACCAAGTAACA
Found at i:698191 original size:28 final size:28
Alignment explanation
Indices: 698148--698214 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
698138 CAAAGCCCAT
* *
698148 AGTCAGTGGCCCCTCTTTAAAGTCCACA
1 AGTCAGTGGCACCTCTTCAAAGTCCACA
* * *
698176 AGTCAGTGGCATCTCTTCGAAGTCCATA
1 AGTCAGTGGCACCTCTTCAAAGTCCACA
*
698204 A-TTAGTGGCAC
1 AGTCAGTGGCAC
698215 TTGCTGTACA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 8 0.25
28 24 0.75
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (28 bp):
AGTCAGTGGCACCTCTTCAAAGTCCACA
Found at i:698453 original size:32 final size:32
Alignment explanation
Indices: 698385--698510 Score: 130
Period size: 32 Copynumber: 3.9 Consensus size: 32
698375 CCCAATGGAG
* * * **
698385 AACCCTTTTTAAAACCCACACAAGCTGGTGGC
1 AACCCTCTTTAAAGCCCACACAAGTTGGTGAT
*
698417 AACCCTCTTTAAAGCCCACACAAGTTAGTGAT
1 AACCCTCTTTAAAGCCCACACAAGTTGGTGAT
* *
698449 AACCCGTC-TTAAAGCCCACATAAGTCGGTGAT
1 AACCC-TCTTTAAAGCCCACACAAGTTGGTGAT
* *
698481 GACCCT-TTCAAAAGCCCACACAAGTTGGTG
1 AACCCTCTT-TAAAGCCCACACAAGTTGGTG
698511 GCATCTCTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
31 2 0.03
32 74 0.95
33 2 0.03
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (32 bp):
AACCCTCTTTAAAGCCCACACAAGTTGGTGAT
Found at i:698845 original size:104 final size:104
Alignment explanation
Indices: 698725--699078 Score: 401
Period size: 104 Copynumber: 3.4 Consensus size: 104
698715 CATTCTTCTT
* * * * * * * *
698725 ATCTTCAAGTCTAATGTCACTGGCCGTGAATCAGCACATTGACATTAGTCTCACCTT-T-AAGTC
1 ATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTA-TCT-TCTTTCTCAAGTC
* * * *
698788 CAATATCGCTAGCCTTAAATTAGCATATTGGTACCTTTATC
64 CAACATCGCTGGCCTTGAATCAGCATATTGGTACCTTTATC
* * *
698829 ATCTTTAAGTCCAATGTTGCTAGCCTTGAATCAGCATATTGGCACCT-TCTTCTTTCTCAAGTCC
1 ATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA-TTATCTTCTTTCTCAAGTCC
* *
698893 AACATCGCTGGCCTTGAATCAACATATTGGCACCTTTATC
65 AACATCGCTGGCCTTGAATCAGCATATTGGTACCTTTATC
* * ** *
698933 ATCTTTAAGTGCAATGTTGCGGGCCTTGAATCAGCACATTGGCATCATCTTCTTTCTCAAGTCCA
1 ATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTATCTTCTTTCTCAAGTCCA
* *
698998 ACATCGCTGGCCTTGAATCAGCATATT-GTCGCCTGTATC
66 ACATCGCTGGCCTTGAATCAGCATATTGGT-ACCTTTATC
* * *
699037 ATCTTTAAGTCCAACGTCGCTAACCTTGAATCAGCACTTTGG
1 ATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGG
699079 TACTCTTCTC
Statistics
Matches: 211, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
102 3 0.01
103 5 0.02
104 202 0.96
105 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (104 bp):
ATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTATCTTCTTTCTCAAGTCCA
ACATCGCTGGCCTTGAATCAGCATATTGGTACCTTTATC
Found at i:698865 original size:52 final size:52
Alignment explanation
Indices: 698779--699095 Score: 256
Period size: 52 Copynumber: 6.1 Consensus size: 52
698769 TTAGTCTCAC
* * *
698779 CTTTAAGTCCAATATCGCTAGCCTTAAATTAGCATATTGGTACCTTTATCAT
1 CTTTAAGTCCAACATCGCTAGCCTTGAATCAGCATATTGGTACCTTTATCAT
** * *
698831 CTTTAAGTCCAATGTTGCTAGCCTTGAATCAGCATATTGGCACCTTCT-TC-T
1 CTTTAAGTCCAACATCGCTAGCCTTGAATCAGCATATTGGTACCTT-TATCAT
* * *
698882 -TTCTCAAGTCCAACATCGCTGGCCTTGAATCAACATATTGGCACCTTTATCAT
1 CTT-T-AAGTCCAACATCGCTAGCCTTGAATCAGCATATTGGTACCTTTATCAT
* ** * ** * * * *
698935 CTTTAAGTGCAATGTTGCGGGCCTTGAATCAGCACATTGG---CATCATCTT
1 CTTTAAGTCCAACATCGCTAGCCTTGAATCAGCATATTGGTACCTTTATCAT
* * *
698984 CTTTCTCAAGTCCAACATCGCTGGCCTTGAATCAGCATATT-GTCGCCTGTATCAT
1 C-TT-T-AAGTCCAACATCGCTAGCCTTGAATCAGCATATTGGT-ACCTTTATCAT
* * *
699039 CTTTAAGTCCAACGTCGCTAACCTTGAATCAGCACT-TTGGTA-CTCTTCTCAT
1 CTTTAAGTCCAACATCGCTAGCCTTGAATCAGCA-TATTGGTACCT-TTATCAT
699091 CTTTA
1 CTTTA
699096 TCGTCTTTAA
Statistics
Matches: 213, Mismatches: 36, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
49 7 0.03
50 4 0.02
51 7 0.03
52 178 0.84
53 7 0.03
54 4 0.02
55 6 0.03
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAACATCGCTAGCCTTGAATCAGCATATTGGTACCTTTATCAT
Found at i:698904 original size:156 final size:156
Alignment explanation
Indices: 698617--698913 Score: 359
Period size: 156 Copynumber: 1.9 Consensus size: 156
698607 TTATCATCCT
* * * *
698617 TCTCATCTTTAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGTATCTTTAACATTCCTAAG
1 TCTCACCTTTAAGCCCAATATCGCTAGCCTTAAATTAGCATATTGGTACCTTTAACATTCCTAAG
* * **
698682 CCCAATGTCGTTGACCGCAAATCAGCACATTGGCATTCTTCTTATCTTCAAGTCTAATGTCACTG
66 CCCAATGTCGTAGACCGCAAATCAGCACATTGGCATTCTTCTTATCTTCAAGTCCAACATCACTG
698747 GCCGTGAATCAGCACATTGACATTAG
131 GCCGTGAATCAGCACATTGACATTAG
* * *
698773 TCTCACCTTTAAGTCCAATATCGCTAGCCTTAAATTAGCATATTGGTACCTTTATCA-TCTTTAA
1 TCTCACCTTTAAGCCCAATATCGCTAGCCTTAAATTAGCATATTGGTACCTTTAACATTC-CTAA
* * *** *
698837 GTCCAATGTTGCTAG-CCTTGAATCAGCATATTGGCACCTTCTTCTT-TC-TCAAGTCCAACATC
65 GCCCAATGTCG-TAGACCGCAAATCAGCACATTGGCA--TTCTTCTTATCTTCAAGTCCAACATC
* *
698899 GCTGGCCTTGAATCA
127 ACTGGCCGTGAATCA
698914 ACATATTGGC
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
155 2 0.02
156 104 0.88
157 4 0.03
158 8 0.07
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.34
Consensus pattern (156 bp):
TCTCACCTTTAAGCCCAATATCGCTAGCCTTAAATTAGCATATTGGTACCTTTAACATTCCTAAG
CCCAATGTCGTAGACCGCAAATCAGCACATTGGCATTCTTCTTATCTTCAAGTCCAACATCACTG
GCCGTGAATCAGCACATTGACATTAG
Found at i:698939 original size:156 final size:155
Alignment explanation
Indices: 698619--698947 Score: 344
Period size: 156 Copynumber: 2.1 Consensus size: 155
698609 ATCATCCTTC
* * * *
698619 TCATCTTTAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGTATCTTTAACATTCCTAAGCC
1 TCATCTTTAAGTCCAATATCGCTAGCCTTAAATTAGCATATTGGTACCTTTAACATTCCTAAGCC
* * **
698684 CAATGTCGTTGACCGCAAATCAGCACATTGGCATTCTTCTTATCTTCAAGTCTAATGTCACTGGC
66 CAATGTCGTAGACCGCAAATCAGCACATTGGCATTCTTCTTATCTTCAAGTCCAACATCACTGGC
* *
698749 CGTGAATCAGCACATTGACATTAGTC
131 CGTGAATCAACACATTGACATTA-TA
* * * *
698775 TCACCTTTAAGTCCAATATCGCTAGCCTTAAATTAGCATATTGGTACCTTTATCA-TCTTTAAGT
1 TCATCTTTAAGTCCAATATCGCTAGCCTTAAATTAGCATATTGGTACCTTTAACATTC-CTAAGC
* *** * *
698839 CCAATGTTGCTAG-CCTTGAATCAGCATATTGGCACCTTCTTCTT-TC-TCAAGTCCAACATCGC
65 CCAATGTCG-TAGACCGCAAATCAGCACATTGGCA--TTCTTCTTATCTTCAAGTCCAACATCAC
* * *
698901 TGGCCTTGAATCAACATATTGGCACCTT-TA
127 TGGCCGTGAATCAACACATT-G-ACATTATA
*
698931 TCATCTTTAAGTGCAAT
1 TCATCTTTAAGTCCAAT
698948 GTTGCGGGCC
Statistics
Matches: 142, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
155 2 0.01
156 123 0.87
157 5 0.04
158 12 0.08
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (155 bp):
TCATCTTTAAGTCCAATATCGCTAGCCTTAAATTAGCATATTGGTACCTTTAACATTCCTAAGCC
CAATGTCGTAGACCGCAAATCAGCACATTGGCATTCTTCTTATCTTCAAGTCCAACATCACTGGC
CGTGAATCAACACATTGACATTATA
Found at i:699768 original size:19 final size:19
Alignment explanation
Indices: 699723--699794 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
699713 ACATAAGTTT
699723 TGTATCGATACATTTATCA
1 TGTATCGATACATTTATCA
*
699742 TGGTATCGATACATTTGA-GA
1 T-GTATCGATACATTT-ATCA
699762 TGTATCGATACA-TTATACAA
1 TGTATCGATACATTTAT-C-A
*
699782 TGTATTGATACAT
1 TGTATCGATACAT
699795 GCAGGTAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
17 1 0.02
18 2 0.05
19 12 0.27
20 28 0.64
21 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATTTATCA
Found at i:711442 original size:28 final size:28
Alignment explanation
Indices: 711375--711453 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 28
711365 GAATCCCTTC
*
711375 TCAAAGCCCACTAGTCAGTGGCACCTCT
1 TCAAAGCCCACAAGTCAGTGGCACCTCT
* ** *
711403 TCGAAGTTCACAAGTCAGTGGCATCTCT
1 TCAAAGCCCACAAGTCAGTGGCACCTCT
*
711431 TCAAAGCCCACAA-TTAGTGGCAC
1 TCAAAGCCCACAAGTCAGTGGCAC
711454 TTGCTGTATA
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 8 0.20
28 33 0.80
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (28 bp):
TCAAAGCCCACAAGTCAGTGGCACCTCT
Found at i:711725 original size:32 final size:32
Alignment explanation
Indices: 711632--711744 Score: 124
Period size: 32 Copynumber: 3.5 Consensus size: 32
711622 AGAACCTTTT
711632 TTAAAGCCCACACAAG-CTGGTGGCAACCC-TC
1 TTAAAGCCCACACAAGTC-GGTGGCAACCCTTC
* *
711663 TTTAAAGCCCACACAAGTCAGTGACAACCCTTC
1 -TTAAAGCCCACACAAGTCGGTGGCAACCCTTC
**
711696 TTAAAGCCCACACAAGTCGGTGGTGACCCTT-
1 TTAAAGCCCACACAAGTCGGTGGCAACCCTTC
* *
711727 TCAAAAGTCCACACAAGT
1 T-TAAAGCCCACACAAGT
711745 TGGTAGCATC
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.01
32 66 0.94
33 3 0.04
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (32 bp):
TTAAAGCCCACACAAGTCGGTGGCAACCCTTC
Found at i:712010 original size:52 final size:52
Alignment explanation
Indices: 711922--712429 Score: 257
Period size: 52 Copynumber: 9.6 Consensus size: 52
711912 ATTCCTAAGC
* * * *
711922 CCAATGTCGCTGACCTCGAATCAGCAGATT-AGCATTCTTCTCATCTTCGAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGA-CATTCTTCTCATCTTCAAGT
* * * * * *
711974 CTAATGTCGCTGGCCGTGAATCAGCACATTGACATTCGTCGCACCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGACATTCTTCTCATCTTCAAGT
* * * * * * *
712026 CCAATATCGCTAGCCTTGAATCAGCATATTGGCA-CCTTTATCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGACATTC-TTCTCATCTTCAAGT
* * * *
712078 CCAATGTTGCTAGCCTTGAATCAGCACATTGGCACCTTCTTCT-TTC-TCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-ACATTCTTCTCATCTTCAAGT
** * * * * *
712130 CCAACATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTTATCATCTTTAAG-
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGACATTC-TTCTCATCTTCAAGT
* * * * * *
712181 CCTAACGTCGCTGACCTTGAATCACCACTTTGGCACTCTTTTCACCTTTATCATCATT-AAGT
1 CC-AATGTCGCTGGCCTTGAATCAGCACATT-G-A--C-ATT---C-TTCTCATC-TTCAAGT
* * *
712243 CCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCT-TTC-TCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-ACATTCTTCTCATCTTCAAGT
** * * * * * *
712295 CCAACATCGCTGGCCTTGAATCAACATATTGGCA-CCATTATCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGACATTC-TTCTCATCTTCAAGT
* * * * **
712347 CCAATGTTGCGGGCCTTGAATCAGCACATTGGCACCTT-TTTTTTTC-TCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-ACATTCTTCTCATCTTCAAGT
** *
712399 CCAACATCGCTGGCCTTGAATCATCACATTG
1 CCAATGTCGCTGGCCTTGAATCAGCACATTG
712430 GCCCCTTTAT
Statistics
Matches: 343, Mismatches: 86, Indels: 55
0.71 0.18 0.11
Matches are distributed among these distances:
49 2 0.01
50 8 0.02
51 11 0.03
52 251 0.73
53 13 0.04
54 8 0.02
55 2 0.01
56 1 0.00
58 2 0.01
59 1 0.00
61 40 0.12
62 4 0.01
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (52 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGACATTCTTCTCATCTTCAAGT
Found at i:712071 original size:104 final size:104
Alignment explanation
Indices: 711962--712216 Score: 307
Period size: 104 Copynumber: 2.5 Consensus size: 104
711952 AGCATTCTTC
** * *
711962 TCATCTTCGAGTCTAATGTCGCTGGCCGTGAATCAGCACATT-G-ACATTCGTCGCACCTTTAAG
1 TCATCTTTAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACATTCGTC-CACC-TCAAG
*
712025 TCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTA
64 TCCAACATCGCTAGCCTTGAATCAGCATATTGGCACCTTTA
* * * * * ***
712066 TCATCTTTAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACCTTCTTCTTTCTCAAGTC
1 TCATCTTTAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACATTCGTCCACCTCAAGTC
*
712131 CAACATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
66 CAACATCGCTAGCCTTGAATCAGCATATTGGCACCTTTA
* * * * *
712170 TCATCTTTAAGCCTAACGTCGCTGACCTTGAATCACCACTTTGGCAC
1 TCATCTTTAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
712217 TCTTTTCACC
Statistics
Matches: 127, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
104 118 0.93
105 2 0.02
106 7 0.06
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (104 bp):
TCATCTTTAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACATTCGTCCACCTCAAGTC
CAACATCGCTAGCCTTGAATCAGCATATTGGCACCTTTA
Found at i:712260 original size:61 final size:61
Alignment explanation
Indices: 712162--712277 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
712152 AGCATATTGG
* *
712162 CACCTTTATCATCTTTAAGCCTAACGTCGCTGACCTTGAATCACCACTTTGGCACTCTTTT
1 CACCTTTATCATCATTAAGCCTAACGTCGCTGACCTTGAATCACCACATTGGCACTCTTTT
* * * *
712223 CACCTTTATCATCATTAAGTCC-AATGTTGCTGGCCTTGAATCAGCACATTGGCAC
1 CACCTTTATCATCATTAAG-CCTAACGTCGCTGACCTTGAATCACCACATTGGCAC
712278 CTTCTTCTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
61 46 0.96
62 2 0.04
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (61 bp):
CACCTTTATCATCATTAAGCCTAACGTCGCTGACCTTGAATCACCACATTGGCACTCTTTT
Found at i:712265 original size:269 final size:269
Alignment explanation
Indices: 711971--712462 Score: 763
Period size: 269 Copynumber: 1.8 Consensus size: 269
711961 CTCATCTTCG
* * *
711971 AGTCTAATGTCGCTGGCCGTGAATCAGCACATT-G-ACATTCGTCGCACCTTTAAGTCCAATATC
1 AGTCCAATGTCGCTGGCCGTGAATCAGCACATTGGCACATTCGTC-CACC-TCAAGTCCAACATC
* * *
712034 GCTAGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTTGCTAGCCTTGAAT
64 GCTAGCCTTGAATCAACATATTGGCACCATTATCATCTTTAAGTCCAATGTTGCGAGCCTTGAAT
*
712099 CAGCACATTGGCACCTTCTTCTTTCTCAAGTCCAACATCGCTGGCCTTGAATCAGCATATTGGCA
129 CAGCACATTGGCACCTTCTTCTTTCTCAAGTCCAACATCGCTGGCCTTGAATCAGCACATTGGCA
*
712164 CCTTTATCATCTTTAAGCCTAACGTCGCTGACCTTGAATCACCACTTTGGCACTCTTTTCACCTT
194 CCTTTATCATCTTTAAGCCCAACGTCGCTGACCTTGAATCACCACTTTGGCACTCTTTTCACCTT
712229 TATCATCATTA
259 TATCATCATTA
* * * * ***
712240 AGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTTCTCAAGTCCAACATCGC
1 AGTCCAATGTCGCTGGCCGTGAATCAGCACATTGGCACATTCGTCCACCTCAAGTCCAACATCGC
* *
712305 TGGCCTTGAATCAACATATTGGCACCATTATCATCTTTAAGTCCAATGTTGCGGGCCTTGAATCA
66 TAGCCTTGAATCAACATATTGGCACCATTATCATCTTTAAGTCCAATGTTGCGAGCCTTGAATCA
* * * *
712370 GCACATTGGCACCTTTTTTTTTCTCAAGTCCAACATCGCTGGCCTTGAATCATCACATTGGCCCC
131 GCACATTGGCACCTTCTTCTTTCTCAAGTCCAACATCGCTGGCCTTGAATCAGCACATTGGCACC
712435 TTTATCATCTTTAAGCCCAACGTCGCTG
196 TTTATCATCTTTAAGCCCAACGTCGCTG
712463 TAGACACCTA
Statistics
Matches: 200, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
269 191 0.95
270 2 0.01
271 7 0.04
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (269 bp):
AGTCCAATGTCGCTGGCCGTGAATCAGCACATTGGCACATTCGTCCACCTCAAGTCCAACATCGC
TAGCCTTGAATCAACATATTGGCACCATTATCATCTTTAAGTCCAATGTTGCGAGCCTTGAATCA
GCACATTGGCACCTTCTTCTTTCTCAAGTCCAACATCGCTGGCCTTGAATCAGCACATTGGCACC
TTTATCATCTTTAAGCCCAACGTCGCTGACCTTGAATCACCACTTTGGCACTCTTTTCACCTTTA
TCATCATTA
Found at i:712277 original size:165 final size:164
Alignment explanation
Indices: 712058--712386 Score: 543
Period size: 165 Copynumber: 2.0 Consensus size: 164
712048 AGCATATTGG
*
712058 CACCTTTATCATCTTTAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
1 CACCTTTATCATCATTAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
* *
712123 CTCAAGTCCAACATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAG-CCTAAC
66 CTCAAGTCCAACATCGCTGGCCTTGAATCAACATATTGGCACCATTATCATCTTTAAGTCC-AAC
* *
712187 GTCGCTGACCTTGAATCACCACTTTGGCACTCTTTT
130 GTCGCGGACCTTGAATCACCACATTGGCAC-CTTTT
*
712223 CACCTTTATCATCATTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
1 CACCTTTATCATCATTAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
*
712288 CTCAAGTCCAACATCGCTGGCCTTGAATCAACATATTGGCACCATTATCATCTTTAAGTCCAATG
66 CTCAAGTCCAACATCGCTGGCCTTGAATCAACATATTGGCACCATTATCATCTTTAAGTCCAACG
* * *
712353 TTGCGGGCCTTGAATCAGCACATTGGCACCTTTT
131 TCGCGGACCTTGAATCACCACATTGGCACCTTTT
712387 TTTTTCTCAA
Statistics
Matches: 153, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
164 5 0.03
165 146 0.95
166 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (164 bp):
CACCTTTATCATCATTAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
CTCAAGTCCAACATCGCTGGCCTTGAATCAACATATTGGCACCATTATCATCTTTAAGTCCAACG
TCGCGGACCTTGAATCACCACATTGGCACCTTTT
Found at i:712408 original size:104 final size:104
Alignment explanation
Indices: 712223--712454 Score: 383
Period size: 104 Copynumber: 2.2 Consensus size: 104
712213 GCACTCTTTT
* *
712223 CACCTTTATCATCATTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
1 CACCTTTATCATCTTTAAGTCCAATGTTGCGGGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
*
712288 CTCAAGTCCAACATCGCTGGCCTTGAATCAACATATTGG
66 CTCAAGTCCAACATCGCTGGCCTTGAATCAACACATTGG
* * *
712327 CACCATTATCATCTTTAAGTCCAATGTTGCGGGCCTTGAATCAGCACATTGGCACCTTTTTTTTT
1 CACCTTTATCATCTTTAAGTCCAATGTTGCGGGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
*
712392 CTCAAGTCCAACATCGCTGGCCTTGAATCATCACATTGG
66 CTCAAGTCCAACATCGCTGGCCTTGAATCAACACATTGG
* *
712431 CCCCTTTATCATCTTTAAGCCCAA
1 CACCTTTATCATCTTTAAGTCCAA
712455 CGTCGCTGTA
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
104 118 1.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (104 bp):
CACCTTTATCATCTTTAAGTCCAATGTTGCGGGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
CTCAAGTCCAACATCGCTGGCCTTGAATCAACACATTGG
Found at i:712455 original size:52 final size:52
Alignment explanation
Indices: 712223--712462 Score: 256
Period size: 52 Copynumber: 4.6 Consensus size: 52
712213 GCACTCTTTT
* * *
712223 CACCTTTATCATCATTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGG
1 CACCTTTATCATCTTTAAGTCCAACGTCGCTGGCCTTGAATCAGCACATTGG
* * *
712275 CACCTTCT-TC-T-TTCTCAAGTCCAACATCGCTGGCCTTGAATCAACATATTGG
1 CACCTT-TATCATCTT-T-AAGTCCAACGTCGCTGGCCTTGAATCAGCACATTGG
* * * *
712327 CACCATTATCATCTTTAAGTCCAATGTTGCGGGCCTTGAATCAGCACATTGG
1 CACCTTTATCATCTTTAAGTCCAACGTCGCTGGCCTTGAATCAGCACATTGG
* * * *
712379 CACCTTT-T-TTTTTCTCAAGTCCAACATCGCTGGCCTTGAATCATCACATTGG
1 CACCTTTATCATCTT-T-AAGTCCAACGTCGCTGGCCTTGAATCAGCACATTGG
* *
712431 CCCCTTTATCATCTTTAAGCCCAACGTCGCTG
1 CACCTTTATCATCTTTAAGTCCAACGTCGCTG
712463 TAGACACCTA
Statistics
Matches: 152, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
50 4 0.03
51 5 0.03
52 133 0.88
53 5 0.03
54 5 0.03
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (52 bp):
CACCTTTATCATCTTTAAGTCCAACGTCGCTGGCCTTGAATCAGCACATTGG
Found at i:712855 original size:20 final size:20
Alignment explanation
Indices: 712800--712855 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
712790 TTTTACCTAG
*
712800 ATGTATCGATACATTGTTCA
1 ATGTATCGATACATTTTTCA
* *
712820 TTGTATCGAAACATTTTTCA
1 ATGTATCGATACATTTTTCA
712840 ATGTATCGATACATTT
1 ATGTATCGATACATTT
712856 AGGCATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:715368 original size:28 final size:27
Alignment explanation
Indices: 715336--715412 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 27
715326 ATTTTTTACA
*
715336 ATCGGAGATACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTT
*
715363 CATCGGGGGTACTCCAACCCCGTTATTT
1 -ATCGGGGATACTCCAACCCCGTTATTT
715391 -TCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
715413 GCTTTATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 2 0.05
28 42 0.95
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATTT
Found at i:715419 original size:107 final size:107
Alignment explanation
Indices: 715289--715489 Score: 244
Period size: 107 Copynumber: 1.9 Consensus size: 107
715279 TCCACAATCA
* * * *
715289 GGGATACTCTAACTCCGATTTTATTTCCAAAACACCAATTTTTTACAATCGGAGATACTCCAACC
1 GGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCACAATCGGAGATACTCCAACC
*
715354 CCGTTAT-TTCAT-CGGGGGTACTCCAACCCCGTTATTTTCGAG
66 CCGTTATATT--TGCGGGGATACTCCAACCCCGTTATTTTCGAG
* * * *** * *
715396 GGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTTTCACAATCGGGGATACTCTAACC
1 GGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCACAATCGGAGATACTCCAACC
*
715461 TCGTTATATTTGCGGGGATACTCCAACCC
66 CCGTTATATTTGCGGGGATACTCCAACCC
715490 TGGCCTTATT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
106 1 0.01
107 75 0.96
108 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (107 bp):
GGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCACAATCGGAGATACTCCAACC
CCGTTATATTTGCGGGGATACTCCAACCCCGTTATTTTCGAG
Found at i:715449 original size:79 final size:80
Alignment explanation
Indices: 715364--715780 Score: 411
Period size: 79 Copynumber: 5.3 Consensus size: 80
715354 CCGTTATTTC
* *
715364 ATCGGGGGTACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCT-AAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTCAAAA
* **
715428 TATTGATTTT-TCACA
66 CACCGATTTTCT-ACA
* * * * * *
715443 ATCGGGGATACTCTAACCTCGTTATATTT-GCGGGGATACTCCAACCCTGGCCTTATTTCT-AAA
1 ATCGGGGATACTCCAACCCCGTTAT-TTTCGAGGGGATACTCCAACCCCGACTTTATTTCTCAAA
* * *
715506 GCATCAATTTTC-ACA
65 ACACCGATTTTCTACA
* * * * *
715521 AGCGGGGATACTCTAACCCCGTTATCTTCGAGAGGATACTCCAACCCCGATTTTA-TTCTCAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTCAAAA
*
715585 CACCGATTTTCTATA
66 CACCGATTTTCTACA
* * * *
715600 ATCAGGGATACTCCAACCCTGTTA-TTTCTGAGGGGATACTCCAACCCTGATTTTATTT-TCAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGACTTTATTTCTCAAA
*
715663 ACACCGATTTTCTATA
65 ACACCGATTTTCTACA
* ** * * * * *
715679 ATCAGGGATACTCCAACCTTGTTATTTTTGAGGGTATACTCCAACCTCGATTTTATTTC-CAAGA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTCAAAA
* *
715743 CACCGATTTTCCATA
66 CACCGATTTTCTACA
* *
715758 ATCAGGGATACTCCAGCCCCGTT
1 ATCGGGGATACTCCAACCCCGTT
715781 GTTATCCCCA
Statistics
Matches: 289, Mismatches: 40, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
77 6 0.02
78 61 0.21
79 214 0.74
80 8 0.03
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTCAAAA
CACCGATTTTCTACA
Found at i:715566 original size:157 final size:157
Alignment explanation
Indices: 715366--715772 Score: 414
Period size: 157 Copynumber: 2.6 Consensus size: 157
715356 GTTATTTCAT
* * * * *
715366 CGGGGGTACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATT-TCTAAAATA
1 CGGGGATACTCCAACCCCGTTATCTTCGAGAGGATACTCCAACCCCGACTTTATTCTC-AAAACA
** * * *
715430 TTGATTTT-TCACAATCGGGGATACTCTAA-CCTCGTTATATT-TGCGGGGATACTCCAACCCTG
65 CCGATTTTCT-ACAATCAGGGATACTCCAACCCT-GTTAT-TTCTGAGGGGATACTCCAACCCTG
715492 GCCTTATTTCTAAAGCATCAATTTTCACAAG
127 GCCTTATTTCTAAAGCATCAATTTTCACAAG
* *
715523 CGGGGATACTCTAACCCCGTTATCTTCGAGAGGATACTCCAACCCCGATTTTATTCTCAAAACAC
1 CGGGGATACTCCAACCCCGTTATCTTCGAGAGGATACTCCAACCCCGACTTTATTCTCAAAACAC
* ***
715588 CGATTTTCTATAATCAGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCTGATTT
66 CGATTTTCTACAATCAGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCTGGCCT
* * * * *
715653 TATTT-TCAAAACACCGATTTTCTATAAT
131 TATTTCT-AAAGCATCAATTTTC-ACAAG
* ** * * * * *
715681 CAGGGATACTCCAACCTTGTTATTTTTGAG-GGTATACTCCAACCTCGATTTTATT-TCCAAGAC
1 CGGGGATACTCCAACCCCGTTATCTTCGAGAGG-ATACTCCAACCCCGACTTTATTCT-CAAAAC
* *
715744 ACCGATTTTCCATAATCAGGGATACTCCA
64 ACCGATTTTCTACAATCAGGGATACTCCA
715773 GCCCCGTTGT
Statistics
Matches: 212, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
156 3 0.01
157 122 0.58
158 87 0.41
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (157 bp):
CGGGGATACTCCAACCCCGTTATCTTCGAGAGGATACTCCAACCCCGACTTTATTCTCAAAACAC
CGATTTTCTACAATCAGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCTGGCCT
TATTTCTAAAGCATCAATTTTCACAAG
Found at i:717863 original size:4 final size:4
Alignment explanation
Indices: 717854--717880 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
717844 TTTTGAGGTG
717854 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
717881 GTTTGCTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Done.