Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold115
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: 1475684
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 6 of 10
Found at i:756456 original size:16 final size:16
Alignment explanation
Indices: 756422--756465 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
756412 AAATTCATTC
756422 TTTTATATATA-TATA
1 TTTTATATATATTATA
756437 ---TATATATATTATA
1 TTTTATATATATTATA
*
756450 TTTTATATAGATTATA
1 TTTTATATATATTATA
756466 AATATGCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
12 8 0.33
13 4 0.17
16 12 0.50
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTTATATATATTATA
Found at i:757003 original size:2 final size:2
Alignment explanation
Indices: 756996--757029 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
756986 GAAATTGTCT
756996 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
757030 CATTTCTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:765867 original size:73 final size:71
Alignment explanation
Indices: 765760--765897 Score: 181
Period size: 73 Copynumber: 1.9 Consensus size: 71
765750 GAAATATTAT
* *
765760 ATTAAAATTTATATATATAAATAAACAATTTAAAATTATTAAAATTATAATTATATTAAATAATA
1 ATTAAAATTTATATATATAAATAAACAA-TTAAAAATATTAAAATTATAATTAT-TTAAAAAATA
765825 ACGTATGA
64 ACGTATGA
* *
765833 ATTAAAATTATATTTATATTAAATAATA-AA-TAAAAATATTAAAATTATATTTATTTAAAAAAT
1 ATTAAAATT-TATATATA-TAAATAA-ACAATTAAAAATATTAAAATTATAATTATTTAAAAAAT
765896 AA
63 AA
765898 AATATAAAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
72 10 0.17
73 31 0.53
74 7 0.12
75 9 0.16
76 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (71 bp):
ATTAAAATTTATATATATAAATAAACAATTAAAAATATTAAAATTATAATTATTTAAAAAATAAC
GTATGA
Found at i:765881 original size:31 final size:30
Alignment explanation
Indices: 765846--765924 Score: 74
Period size: 31 Copynumber: 2.7 Consensus size: 30
765836 AAAATTATAT
765846 TTATATTAAATAATAAATAAAAATATTAAAA
1 TTATATTAAATAATAAATAAAAATA-TAAAA
** *
765877 TTATATTTATTTAAAAAAT-AAAATATAAAA
1 TTATA-TTAAATAATAAATAAAAATATAAAA
**
765907 GAAT-TTAAA-AATAAATAA
1 TTATATTAAATAATAAATAA
765925 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
27 6 0.16
28 4 0.11
30 7 0.18
31 11 0.29
32 10 0.26
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (30 bp):
TTATATTAAATAATAAATAAAAATATAAAA
Found at i:765891 original size:36 final size:37
Alignment explanation
Indices: 765758--765898 Score: 141
Period size: 36 Copynumber: 3.9 Consensus size: 37
765748 CGGAAATATT
*
765758 ATATTAAAATT-TATATATA-TAAATAA-ACAATTTAAAA
1 ATATTAAAATTATATTTATATTAAATAATA-AA--TAAAA
* * * **
765795 TTATTAAAATTATAATTATATTAAATAATAACGT-ATG
1 ATATTAAAATTATATTTATATTAAATAATAA-ATAAAA
765832 A-ATTAAAATTATATTTATATTAAATAATAAATAAAA
1 ATATTAAAATTATATTTATATTAAATAATAAATAAAA
*
765868 ATATTAAAATTATATTTAT-TTAAAAAATAAA
1 ATATTAAAATTATATTTATATTAAATAATAAA
765899 ATATAAAAGA
Statistics
Matches: 86, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
35 1 0.01
36 41 0.48
37 28 0.33
38 7 0.08
39 8 0.09
40 1 0.01
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (37 bp):
ATATTAAAATTATATTTATATTAAATAATAAATAAAA
Found at i:765901 original size:37 final size:38
Alignment explanation
Indices: 765833--765906 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 38
765823 TAACGTATGA
*
765833 ATTAAAATTATATTTATATTAAATAATAAATA-AAAAT
1 ATTAAAATTATATTTATATTAAAAAATAAATATAAAAT
765870 ATTAAAATTATATTTAT-TTAAAAAATAAAATATAAAA
1 ATTAAAATTATATTTATATTAAAAAAT-AAATATAAAA
765907 GAATTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 8 0.24
37 22 0.65
38 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (38 bp):
ATTAAAATTATATTTATATTAAAAAATAAATATAAAAT
Found at i:766184 original size:10 final size:9
Alignment explanation
Indices: 766168--766201 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
766158 TAAATTAATA
766168 TATTTATAT
1 TATTTATAT
766177 TATGTTATAT
1 TAT-TTATAT
766187 ATATTTATAT
1 -TATTTATAT
766197 TATTT
1 TATTT
766202 TTTAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 8 0.35
10 12 0.52
11 3 0.13
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (9 bp):
TATTTATAT
Found at i:766268 original size:18 final size:18
Alignment explanation
Indices: 766241--766275 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
766231 ATTTTTAATT
*
766241 TTTAATAAAATTTAAAAA
1 TTTAAAAAAATTTAAAAA
766259 TTTAAAAAAATTTAAAA
1 TTTAAAAAAATTTAAAA
766276 TCGATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTTAAAAAAATTTAAAAA
Found at i:768655 original size:2 final size:2
Alignment explanation
Indices: 768648--768673 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
768638 ACATACATAC
768648 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
768674 GTATGTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:774986 original size:16 final size:15
Alignment explanation
Indices: 774965--775012 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
774955 AAACATATAA
774965 AAATA-AAATATATT
1 AAATATAAATATATT
* *
774979 AAATATAATTATAAT
1 AAATATAAATATATT
774994 ATAATATAAATAT-TT
1 A-AATATAAATATATT
775009 AAAT
1 AAAT
775013 TATTTGATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 8 0.29
15 10 0.36
16 10 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATATAAATATATT
Found at i:782330 original size:19 final size:19
Alignment explanation
Indices: 782306--782359 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
782296 AAAATTATCA
*
782306 TATTCATCTTAATTTTTAT
1 TATTCATATTAATTTTTAT
782325 TATTCA-ATTATATTTTTAT
1 TATTCATATTA-ATTTTTAT
* *
782344 T-TTAATTTTAATTTTT
1 TATTCATATTAATTTTT
782360 TATTCCTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTCATATTAATTTTTAT
Found at i:785721 original size:31 final size:31
Alignment explanation
Indices: 785683--785742 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
785673 TCACTTGGTA
785683 GTTAATCAGATTTGGGGTAATAATTAAGCTT
1 GTTAATCAGATTTGGGGTAATAATTAAGCTT
785714 GTTAATCAGATTTGGGGTAATAATTAAGC
1 GTTAATCAGATTTGGGGTAATAATTAAGC
785743 ATATCATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTAATCAGATTTGGGGTAATAATTAAGCTT
Found at i:786241 original size:2 final size:2
Alignment explanation
Indices: 786234--786259 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
786224 TTACTTGCCT
786234 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
786260 AAATCTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:788549 original size:35 final size:39
Alignment explanation
Indices: 788504--788586 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 39
788494 ATTTTTTAAT
*
788504 AATATATAATATAA-T-TTATTTTAAT-AATA-ATTATTA
1 AATAT-TAATATAACTATTATTTTAATAAAAATATTATTA
*
788540 AATATTAATATAACTTATTATTTTAATAAAAATATTATTT
1 AATATTAATATAAC-TATTATTTTAATAAAAATATTATTA
788580 AATATTA
1 AATATTA
788587 CAAAAATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
35 8 0.20
36 5 0.12
37 1 0.03
38 10 0.25
39 3 0.08
40 13 0.32
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (39 bp):
AATATTAATATAACTATTATTTTAATAAAAATATTATTA
Found at i:799909 original size:21 final size:20
Alignment explanation
Indices: 799885--799925 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
799875 TTTTTTTATT
799885 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TAT-AAATATA
799906 TAAATATTAATATAAATATA
1 TAAATATTAATATAAATATA
799926 ATTTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATATTAATATAAATATA
Found at i:800399 original size:16 final size:16
Alignment explanation
Indices: 800378--800412 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
800368 ATTTGAATTT
*
800378 TAATTAATTATATTAA
1 TAATTAATTATACTAA
800394 TAATTAATTATACTAA
1 TAATTAATTATACTAA
800410 TAA
1 TAA
800413 ATATTGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATTAATTATACTAA
Found at i:800416 original size:26 final size:26
Alignment explanation
Indices: 800387--800453 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 26
800377 TTAATTAATT
* *
800387 ATATTAATAATTAATTA-TACTAATAA
1 ATATTAATAATTAA-TACTAATAAAAA
800413 ATATTGAATAATT-ATACTAATAAAAA
1 ATATT-AATAATTAATACTAATAAAAA
800439 ATATTAATTAATTAA
1 ATATTAA-TAATTAA
800454 AAATATGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
25 4 0.11
26 23 0.66
27 8 0.23
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (26 bp):
ATATTAATAATTAATACTAATAAAAA
Found at i:800680 original size:18 final size:17
Alignment explanation
Indices: 800659--800706 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
800649 AAATTTATGC
800659 TTATTAATTTTATATTTT
1 TTATTAATTTTATA-TTT
* *
800677 TTATTAAATTTGTATTT
1 TTATTAATTTTATATTT
800694 TTATT-ATTTTATA
1 TTATTAATTTTATA
800707 ATGCTATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 6 0.23
17 8 0.31
18 12 0.46
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TTATTAATTTTATATTT
Found at i:800719 original size:22 final size:22
Alignment explanation
Indices: 800689--800730 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
800679 ATTAAATTTG
*
800689 TATTTTTATT-ATTTTATAATGC
1 TATTATTATTAATTTT-TAATGC
800711 TATTATTATTAATTTTTAAT
1 TATTATTATTAATTTTTAAT
800731 TATTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TATTATTATTAATTTTTAATGC
Found at i:801689 original size:13 final size:13
Alignment explanation
Indices: 801671--801696 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
801661 CAATTTTTTG
801671 TGTATCGATACAT
1 TGTATCGATACAT
801684 TGTATCGATACAT
1 TGTATCGATACAT
801697 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:801782 original size:20 final size:20
Alignment explanation
Indices: 801757--801829 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
801747 ATCTTTTTTT
801757 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
801777 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
801798 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
801818 ATGTATCGATAC
1 ATGTATCGATAC
801830 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:801808 original size:41 final size:42
Alignment explanation
Indices: 801735--801829 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
801725 CTGCCAAGAA
*
801735 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
801777 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
801818 ATGTATCGATAC
1 ATGTATCGATAC
801830 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:802515 original size:15 final size:15
Alignment explanation
Indices: 802486--802534 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
802476 AAGCTAGGTA
802486 AACAGGT-GATGGATG
1 AACAGGTAG-TGGATG
802501 AAC-GAGTAGTGGATG
1 AACAG-GTAGTGGATG
*
802516 AACAGGTGGTGGATG
1 AACAGGTAGTGGATG
802531 AACA
1 AACA
802535 AGATTAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 1 0.03
15 27 0.90
16 2 0.07
ACGTcount: A:0.35, C:0.08, G:0.39, T:0.18
Consensus pattern (15 bp):
AACAGGTAGTGGATG
Found at i:805977 original size:13 final size:13
Alignment explanation
Indices: 805959--805989 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
805949 TGTTTTGGCT
805959 AAAATATGGATGG
1 AAAATATGGATGG
*
805972 AAAATATGGCTGG
1 AAAATATGGATGG
805985 AAAAT
1 AAAAT
805990 GTAGCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.03, G:0.26, T:0.23
Consensus pattern (13 bp):
AAAATATGGATGG
Found at i:810334 original size:94 final size:92
Alignment explanation
Indices: 810187--810465 Score: 310
Period size: 95 Copynumber: 3.0 Consensus size: 92
810177 GAGTATCCTT
* * * * *
810187 TCGGAGGAATGGGGTTGGAGTATCCCGACGATGATAATTTAGGCAAAAATAAGATTTAAAGCTTA
1 TCGGAAGAATGGGGTTGGAGTATCCCGATGATGACAATTTAGGCAAAAATAAGATTTAAATCTTG
*
810252 ACAAGTTTAAAATGGAGTTGGAGTCTCC
66 ACAAGTTTAAAATGG-GTTGGAGTCCCC
* * *
810280 TCGGAAGAATGGAGTTAGAGTATCCTCGATGATAACAATTTAGGCAAAAATAAGATTTAAATCTT
1 TCGGAAGAATGGGGTTGGAGTATCC-CGATGATGACAATTTAGGCAAAAATAAGATTTAAATCTT
* *
810345 GACTAA-TTAAAAATGGGATTGGAATATCCCC
65 GAC-AAGTTTAAAATGGG-TTGG-A-GTCCCC
** * **
810376 TTAGAAG-ATGGGGTTGGTGTATCCCTGATGATGACAATTTAGGTGAAAATAAGATTTAAATCTT
1 TCGGAAGAATGGGGTTGGAGTATCCC-GATGATGACAATTTAGGCAAAAATAAGATTTAAATCTT
*
810440 GATAAGTTTAAAAATAGGGTTGGAGT
65 GACAAGTTT-AAAAT-GGGTTGGAGT
810466 ATTCCCCATG
Statistics
Matches: 155, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
93 23 0.15
94 54 0.35
95 57 0.37
96 18 0.12
97 3 0.02
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.29
Consensus pattern (92 bp):
TCGGAAGAATGGGGTTGGAGTATCCCGATGATGACAATTTAGGCAAAAATAAGATTTAAATCTTG
ACAAGTTTAAAATGGGTTGGAGTCCCC
Found at i:810479 original size:70 final size:69
Alignment explanation
Indices: 810386--810541 Score: 206
Period size: 70 Copynumber: 2.2 Consensus size: 69
810376 TTAGAAGATG
* * ** *
810386 GGGTTGGTGTATCCCTGATGATGACAA-TTTAGGTGAAAATAAGATTTAAATCTTGATAAGTTTA
1 GGGTTGGAGTATCCC-CATGATGACAATTTTA-GCAAAAATAAGATTTAAATCTTGACAAGTTTA
810450 AAAATA
64 AAAATA
* * *
810456 GGGTTGGAGTATTCCCCATGATGATAATTTTAGCAAAAATAATATTTAATTCTTGACAAGTTTAA
1 GGGTTGGAGTA-TCCCCATGATGACAATTTTAGCAAAAATAAGATTTAAATCTTGACAAGTTTAA
810521 AAATA
65 AAATA
810526 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
810542 TTAAAAGAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
69 5 0.07
70 63 0.83
71 8 0.11
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (69 bp):
GGGTTGGAGTATCCCCATGATGACAATTTTAGCAAAAATAAGATTTAAATCTTGACAAGTTTAAA
AATA
Found at i:814323 original size:21 final size:20
Alignment explanation
Indices: 814297--814342 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
814287 TTTTAAAATT
*
814297 TGTATCGACACAATAAGTGAA
1 TGTATCAACAC-ATAAGTGAA
*
814318 TGTATCAATACATAAGTGAA
1 TGTATCAACACATAAGTGAA
814338 TGTAT
1 TGTAT
814343 TAATACATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (20 bp):
TGTATCAACACATAAGTGAA
Found at i:814334 original size:20 final size:20
Alignment explanation
Indices: 814309--814350 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
814299 TATCGACACA
814309 ATAAGTGAATGTATCAATAC
1 ATAAGTGAATGTATCAATAC
*
814329 ATAAGTGAATGTATTAATAC
1 ATAAGTGAATGTATCAATAC
814349 AT
1 AT
814351 GTTCAAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.33
Consensus pattern (20 bp):
ATAAGTGAATGTATCAATAC
Found at i:814461 original size:51 final size:51
Alignment explanation
Indices: 814406--814543 Score: 138
Period size: 51 Copynumber: 2.7 Consensus size: 51
814396 TCTGGAAGGA
* * *
814406 AAATGTATCGATATAGTTA-T-ATTGTATCGATACATCCTGGGTTTTTGA-CT
1 AAATGTATCGATACA-TTATTCATTATATCGATACATCCTAGG-TTTTGACCT
* *
814456 CAAATGTATTGATACATTATTCATTATATCGATACATTCTAGGTTTTGACCT
1 -AAATGTATCGATACATTATTCATTATATCGATACATCCTAGGTTTTGACCT
* * * * *
814508 AAATGTATCGACACATTTTTCAATGTGTCGATACAT
1 AAATGTATCGATACATTATTCATTATATCGATACAT
814544 GCAGACTATT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
50 3 0.04
51 50 0.68
52 20 0.27
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (51 bp):
AAATGTATCGATACATTATTCATTATATCGATACATCCTAGGTTTTGACCT
Found at i:819749 original size:2 final size:2
Alignment explanation
Indices: 819744--819786 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
819734 CTTTTTTAGA
819744 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
819786 A
1 A
819787 GTGCCTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:820949 original size:28 final size:28
Alignment explanation
Indices: 820872--820971 Score: 80
Period size: 28 Copynumber: 3.6 Consensus size: 28
820862 TGCGACAGCA
* *
820872 GATACTTCAACCCCAT-CATTTCCAAAGGG
1 GATACTCCAACCTCATCCATTT-CAAA-GG
* ** * *
820901 GATACTCCAA-CTCTTTTATTTTCGAGGG
1 GATACTCCAACCTCATCCA-TTTCAAAGG
820929 GATACT-CAACCTCATCCATTTCAAAGG
1 GATACTCCAACCTCATCCATTTCAAAGG
*
820956 GATATTCCAACCTCAT
1 GATACTCCAACCTCAT
820972 TTTTACTTTC
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
27 15 0.27
28 25 0.45
29 12 0.22
30 3 0.05
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (28 bp):
GATACTCCAACCTCATCCATTTCAAAGG
Found at i:821098 original size:78 final size:78
Alignment explanation
Indices: 820928--821172 Score: 232
Period size: 78 Copynumber: 3.1 Consensus size: 78
820918 ATTTTCGAGG
* * * *
820928 GGATACTCAACCTCATCCATTT-CAAAGGGATATTCCAACCTCATTTTTACTTT-CAAAAGCATC
1 GGATACTCAACCCCAT-CATTTCCAAAGGAATATTCCAACC-CCTTTTTA-TTTCCAAAA-TATC
820991 AAATTTTGCACCATCGA
62 AAATTTTGCACCATCGA
* * *
821008 GGATACTTCAACCCCATCATTTCCAATGGAATATTCCAACCCCGTTTTATTTCCAAAATATCAAC
1 GGATAC-TCAACCCCATCATTTCCAAAGGAATATTCCAACCCCTTTTTATTTCCAAAATATCAAA
821073 TTTT-CACCATCG-
65 TTTTGCACCATCGA
** * * * *
821085 GAGATACTCCAACCCCATCATTTCTGAGGGAATACTCCAACCCCTTTTTTACTTCCAAAATATTA
1 G-GATACT-CAACCCCATCATTTCCAAAGGAATATTCCAACCCC-TTTTTATTTCCAAAATA-TC
* *
821150 AAATTTT-CATC-TCGG
62 AAATTTTGCACCATCGA
821165 GGATACTC
1 GGATACTC
821173 TAGCCTACCA
Statistics
Matches: 141, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
77 2 0.01
78 45 0.32
79 36 0.26
80 33 0.23
81 25 0.18
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.32
Consensus pattern (78 bp):
GGATACTCAACCCCATCATTTCCAAAGGAATATTCCAACCCCTTTTTATTTCCAAAATATCAAAT
TTTGCACCATCGA
Found at i:823185 original size:2 final size:2
Alignment explanation
Indices: 823178--823202 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
823168 TCAAATGAGT
823178 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
823203 TAGGCTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:824362 original size:21 final size:21
Alignment explanation
Indices: 824328--824371 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
824318 TTAAAAAAAT
824328 TTAAAATTATTTATTTATT-TC
1 TTAAAATTATTTA-TTATTATC
824349 TTAAAATT-TATTATTATTATC
1 TTAAAATTAT-TTATTATTATC
824370 TT
1 TT
824372 TATATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
TTAAAATTATTTATTATTATC
Found at i:824364 original size:28 final size:29
Alignment explanation
Indices: 824323--824383 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
824313 TTATTTTAAA
824323 AAAATTTAAAATTATT-TATTTAT-TTCTT
1 AAAATTTAAAATTATTATATTTATATT-TT
** *
824351 AAAATTTATTATTATTATCTTTATATTTT
1 AAAATTTAAAATTATTATATTTATATTTT
824380 AAAA
1 AAAA
824384 AAACAAAGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 14 0.50
29 12 0.43
30 2 0.07
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (29 bp):
AAAATTTAAAATTATTATATTTATATTTT
Found at i:825184 original size:2 final size:2
Alignment explanation
Indices: 825173--825205 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
825163 TTTTCCTTTG
*
825173 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
825206 CAGAAAGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:825563 original size:20 final size:20
Alignment explanation
Indices: 825525--825562 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
825515 CCACAAATGT
* *
825525 TATATATATTTATTATTTTG
1 TATATAAATATATTATTTTG
825545 TATATAAATATATT-TTTT
1 TATATAAATATATTATTTT
825563 TTCTTTGCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
TATATAAATATATTATTTTG
Found at i:827741 original size:2 final size:2
Alignment explanation
Indices: 827734--827766 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
827724 TATCTATAAG
*
827734 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
827767 AGATTTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:828170 original size:2 final size:2
Alignment explanation
Indices: 828158--828208 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
828148 AATTCAACAC
* * *
828158 AT AT AT CT AT AT AT AT AT AT GT AT AT AT AT AT AA AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
828199 AT AT AC AT AT
1 AT AT AT AT AT
828209 CTCAATAACT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:828288 original size:25 final size:25
Alignment explanation
Indices: 828260--828319 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
828250 TGTTACCCAT
* *
828260 TTTTTTAATGTTT-ATAATTTATAAA
1 TTTTTTAATATTTAATAAATTA-AAA
*
828285 TTTTTTAAAATTTAATAAATTAAAA
1 TTTTTTAATATTTAATAAATTAAAA
*
828310 TATTTTAATA
1 TTTTTTAATA
828320 ATAAAGTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 22 0.76
26 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TTTTTTAATATTTAATAAATTAAAA
Found at i:828291 original size:18 final size:19
Alignment explanation
Indices: 828270--828305 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
828260 TTTTTTAATG
*
828270 TTTATAATTT-ATAAATTT
1 TTTAAAATTTAATAAATTT
828288 TTTAAAATTTAATAAATT
1 TTTAAAATTTAATAAATT
828306 AAAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAAAATTTAATAAATTT
Found at i:828507 original size:23 final size:24
Alignment explanation
Indices: 828467--828511 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
828457 TTGAAAAGTA
**
828467 AATATTTTATTTTAATAAAAATTT
1 AATATTTTAAATTAATAAAAATTT
828491 AATATTTTAAATT-ATAAAAAT
1 AATATTTTAAATTAATAAAAAT
828512 AAAAATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AATATTTTAAATTAATAAAAATTT
Found at i:829588 original size:17 final size:17
Alignment explanation
Indices: 829563--829595 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
829553 ATTTATTTAA
829563 TATTCATATTAATTTTTT
1 TATTCATATT-ATTTTTT
829581 TATT-ATATTATTTTT
1 TATTCATATTATTTTT
829596 ATTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTCATATTATTTTTT
Found at i:833362 original size:211 final size:211
Alignment explanation
Indices: 832660--833661 Score: 1353
Period size: 211 Copynumber: 4.8 Consensus size: 211
832650 CTGTCAGCAA
* * *
832660 GATGAAACCAAGTACATACACTTTCAGTGGCTCAACTTGAAAAGAAAGTTAACCAAAATTGAAGC
1 GATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAGC
* *
832725 ACAAGCCAAACCTA-A-GTGTGCATGCATGCACTTGTGAACTTGGACATGTACCATAGTATATTT
66 ACAATCCAAACCTATATGTGTGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTT
** * *
832788 TCCTAATGGGGCTGTAGGTAGTTTCATCTACAT-G--GGTAAGATCATGC-ATTAAATTGCGGTC
131 TCCTAATGGGGCTACAGATAGTTTCATCTACATGGAAGGTAAGATCAGGCAATTAAATTGCGGTC
832849 ATGATCACAATTTTGGG
196 ATGATCAC-ATTTTGGG
* * * *
832866 GATGAAACCATGTACATAAACTTTCAGTCGTACAACTTAAAAAGAAAGTTAACCAGAATTGAAGC
1 GATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAGC
832931 ACAATCCAAACCTATATGTGTGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTT
66 ACAATCCAAACCTATATGTGTGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTT
* * *
832996 TCCTAATGTGGCTACAGATAGTTTCATCCATATGGAAGGTAAGATCAGGC-ATTCAAATTGCGG-
131 TCCTAATGGGGCTACAGATAGTTTCATCTACATGGAAGGTAAGATCAGGCAATT-AAATTGCGGT
* *
833059 CTATGACCAGGGA-TTTGGG
195 C-ATGATCA--CATTTTGGG
* * ** *
833078 GATGAAACCGAGTAGATACACTTTCAGTAATTCAACTTAAAAAGAAAGTTAACCAGAATTGAAGA
1 GATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAGC
* * * *
833143 AAAATCCAAACCTATATGTTTGCATGCATGCACTTGTGAATTTGGACATGTATCATGGTATA-TT
66 ACAATCCAAACCTATATGTGTGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTT
* * * * * *
833207 TCCTAATGGGGCTACAGATAGTTTCATCTACCTGGAAGGAAAGATTAGGAAATGAAATTTCGGTC
131 TCCTAATGGGGCTACAGATAGTTTCATCTACATGGAAGGTAAGATCAGGCAATTAAATTGCGGTC
*
833272 GTGATCACATTTTCGGG
196 ATGATCACATTTT-GGG
** * * *
833289 GACAAAACCAAGTACACACACTTTCAGTGGTTCAACTTAAAAAGAAGGTTAACCACAATTGAAGC
1 GATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAGC
*
833354 ACAATCC-AACCTATATGTGTGCATGCATGCACTTGTGAAATTGGACATGTATCATAGTATATTT
66 ACAATCCAAACCTATATGTGTGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTT
* * *
833418 CCCTAAT-GCGCTACAGATAGTTTCATCTACATGGAAGGTAAGATCAGGCATTTAAATTGCGGTC
131 TCCTAATGGGGCTACAGATAGTTTCATCTACATGGAAGGTAAGATCAGGCAATTAAATTGCGGTC
* * * *
833482 ATCAACACGTTTTCAGG
196 ATGATCACATTTT-GGG
* *
833499 GATGAAACCAAGTACATACACTTTCAGCGGTTCAACTTAAAAAGAAAGTTAAGCAGAATTGAAGC
1 GATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAGC
* * * * *
833564 AAAATCCAAACCTATATGTATGCATGCATGCACTAGTGAACTTGGACATGTATCATGGCATATTT
66 ACAATCCAAACCTATATGTGTGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTT
* *
833629 TCCTAATGGGACTACAAATAGTTTCATCTACAT
131 TCCTAATGGGGCTACAGATAGTTTCATCTACAT
833662 CGTGATCACG
Statistics
Matches: 693, Mismatches: 87, Indels: 26
0.86 0.11 0.03
Matches are distributed among these distances:
206 71 0.10
207 1 0.00
208 74 0.11
209 2 0.00
210 179 0.26
211 204 0.29
212 161 0.23
213 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (211 bp):
GATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAGC
ACAATCCAAACCTATATGTGTGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTT
TCCTAATGGGGCTACAGATAGTTTCATCTACATGGAAGGTAAGATCAGGCAATTAAATTGCGGTC
ATGATCACATTTTGGG
Found at i:833796 original size:183 final size:181
Alignment explanation
Indices: 833504--833841 Score: 491
Period size: 183 Copynumber: 1.9 Consensus size: 181
833494 TCAGGGATGA
* * *
833504 AACCAAGTACATACACTTTCAGCGGTTCAACTTAAAAAGAAAGTTAAGCAGAATTGAAGCAAAAT
1 AACCAAGTACATAAACTTTCAGCGGTTCAACTTAAAAAAAAAGTTAACCAGAATTGAAGCAAAAT
* * *
833569 CCAAACCTATATGTATGCATGCATGCACTAGTGAACTTGGACATGTATCATGGCATATTTTCCTA
66 CCAAACCTATATGTACGCATGCATGCACTAGTGAACTCGGACATGTATCATAGCATATTTTCCTA
833634 ATGGG-ACTACAAATAGTTTCATCTACATCGTGATCACGTTTTTGGTAATGG
131 A-GGGCACTACAAATAGTTTCATCTACATCGTGATCACGTTTTTGGTAATGG
* * *
833685 AACCAAGTACATAAACTTTTA-CTGGTTCAACTTAAAAAAAAAAAGTTAACCAGAATTGAGGCAC
1 AACCAAGTACATAAACTTTCAGC-GGTTCAACTT--AAAAAAAAAGTTAACCAGAATTGAAGCAA
* * * *
833749 AATGCAAACCTATATGTGCGCATGCATGCACTTGTGAACTCGGACATGTATCATAGTATATTTTC
63 AATCCAAACCTATATGTACGCATGCATGCACTAGTGAACTCGGACATGTATCATAGCATATTTTC
* *
833814 CTAAGGGCGCTACAGATAGTTTCATCTA
128 CTAAGGGCACTACAAATAGTTTCATCTA
833842 TATGGAAGGT
Statistics
Matches: 138, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
180 1 0.01
181 29 0.21
182 3 0.02
183 105 0.76
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (181 bp):
AACCAAGTACATAAACTTTCAGCGGTTCAACTTAAAAAAAAAGTTAACCAGAATTGAAGCAAAAT
CCAAACCTATATGTACGCATGCATGCACTAGTGAACTCGGACATGTATCATAGCATATTTTCCTA
AGGGCACTACAAATAGTTTCATCTACATCGTGATCACGTTTTTGGTAATGG
Found at i:834505 original size:197 final size:197
Alignment explanation
Indices: 834170--834898 Score: 1001
Period size: 197 Copynumber: 3.6 Consensus size: 197
834160 ATATATGTTT
* *
834170 ATGCATGCACTTGTGAACTTGGACATGTATTATAGTATATTTTCCTAATAGGGCTACAGATAGTT
1 ATGCATGCACTTGTGAACTTGGACACGTATCATAGTATATTTTCCTAATAGGGCTACAGATAGTT
* * * * * * ** *
834235 TCATCTACATGGACGGTGAGATCAGGCATTTAATTTGCAGTCAAGATCATGTTTTCGGGGATGAA
66 TCATCTACATGGAAGGTAAGATCAAGCATTTAAATTACAGTCATGATCACATTTTCAGGGATGAA
* *
834300 ACCAAGTACATACACTTTCAGCGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAGCATGCAT
131 ACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAGGTTAACCAGAATTGAAGCATGCAT
834365 GC
196 GC
* *
834367 ATGCATGCTCTTGTGAACTTGGACACGTATCATAGTATATTTTCCTAATGGGGCTACAGATAGTT
1 ATGCATGCACTTGTGAACTTGGACACGTATCATAGTATATTTTCCTAATAGGGCTACAGATAGTT
*
834432 TCATCTACATGGAAGGTAAGATCAAGCATTTAAATTACGGTCATGATCACATTTTCAGGGATGAA
66 TCATCTACATGGAAGGTAAGATCAAGCATTTAAATTACAGTCATGATCACATTTTCAGGGATGAA
*
834497 ACCAAGTACATAAACTTTCAGTGGTTCAACTTAAAAAGAAGGTTAACCAGAATTGAAGCATGCAT
131 ACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAGGTTAACCAGAATTGAAGCATGCAT
834562 GC
196 GC
*
834564 ATGCATGCTCTTGTGAACTTGGACACGTATCATAGTATATTTTCCTAAT-GGGTCTACAGATAGT
1 ATGCATGCACTTGTGAACTTGGACACGTATCATAGTATATTTTCCTAATAGGG-CTACAGATAGT
* *
834628 TTCATCTACATGGAAGGTAAGATCAAGCATTTAAATTACGGTCATGATCACGTTTTCAGGGATGA
65 TTCATCTACATGGAAGGTAAGATCAAGCATTTAAATTACAGTCATGATCACATTTTCAGGGATGA
834693 AACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAGGTTAACCAGAATTGAAGCACAAA
130 AACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAGGTTAACCAGAATTGAAG--C---
*
834758 ATCCAAACCTATACGTGTGC
190 AT-----GC---A----TGC
* * * * **
834778 ATGCATGCACTTGTGGACGTGGACACATATCATAGTGTATTTTTTTAATAGGGCTACAGATAGTT
1 ATGCATGCACTTGTGAACTTGGACACGTATCATAGTATATTTTCCTAATAGGGCTACAGATAGTT
* * * * *
834843 TCATCTACATGGAAGGTAAGATCAGGCATTCAAATTGCATTCGTGATCACATTTTC
66 TCATCTACATGGAAGGTAAGATCAAGCATTTAAATTACAGTCATGATCACATTTTC
834899 GATTGCATCA
Statistics
Matches: 479, Mismatches: 34, Indels: 21
0.90 0.06 0.04
Matches are distributed among these distances:
196 3 0.01
197 362 0.76
199 1 0.00
202 2 0.00
207 1 0.00
210 1 0.00
214 106 0.22
215 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (197 bp):
ATGCATGCACTTGTGAACTTGGACACGTATCATAGTATATTTTCCTAATAGGGCTACAGATAGTT
TCATCTACATGGAAGGTAAGATCAAGCATTTAAATTACAGTCATGATCACATTTTCAGGGATGAA
ACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAGGTTAACCAGAATTGAAGCATGCAT
GC
Found at i:834690 original size:794 final size:789
Alignment explanation
Indices: 832660--834753 Score: 2147
Period size: 794 Copynumber: 2.6 Consensus size: 789
832650 CTGTCAGCAA
* * * *
832660 GATGAAACCAAGTACATACACTTTCAGTGGCTCAACTTGAAAAGAAAGTTAACCAAAATTGAAGC
1 GATGAAACCAAGTACATACACTTTCAGCGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAG-
* *
832725 ACAAGCCAAACCTAAGTGTGCATGCATGCACTTGTGAACTTGGACATGTACCATAGTATATTTTC
65 ACATG------C--A---TGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTTTC
** * *
832790 CTAATGGGGCTGTAGGTAGTTTCATCTACATGGGTAAGATCATGCA-TTAAATTGCGGTCATGAT
119 CTAATGGGGCTACAGATAGTTTCATCTACATGGGTAAGATCAAGCATTTAAATT-CGGTCATGAT
* *
832854 CACAATTTTGGGGATGAAACCATGTACATAAACTTTCAGTCGTACAACTTAAAAAGAAAGTTAAC
183 CAC-ATTTTAGGGATGAAACCATGTACATAAACTTTCAGTAGTACAACTTAAAAAG-AAGTTAAC
*
832919 CAGAATTGAAGCACAATCCAAACCTATATGTGTGCATGCATGCACTTGTGAACTTGGACATGTAT
246 CAGAATTGAAG--CAAT-----GC---A----TGCATGCATGCACTTGTGAACTTGGACATGTAT
*
832984 CATAGTATATTTTCCTAATGTGGCTACAGATAGTTTCATCCATATGGAAGGTAAGATCAGGCATT
297 CATAGTATATTTTCCTAATG-GGCTACAGATAGTTTCATCTATATGGAAGGTAAGATCAGGCATT
* * * * * * * * **
833049 CAAATTGCGG-CTATGACCAGGGATTT-GGGGATGAAACCGAGTAGATACACTTTCAGTAATTCA
361 TAAATTGCGGTCGATGATCA-CGTTTTCAGGGATGAAACCAAGTACATACACTTTCAGTGGTTCA
833112 ACTTAAAAAGAAAGTTAACCAGAATTGAAGAAAAATCCAAACCTATATGTTTGCATGCATGCACT
425 ACTT--AAA-AAAGTTAACCAGAATTGAAG------------C---A---TTGCATGCATGCACT
* * * * *
833177 TGTGAATTTGGACATGTATCATGGTATATTTCCTAATGGGGCTACAGATAGTTTCATCTACCTGG
469 TGTGAACTTGGACACGCATCATAGTATATTTCCTAATGGGGCTACAGATAGTTTCATCTACATGG
* * * * * *
833242 AAGGAAAGATTAGGAAATGAAATTTCGGTCGTGATCACATTTTCGGGGACAAAACCAAGTACACA
534 AAGGAAAGATCAAGAAATGAAAATTCGGTAGTGATCACA-TTTCAGGAACAAAACCAAGTACACA
* *
833307 CACTTTCAGTGGTTCAACTTAAAAAGAAGGTTAACCACAATTGAAGCACAATCCAACCTATATGT
598 CACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCACAATTGAAGCACAATCCAACCTATATAT
833372 GTGCATGCATGCACTTGTGAAATTGGACATGTATCATAGTATATTTCCCTAATGCGCTACAGATA
663 GTGCATGCATGCACTTGTGAAATTGGACATGTATCATAGTATATTTCCCTAATGCGCTACAGATA
* *
833437 GTTTCATCTACATGGAAGGTAAGATCAGGCATTTAAATTGCGGTCATCAACACGTTTTCAGG
728 GTTTCATCTACATGGAAGGTAAGATCAGGCATTTAAATTGCAGTCAACAACACGTTTTCAGG
*
833499 GATGAAACCAAGTACATACACTTTCAGCGGTTCAACTTAAAAAGAAAGTTAAGCAGAATTGAAGC
1 GATGAAACCAAGTACATACACTTTCAGCGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAG-
* * * *
833564 AAAATCCAAACCTATATGTATGCATGCATGCACTAGTGAACTTGGACATGTATCATGGCATATTT
65 ---------A-C---ATGCATGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTT
* * * *
833629 TCCTAATGGGACTACAAATAGTTTCATCTACAT-CGT--GATC-A-CGTTT---TT--G----G-
117 TCCTAATGGGGCTACAGATAGTTTCATCTACATGGGTAAGATCAAGCATTTAAATTCGGTCATGA
* * * * * *
833679 T-A-A---T---G--G-AACCAAGTACATAAACTTTTACTGGTTCAACTTAAAAAAAAAAAGTTA
182 TCACATTTTAGGGATGAAACCATGTACATAAACTTTCAGTAGTACAACTT---AAAAAGAAGTTA
* *
833733 ACCAGAATTGAGGCACAATGCAAACCTATATGTGCGCATGCATGCACTTGTGAACTCGGACATGT
244 ACCAGAATTGAAG--CAATG-----C---A--T--GCATGCATGCACTTGTGAACTTGGACATGT
* *
833798 ATCATAGTATATTTTCCTAAGGGCGCTACAGATAGTTTCATCTATATGGAAGGTGAGATCAGGCA
295 ATCATAGTATATTTTCCTAATGG-GCTACAGATAGTTTCATCTATATGGAAGGTAAGATCAGGCA
* * * * *
833863 TTTAATTTGCAGTCGA-GATCATGTTTTCAGGGATGAAACCAAGTATATACACTTTCAGTGGCTC
359 TTTAAATTGCGGTCGATGATCACGTTTTCAGGGATGAAACCAAGTACATACACTTTCAGTGGTTC
* *
833927 AACTT-AAAAATTTAACCAGAATTGAAGCA-TGCATGCATGCTCTTGTGAACTTGGACACGCATC
424 AACTTAAAAAAGTTAACCAGAATTGAAGCATTGCATGCATGCACTTGTGAACTTGGACACGCATC
* ** * *
833990 ATAGTATATTTTCCTAATGGGGCTACAGATATTTTCATCTACATGGAAGGTTAGATCAAG-CATT
489 ATAGTATA-TTTCCTAATGGGGCTACAGATAGTTTCATCTACATGGAAGGAAAGATCAAGAAATG
** *
834054 AAACATTCGGTAGTGATCAGC-TTTCAGGAATGAAACCAAGTACATACACTTTCAGTGGTTCAAC
553 AAA-ATTCGGTAGTGATCA-CATTTCAGGAACAAAACCAAGTACACACACTTTCAGTGGTTCAAC
* * **
834118 TTAAAAAGAAAGTTAACCAGAATTGAAGCACAGTCCAAACCTATATATGTTTATGCATGCACTTG
616 TTAAAAAGAAAGTTAACCACAATTGAAGCACAATCC-AACCTATATATGTGCATGCATGCACTTG
* * * *
834183 TGAACTTGGACATGTATTATAGTATATTTTCCTAATAGGGCTACAGATAGTTTCATCTACATGGA
680 TGAAATTGGACATGTATCATAGTATATTTCCCTAAT-GCGCTACAGATAGTTTCATCTACATGGA
* * * * * * *
834248 CGGTGAGATCAGGCATTTAATTTGCAGTCAAGATCATGTTTTCGGG
744 AGGTAAGATCAGGCATTTAAATTGCAGTCAACAACACGTTTTCAGG
834294 GATGAAACCAAGTACATACACTTTCAGCGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAG-
1 GATGAAACCAAGTACATACACTTTCAGCGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAGA
* *
834358 CATGCATGCATGCATGCTCTTGTGAACTTGGACACGTATCATAGTATATTTTCCTAATGGGGCTA
66 CATGCATGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTTTCCTAATGGGGCTA
834423 CAGATAGTTTCATCTACATGGAAGGTAAGATCAAGCATTTAAATTACGGTCATGATCACATTTTC
131 CAGATAGTTTCATCTACAT-G--GGTAAGATCAAGCATTTAAATT-CGGTCATGATCACATTTT-
* * *
834488 AGGGATGAAACCAAGTACATAAACTTTCAGTGGTTCAACTTAAAAAGAAGGTTAACCAGAATTGA
191 AGGGATGAAACCATGTACATAAACTTTCAGTAGTACAACTTAAAAAGAA-GTTAACCAGAATTGA
* *
834553 AGC-ATGCATGCATGCATGCTCTTGTGAACTTGGACACGTATCATAGTATATTTTCCTAATGGGT
255 AGCAATGCATGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTTTCCTAATGGG-
* * *
834617 CTACAGATAGTTTCATCTACATGGAAGGTAAGATCAAGCATTTAAATTACGGTC-ATGATCACGT
319 CTACAGATAGTTTCATCTATATGGAAGGTAAGATCAGGCATTTAAATTGCGGTCGATGATCACGT
834681 TTTCAGGGATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAGGTTAACCAGAA
384 TTTCAGGGATGAAACCAAGTACATACACTTTCAGTGGTTCAACTT-AAAA-AA-GTTAACCAGAA
834746 TTGAAGCA
446 TTGAAGCA
834754 CAAAATCCAA
Statistics
Matches: 1071, Mismatches: 114, Indels: 181
0.78 0.08 0.13
Matches are distributed among these distances:
780 75 0.07
783 1 0.00
784 2 0.00
786 4 0.00
787 1 0.00
788 4 0.00
791 2 0.00
793 115 0.11
794 264 0.25
795 128 0.12
796 4 0.00
797 3 0.00
798 20 0.02
799 1 0.00
800 2 0.00
801 2 0.00
804 1 0.00
806 3 0.00
807 1 0.00
808 8 0.01
809 16 0.01
810 1 0.00
811 31 0.03
812 19 0.02
813 2 0.00
814 31 0.03
815 6 0.01
816 166 0.15
817 8 0.01
820 1 0.00
823 1 0.00
825 1 0.00
826 1 0.00
827 1 0.00
831 1 0.00
834 2 0.00
836 1 0.00
837 2 0.00
838 4 0.00
839 59 0.06
840 2 0.00
841 69 0.06
844 1 0.00
848 1 0.00
849 1 0.00
852 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (789 bp):
GATGAAACCAAGTACATACACTTTCAGCGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAGA
CATGCATGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTTTCCTAATGGGGCTA
CAGATAGTTTCATCTACATGGGTAAGATCAAGCATTTAAATTCGGTCATGATCACATTTTAGGGA
TGAAACCATGTACATAAACTTTCAGTAGTACAACTTAAAAAGAAGTTAACCAGAATTGAAGCAAT
GCATGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTTTCCTAATGGGCTACAGA
TAGTTTCATCTATATGGAAGGTAAGATCAGGCATTTAAATTGCGGTCGATGATCACGTTTTCAGG
GATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAAGTTAACCAGAATTGAAGCATT
GCATGCATGCACTTGTGAACTTGGACACGCATCATAGTATATTTCCTAATGGGGCTACAGATAGT
TTCATCTACATGGAAGGAAAGATCAAGAAATGAAAATTCGGTAGTGATCACATTTCAGGAACAAA
ACCAAGTACACACACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCACAATTGAAGCACAATC
CAACCTATATATGTGCATGCATGCACTTGTGAAATTGGACATGTATCATAGTATATTTCCCTAAT
GCGCTACAGATAGTTTCATCTACATGGAAGGTAAGATCAGGCATTTAAATTGCAGTCAACAACAC
GTTTTCAGG
Found at i:834708 original size:394 final size:395
Alignment explanation
Indices: 833680--834898 Score: 1433
Period size: 400 Copynumber: 3.0 Consensus size: 395
833670 CGTTTTTGGT
* * * * *
833680 AATGGAACCAAGTACATAAACTTTTACTGGTTCAACTTAAAAAAAAAAAGTTAACCAGAATTGAG
1 AATGAAACCAAGTACATAAACTTTCAGTGGTTCAACTT--AAAAAGAAAGTTAACCAGAATTGAA
* *
833745 GCACAATGCAAACCTATATGTGCGCATGCATGCACTTGTGAACTCGGACATGTATCATAGTATAT
64 G-AC-A-G--TACC--TA--T--GCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATAT
* *
833810 TTTCCTAAGGGCGCTACAGATAGTTTCATCTATATGGAAGGTGAGATCAGGCATTTAATTTGCAG
118 TTTCCTAATGG-GCTACAGATAGTTTCATCTACATGGAAGGTGAGATCAGGCATTTAATTTGCAG
* *
833875 TCGAGATCATGTTTTCAGGGATGAAACCAAGTATATACACTTTCAGTGGCTCAACTT---AA-AA
182 TC-AGATCATGTTTTCAGGGATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAA
* *
833936 ATTTAACCAGAATTG-A--A-GCATGCATGCATGCTCTTGTGAACTTGGACACGCATCATAGTAT
246 AGTTAACCAGAATTGAAGCATGCATGCATGCATGCTCTTGTGAACTTGGACACGTATCATAGTAT
* *
833997 ATTTTCCTAATGGGGCTACAGATATTTTCATCTACATGGAAGGTTAGATCAAGCATTAAACATTC
311 ATTTTCCTAATGGGGCTACAGATAGTTTCATCTACATGGAAGGTAAGATCAAGCATTAAA-ATTC
834062 GGT-AGTGATCAGC--TTTCAGG
375 GGTCA-TGATCA-CATTTTCAGG
*
834082 AATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAGC
1 AATGAAACCAAGTACATAAACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAG-
* *
834147 ACAGTCCAAACCTATATATGTTTATGCATGCACTTGTGAACTTGGACATGTATTATAGTATATTT
65 ACAGT----ACC----TATG--CATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTT
*
834212 TCCTAATAGGGCTACAGATAGTTTCATCTACATGGACGGTGAGATCAGGCATTTAATTTGCAGTC
120 TCCTAAT-GGGCTACAGATAGTTTCATCTACATGGAAGGTGAGATCAGGCATTTAATTTGCAGTC
* *
834277 AAGATCATGTTTTCGGGGATGAAACCAAGTACATACACTTTCAGCGGTTCAACTTAAAAAGAAAG
184 -AGATCATGTTTTCAGGGATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAAG
834342 TTAACCAGAATTGAAGCATGCATGCATGCATGCTCTTGTGAACTTGGACACGTATCATAGTATAT
248 TTAACCAGAATTGAAGCATGCATGCATGCATGCTCTTGTGAACTTGGACACGTATCATAGTATAT
*
834407 TTTCCTAATGGGGCTACAGATAGTTTCATCTACATGGAAGGTAAGATCAAGCATTTAAATTACGG
313 TTTCCTAATGGGGCTACAGATAGTTTCATCTACATGGAAGGTAAGATCAAGCATTAAAATT-CGG
834472 TCATGATCACATTTTCAGG
377 TCATGATCACATTTTCAGG
* *
834491 GATGAAACCAAGTACATAAACTTTCAGTGGTTCAACTTAAAAAGAAGGTTAACCAGAATTGAAG-
1 AATGAAACCAAGTACATAAACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAGA
* * *
834555 CA-T-GC-ATGCATGCATGCTCTTGTGAACTTGGACACGTATCATAGTATATTTTCCTAATGGGT
66 CAGTACCTATGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTTTCCTAATGGG-
* * * * * *
834617 CTACAGATAGTTTCATCTACATGGAAGGTAAGATCAAGCATTTAAATTACGGTCATGATCACGTT
130 CTACAGATAGTTTCATCTACATGGAAGGTGAGATCAGGCATTTAATTTGCAGTCA-GATCATGTT
*
834682 TTCAGGGATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAGGTTAACCAGAAT
194 TTCAGGGATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCAGAAT
* * * * *
834747 TGAAGCACAAAATCCAAACCTATACGTGTGCATGCATGCACTTGTGGACGTGGACACATATCATA
259 TGAAG--C---AT-----GC---A----TGCATGCATGCTCTTGTGAACTTGGACACGTATCATA
* ** * * *
834812 GTGTATTTTTTTAATAGGGCTACAGATAGTTTCATCTACATGGAAGGTAAGATCAGGCATTCAAA
307 GTATATTTTCCTAATGGGGCTACAGATAGTTTCATCTACATGGAAGGTAAGATCAAGCATTAAAA
** *
834877 TTGCATTCGTGATCACATTTTC
372 TT-CGGTCATGATCACATTTTC
834899 GATTGCATCA
Statistics
Matches: 721, Mismatches: 56, Indels: 71
0.85 0.07 0.08
Matches are distributed among these distances:
393 4 0.01
394 169 0.23
396 4 0.01
398 2 0.00
399 3 0.00
400 180 0.25
401 3 0.00
402 38 0.05
403 2 0.00
404 17 0.02
405 1 0.00
406 1 0.00
407 8 0.01
408 110 0.15
409 69 0.10
411 110 0.15
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (395 bp):
AATGAAACCAAGTACATAAACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCAGAATTGAAGA
CAGTACCTATGCATGCATGCACTTGTGAACTTGGACATGTATCATAGTATATTTTCCTAATGGGC
TACAGATAGTTTCATCTACATGGAAGGTGAGATCAGGCATTTAATTTGCAGTCAGATCATGTTTT
CAGGGATGAAACCAAGTACATACACTTTCAGTGGTTCAACTTAAAAAGAAAGTTAACCAGAATTG
AAGCATGCATGCATGCATGCTCTTGTGAACTTGGACACGTATCATAGTATATTTTCCTAATGGGG
CTACAGATAGTTTCATCTACATGGAAGGTAAGATCAAGCATTAAAATTCGGTCATGATCACATTT
TCAGG
Found at i:844887 original size:18 final size:18
Alignment explanation
Indices: 844864--844901 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
844854 CATAAGGACT
*
844864 TAGATTAAAATATGTGTA
1 TAGATTAAAATATGTATA
844882 TAGATTAAAATATGTATA
1 TAGATTAAAATATGTATA
844900 TA
1 TA
844902 TATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.39
Consensus pattern (18 bp):
TAGATTAAAATATGTATA
Found at i:844950 original size:17 final size:17
Alignment explanation
Indices: 844928--844987 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
844918 AATTTAAAAT
844928 TATTAAAATCATATTTA
1 TATTAAAATCATATTTA
*
844945 TATTAAATAAT-AAACTATT-
1 TATT-AA-AATCATA-T-TTA
844964 TATTAAAATCATATTTA
1 TATTAAAATCATATTTA
*
844981 TGTTAAA
1 TATTAAA
844988 TAATAATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
16 2 0.06
17 14 0.41
18 8 0.24
19 8 0.24
20 2 0.06
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (17 bp):
TATTAAAATCATATTTA
Found at i:844952 original size:35 final size:35
Alignment explanation
Indices: 844903--845004 Score: 118
Period size: 36 Copynumber: 2.8 Consensus size: 35
844893 ATGTATATAT
* *
844903 ATATATATAATAAATAATTTAAAATTATTAAAATC
1 ATATTTATATTAAATAATTTAAAATTATTAAAATC
844938 ATATTTATATTAAATAA--TAAACTATTTATTAAAATC
1 ATATTTATATTAAATAATTTAAA--A-TTATTAAAATC
*
844974 ATATTTATGTTAAATAATAATTAAAATTATT
1 ATATTTATATTAAATAAT--TTAAAATTATT
845005 TAATATAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
33 4 0.07
35 16 0.28
36 27 0.47
37 5 0.09
38 1 0.02
40 4 0.07
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (35 bp):
ATATTTATATTAAATAATTTAAAATTATTAAAATC
Found at i:845015 original size:15 final size:14
Alignment explanation
Indices: 844991--845020 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
844981 TGTTAAATAA
844991 TAATTAAAATTATT
1 TAATTAAAATTATT
845005 TAATATAAAATTATT
1 TAAT-TAAAATTATT
845020 T
1 T
845021 TAAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATTAAAATTATT
Found at i:845879 original size:34 final size:36
Alignment explanation
Indices: 845813--845879 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 36
845803 TTTTAAGTAT
* * *
845813 TTTTTCAAAATAAAATAAATATTTTTAGATCTTTAC
1 TTTTTCAAAATAAAATAAATATATTCAAATCTTTAC
845849 TTTTT-AAAAT-AAATAAATATATTCAAATCTT
1 TTTTTCAAAATAAAATAAATATATTCAAATCTT
845880 ATTTGTTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 18 0.64
35 5 0.18
36 5 0.18
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.46
Consensus pattern (36 bp):
TTTTTCAAAATAAAATAAATATATTCAAATCTTTAC
Found at i:859773 original size:21 final size:20
Alignment explanation
Indices: 859722--859774 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
859712 CATGAAGGCT
*
859722 TGGTATTGATACCTAGGGTA
1 TGGTATAGATACCTAGGGTA
* *
859742 TGGTATCGATACCTAGTGTGA
1 TGGTATAGATACCTAGGGT-A
*
859763 TTGTATAGATAC
1 TGGTATAGATAC
859775 ATGCCTTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.36
Consensus pattern (20 bp):
TGGTATAGATACCTAGGGTA
Found at i:859893 original size:112 final size:113
Alignment explanation
Indices: 859709--859923 Score: 319
Period size: 112 Copynumber: 1.9 Consensus size: 113
859699 TAGTGTATTG
* * *
859709 ATACATGAAGGCTTGGTATTGATACCTAGGGTATGGTATCGATACCTAGTGTGATTGTATAGATA
1 ATACATGAAGGCATGGTATCGATACCTAGGGTATGGTATCCATACCTAGTGTGATTGTATAGATA
* **
859774 CATGCCTTGGCGGTAGCTAAAATTTGAT-TTTTGGACAACAAGTATCA
66 CATGCCTTGGCAGTAGCTAAAATTCAATGTTTTGGACAACAAGTATCA
* *
859821 ATACATGAAGGCATGGTATCGATACCTAGGGTGTGGT-TCCATACCTTA-TGTGATTGTATCGAT
1 ATACATGAAGGCATGGTATCGATACCTAGGGTATGGTATCCATACC-TAGTGTGATTGTATAGAT
859884 ACATGGCCTTGGCAGTAGCTAAAATTCAATGTTTTGGACA
65 ACAT-GCCTTGGCAGTAGCTAAAATTCAATGTTTTGGACA
859924 GCAACTATAG
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
111 25 0.27
112 58 0.63
113 9 0.10
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (113 bp):
ATACATGAAGGCATGGTATCGATACCTAGGGTATGGTATCCATACCTAGTGTGATTGTATAGATA
CATGCCTTGGCAGTAGCTAAAATTCAATGTTTTGGACAACAAGTATCA
Found at i:859952 original size:112 final size:112
Alignment explanation
Indices: 859722--859957 Score: 282
Period size: 112 Copynumber: 2.1 Consensus size: 112
859712 CATGAAGGCT
* * *
859722 TGGTATTGATACCTAGGGTATGGTATCGATACCTAGTGTGATTGTATAGATACATGCCTTGGCGG
1 TGGTATCGATACCTAGGGTATGGTATCCATACCTAGTGTGATTGTATAGATACATGCCTTGGCAG
** * * *
859787 TAGCTAAAATTTGATTTTTGGACAACAAGTATCAATACATGAAGGCA
66 TAGCTAAAATTCAATTTTTGGACAACAACTATCAATACATAAAGGAA
* *
859834 TGGTATCGATACCTAGGGTGTGGT-TCCATACCTTA-TGTGATTGTATCGATACATGGCCTTGGC
1 TGGTATCGATACCTAGGGTATGGTATCCATACC-TAGTGTGATTGTATAGATACAT-GCCTTGGC
* *
859897 AGTAGCTAAAATTCAATGTTTTGGACAGCAACTAT-AGATAC-TAAAGTAA
64 AGTAGCTAAAATTCAAT-TTTTGGACAACAACTATCA-ATACATAAAGGAA
* *
859946 TTGTATCAATAC
1 TGGTATCGATAC
859958 ATTCTGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
111 25 0.24
112 62 0.58
113 19 0.18
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (112 bp):
TGGTATCGATACCTAGGGTATGGTATCCATACCTAGTGTGATTGTATAGATACATGCCTTGGCAG
TAGCTAAAATTCAATTTTTGGACAACAACTATCAATACATAAAGGAA
Found at i:862642 original size:20 final size:19
Alignment explanation
Indices: 862599--862654 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
862589 GTATCAATAT
* **
862599 ATTGTATTGATACATGTTA
1 ATTGTATCGATACATGACA
862618 ATTGTATCGATACATGCACA
1 ATTGTATCGATACATG-ACA
*
862638 ATTGTATCAATACATGA
1 ATTGTATCGATACATGA
862655 AACTGGCAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:871680 original size:20 final size:21
Alignment explanation
Indices: 871633--871685 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
871623 GCCAATCACT
*
871633 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
871654 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
871674 TGTATCGATACA
1 TGTATCGATACA
871686 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:871691 original size:13 final size:13
Alignment explanation
Indices: 871673--871697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
871663 ACATTTGGTC
871673 ATGTATCGATACA
1 ATGTATCGATACA
871686 ATGTATCGATAC
1 ATGTATCGATAC
871698 TGTGCATTAT
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):
ATGTATCGATACA
Found at i:874178 original size:13 final size:13
Alignment explanation
Indices: 874160--874208 Score: 89
Period size: 13 Copynumber: 3.8 Consensus size: 13
874150 ATAAACCCTT
874160 TGTATCGATACAC
1 TGTATCGATACAC
874173 TGTATCGATACAC
1 TGTATCGATACAC
*
874186 TGTATCGATACAA
1 TGTATCGATACAC
874199 TGTATCGATA
1 TGTATCGATA
874209 TAGAGAATGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:880548 original size:32 final size:32
Alignment explanation
Indices: 880512--880582 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
880502 TTCAACGATT
880512 TGTATCGACACATAAGTGTTGTATCGATACAA
1 TGTATCGACACATAAGTGTTGTATCGATACAA
* *
880544 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGACACATAAGTGTTGTATCGATACAA
880576 TGTATCG
1 TGTATCG
880583 CTATGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGACACATAAGTGTTGTATCGATACAA
Found at i:880549 original size:13 final size:13
Alignment explanation
Indices: 880531--880555 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
880521 ACATAAGTGT
880531 TGTATCGATACAA
1 TGTATCGATACAA
880544 TGTATCGATACA
1 TGTATCGATACA
880556 TAAGTTTTGT
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:880568 original size:19 final size:19
Alignment explanation
Indices: 880510--880574 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
880500 ATTTCAACGA
*
880510 TTTGTATCGACACATAAGT
1 TTTGTATCGATACATAAGT
*
880529 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
880544 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
880561 TTTGTATCGATACA
1 TTTGTATCGATACA
880575 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:880705 original size:52 final size:52
Alignment explanation
Indices: 880660--880788 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
880650 CACTGATCTT
*
880660 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCACAGATGTATCGATACACTATGAAA
880712 TGTATCGATACATACAGGCAAATTTGCACAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCACAGATGTATCGATACACTATGAAA
*
880764 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATACAGGCAAATTT
880789 TCATATTTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCACAGATGTATCGATACACTATGAAA
Found at i:894684 original size:11 final size:11
Alignment explanation
Indices: 894647--894766 Score: 106
Period size: 10 Copynumber: 11.0 Consensus size: 11
894637 CATCCTCCAC
894647 AAAAAAAACAA
1 AAAAAAAACAA
*
894658 ACAAACAAAC-A
1 A-AAAAAAACAA
*
894669 AAAAAAAA-GA
1 AAAAAAAACAA
894679 AAAAAAAACAA
1 AAAAAAAACAA
* *
894690 CAACAAAACAA
1 AAAAAAAACAA
*
894701 AAAAAAAA-GA
1 AAAAAAAACAA
894711 AAAAAAAACAA
1 AAAAAAAACAA
894722 AACAAAAGAA-AA
1 AA-AAAA-AACAA
*
894734 AAACAAAA-AA
1 AAAAAAAACAA
*
894744 AAAACAAACAA
1 AAAAAAAACAA
894755 ACAAAAAAACAA
1 A-AAAAAAACAA
894767 CAACAAAAAG
Statistics
Matches: 88, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
10 34 0.39
11 28 0.32
12 24 0.27
13 2 0.02
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:894685 original size:31 final size:29
Alignment explanation
Indices: 894647--894763 Score: 148
Period size: 29 Copynumber: 4.0 Consensus size: 29
894637 CATCCTCCAC
*
894647 AAAAAAAACAAACAAACAAACAAAAAAAA
1 AAAAAAAAAAAACAAACAAACAAAAAAAA
894676 AGAAAAAAAAACAAC-AACAAAACAAAAAAAA
1 A-AAAAAAAAA-AACAAAC-AAACAAAAAAAA
* *
894707 AAGAAAAAAAAACAAAACAAA-AGAAAAAA
1 AAAAAAAAAAAAC-AAACAAACAAAAAAAA
*
894736 ACAAAAAAAAAACAAACAAACAAAAAAA
1 AAAAAAAAAAAACAAACAAACAAAAAAA
894764 CAACAACAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
28 7 0.09
29 28 0.37
30 22 0.29
31 19 0.25
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (29 bp):
AAAAAAAAAAAACAAACAAACAAAAAAAA
Found at i:894687 original size:32 final size:32
Alignment explanation
Indices: 894647--894763 Score: 147
Period size: 32 Copynumber: 3.8 Consensus size: 32
894637 CATCCTCCAC
894647 AAAAAAAACAAACAAACAAACAAAAAAAAAGA
1 AAAAAAAACAAACAAACAAACAAAAAAAAAGA
894679 AAAAAAAAC-AAC-AACAAAACAAAAAAAAAAGA
1 AAAAAAAACAAACAAAC-AAAC-AAAAAAAAAGA
* * *
894711 AAAAAAAACAAA-ACA-AAAGAAAAAAACA-A
1 AAAAAAAACAAACAAACAAACAAAAAAAAAGA
894740 AAAAAAAACAAACAAACAAA-AAAA
1 AAAAAAAACAAACAAACAAACAAAA
894764 CAACAACAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
29 13 0.17
30 17 0.23
31 13 0.17
32 29 0.39
33 3 0.04
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (32 bp):
AAAAAAAACAAACAAACAAACAAAAAAAAAGA
Found at i:894775 original size:1 final size:1
Alignment explanation
Indices: 894647--894763 Score: 81
Period size: 1 Copynumber: 117.0 Consensus size: 1
894637 CATCCTCCAC
* * * * * * * * * *
894647 AAAAAAAACAAACAAACAAACAAAAAAAAAGAAAAAAAAACAACAACAAAACAAAAAAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
894712 AAAAAAACAAAACAAAAGAAAAAAACAAAAAAAAAACAAACAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
894764 CAACAACAAA
Statistics
Matches: 82, Mismatches: 34, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 82 1.00
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:896276 original size:29 final size:29
Alignment explanation
Indices: 896234--896350 Score: 189
Period size: 29 Copynumber: 4.0 Consensus size: 29
896224 GCACCTTTTC
896234 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT
*
896263 CTTTTCCAAAGCCCACAAGTCAGTGGCACC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCA-T
*
896293 CTTTTTCCAAAGCCCACAAGTCAGTGGTAT
1 C-TTTTCCAAAGCCCACAAGTCAGTGGCAT
*
896323 CTTTTCAAAAGCCCACAAGTCAGTGGCA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCA
896351 ACCTTTAAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
29 53 0.65
30 2 0.02
31 26 0.32
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (29 bp):
CTTTTCCAAAGCCCACAAGTCAGTGGCAT
Found at i:896309 original size:60 final size:60
Alignment explanation
Indices: 896235--896356 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 60
896225 CACCTTTTCC
* *
896235 TTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCT
1 TTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
*
896295 TTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
896355 TT
1 TT
896357 AAAAGCACAC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (60 bp):
TTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
Found at i:896400 original size:31 final size:29
Alignment explanation
Indices: 896325--896406 Score: 98
Period size: 28 Copynumber: 2.8 Consensus size: 29
896315 AGTGGTATCT
**
896325 TTTCAAAAGCC-CACAAGTCAGTGGCAACC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACC
896354 TTT-AAAAG-CACACAAGTTGGTGCAACCC
1 TTTCAAAAGCCACACAAGTTGGTGCAA-CC
896382 TTTCAAAAGCCCACACAAGTTGGTG
1 TTTCAAAAG-CCACACAAGTTGGTG
896407 GCATCTTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
27 5 0.11
28 19 0.41
29 8 0.17
31 14 0.30
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (29 bp):
TTTCAAAAGCCACACAAGTTGGTGCAACC
Found at i:897189 original size:32 final size:32
Alignment explanation
Indices: 897146--897216 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
897136 TTGAACGATT
*
897146 TGTATCAATACATAAGTGTTGCATCAATACAA
1 TGTATCGATACATAAGTGTTGCATCAATACAA
* * *
897178 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGCATCAATACAA
897210 TGTATCG
1 TGTATCG
897217 CTACGAAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGCATCAATACAA
Found at i:900800 original size:15 final size:13
Alignment explanation
Indices: 900768--900793 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
900758 AATTTGGTCA
900768 TGTATCGATACAT
1 TGTATCGATACAT
900781 TGTATCGATACAT
1 TGTATCGATACAT
900794 CTTGTATGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:900900 original size:20 final size:21
Alignment explanation
Indices: 900853--900905 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
900843 GCCAATCACC
*
900853 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
900874 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
900894 TGTATCGATACA
1 TGTATCGATACA
900906 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:900911 original size:13 final size:13
Alignment explanation
Indices: 900893--900917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
900883 ACATTTGGTC
900893 ATGTATCGATACA
1 ATGTATCGATACA
900906 ATGTATCGATAC
1 ATGTATCGATAC
900918 TGTGCATTAT
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):
ATGTATCGATACA
Found at i:901759 original size:13 final size:15
Alignment explanation
Indices: 901741--901781 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
901731 ACATTATGCT
901741 TTGTATCAATA-TA-
1 TTGTATCAATACTAG
*
901754 TTGTATCGATACGTAG
1 TTGTATCAATAC-TAG
901770 TTGTATCAATAC
1 TTGTATCAATAC
901782 ATGCACAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (15 bp):
TTGTATCAATACTAG
Found at i:902814 original size:85 final size:85
Alignment explanation
Indices: 902719--902968 Score: 220
Period size: 85 Copynumber: 2.9 Consensus size: 85
902709 GACTTTAGGA
* * * * *
902719 AAACTTCATCCCTAATATTTCGAGGGAATATTCCAACCCCGCTC-T-AATAAATTAAAATTTACT
1 AAACTCCATCCCTACTATTTCGAGGG-ACACTCCAACCCCACTCTTCAA-AAATTAAAATTTACT
**
902782 TCATGGAATTTTA-CCTTTGGGG
64 TCATACAATTTTATCC-TTGGGG
* * * * *
902804 AAACTCCATCCC-ACTATTTTGAAGGGACACTCTAACCCCATTCTTCAAAAATTAAATTTTCCTT
1 AAACTCCATCCCTACTATTTCG-AGGGACACTCCAACCCCACTCTTCAAAAATTAAAATTTACTT
902868 CATACAATTTTATCCTTGGGG
65 CATACAATTTTATCCTTGGGG
* * * * * * * *
902889 AAACTCCATCCCTACTATCTCGAGGGGGACATTCCAACCTCACTCATCATAAATCAAATTTTCCT
1 AAACTCCATCCCTACTATTTCGA--GGGACACTCCAACCCCACTCTTCAAAAATTAAAATTTACT
* *
902954 TCGTATAATTTTATC
64 TCATACAATTTTATC
902969 TCTAAGGATA
Statistics
Matches: 135, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
84 19 0.14
85 59 0.44
86 11 0.08
87 46 0.34
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (85 bp):
AAACTCCATCCCTACTATTTCGAGGGACACTCCAACCCCACTCTTCAAAAATTAAAATTTACTTC
ATACAATTTTATCCTTGGGG
Found at i:902964 original size:87 final size:86
Alignment explanation
Indices: 902788--902968 Score: 222
Period size: 87 Copynumber: 2.1 Consensus size: 86
902778 TACTTCATGG
* * * * *
902788 AATTTTA-CCTTTGGGGAAACTCCATCCCACTATTTTGAAGGGACACTCTAACCCCATTCTTCAA
1 AATTTTATCCTTTGGGGAAACTCCATCCCACTATCTCGAAGGGACACTCCAACCCCACTCATCAA
*
902852 AAATTAAATTTTCCTTCATAC
66 AAATCAAATTTTCCTTCATAC
* * *
902873 AATTTTATCC-TTGGGGAAACTCCATCCCTACTATCTCGAGGGGGACATTCCAACCTCACTCATC
1 AATTTTATCCTTTGGGGAAACTCCATCCC-ACTATCTCGA-AGGGACACTCCAACCCCACTCATC
* * *
902937 ATAAATCAAATTTTCCTTCGTAT
64 AAAAATCAAATTTTCCTTCATAC
902960 AATTTTATC
1 AATTTTATC
902969 TCTAAGGATA
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
85 25 0.31
86 10 0.12
87 46 0.57
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.34
Consensus pattern (86 bp):
AATTTTATCCTTTGGGGAAACTCCATCCCACTATCTCGAAGGGACACTCCAACCCCACTCATCAA
AAATCAAATTTTCCTTCATAC
Found at i:903531 original size:45 final size:46
Alignment explanation
Indices: 903509--903597 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 46
903499 CCATATAACA
*
903509 CAAACTAAAATTCTATATAAACTT-AAACCTAAACCCAATTAAAAT
1 CAAACTAAAAATCTATATAAACTTAAAACCTAAACCCAATTAAAAT
* *
903554 CCAACTAAAAATCTATATAAACTT-AAACCCAAACCCAATTAAAA
1 CAAACTAAAAATCTATATAAACTTAAAACCTAAACCCAATTAAAA
903598 AAAAAAAGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (46 bp):
CAAACTAAAAATCTATATAAACTTAAAACCTAAACCCAATTAAAAT
Found at i:903763 original size:18 final size:18
Alignment explanation
Indices: 903740--903811 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
903730 ACAACAGCAA
903740 CAGCAACCAGAAGCAGAT
1 CAGCAACCAGAAGCAGAT
903758 CAGCAA-C--AA-CA-A-
1 CAGCAACCAGAAGCAGAT
* *
903770 CAGCAACCAAAAGCAAAT
1 CAGCAACCAGAAGCAGAT
* *
903788 CAGCCACTAGAAGCAGAT
1 CAGCAACCAGAAGCAGAT
903806 CAGCAA
1 CAGCAA
903812 TAGCAACAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
12 6 0.14
13 2 0.05
14 2 0.05
15 4 0.09
16 2 0.05
17 2 0.05
18 25 0.58
ACGTcount: A:0.49, C:0.29, G:0.17, T:0.06
Consensus pattern (18 bp):
CAGCAACCAGAAGCAGAT
Found at i:903765 original size:30 final size:30
Alignment explanation
Indices: 903731--903791 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
903721 AGTAAGTCGA
* * *
903731 CAACAGCAACAGCAACCAGAAGCAGATCAG
1 CAACAACAACAGCAACCAAAAGCAAATCAG
903761 CAACAACAACAGCAACCAAAAGCAAATCAG
1 CAACAACAACAGCAACCAAAAGCAAATCAG
903791 C
1 C
903792 CACTAGAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.51, C:0.31, G:0.15, T:0.03
Consensus pattern (30 bp):
CAACAACAACAGCAACCAAAAGCAAATCAG
Found at i:903770 original size:36 final size:36
Alignment explanation
Indices: 903730--903872 Score: 94
Period size: 36 Copynumber: 3.8 Consensus size: 36
903720 AAGTAAGTCG
903730 ACAACAGCAACAGCAACCAGAAGCAGATCAGCAACA
1 ACAACAGCAACAGCAACCAGAAGCAGATCAGCAACA
* *
903766 ACAACAGCAACCAAAAGCAAATCAGCCA-CTAGA--AGCAGATCA
1 ACAACAGCAA-C---AGC-AACCAG-AAGC-AGATCAGCA-A-CA
* * * * **
903808 GCAATAGCAACAGCAACTAGAAGTAGATTGGCAACA
1 ACAACAGCAACAGCAACCAGAAGCAGATCAGCAACA
* *
903844 GCAACAGCAATAGCAACCAGAAGCAGATC
1 ACAACAGCAACAGCAACCAGAAGCAGATC
903873 GACAATAGTA
Statistics
Matches: 81, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
36 40 0.49
37 6 0.07
38 6 0.07
40 7 0.09
41 8 0.10
42 14 0.17
ACGTcount: A:0.48, C:0.27, G:0.18, T:0.08
Consensus pattern (36 bp):
ACAACAGCAACAGCAACCAGAAGCAGATCAGCAACA
Found at i:903827 original size:30 final size:30
Alignment explanation
Indices: 903788--903853 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
903778 AAAAGCAAAT
* *
903788 CAGCCACTAGAAGCAGATCAGCAATAGCAA
1 CAGCAACTAGAAGCAGATCAGCAACAGCAA
* **
903818 CAGCAACTAGAAGTAGATTGGCAACAGCAA
1 CAGCAACTAGAAGCAGATCAGCAACAGCAA
903848 CAGCAA
1 CAGCAA
903854 TAGCAACCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.24, G:0.21, T:0.11
Consensus pattern (30 bp):
CAGCAACTAGAAGCAGATCAGCAACAGCAA
Found at i:903889 original size:36 final size:36
Alignment explanation
Indices: 903806--903890 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 36
903796 AGAAGCAGAT
* * * *
903806 CAGCAATAGCAACAGCAACTAGAAGTAGATTGGCAA
1 CAGCAATAGCAACAGCAACCAGAAGCAGATCGACAA
* *
903842 CAGCAACAGCAATAGCAACCAGAAGCAGATCGACAA
1 CAGCAATAGCAACAGCAACCAGAAGCAGATCGACAA
* *
903878 TAGTAATAGCAAC
1 CAGCAATAGCAAC
903891 CAGAAGCAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (36 bp):
CAGCAATAGCAACAGCAACCAGAAGCAGATCGACAA
Found at i:908380 original size:9 final size:9
Alignment explanation
Indices: 908368--908411 Score: 79
Period size: 9 Copynumber: 4.8 Consensus size: 9
908358 GTAAAAAGGA
908368 AAAAAAATT
1 AAAAAAATT
908377 AAAAAAATT
1 AAAAAAATT
908386 AAAAAAATT
1 AAAAAAATT
908395 AAAAAAAATT
1 -AAAAAAATT
908405 AAAAAAA
1 AAAAAAA
908412 AACATTTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 25 0.74
10 9 0.26
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAAAAATT
Found at i:908389 original size:19 final size:18
Alignment explanation
Indices: 908368--908411 Score: 79
Period size: 19 Copynumber: 2.4 Consensus size: 18
908358 GTAAAAAGGA
908368 AAAAAAATTAAAAAAATT
1 AAAAAAATTAAAAAAATT
908386 AAAAAAATTAAAAAAAATT
1 AAAAAAATT-AAAAAAATT
908405 AAAAAAA
1 AAAAAAA
908412 AACATTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAAAATTAAAAAAATT
Found at i:908543 original size:19 final size:18
Alignment explanation
Indices: 908519--908581 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
908509 AAATCGTAAA
908519 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
908538 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
908551 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
908570 TGTATCGATACA
1 TGTATCGATACA
908582 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:908556 original size:13 final size:13
Alignment explanation
Indices: 908538--908562 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
908528 ACATAAGTGT
908538 TGTATCGATACAA
1 TGTATCGATACAA
908551 TGTATCGATACA
1 TGTATCGATACA
908563 TAAGTTTTGT
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:908558 original size:32 final size:32
Alignment explanation
Indices: 908517--908589 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
908507 ACAAATCGTA
908517 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
908549 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
908581 AATGTATCG
1 AATGTATCG
908590 CTACTGAAGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:911128 original size:52 final size:50
Alignment explanation
Indices: 911003--911347 Score: 204
Period size: 52 Copynumber: 6.6 Consensus size: 50
910993 TTAAGTTTCT
* *
911003 CAATTGTTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAA-CCCGATTTTATTTCCAAAACAC
* * *
911054 CAATTTTCCTTTGATCGGGGATACTCCAACTCCGATTTTATTTCCAAAGACAC
1 CAATTTTTC-ATAATCGGGGATACTCCAAC-CCGATTTTATTTCCAAA-ACAC
* * * ***** * *
911107 CAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTC
1 CAATTTTTCATAATCGGGGATACTCCAACC-CG--ATTTTATTTCCAAAACAC
* ** * * **** ** * * *
911160 TAACCCCGTTACCTCCGAGGGGATACTCCAACCCTGGCTTTATTCCCAAAATAT
1 CAA---TTTTTCATAATCGGGGATACTCCAACCC-GATTTTATTTCCAAAACAC
** * * *
911214 TGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAA-CCCGATTTTATTTCCAAAACAC
* *
911265 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ATAATCGGGGATACTCCAAC-CCGATTTTATTTCC-AAAACAC
* **
911318 CAATTTTTCACAATCAAGGATACTCCAACC
1 CAATTTTTCATAATCGGGGATACTCCAACC
911348 TCGTTATTTG
Statistics
Matches: 212, Mismatches: 68, Indels: 28
0.69 0.22 0.09
Matches are distributed among these distances:
51 46 0.22
52 100 0.47
53 32 0.15
54 15 0.07
55 1 0.00
56 18 0.08
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (50 bp):
CAATTTTTCATAATCGGGGATACTCCAACCCGATTTTATTTCCAAAACAC
Found at i:911378 original size:211 final size:211
Alignment explanation
Indices: 911010--911456 Score: 781
Period size: 211 Copynumber: 2.1 Consensus size: 211
911000 TCTCAATTGT
*
911010 TCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTGATCGGGGA
1 TCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
* *
911075 TACTCCAACTCCGATTTTATTTCCAAAGACACCAATTTTTCACAATCGAGGATACTCCAACCTCG
66 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAACCTCG
*
911140 TTATTTCATCGGGGATACTCTAACCCCGTTACCTCCGAGGGGATACTCCAACC-CTGGCTTTATT
131 TTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCAC-GGCTTTATT
911204 CCCAAAATATTGATTTC
195 CCCAAAATATTGATTTC
*
911221 TCATAATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACCAATTTTCCTTTAATCGGGG
1 TCATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCTTTAATCGGGG
911285 ATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAACCTC
65 ATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAACCTC
*
911350 GTTATTTGATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCACGGCTTTATT
130 GTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCACGGCTTTATT
*
911415 TCCAAAATATTGATTTC
195 CCCAAAATATTGATTTC
**
911432 TCATAATTAGGGATACTCCAACCCC
1 TCATAATCGGGGATACTCCAACCCC
911457 ATTATTTCCG
Statistics
Matches: 225, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
210 4 0.02
211 220 0.98
212 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (211 bp):
TCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAACCTCG
TTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCACGGCTTTATTC
CCAAAATATTGATTTC
Found at i:911478 original size:107 final size:105
Alignment explanation
Indices: 911070--911485 Score: 305
Period size: 107 Copynumber: 3.9 Consensus size: 105
911060 TCCTTTGATC
** * *** * *
911070 GGGGATACTCCAACTCCGATTTTATTTCCAAAGACACCAATTTTTCACAATC-GAGGATACTCCA
1 GGGGATACTCCAAC-CCGGCTTTATTTCCAAA-ATATTGATTTCTCATAATCAG-GGATACTCCA
* * *
911134 ACCTCGTTATTTC-ATCGGGGATACTCTAACCCCGTTACCTCCGA
63 ACCCCGTTATTTCGA--GGAGATACTCCAACCCCGTTACCTCCGA
* *
911178 GGGGATACTCCAACCCTGGCTTTATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCC-GGCTTTATTTCCAAAATATTGATTTCTCATAATCAGGGATACTCCAAC
* * ** * *
911243 CCCGGTTTTATTTCTA--A-A-ACACCAATTTTCCTTTA-AT-C--
65 CCC-G--TTATTTCGAGGAGATACTCCAA--CCCCGTTACCTCCGA
** * *** * * *
911281 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAA
1 GGGGATACTCCAAC-CCGGCTTTATTTCC-AAAATATTGATTTCTCATAATCAGGGATACTCCAA
* *
911346 CCTCGTTATTT-GATCGGGGATACTCCAACCCCGTTACCTCCGA
64 CCCCGTTATTTCGA--GGAGATACTCCAACCCCGTTACCTCCGA
*
911389 GGGGATACTCCAACCACGGCTTTATTTCCAAAATATTGATTTCTCATAATTAGGGATACTCCAAC
1 GGGGATACTCCAACC-CGGCTTTATTTCCAAAATATTGATTTCTCATAATCAGGGATACTCCAAC
* *
911454 CCCATTATTTCCGAGGAGATACTCCAATCCCG
65 CCCGTTATTT-CGAGGAGATACTCCAACCCCG
911486 ATTTTATTTC
Statistics
Matches: 235, Mismatches: 50, Indels: 47
0.71 0.15 0.14
Matches are distributed among these distances:
100 1 0.00
101 6 0.03
103 24 0.10
104 37 0.16
105 8 0.03
106 9 0.04
107 87 0.37
108 53 0.23
109 2 0.01
110 7 0.03
111 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (105 bp):
GGGGATACTCCAACCCGGCTTTATTTCCAAAATATTGATTTCTCATAATCAGGGATACTCCAACC
CCGTTATTTCGAGGAGATACTCCAACCCCGTTACCTCCGA
Found at i:911493 original size:79 final size:77
Alignment explanation
Indices: 911362--911594 Score: 236
Period size: 79 Copynumber: 2.9 Consensus size: 77
911352 TATTTGATCG
** *
911362 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCACGGCTTTATTTCCAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCAC-GTTTTATTTCCAAAATATTG
*
911427 ATTTCTCATAATTA
65 ATTTCTCATAA-CA
* * *
911441 GGGATACTCCAACCCCATTATTTCCGAGGAGATACTCCAATCC-CGATTTTATTTCC-TAATCAT
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCACG-TTTTATTTCCAAAAT-AT
* * * *
911504 CGATTTTTCACAACC
63 TGATTTCTCATAACA
* * * *
911519 GAGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCTCGTTATTATCTCCAAAATATT
1 G-GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCACGTT-TTATTTCCAAAATATT
*
911584 AAATTTCTCAT
64 -GATTTCTCAT
911595 CGGGACATAT
Statistics
Matches: 125, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
78 9 0.07
79 104 0.83
80 12 0.10
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (77 bp):
GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCACGTTTTATTTCCAAAATATTGA
TTTCTCATAACA
Found at i:913463 original size:13 final size:13
Alignment explanation
Indices: 913445--913470 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
913435 CAATTTTTTG
913445 TGTATCGATACAT
1 TGTATCGATACAT
913458 TGTATCGATACAT
1 TGTATCGATACAT
913471 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:913482 original size:32 final size:33
Alignment explanation
Indices: 913425--913488 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
913415 TACAAGCCAA
**
913425 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
913458 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
913489 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:916075 original size:20 final size:20
Alignment explanation
Indices: 916050--916126 Score: 82
Period size: 20 Copynumber: 3.6 Consensus size: 20
916040 ATAATCCCCC
916050 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
*
916070 TGTATCGATACAATGAATTTCCAAA
1 TGTATCGATACAAAGAA-----AAA
* *
916095 TGTATCGATACACAGAAACA
1 TGTATCGATACAAAGAAAAA
916115 TGTATCGATACA
1 TGTATCGATACA
916127 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 30 0.62
25 18 0.38
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:922248 original size:13 final size:13
Alignment explanation
Indices: 922230--922255 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
922220 CAATTTTTTG
922230 TGTATCGATACAT
1 TGTATCGATACAT
922243 TGTATCGATACAT
1 TGTATCGATACAT
922256 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:924054 original size:17 final size:17
Alignment explanation
Indices: 924032--924067 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
924022 TTGTCTGCAC
924032 ATTTAATATTTATGAGA
1 ATTTAATATTTATGAGA
924049 ATTTAATATTTATGAGA
1 ATTTAATATTTATGAGA
924066 AT
1 AT
924068 AAAAGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (17 bp):
ATTTAATATTTATGAGA
Found at i:925119 original size:17 final size:17
Alignment explanation
Indices: 925091--925128 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
925081 TTTAAATTAA
925091 ATTTTAAAAAAT-AAAT
1 ATTTTAAAAAATAAAAT
925107 ATTTTATAAAAATAAAAT
1 ATTTTA-AAAAATAAAAT
925125 ATTT
1 ATTT
925129 ATTTACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 6 0.30
18 8 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTTAAAAAATAAAAT
Found at i:925129 original size:17 final size:16
Alignment explanation
Indices: 925088--925130 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
925078 TAATTTAAAT
925088 TAAAT-TTTA-AAAAA
1 TAAATATTTATAAAAA
925102 TAAATATTTTATAAAAA
1 TAAATA-TTTATAAAAA
925119 TAAAATATTTAT
1 T-AAATATTTAT
925131 TTACATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.20
16 4 0.16
17 11 0.44
18 5 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATATTTATAAAAA
Found at i:926174 original size:15 final size:16
Alignment explanation
Indices: 926154--926192 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
926144 AAAATATGAT
*
926154 ATAAAATATACTACG-
1 ATAAAATATAATACGA
*
926169 ATAAAAAATAATACGA
1 ATAAAATATAATACGA
926185 ATAAAATA
1 ATAAAATA
926193 CAACTGTGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (16 bp):
ATAAAATATAATACGA
Found at i:926641 original size:19 final size:19
Alignment explanation
Indices: 926616--926774 Score: 85
Period size: 20 Copynumber: 7.9 Consensus size: 19
926606 TTGTATCCAT
*
926616 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
926635 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
926654 ACAAATTGTATCGATACAT-G
1 AC--ATTGTATCGATACATGG
* * *
926674 A-ATTGGTAGTAGCTACCCTAT-C
1 ACATT-GTA-TCGATA--C-ATGG
926696 ACTATTTGTATCGATACATGG
1 AC-A-TTGTATCGATACATGG
*
926717 TACAATGTATCGATACATGAAG
1 -ACATTGTATCGATACATG--G
*
926739 A-AATGTATCGATACATGAAG
1 ACATTGTATCGATACATG--G
*
926759 A-AATGTATCGATACAT
1 ACATTGTATCGATACAT
926775 AGCTTGCAAC
Statistics
Matches: 116, Mismatches: 10, Indels: 27
0.76 0.07 0.18
Matches are distributed among these distances:
17 3 0.03
18 3 0.03
19 22 0.19
20 53 0.46
21 19 0.16
22 6 0.05
23 4 0.03
24 4 0.03
25 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:926727 original size:20 final size:19
Alignment explanation
Indices: 926702--926774 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
926692 TATCACTATT
926702 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
926722 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
926742 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
926762 TGTATCGATACAT
1 TGTATCGATACAT
926775 AGCTTGCAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
20 49 0.96
21 1 0.02
22 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:935517 original size:13 final size:13
Alignment explanation
Indices: 935496--935526 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
935486 CGATACATGG
*
935496 TACAATGTATCGA
1 TACATTGTATCGA
935509 TACATTGTATCGA
1 TACATTGTATCGA
935522 TACAT
1 TACAT
935527 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:935536 original size:33 final size:33
Alignment explanation
Indices: 935480--935546 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
935470 CTATCACTAT
*
935480 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGGTACAATGTATCAATACA
935513 TTGTATCGATACATGAAG-A-AATGTATCAATACA
1 TTGTATCGATACATG--GTACAATGTATCAATACA
935546 T
1 T
935547 AGCTTGCAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATGGTACAATGTATCAATACA
Found at i:941628 original size:18 final size:18
Alignment explanation
Indices: 941605--941641 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
941595 TAAAAAAATC
* *
941605 AAGAATTAAAGAAGAAAA
1 AAGAATAAAAAAAGAAAA
941623 AAGAATAAAAAAAGAAAA
1 AAGAATAAAAAAAGAAAA
941641 A
1 A
941642 CACAAAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (18 bp):
AAGAATAAAAAAAGAAAA
Found at i:949214 original size:52 final size:50
Alignment explanation
Indices: 949129--949269 Score: 149
Period size: 52 Copynumber: 2.7 Consensus size: 50
949119 ACATATATTG
* * * *
949129 ATACATTCTAGGTTAAAAGCCCAAAATGTATCGATACAATGAAGAATGTATCG
1 ATACATTTTA-GTCAAAA-CCC-AAATATATCGATACAATGAAGAATGTATCA
* * *
949182 ATTCA-TTTAGGTCAAAAACCTTAAATATATCGATAAAATGAAGAATGTATCA
1 ATACATTTTA-GTC-AAAACC-CAAATATATCGATACAATGAAGAATGTATCA
949234 ATACATTTTAGTCAAAACCCAGAATATATCGATACA
1 ATACATTTTAGTCAAAACCCA-AATATATCGATACA
949270 TTTTCATTTC
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
50 1 0.01
51 19 0.26
52 42 0.57
53 12 0.16
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (50 bp):
ATACATTTTAGTCAAAACCCAAATATATCGATACAATGAAGAATGTATCA
Found at i:949332 original size:21 final size:20
Alignment explanation
Indices: 949308--949362 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
949298 GACATGGTCC
949308 TGTATTGATACATTTCAAAT-A
1 TGTATTGATACATTT--AATGA
** *
949329 TGTATCAATACATTTACTGA
1 TGTATTGATACATTTAATGA
949349 TGTATTGATACATT
1 TGTATTGATACATT
949363 ATCTTATTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.07
20 13 0.46
21 13 0.46
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (20 bp):
TGTATTGATACATTTAATGA
Found at i:949353 original size:20 final size:20
Alignment explanation
Indices: 949328--949381 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
949318 CATTTCAAAT
949328 ATGTATCAATACATT-TACTG
1 ATGTATCAATACATTAT-CTG
** *
949348 ATGTATTGATACATTATCTT
1 ATGTATCAATACATTATCTG
949368 ATTGTATCAATACA
1 A-TGTATCAATACA
949382 AATTGTTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (20 bp):
ATGTATCAATACATTATCTG
Found at i:949839 original size:169 final size:169
Alignment explanation
Indices: 949560--949893 Score: 650
Period size: 169 Copynumber: 2.0 Consensus size: 169
949550 CTTTAGACAG
949560 ATGTCCATTATTATGGACTTTAGAAAGGGTTTGGAAGGATATTACTTCTTAAGAATTGGTGAGGG
1 ATGTCCATTATTATGGACTTTAGAAAGGGTTTGGAAGGATATTACTTCTTAAGAATTGGTGAGGG
949625 CGTGATCTGGTTTTACGATCCACCAGTGTGCAAATTCAAGGCCTACGATGCTAGACTAAAAGATG
66 CGTGATCTGGTTTTACGATCCACCAGTGTGCAAATTCAAGGCCTACGATGCTAGACTAAAAGATG
949690 ATAAGGATGAGAAGAGTGCCAATGAGCTAATTCAAACAT
131 ATAAGGATGAGAAGAGTGCCAATGAGCTAATTCAAACAT
949729 ATGTCCATTATTATGGACTTTAGAAAGGGTTTGGAAGGATATTACTTCTTAAGAATTGGTGAGGG
1 ATGTCCATTATTATGGACTTTAGAAAGGGTTTGGAAGGATATTACTTCTTAAGAATTGGTGAGGG
* *
949794 CGTGATCTGGTTTTGCGATCCACCAGTGTGCAAATTCAAGGCCTACGATGCTAGACTCAAAGATG
66 CGTGATCTGGTTTTACGATCCACCAGTGTGCAAATTCAAGGCCTACGATGCTAGACTAAAAGATG
949859 ATAAGGATGAGAAGAGTGCCAATGAGCTAATTCAA
131 ATAAGGATGAGAAGAGTGCCAATGAGCTAATTCAA
949894 GGCCAGCGAC
Statistics
Matches: 163, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 163 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (169 bp):
ATGTCCATTATTATGGACTTTAGAAAGGGTTTGGAAGGATATTACTTCTTAAGAATTGGTGAGGG
CGTGATCTGGTTTTACGATCCACCAGTGTGCAAATTCAAGGCCTACGATGCTAGACTAAAAGATG
ATAAGGATGAGAAGAGTGCCAATGAGCTAATTCAAACAT
Found at i:950062 original size:52 final size:52
Alignment explanation
Indices: 949885--950121 Score: 224
Period size: 52 Copynumber: 4.6 Consensus size: 52
949875 TGCCAATGAG
* * * * *
949885 CTAATTCAAGGCCAGCGACATTGGACTTAAAAATTGATAAAGGTGCCAATGTA
1 CTAATTCAAGGCCAGCGATATTGGACTTAAAGA-TGATAAAGATACCAATATA
* ** * * * * * *
949938 CTGATTCAAGGCCAGCGGCATTAGACTTAAAGAAGAT-AAGGTGCTAATATG
1 CTAATTCAAGGCCAGCGATATTGGACTTAAAGATGATAAAGATACCAATATA
* * * * * *
949989 CTGATTCAAGGCCAGCAATATTGGACTTAGAGATGATAAAGACACTAATGTA
1 CTAATTCAAGGCCAGCGATATTGGACTTAAAGATGATAAAGATACCAATATA
* * * *
950041 CTAATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAATACCAATATG
1 CTAATTCAAGGCCAGCGATATTGGACTTAAAGATGATAAAGATACCAATATA
* *
950093 CTAATTCAAGGCTAGCGATATTGGGCTTA
1 CTAATTCAAGGCCAGCGATATTGGACTTA
950122 GAAAGAGATG
Statistics
Matches: 151, Mismatches: 32, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
51 42 0.28
52 80 0.53
53 29 0.19
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (52 bp):
CTAATTCAAGGCCAGCGATATTGGACTTAAAGATGATAAAGATACCAATATA
Found at i:950101 original size:104 final size:104
Alignment explanation
Indices: 949884--950125 Score: 272
Period size: 104 Copynumber: 2.3 Consensus size: 104
949874 GTGCCAATGA
* * *** *
949884 GCTAATTCAAGGCCAGCGACATTGGACTTAAAAATTGATAAAGGTGCCAATGTACTGATTCAAGG
1 GCTAATTCAAGGCCAGCGATATTGGACTTAGAAATTGATAAAGACACCAATGTACTAATTCAAGG
* * ** * *
949949 CCAGCGGCATTAGACTTAAAGAAGATAAGGTGCTAATAT
66 CCAACGACATTAGACTTAAAGAAGATAAAATACCAATAT
* * * *
949988 GCTGATTCAAGGCCAGCAATATTGGACTTAGAGA-TGATAAAGACACTAATGTACTAATTCAAGG
1 GCTAATTCAAGGCCAGCGATATTGGACTTAGAAATTGATAAAGACACCAATGTACTAATTCAAGG
* *
950052 CCAACGATATTGGACTTAAAGATGAGA-AAAATACCAATAT
66 CCAACGACATTAGACTTAAAGA--AGATAAAATACCAATAT
* *
950092 GCTAATTCAAGGCTAGCGATATTGGGCTTAGAAA
1 GCTAATTCAAGGCCAGCGATATTGGACTTAGAAA
950126 GAGATGCCAT
Statistics
Matches: 113, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
103 43 0.38
104 67 0.59
105 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (104 bp):
GCTAATTCAAGGCCAGCGATATTGGACTTAGAAATTGATAAAGACACCAATGTACTAATTCAAGG
CCAACGACATTAGACTTAAAGAAGATAAAATACCAATAT
Found at i:950224 original size:32 final size:32
Alignment explanation
Indices: 950188--950304 Score: 94
Period size: 32 Copynumber: 3.7 Consensus size: 32
950178 GGGCCTTAAA
*
950188 AAAGGGTTGCCATCAACTTGTGTGGATTTTCG
1 AAAGGGTTGCCATCAACTTGTGTGGATTTTAG
* * * *
950220 AAAGGGTTGCCA-CTGACTTGTATGGGTTTTTG
1 AAAGGGTTGCCATC-AACTTGTGTGGATTTTAG
* * ** * *
950252 AGAGGGTTACCATTGACTTATGTAGGCTTTTAG
1 AAAGGGTTGCCATCAACTTGTGT-GGATTTTAG
*
950285 -AAGGGTTGCCATTAACTTGT
1 AAAGGGTTGCCATCAACTTGT
950305 ATGGGCCTTA
Statistics
Matches: 67, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
31 1 0.01
32 59 0.88
33 7 0.10
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (32 bp):
AAAGGGTTGCCATCAACTTGTGTGGATTTTAG
Found at i:950362 original size:28 final size:28
Alignment explanation
Indices: 950326--950819 Score: 346
Period size: 28 Copynumber: 17.6 Consensus size: 28
950316 GAAGGGTTAG
* * *
950326 GAAAGGGTGCCATTAACTTGTGGGTTTT
1 GAAAGGGTGCCACTGACTTGTGGGCTTT
*
950354 AGAAA-GGTGCCACTGACTTGTGGGCATT
1 -GAAAGGGTGCCACTGACTTGTGGGCTTT
* *
950382 GAAAGGGTGCCACTGACTTATGGGCATT
1 GAAAGGGTGCCACTGACTTGTGGGCTTT
*
950410 GAAAGGGTGCCA-TGACTTATGGGCTTT
1 GAAAGGGTGCCACTGACTTGTGGGCTTT
* *
950437 GAAAAGGTGCCACTGACTTGTGGGCATT
1 GAAAGGGTGCCACTGACTTGTGGGCTTT
* *
950465 GAAAGGGTGCCACTAACATGTGGGCTTT
1 GAAAGGGTGCCACTGACTTGTGGGCTTT
*
950493 -AGAAGGGTGCCACTGACTTGTAGGCTTT
1 GA-AAGGGTGCCACTGACTTGTGGGCTTT
* * * *
950521 GAAAAGGTGTCACTG--TTATGGACTTT
1 GAAAGGGTGCCACTGACTTGTGGGCTTT
* *
950547 -AGAAGGGTGCCATTCACTTGTGGGCTTT
1 GA-AAGGGTGCCACTGACTTGTGGGCTTT
* * *
950575 AAAAGGGTGCTACTGACTTATGGGCTTT
1 GAAAGGGTGCCACTGACTTGTGGGCTTT
* *
950603 GAAAGGGTGCCACTAACTTATGGGC-TT
1 GAAAGGGTGCCACTGACTTGTGGGCTTT
* * *
950630 AAAAGGGTGCCA-TAGAGTTGTGGACTTT
1 GAAAGGGTGCCACT-GACTTGTGGGCTTT
* * * * *
950658 AAAAAAGGTGCC-TTGGAGTTGTGAGCTTT
1 -GAAAGGGTGCCACT-GACTTGTGGGCTTT
* * * * *
950687 AAAAGTGATGCCACGGAGTTGTGGACTTT
1 GAAAG-GGTGCCACTGACTTGTGGGCTTT
* * *
950716 AAAAGAGGTGCCAC-GAAGTTGTGGACTTT
1 GAAAG-GGTGCCACTG-ACTTGTGGGCTTT
* ** * * *
950745 -AAGAGAGGTGCCACGGTGTTGTGGACCCTA
1 GAA-AG-GGTGCCACTGACTTGTGG-GCTTT
* * * *
950775 GAAAGGGTGCCACAGAGTTGTGGACGTT
1 GAAAGGGTGCCACTGACTTGTGGGCTTT
950803 GAAAGGGGTGCCA-TGAC
1 GAAA-GGGTGCCACTGAC
950820 ATTATCGACT
Statistics
Matches: 383, Mismatches: 62, Indels: 41
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.00
26 18 0.05
27 50 0.13
28 194 0.51
29 113 0.30
30 5 0.01
31 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GAAAGGGTGCCACTGACTTGTGGGCTTT
Found at i:950466 original size:83 final size:82
Alignment explanation
Indices: 950326--950641 Score: 343
Period size: 83 Copynumber: 3.8 Consensus size: 82
950316 GAAGGGTTAG
* * * * *
950326 GAAAGGGTGCCATTAACTTGTGGG-TTTTAGAAAGGTGCCACTGACTTGTGGGCATTGAAAGGGT
1 GAAAGGGTGCCACTGACTTATGGGCTTTGA-AAAGGTGCCACTGACTTATGGGC-TTGAAAGGGT
* *
950390 GCCACTGACTTATGGGCATT
64 GCCACTAACTTGTGGGC-TT
*
950410 GAAAGGGTGCCA-TGACTTATGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCATTGAAAGGGTG
1 GAAAGGGTGCCACTGACTTATGGGCTTTGAAAAGGTGCCACTGACTTATGGGC-TTGAAAGGGTG
*
950474 CCACTAACATGTGGGCTT
65 CCACTAACTTGTGGGCTT
* * * * * *
950492 TAGAAGGGTGCCACTGACTTGTAGGCTTTGAAAAGGTGTCACTG--TTATGGACTTTAGAAGGGT
1 GA-AAGGGTGCCACTGACTTATGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTGA-AAGGGT
* *
950555 GCCATTCACTTGTGGGCTTT
64 GCCACTAACTTGTGGGC-TT
* * * * *
950575 AAAAGGGTGCTACTGACTTATGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTAAAAGGGTGC
1 GAAAGGGTGCCACTGACTTATGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTGAAAGGGTGC
950640 CA
66 CA
950642 TAGAGTTGTG
Statistics
Matches: 200, Mismatches: 25, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
81 3 0.01
82 64 0.32
83 80 0.40
84 53 0.26
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.28
Consensus pattern (82 bp):
GAAAGGGTGCCACTGACTTATGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTGAAAGGGTGC
CACTAACTTGTGGGCTT
Found at i:950676 original size:29 final size:29
Alignment explanation
Indices: 950628--950863 Score: 196
Period size: 29 Copynumber: 8.2 Consensus size: 29
950618 ACTTATGGGC
**
950628 TTAAAAG-GGTGCCATAGAGTTGTGGACT
1 TTAAAAGAGGTGCCACGGAGTTGTGGACT
* **
950656 TTAAAAAAGGTGCCTTGGAGTTGT-GAGCT
1 TTAAAAGAGGTGCCACGGAGTTGTGGA-CT
* *
950685 TTAAAAGTGATGCCACGGAGTTGTGGACT
1 TTAAAAGAGGTGCCACGGAGTTGTGGACT
*
950714 TTAAAAGAGGTGCCACGAAGTTGTGGACT
1 TTAAAAGAGGTGCCACGGAGTTGTGGACT
* * *
950743 TTAAGAGAGGTGCCACGGTGTTGTGGACC
1 TTAAAAGAGGTGCCACGGAGTTGTGGACT
* * *
950772 CTAGAAAG-GGTGCCACAGAGTTGTGGACG
1 TTA-AAAGAGGTGCCACGGAGTTGTGGACT
* * * * * *
950801 TTGAAAGGGGTGCCA-TGACATTATCGACT
1 TTAAAAGAGGTGCCACGGA-GTTGTGGACT
** *
950830 AAAAAAG-GGTGCCACGGAGTTATGGAC-
1 TTAAAAGAGGTGCCACGGAGTTGTGGACT
950857 TTAAAAG
1 TTAAAAG
950864 GGCACCATGG
Statistics
Matches: 166, Mismatches: 35, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
27 5 0.03
28 28 0.17
29 128 0.77
30 5 0.03
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (29 bp):
TTAAAAGAGGTGCCACGGAGTTGTGGACT
Found at i:956827 original size:20 final size:21
Alignment explanation
Indices: 956788--956831 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
956778 TTAAGTATAG
956788 ATGTTTTTCAAGCATAAAAATA
1 ATGTTTTTCAAG-ATAAAAATA
956810 ATGTTTTTCAAG-TAAAAATA
1 ATGTTTTTCAAGATAAAAATA
956830 AT
1 AT
956832 TCAAAGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (21 bp):
ATGTTTTTCAAGATAAAAATA
Found at i:957054 original size:20 final size:20
Alignment explanation
Indices: 957031--957085 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
957021 GTATTGATAC
*
957031 ATTGTATCGATATATGATGA
1 ATTGTATCGATACATGATGA
*
957051 ATTGTATCGATACATGGTGA
1 ATTGTATCGATACATGATGA
957071 ATTGTATCGATACAT
1 ATTGTATCGATACAT
957086 TAAGCCCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGATGA
Found at i:959113 original size:21 final size:21
Alignment explanation
Indices: 959088--959146 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
959078 TAATATTCTT
* *
959088 GAAAAGAAAATAAGTGAATTA
1 GAAAAGAAAATAAATAAATTA
959109 GAAAAGAAAATAAATAAATTA
1 GAAAAGAAAATAAATAAATTA
**
959130 GAGGAGAAAATAAATAA
1 GAAAAGAAAATAAATAA
959147 GTTGCAAGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (21 bp):
GAAAAGAAAATAAATAAATTA
Found at i:963842 original size:13 final size:13
Alignment explanation
Indices: 963824--963848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
963814 TTCAACAATT
963824 TGTATCGATACAA
1 TGTATCGATACAA
963837 TGTATCGATACA
1 TGTATCGATACA
963849 TAAGTGTTGT
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
Done.