Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008953.1 Hibiscus syriacus cultivar Beakdansim tig00112281_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2822058
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 15
Found at i:832397 original size:38 final size:38
Alignment explanation
Indices: 832311--832612 Score: 225
Period size: 38 Copynumber: 7.9 Consensus size: 38
832301 ATATTTCAAT
*
832311 GTTTTCAAAGAAACTATATATTATATGTTTTC-AAAA-AC
1 GTTTTC-AA-AAACCATATATTATATGTTTTCAAAAATAC
* *
832349 ATTTTTAAAAACCATATATTATATGTTTTCAAAAATAC
1 GTTTTCAAAAACCATATATTATATGTTTTCAAAAATAC
832387 GTTTTCAAAAA-C---TA-TATATGTTTTCCAAAAA-ACC
1 GTTTTCAAAAACCATATATTATATGTTTT-CAAAAATA-C
* * * *
832421 ATTTTTTAATAAAACCATATATTATAAGTTTTC-AAAA-CC
1 --GTTTTCA-AAAACCATATATTATATGTTTTCAAAAATAC
* * * *
832460 ATTTTAAAAAACTATATATTATATGTTTTCAAAAATAT
1 GTTTTCAAAAACCATATATTATATGTTTTCAAAAATAC
* * * *
832498 GTTTTCAAAATCTATAT-TATATATATTTTCAAAAATTC
1 GTTTTCAAAAACCATATAT-TATATGTTTTCAAAAATAC
* *
832536 GTTTTCAAAAACTATATTATATATATATATATTCAAAAATAC
1 GTTTTCAAAAACCATA-TAT-TATATGT-T-TTCAAAAATAC
*
832578 GTTTTC-AAAACC-TATACTATATATATTTTCAAAAA
1 GTTTTCAAAAACCATATA-T-TATATGTTTTCAAAAA
832613 CTATATTTGA
Statistics
Matches: 221, Mismatches: 23, Indels: 40
0.78 0.08 0.14
Matches are distributed among these distances:
33 11 0.05
34 9 0.04
36 47 0.21
37 22 0.10
38 69 0.31
39 5 0.02
40 24 0.11
41 9 0.04
42 25 0.11
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (38 bp):
GTTTTCAAAAACCATATATTATATGTTTTCAAAAATAC
Found at i:832499 original size:14 final size:14
Alignment explanation
Indices: 832480--832507 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
832470 ACTATATATT
832480 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
832494 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
832508 TCTATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
ATATGTTTTCAAAA
Found at i:832582 original size:80 final size:76
Alignment explanation
Indices: 832311--832612 Score: 225
Period size: 80 Copynumber: 4.0 Consensus size: 76
832301 ATATTTCAAT
* * * *
832311 GTTTTCAAAGAAACTATATATTATATGTTTTCAAAAACA-TTTTTAAAAACC-ATA-TATTATAT
1 GTTTT-AAA-AAACTATATATTATATATTTTCAAAAATACGTTTTCAAAACCTATACTA-TATAT
* *
832373 GTTTTCAAAAATAC
63 ATTTTCAAAAATTC
* * * * *
832387 GTTTTCAAAAAC--TATA-TATGT-TTTCCAAAAA-ACCATTTTTTAATAAAACC-ATA-TAT-T
1 GTTTTAAAAAACTATATATTATATATTTTCAAAAATA-C--GTTTT--CAAAACCTATACTATAT
*
832444 ATAAGTTTTC-AAAA-CC
61 AT-A-TTTTCAAAAATTC
* * * * *
832460 ATTTTAAAAAACTATATATTATATGTTTTCAAAAATATGTTTTCAAAATCTATATTATATATATT
1 GTTTTAAAAAACTATATATTATATATTTTCAAAAATACGTTTTCAAAACCTATACTATATATATT
832525 TTCAAAAATTC
66 TTCAAAAATTC
*
832536 GTTTTCAAAAACTATATTATATATATATATATTCAAAAATACGTTTTCAAAACCTATACTATATA
1 GTTTTAAAAAACTATA-TAT-TATATAT-T-TTCAAAAATACGTTTTCAAAACCTATACTATATA
832601 TATTTTCAAAAA
62 TATTTTCAAAAA
832613 CTATATTTGA
Statistics
Matches: 183, Mismatches: 21, Indels: 40
0.75 0.09 0.16
Matches are distributed among these distances:
69 1 0.01
70 9 0.05
71 4 0.02
72 4 0.02
73 24 0.13
74 17 0.09
75 34 0.19
76 27 0.15
77 12 0.07
78 7 0.04
79 1 0.01
80 43 0.23
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (76 bp):
GTTTTAAAAAACTATATATTATATATTTTCAAAAATACGTTTTCAAAACCTATACTATATATATT
TTCAAAAATTC
Found at i:832637 original size:80 final size:78
Alignment explanation
Indices: 832449--832640 Score: 214
Period size: 80 Copynumber: 2.5 Consensus size: 78
832439 ATATTATAAG
* * * * *
832449 TTTTC-AAAAC-CATTTTAAAAAAC--TATATATTATATGTTTTCAAAAATATGTTTTCAAAATC
1 TTTTCAAAAACTCATTTTCAAAAACTATATATATTATATATATTCAAAAATACGTTTTCAAAACC
*
832510 TATATTATATATA
66 TATACTATATATA
* *
832523 TTTTCAAAAATTCGTTTTCAAAAACTATATTATATATATATATATTCAAAAATACGTTTTCAAAA
1 TTTTCAAAAACTCATTTTCAAAAACTATA-TATAT-TATATATATTCAAAAATACGTTTTCAAAA
832588 CCTATACTATATATA
64 CCTATACTATATATA
* * *
832603 TTTTCAAAAACT-ATATTTGAAATTATTATATATATTAT
1 TTTTCAAAAACTCAT-TTTCAAA-AACTATATATATTAT
832641 GCTATAAAAT
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
74 5 0.05
75 4 0.04
76 11 0.11
78 2 0.02
79 9 0.09
80 61 0.63
81 5 0.05
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (78 bp):
TTTTCAAAAACTCATTTTCAAAAACTATATATATTATATATATTCAAAAATACGTTTTCAAAACC
TATACTATATATA
Found at i:839996 original size:21 final size:21
Alignment explanation
Indices: 839970--840022 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
839960 GGGTATTTGT
839970 AAAGAAAGATGGATCTCATAG
1 AAAGAAAGATGGATCTCATAG
839991 AAAGAAAGATGGATCTCATAG
1 AAAGAAAGATGGATCTCATAG
840012 AAAGAAAGATG
1 AAAGAAAGATG
840023 TTCGCTACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.51, C:0.08, G:0.25, T:0.17
Consensus pattern (21 bp):
AAAGAAAGATGGATCTCATAG
Found at i:844734 original size:25 final size:25
Alignment explanation
Indices: 844668--844727 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
844658 CATTTGTGTA
844668 TTTTAGCCTATTTTCTTTTTGAATC
1 TTTTAGCCTATTTTCTTTTTGAATC
844693 TTTTAGCCTATTTTCTTTTTGAATC
1 TTTTAGCCTATTTTCTTTTTGAATC
844718 TTTTAGCCTA
1 TTTTAGCCTA
844728 ACTTCTTGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.17, C:0.17, G:0.08, T:0.58
Consensus pattern (25 bp):
TTTTAGCCTATTTTCTTTTTGAATC
Found at i:845729 original size:33 final size:33
Alignment explanation
Indices: 845662--845734 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
845652 ATTAATAAAC
*
845662 TATGTAATATATATATATATATAATATAAGATT
1 TATGTAATATATATATATATATAATATAAAATT
* *
845695 TATGT-ATATAGTTTATATATA-AACTGTAAAATT
1 TATGTAATATA-TATATATATATAA-TATAAAATT
845728 TAT-TAAT
1 TATGTAAT
845735 TATCTATGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.47
Consensus pattern (33 bp):
TATGTAATATATATATATATATAATATAAAATT
Found at i:845781 original size:17 final size:18
Alignment explanation
Indices: 845750--845784 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
845740 ATGTGTAAAC
845750 AATATATAAACTATATAA
1 AATATATAAACTATATAA
*
845768 AATAT-TAAAGTATATAA
1 AATATATAAACTATATAA
845785 TTTATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AATATATAAACTATATAA
Found at i:845877 original size:13 final size:15
Alignment explanation
Indices: 845858--846155 Score: 119
Period size: 14 Copynumber: 20.5 Consensus size: 15
845848 TATAAGCTAC
*
845858 ATATATAAACTATGT
1 ATATATAAACTATAT
* *
845873 TTATATGAACTATAT
1 ATATATAAACTATAT
845888 ATATATATAA--ACTAT
1 ATATATA-AACTA-TAT
*
845903 GTATATAAACTATAT
1 ATATATAAACTATAT
*
845918 ATGTATAAAC----T
1 ATATATAAACTATAT
*
845929 ATA-A-AAAGTATAT
1 ATATATAAACTATAT
*
845942 AGTTTATAAACTATAAT
1 A-TATATAAACTAT-AT
* *
845959 TTATATTAA-TATAGT
1 ATATATAAACTATA-T
* *
845974 ATATATATA-TGTAT
1 ATATATAAACTATAT
* * *
845988 GTAAATAAACTATAC
1 ATATATAAACTATAT
* * * *
846003 ATA-AGTTATAGTTTAC
1 ATATA--TAAACTATAT
* **
846019 AAATTATAATTTATAT
1 ATA-TATAAACTATAT
*
846035 ATATATAGTA-TATAT
1 ATATATA-AACTATAT
*
846050 ATATATATA-TATAT
1 ATATATAAACTATAT
* *
846064 ATATATATAGTATAT
1 ATATATAAACTATAT
*
846079 ATATATATA-TATAT
1 ATATATAAACTATAT
*
846093 ATATATATA-TATAT
1 ATATATAAACTATAT
*
846107 ATATATATA-TATAT
1 ATATATAAACTATAT
*
846121 ATATATATA-TATAT
1 ATATATAAACTATAT
*
846135 ATATATATA-TATAT
1 ATATATAAACTATAT
846149 ATATATA
1 ATATATA
846156 TATATATAAA
Statistics
Matches: 226, Mismatches: 37, Indels: 41
0.74 0.12 0.13
Matches are distributed among these distances:
9 3 0.01
10 1 0.00
11 3 0.01
13 2 0.01
14 97 0.43
15 86 0.38
16 31 0.14
17 2 0.01
18 1 0.00
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (15 bp):
ATATATAAACTATAT
Found at i:845894 original size:17 final size:17
Alignment explanation
Indices: 845858--846157 Score: 129
Period size: 16 Copynumber: 18.4 Consensus size: 17
845848 TATAAGCTAC
*
845858 ATATATAAACTATGT-T
1 ATATATAAACTATATAT
*
845874 -TATATGAACTATATAT
1 ATATATAAACTATATAT
*
845890 ATATATAAACTATGTAT
1 ATATATAAACTATATAT
* * *
845907 ATAAACTATA-TATGTAT
1 ATATA-TAAACTATATAT
* *
845924 AAACTATAAA-AAGTATAT
1 ATA-TATAAACTA-TATAT
*
845942 AGTTTATAAACTATA-AT
1 A-TATATAAACTATATAT
* *
845959 TTATATTAA-TATAGTAT
1 ATATATAAACTATA-TAT
* *
845976 ATATAT--A-TGTATGT
1 ATATATAAACTATATAT
*
845990 A-A-ATAAACTATACAT
1 ATATATAAACTATATAT
* * * * *
846005 A-AGT-TATAGTTTACAA
1 ATA-TATAAACTATATAT
**
846021 AT-TATAATTTATATAT
1 ATATATAAACTATATAT
*
846037 ATATAGTATA-TATATAT
1 ATATA-TAAACTATATAT
*
846054 ATATATATA-TATATAT
1 ATATATAAACTATATAT
*
846070 ATAGTATATA-TATATAT
1 ATA-TATAAACTATATAT
*
846087 ATATATATA-TATATAT
1 ATATATAAACTATATAT
*
846103 ATATATATA-TATATAT
1 ATATATAAACTATATAT
*
846119 ATATATATA-TATATAT
1 ATATATAAACTATATAT
*
846135 ATATATATA-TATATAT
1 ATATATAAACTATATAT
846151 ATATATA
1 ATATATA
846158 TATATAAAGT
Statistics
Matches: 230, Mismatches: 35, Indels: 38
0.76 0.12 0.13
Matches are distributed among these distances:
12 2 0.01
13 1 0.00
14 4 0.02
15 27 0.12
16 106 0.46
17 70 0.30
18 19 0.08
19 1 0.00
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (17 bp):
ATATATAAACTATATAT
Found at i:845931 original size:15 final size:14
Alignment explanation
Indices: 845825--845931 Score: 67
Period size: 15 Copynumber: 7.1 Consensus size: 14
845815 AAACTATATT
*
845825 TATATTCTAAACTA
1 TATATTATAAACTA
845839 TATAATTATTATAAGCTA
1 TAT-ATTA-TA-AA-CTA
*
845857 CATA-TATAAACTA
1 TATATTATAAACTA
*
845870 TGT-TTATATGAACTATA
1 TATATTATA--AAC--TA
845887 TATATATATAAACTA
1 TATAT-TATAAACTA
*
845902 TGTA-TATAAACTA
1 TATATTATAAACTA
845915 TATATGTATAAACTA
1 TATAT-TATAAACTA
845930 TA
1 TA
845932 AAAAGTATAT
Statistics
Matches: 73, Mismatches: 7, Indels: 25
0.70 0.07 0.24
Matches are distributed among these distances:
13 20 0.27
14 5 0.07
15 24 0.33
16 4 0.05
17 10 0.14
18 6 0.08
19 4 0.05
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (14 bp):
TATATTATAAACTA
Found at i:845999 original size:70 final size:70
Alignment explanation
Indices: 845922--846053 Score: 205
Period size: 70 Copynumber: 1.9 Consensus size: 70
845912 CTATATATGT
*
845922 ATAAACTATA-AAAAGTATATAGTTTATAAACTATAATTTATAT-TAATATAGTATATATATATG
1 ATAAACTATACAAAAGT-TATAGTTTACAAACTATAATTTATATAT-ATATAGTATATATATATG
845985 TATGTAA
64 TATGTAA
* *
845992 ATAAACTATACATAAGTTATAGTTTACAAATTATAATTTATATATATATAGTATATATATAT
1 ATAAACTATACAAAAGTTATAGTTTACAAACTATAATTTATATATATATAGTATATATATAT
846054 ATATATATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
70 51 0.89
71 6 0.11
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (70 bp):
ATAAACTATACAAAAGTTATAGTTTACAAACTATAATTTATATATATATAGTATATATATATGTA
TGTAA
Found at i:846180 original size:2 final size:2
Alignment explanation
Indices: 846030--846163 Score: 250
Period size: 2 Copynumber: 66.0 Consensus size: 2
846020 AATTATAATT
846030 TA TA TA TA TA TA GTA TA 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 TA TA TA TA TA TA TA TA
846073 GTA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
846116 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
846158 TA TA TA
1 TA TA TA
846164 AAGTAATAAA
Statistics
Matches: 130, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
2 126 0.97
3 4 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:846401 original size:20 final size:19
Alignment explanation
Indices: 846376--846414 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
846366 TGTATAAAGT
*
846376 TATAAACTATGTATAGTATA
1 TATAAACTATATATA-TATA
846396 TATAAACTATATATATATA
1 TATAAACTATATATATATA
846415 ACCTATAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
TATAAACTATATATATATA
Found at i:846412 original size:15 final size:16
Alignment explanation
Indices: 846387--846427 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
846377 ATAAACTATG
846387 TATAGTATATATAAAC
1 TATAGTATATATAAAC
*
846403 TATA-TATATATAACC
1 TATAGTATATATAAAC
846418 TATAGTATAT
1 TATAGTATAT
846428 GTATATATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (16 bp):
TATAGTATATATAAAC
Found at i:846461 original size:65 final size:65
Alignment explanation
Indices: 846340--846463 Score: 153
Period size: 65 Copynumber: 1.9 Consensus size: 65
846330 ATATGTAAAC
* * * * *
846340 TATATATGTAACTTATAGTATATGTATGTATAAAGTTATAAACTATGTATAGTATATATAAACTA
1 TATATATATAACCTATAGTATATGTATATATAAAGTTATAAACTATGTAAACTATATATAAACTA
**
846405 TATATATATAACCTATAGTATATGTATATATACAA-TGTATTTA-TATGTAAACTATATAT
1 TATATATATAACCTATAGTATATGTATATATA-AAGT-TATAAACTATGTAAACTATATAT
846464 GTAACCTATA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
65 44 0.88
66 6 0.12
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (65 bp):
TATATATATAACCTATAGTATATGTATATATAAAGTTATAAACTATGTAAACTATATATAAACTA
Found at i:851491 original size:29 final size:29
Alignment explanation
Indices: 851449--851508 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
851439 TTCTTAAGGT
* *
851449 GAACGGTAAAGATGATGATGGTGAGGATG
1 GAACAGTAAAGATGACGATGGTGAGGATG
*
851478 GAACAGTAAAGATGACGATGGTGATGATG
1 GAACAGTAAAGATGACGATGGTGAGGATG
851507 GA
1 GA
851509 TTTGTGGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.05, G:0.38, T:0.20
Consensus pattern (29 bp):
GAACAGTAAAGATGACGATGGTGAGGATG
Found at i:851610 original size:59 final size:59
Alignment explanation
Indices: 851528--851648 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 59
851518 AATATATGGA
*
851528 TAAGTGTCATATCGAACCCTCCTAGTCGCAATAAAAAGGCAAACTCGATAATATGGCTC
1 TAAGTGTCATATCGAACCCTCCTAGTCGCAATAAAAAGGAAAACTCGATAATATGGCTC
* * ** *
851587 TAAGTGTCCTATCGAACCCTCCTAGTCGTAATGTAAAGGAAAACTCGATAATATGGTTC
1 TAAGTGTCATATCGAACCCTCCTAGTCGCAATAAAAAGGAAAACTCGATAATATGGCTC
851646 TAA
1 TAA
851649 CCAACCCTCC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (59 bp):
TAAGTGTCATATCGAACCCTCCTAGTCGCAATAAAAAGGAAAACTCGATAATATGGCTC
Found at i:860045 original size:23 final size:23
Alignment explanation
Indices: 860019--860064 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
860009 ATCTGAATAT
*
860019 TATAATAATTTTATTAA-TTATTA
1 TATAATAATATT-TTAATTTATTA
*
860042 TATAATCATATTTTAATTTATTA
1 TATAATAATATTTTAATTTATTA
860065 AAAAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TATAATAATATTTTAATTTATTA
Found at i:861100 original size:11 final size:11
Alignment explanation
Indices: 861061--861280 Score: 54
Period size: 11 Copynumber: 20.3 Consensus size: 11
861051 TAATATATAC
861061 ATATAAACTAT
1 ATATAAACTAT
*
861072 ATAATAATATAATAT
1 AT-AT-A-A-ACTAT
861087 ATATAAACTAT
1 ATATAAACTAT
*
861098 ATAGT---TTAT
1 ATA-TAAACTAT
*
861107 ATATAAAGTAT
1 ATATAAACTAT
*
861118 ATATATTA-TAT
1 ATATA-AACTAT
*
861129 ATATAAACTAG
1 ATATAAACTAT
* *
861140 ATAGAAA-AACT
1 ATATAAACTA-T
***
861151 ATATAGTTTAT
1 ATATAAACTAT
* * *
861162 ATTTATATTAT
1 ATATAAACTAT
861173 -TATAAACTAT
1 ATATAAACTAT
*
861183 ATAT--ATTAT
1 ATATAAACTAT
*
861192 GTATAAACTAT
1 ATATAAACTAT
** *
861203 ATAGTTTATTA-
1 ATA-TAAACTAT
*
861214 ATATAAATTAT
1 ATATAAACTAT
861225 ATATAAACTAT
1 ATATAAACTAT
*
861236 ATAGT---GTAT
1 ATA-TAAACTAT
*
861245 ATATAAAGTAT
1 ATATAAACTAT
861256 ATATATAA--ACT
1 ATATA-AACTA-T
861267 ATATAAACTAT
1 ATATAAACTAT
861278 ATA
1 ATA
861281 GTTTATATAT
Statistics
Matches: 153, Mismatches: 31, Indels: 50
0.65 0.13 0.21
Matches are distributed among these distances:
8 2 0.01
9 19 0.12
10 17 0.11
11 90 0.59
12 14 0.09
13 2 0.01
14 3 0.02
15 6 0.04
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.42
Consensus pattern (11 bp):
ATATAAACTAT
Found at i:861249 original size:13 final size:13
Alignment explanation
Indices: 861242--861310 Score: 54
Period size: 13 Copynumber: 5.3 Consensus size: 13
861232 CTATATAGTG
861242 TATATATAAAGTA
1 TATATATAAAGTA
*
861255 TATATATAAACTA
1 TATATATAAAGTA
* *
861268 TATAAACTATATAGTT
1 TAT--A-TATAAAGTA
*
861284 TATATATGAA-T-
1 TATATATAAAGTA
861295 TATATATAAA-TA
1 TATATATAAAGTA
861307 TATA
1 TATA
861311 CAACTTATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
11 10 0.22
12 5 0.11
13 19 0.42
14 1 0.02
15 1 0.02
16 9 0.20
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (13 bp):
TATATATAAAGTA
Found at i:861262 original size:33 final size:33
Alignment explanation
Indices: 861181--861271 Score: 123
Period size: 33 Copynumber: 2.8 Consensus size: 33
861171 ATTATAAACT
* * *
861181 ATATATATTATGTATAAACTATATAGTTTATTA
1 ATATAAATTATATATAAACTATATAGTGTATTA
861214 ATATAAATTATATATAAACTATATAGTGTA-T-
1 ATATAAATTATATATAAACTATATAGTGTATTA
861245 ATATAAAGTATATATATAAACTATATA
1 ATATAAA-T-TATATATAAACTATATA
861272 AACTATATAG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
31 7 0.13
32 2 0.04
33 44 0.83
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (33 bp):
ATATAAATTATATATAAACTATATAGTGTATTA
Found at i:861279 original size:33 final size:31
Alignment explanation
Indices: 861084--861280 Score: 105
Period size: 33 Copynumber: 6.2 Consensus size: 31
861074 AATAATATAA
* ** *
861084 TATATATAAACTATATAGTTTA-TATATAAAG
1 TATATATAAATTATATA-TAAACTATATAAAC
* * *
861115 TATATAT-ATTATATATATAAACTAGATAGAAA
1 TATATATAAAT-TATATATAAACTATATA-AAC
* ** * * *
861147 AACTATATAGTTTATATTTATATTATTATAAAC
1 TA-TATATAAATTATATATAAACTA-TATAAAC
* ***
861180 TATATAT--ATTATGTATAAACTATATAGTT
1 TATATATAAATTATATATAAACTATATAAAC
***
861209 TATTAATATAAATTATATATAAACTATATAGTG
1 TA-T-ATATAAATTATATATAAACTATATAAAC
861242 TATATATAAAGTATATATATAAACTATATAAAC
1 TATATATAAA-T-TATATATAAACTATATAAAC
861275 TATATA
1 TATATA
861281 GTTTATATAT
Statistics
Matches: 127, Mismatches: 27, Indels: 22
0.72 0.15 0.12
Matches are distributed among these distances:
29 6 0.05
30 14 0.11
31 29 0.23
32 10 0.08
33 63 0.50
34 5 0.04
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (31 bp):
TATATATAAATTATATATAAACTATATAAAC
Found at i:861370 original size:11 final size:11
Alignment explanation
Indices: 861103--861370 Score: 73
Period size: 11 Copynumber: 24.6 Consensus size: 11
861093 ACTATATAGT
861103 TTATATATAAA
1 TTATATATAAA
* *
861114 GTATATAT-AT
1 TTATATATAAA
861124 TATATATATAAA
1 T-TATATATAAA
* * *
861136 CTAGATAGAAA
1 TTATATATAAA
* **
861147 -AACTATATAGT
1 TTA-TATATAAA
* *
861158 TTATATTTATA
1 TTATATATAAA
861169 TTAT-TATAAA
1 TTATATATAAA
*
861179 CTATATAT--A
1 TTATATATAAA
*
861188 TTATGTATAAA
1 TTATATATAAA
* **
861199 CTATATAGTTTA
1 TTATATA-TAAA
861211 TTA-ATATAAA
1 TTATATATAAA
861221 TTATATATAAA
1 TTATATATAAA
*
861232 CTATATAGT---
1 TTATATA-TAAA
*
861241 GTATATATAAA
1 TTATATATAAA
861252 GTATATATATAAA
1 -T-TATATATAAA
*
861265 --CTATATAAA
1 TTATATATAAA
*
861274 CTATATAGT---
1 TTATATA-TAAA
*
861283 TTATATATGAA
1 TTATATATAAA
861294 TTATATATAAA
1 TTATATATAAA
* *
861305 -TATATACAAC
1 TTATATATAAA
*
861315 TTATATTTATATA
1 TTATA--TATAAA
*
861328 TTATGTAT-AA
1 TTATATATAAA
*
861338 TTATAAATATATATG
1 TTAT--ATATA-A-A
*
861353 TTGTATATAAA
1 TTATATATAAA
861364 TTATATA
1 TTATATA
861371 GTTTCTATAG
Statistics
Matches: 181, Mismatches: 47, Indels: 58
0.63 0.16 0.20
Matches are distributed among these distances:
8 2 0.01
9 27 0.15
10 27 0.15
11 87 0.48
12 12 0.07
13 22 0.12
14 1 0.01
15 3 0.02
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (11 bp):
TTATATATAAA
Found at i:861645 original size:30 final size:30
Alignment explanation
Indices: 861450--862335 Score: 338
Period size: 30 Copynumber: 30.1 Consensus size: 30
861440 AATATATACA
861450 TATATAATA-AAAG--TATAAGTATAT-A-
1 TATATAATATAAAGTATATAAGTATATAAG
*
861475 TATAT-ATATATA-TATAT-A-TATATAAAG
1 TATATAATATAAAGTATATAAGTATAT-AAG
* *
861502 TATA-ATTATAAAGAATA-AAGTATATAAG
1 TATATAATATAAAGTATATAAGTATATAAG
*
861530 TATATAA-AGTATA-TATATACA-TATATAA-
1 TATATAATA-TAAAGTATATA-AGTATATAAG
861558 TAATATAA-AGTATAAGTCTATTATATA-TATATAAGG
1 T-ATATAATA-TA-AAG--TA-TATA-AGTATATAA-G
* *
861594 TATA-ATTATAACA-AATA-AAGTATATAAG
1 TATATAATATAA-AGTATATAAGTATATAAG
*
861622 CATATAATATAAAGTATATAAGTATATAA-
1 TATATAATATAAAGTATATAAGTATATAAG
*
861651 TATAAAATATATAAGTAT-TAA--ATATAAG
1 TATATAATATA-AAGTATATAAGTATATAAG
* *
861679 TATATAATATAAAATATATAAGTATATAGG
1 TATATAATATAAAGTATATAAGTATATAAG
* * *
861709 TATATATATATAAACTATA-AAGTGTGT-A-
1 TATATA-ATATAAAGTATATAAGTATATAAG
* *
861737 TATAT-ATATATA-TATATAAAG-A-ATAAT
1 TATATAATATAAAGTATAT-AAGTATATAAG
*
861764 TATA-AAGACTAAAGTATATAAGTATATAA-
1 TATATAATA-TAAAGTATATAAGTATATAAG
* *
861793 TATA-AAGTATATAAATATATAAACTATAT-AG
1 TATATAA-TATA-AAGTATAT-AAGTATATAAG
* *
861824 TATAAAAGTATATATA-CATATAA--AGTATAAG
1 TATATAA-TATA-A-AGTATATAAGTA-TATAAG
* * * **
861855 TATAT-ATATAAACTATA-AAGTGTGTGTG
1 TATATAATATAAAGTATATAAGTATATAAG
* *
861883 TATATATATAAAAAGTTTTAGTATAAAGTATATAGG
1 TATATA-ATATAAAG---TA-TAT-AAGTATATAAG
*
861919 TATATAATATAAAATATATAAGTAT-TAA-
1 TATATAATATAAAGTATATAAGTATATAAG
861947 -ATATAAGTATATAA-TATA-AAGTATATAAG
1 TATATAA-TATA-AAGTATATAAGTATATAAG
*
861976 TATATAATATAAAGTTTATAAGTATATATA-
1 TATATAATATAAAGTATATAAGTATATA-AG
*
862006 TATATATATATATA-TATATATA-TATATATA-
1 TATATA-ATATAAAGTATATA-AGTATATA-AG
*
862036 TATATATATATAAAGT-T-TTAGTATATAA-
1 TATATA-ATATAAAGTATATAAGTATATAAG
*
862064 TATATAGTATTAAAGTATATAA-TATA-AAG
1 TATATAATA-TAAAGTATATAAGTATATAAG
** * *
862093 TATATAAGTATTTA-TACATAA-AAGTATAAG
1 TATATAA-TATAAAGTATATAAGTA-TATAAG
* *
862123 TATATATATATATAA-TTTATAAGTAT-TAAA
1 TATATA-ATATA-AAGTATATAAGTATATAAG
862153 TATA-AAGTAATAAAGTATATAAGT-TATAAG
1 TATATAA-T-ATAAAGTATATAAGTATATAAG
*
862183 TAT-TAA-AGTATA-TACTATAGAGTAT-TAAG
1 TATATAATA-TAAAGTA-TATA-AGTATATAAG
862212 CTATATAATAT-AAGTATTAAATGCAAAGTAT-TAAAG
1 -TATATAATATAAAGTA-T--AT---AAGTATAT-AAG
*
862248 TATATAAGTATAAA-TAT-TAAATATA-AAG
1 TATATAA-TATAAAGTATATAAGTATATAAG
* *
862276 TATATAAGTATATAA-TATA-AATTAT-TAAAC
1 TATATAA-TATA-AAGTATATAAGTATAT-AAG
*
862306 TATATAATAT-AAGTATACAA-TATA-AAG
1 TATATAATATAAAGTATATAAGTATATAAG
862333 TAT
1 TAT
862336 CAAAGAAATA
Statistics
Matches: 674, Mismatches: 74, Indels: 224
0.69 0.08 0.23
Matches are distributed among these distances:
24 8 0.01
25 13 0.02
26 11 0.02
27 56 0.08
28 124 0.18
29 140 0.21
30 171 0.25
31 58 0.09
32 18 0.03
33 8 0.01
34 18 0.03
35 24 0.04
36 23 0.03
37 2 0.00
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (30 bp):
TATATAATATAAAGTATATAAGTATATAAG
Found at i:861664 original size:92 final size:92
Alignment explanation
Indices: 861487--861666 Score: 244
Period size: 92 Copynumber: 2.0 Consensus size: 92
861477 TATATATATA
* *
861487 TATATATATATAAAGTATAATTATAAAGAATAAAGTATATAAGTATATAAAGTATATATATACAT
1 TATATATATATAAAGTATAATTATAAAGAATAAAGTATATAAGCATATAAAGTAAATATATACAT
*
861552 ATATAATAATATAAAGTATAAGTCTAT
66 ATATAATAATATAAAATATAAGTCTAT
*
861579 TATATATATATAAGGTATAATTATAACA-AATAAAGTATATAAGCATATAATA-TAAAGTATATA
1 TATATATATATAAAGTATAATTATAA-AGAATAAAGTATATAAGCATATAA-AGTAAA-TATATA
861642 -AGTATATAAT-ATA-AAATATATAAGT
63 CA-TATATAATAATATAAA-ATATAAGT
861667 ATTAAATATA
Statistics
Matches: 79, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
91 3 0.04
92 60 0.76
93 16 0.20
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (92 bp):
TATATATATATAAAGTATAATTATAAAGAATAAAGTATATAAGCATATAAAGTAAATATATACAT
ATATAATAATATAAAATATAAGTCTAT
Found at i:861886 original size:51 final size:48
Alignment explanation
Indices: 861385--862322 Score: 164
Period size: 43 Copynumber: 20.3 Consensus size: 48
861375 CTATAGTTTA
* *
861385 AATATAAAGTATATAAATATATATATA-TATAAACTAT-AAATTATATAT
1 AATATAAAGTATATAAATATATA-A-ACTATAAAGTATAAAAGTATATAT
*
861433 AA-A-AAAGAATATATACATATAT-AA-TA-AAAGTAT--AAGTATATAT
1 AATATAAAG--TATATAAATATATAAACTATAAAGTATAAAAGTATATAT
* * * *
861476 ATATATATA-TATATATATATATAAAGTAT-AATTAT-AAAG-A-ATA-
1 A-ATATAAAGTATATAAATATATAAACTATAAAGTATAAAAGTATATAT
*
861519 AAGTATATAAGTATATAAAGTATATATATACATATATAA-TAATATAAAGTATAAGTCT
1 AA-TATA-AAGTATATAAA-TATATA-A-AC-TATA-AAGT-ATA-AAAGTAT-A-TAT
* * * * * *
861577 ATTATATA-TATATAAGGTATAATTATAACAAATAAAGTATATAAG--CATAT
1 AATATAAAGTATATAA-ATAT-A-TA-AAC-TATAAAGTATAAAAGTATATAT
* * *
861627 AATATAAAGTATATAAGTATAT-AA-TATAAAATATATAAGTAT-TA-
1 AATATAAAGTATATAAATATATAAACTATAAAGTATAAAAGTATATAT
* *
861671 AATAT-AAGTATAT-AATATA-AAA-TATATAAGTATATAGGTATATAT
1 AATATAAAGTATATAAATATATAAACTATA-AAGTATAAAAGTATATAT
* * * * *
861716 -ATATAAACTATA-AAGTGTGTATATATA-TATATA-TATATAAAGAATAATTAT
1 AATATAAAGTATATAA----ATATATAAACTATAAAGTATA-AAAGTAT-A-TAT
* *
861767 AAAGACTAAAGTATATAAGTATAT-AA-TATAAAGTATATAAA-TATATA-
1 -AATA-TAAAGTATATAAATATATAAACTATAAAGTATA-AAAGTATATAT
* * *
861814 AACTATATAGTATA-AAAGTATATATACATATAAAGTATAAGTA-TATATAT
1 AA-TATAAAGTATATAAA-TATATAAAC-TATAAAGTATAA-AAGTATATAT
* * *** * * **
861864 AAACTATAAAGTGTGTGTGTATATATA-TAAAAAGT-T-TTAGTATA-A-
1 -AA-TATAAAGTATATAAATATATAAACTATAAAGTATAAAAGTATATAT
* *
861909 AGTATATAGGTATAT-AATATA-AAA-TATATAAGTATTAAATA-TAAGTATAT
1 AATATA-AAGTATATAAATATATAAACTATA-AAGTA-TAAA-AGT-A-TATAT
* * *
861959 AATATAAAGTATATAAGTATAT-AA-TATAAAGTTTATAAGTATATAT
1 AATATAAAGTATATAAATATATAAACTATAAAGTATAAAAGTATATAT
* * *
862005 -ATAT--A-TATAT--ATATATATA-TATATA-TAT-ATA-TATATAT
1 AATATAAAGTATATAAATATATAAACTATAAAGTATAAAAGTATATAT
* * * *
862043 -ATATAAAGT-T-TTAGTATAT-AA-TATATAGTATTAAAG--TATAT
1 AATATAAAGTATATAAATATATAAACTATAAAGTATAAAAGTATATAT
* * *
862084 AATATAAAGTATATAAGTATTTATAC-ATAAAAGTAT--AAGTATATAT
1 AATATAAAGTATATAAATATATAAACTAT-AAAGTATAAAAGTATATAT
* *
862130 -ATATATAA-TTTATAAGTAT-TAAA-TATAAAGTA-ATAAAGTATATA-
1 AATATA-AAGTATATAAATATATAAACTATAAAGTATA-AAAGTATATAT
* * * *
862174 AGT-TATAAGTAT-TAAAGTATAT--ACTATAGAGTAT-TAAG-CTATAT
1 AATATA-AAGTATATAAA-TATATAAACTATAAAGTATAAAAGTATATAT
** * *
862218 AATAT-AAGTAT-T-AA-ATGCAAAGTATTAAAGTATATAAGTATAAATATT
1 AATATAAAGTATATAAATATATAAACTA-TAAAGTATAAAAGTAT--ATA-T
* * * *
862266 AAATATAAAGTATATAAGTATAT-AA-TATAAATTATTAAA--CTATAT
1 -AATATAAAGTATATAAATATATAAACTATAAAGTATAAAAGTATATAT
862311 AATAT-AAGTATA
1 AATATAAAGTATA
862323 CAATATAAAG
Statistics
Matches: 673, Mismatches: 99, Indels: 241
0.66 0.10 0.24
Matches are distributed among these distances:
38 11 0.02
39 2 0.00
40 18 0.03
41 20 0.03
42 38 0.06
43 92 0.14
44 81 0.12
45 79 0.12
46 59 0.09
47 15 0.02
48 32 0.05
49 56 0.08
50 59 0.09
51 51 0.08
52 3 0.00
53 8 0.01
54 12 0.02
55 17 0.03
56 10 0.01
57 9 0.01
58 1 0.00
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.38
Consensus pattern (48 bp):
AATATAAAGTATATAAATATATAAACTATAAAGTATAAAAGTATATAT
Found at i:861943 original size:275 final size:268
Alignment explanation
Indices: 861629--862132 Score: 719
Period size: 275 Copynumber: 1.9 Consensus size: 268
861619 AAGCATATAA
861629 TATAAAGTATATAAGTATATAATATAAAATATATAAGTATTAAATATAAGTATATAATATAAAAT
1 TATAAAGTATATAAGTATATAATATAAAATATATAAGTATTAAATATAAGTATATAATATAAAAT
* * * *
861694 ATATAAGTATATAGGTATATA-TATATAAACTATAAAGTGTGTATATATATATATATATATAAAG
66 ATATAAGTATATA-ATATAAAGTATAT-AACTATAAA-TATATATATATATATATATATATAAA-
861758 AATA-AT-TATAAAGACTAAAGTATATAAGTATATAATATAAAGTATATAAA-TATATAAACTAT
127 AATATATATATAAAGA-TAAAGT-T-TAAGTATATAATATAAAGTAT-TAAAGTATAT-AA-TAT
*
861820 ATAGTATAAAAGTATATATACATATAAAGTATAAGTATATATATAAACTATAAAGTGTGTGTGTA
186 AAAGTATAAAAGTATATATACATA-AAAGTATAAGTATATATATAAACTATAAAGTGTGTGTGTA
861885 TATATATAAAAAGTTTTAG
250 TATATATAAAAAGTTTTAG
* *
861904 TATAAAGTATATAGGTATATAATATAAAATATATAAGTATTAAATATAAGTATATAATATAAAGT
1 TATAAAGTATATAAGTATATAATATAAAATATATAAGTATTAAATATAAGTATATAATATAAAAT
* * * * *
861969 ATATAAGTATATAATATAAAGTTTATAAGTATATATATATATATATATATATATATATATATATA
66 ATATAAGTATATAATATAAAGTATATAACTATAAATATATATATATATATATATATATAAAAATA
* * * * *
862034 TATATATATATATAAAGTTTTAGTATATAATATATAGTATTAAAGTATATAATATAAAGTATATA
131 TATATATAAAGATAAAGTTTAAGTATATAATATAAAGTATTAAAGTATATAATATAAAGTATAAA
*
862099 AGTATTTATACATAAAAGTATAAGTATATATATA
196 AGTATATATACATAAAAGTATAAGTATATATATA
862133 TATAATTTAT
Statistics
Matches: 207, Mismatches: 18, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
268 20 0.10
269 24 0.12
270 6 0.03
271 24 0.12
272 4 0.02
273 31 0.15
274 18 0.09
275 80 0.39
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.39
Consensus pattern (268 bp):
TATAAAGTATATAAGTATATAATATAAAATATATAAGTATTAAATATAAGTATATAATATAAAAT
ATATAAGTATATAATATAAAGTATATAACTATAAATATATATATATATATATATATATAAAAATA
TATATATAAAGATAAAGTTTAAGTATATAATATAAAGTATTAAAGTATATAATATAAAGTATAAA
AGTATATATACATAAAAGTATAAGTATATATATAAACTATAAAGTGTGTGTGTATATATATAAAA
AGTTTTAG
Found at i:862062 original size:2 final size:2
Alignment explanation
Indices: 861049--862047 Score: 141
Period size: 2 Copynumber: 503.0 Consensus size: 2
861039 TTGAAACAAT
* *
861049 TA TA -A TA TA TA CA TA TA AA CTA TA TA -A TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * *
861088 TA TA AA CTA TA TA GTT TA TA TA TA AA GTA TA TA TA T- TA TA TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * * * * *
861130 TA TA AA CTA GA TA GA AA AA CTA TA TA GTT TA TA TT TA TA T- TA
1 TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
* * * *
861172 T- TA TA AA CTA TA TA TA T- TA TG TA TA AA CTA TA TA GTT TA T-
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * * *
861212 TA -A TA TA AA T- TA TA TA TA AA CTA TA TA GTG TA TA TA TA AA GTA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA
* * *
861255 TA TA TA TA AA CTA TA TA AA CTA TA TA GTT TA TA TA TGA -A T- TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA TA T-A TA TA TA
* * * *
861297 TA TA TA AA TA TA TA CA -A CT- TA TA TT TA TA TA T- TA TG TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
861337 -A T- TA TA AA TA TA TA TG T- TG TA TA TA AA T- TA TA TA GTT TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
861376 TA TA GTT TA AA TA TA AA GTA TA TA AA TA TA TA TA TA TA TA AA CTA
1 TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * *
861421 TA AA T- TA TA TA TA -A AA AA GA -A TA TA TA CA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
861459 -A AA GTA TA -A GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
861501 GTA TA -A T- TA TA AA GA -A TA AA GTA TA TA -A GTA TA TA AA GTA
1 -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA -TA
* * *
861541 TA TA TA TA CA TA TA TA -A TA -A TA TA AA GTA TA -A GTC TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
** * * *
861581 TA TA TA TA TA -A GG TA TA -A T- TA TA -A CA AA TA AA GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * *
861620 -A GCA TA TA -A TA TA AA GTA TA TA -A GTA TA TA -A TA TA -A AA
1 TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA
* *
861658 TA TA TA -A GTA T- TA AA TA TA -A GTA TA TA -A TA TA -A AA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
** * * * *
861697 TA -A GTA TA TA GG TA TA TA TA TA TA AA CTA TA AA GTG TG TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * * *
861739 TA TA TA TA TA TA TA TA AA GA -A TA -A T- TA TA AA GA CTA AA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA
* * *
861780 TA TA -A GTA TA TA -A TA TA AA GTA TA TA AA TA TA TA AA CTA TA
1 TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA
* * *
861821 TA GTA TA -A AA GTA TA TA TA CA TA TA AA GTA TA -A GTA TA TA TA
1 TA -TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * * * * * * *
861863 TA AA CTA TA AA GTG TG TG TG TA TA TA TA TA AA AA GT- TT TA GTA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* ** *
861906 TA AA GTA TA TA GG TA TA TA -A TA TA -A AA TA TA TA -A GTA T- TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
861946 AA TA TA -A GTA TA TA -A TA TA AA GTA TA TA -A GTA TA TA -A TA
1 TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA
* *
861985 TA AA GTT TA TA -A GTA TA 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 TA TA TA TA TA TA TA TA
862028 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
862048 AAGTTTTAGT
Statistics
Matches: 717, Mismatches: 155, Indels: 250
0.64 0.14 0.22
Matches are distributed among these distances:
1 66 0.09
2 596 0.83
3 55 0.08
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (2 bp):
TA
Found at i:862168 original size:22 final size:21
Alignment explanation
Indices: 861902--862340 Score: 113
Period size: 22 Copynumber: 20.4 Consensus size: 21
861892 AAAAAGTTTT
**
861902 AGTATAAAGTATATAGGTATATA
1 AGTATAAAGTAT-TAAATATA-A
* * *
861925 A-TATAAAATATATAAGTATTA
1 AGTATAAAGTAT-TAAATATAA
*
861946 AATAT-AAGTA-TATAATATAA
1 AGTATAAAGTATTA-AATATAA
861966 AGTATATAAGTA-TATAATATAA
1 AGTATA-AAGTATTA-AATATAA
* * *
861988 AGTTTATAAGTA-TATATATAT
1 AGTATA-AAGTATTAAATATAA
* * *
862009 A-TATATA-TATATATATATAT
1 AGTATAAAGTAT-TAAATATAA
* *
862029 A-TATATA-TATATATATATAA
1 AGTATAAAGTAT-TAAATATAA
** *
862049 AGT-TTTAGTA-TATAATATAT
1 AGTATAAAGTATTA-AATATAA
862069 AGTATTAAAGTA-TATAATATAA
1 AGTA-TAAAGTATTA-AATATAA
862091 AGTATATAAGTATTTATACATA-AA
1 AGTATA-AAGTA-TTA-A-ATATAA
*
862115 AGTAT-AAGTATATATATATATA
1 AGTATAAAGTAT-TAAATATA-A
*
862137 A-TTTATAAGTATTAAATATAA
1 AGTATA-AAGTATTAAATATAA
*
862158 AGTAATAAAGTATATAAGT-TATA
1 AGT-ATAAAGTAT-TAAATATA-A
* *
862181 AGTATTAAAGTA-TATACTATAG
1 AGTA-TAAAGTATTA-AATATAA
*
862203 AGTATTAAGCTA-TATAATAT-A
1 AGTATAAAG-TATTA-AATATAA
* *
862224 AGTATTAAATGCA--AAGTATTAA
1 AGTA-TAAA-GTATTAAATA-TAA
862246 AGTATATAAGTA-TAAATATTAA
1 AGTATA-AAGTATTAAATA-TAA
*
862268 A-TATAAAGTATATAAGTATATA
1 AGTATAAAGTAT-TAAATATA-A
*
862290 A-TATAAATTATTAAACTATATA
1 AGTATAAAGTATTAAA-TATA-A
862312 A-TAT-AAGTA-TACAATATAA
1 AGTATAAAGTATTA-AATATAA
862331 AGTATCAAAG
1 AGTAT-AAAG
862341 AAATAAGTAT
Statistics
Matches: 336, Mismatches: 38, Indels: 85
0.73 0.08 0.19
Matches are distributed among these distances:
18 2 0.01
19 7 0.02
20 72 0.21
21 54 0.16
22 160 0.48
23 27 0.08
24 11 0.03
25 3 0.01
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.38
Consensus pattern (21 bp):
AGTATAAAGTATTAAATATAA
Found at i:862182 original size:7 final size:8
Alignment explanation
Indices: 861463--862294 Score: 291
Period size: 8 Copynumber: 112.2 Consensus size: 8
861453 ATAATAAAAG
861463 TATAAGTA
1 TATAAGTA
861471 TATATA-TA
1 TATA-AGTA
861479 TATATA-TA
1 TATA-AGTA
861487 TATATA-TA
1 TATA-AGTA
861495 TATAA--A
1 TATAAGTA
*
861501 GTATAATTA
1 -TATAAGTA
*
861510 TA-AAGAA
1 TATAAGTA
861517 TA-AAGTA
1 TATAAGTA
861524 TATAAGTA
1 TATAAGTA
861532 TATAAAGTA
1 TAT-AAGTA
861541 TAT-A-TA
1 TATAAGTA
*
861547 TA-CA-TA
1 TATAAGTA
861553 TATAA-TAA
1 TATAAGT-A
861561 TATAA--A
1 TATAAGTA
861567 GTATAAGTCTA
1 -TATAAG--TA
861578 TTATATA-TA
1 -TATA-AGTA
*
861587 TATAAG-G
1 TATAAGTA
861594 TATAA-T-
1 TATAAGTA
*
861600 TATAA-CA
1 TATAAGTA
*
861607 AATAAAGTA
1 TAT-AAGTA
*
861616 TATAAGCA
1 TATAAGTA
861624 TATAA-TA
1 TATAAGTA
861631 TA-AAGTA
1 TATAAGTA
861638 TATAAGTA
1 TATAAGTA
861646 TATAA-TA
1 TATAAGTA
*
861653 TA-AAATA
1 TATAAGTA
861660 TATAAGTA
1 TATAAGTA
861668 T-TAA--A
1 TATAAGTA
861673 TATAAGTA
1 TATAAGTA
861681 TATAA-TA
1 TATAAGTA
*
861688 TA-AAATA
1 TATAAGTA
861695 TATAAGTA
1 TATAAGTA
*
861703 TATAGGTA
1 TATAAGTA
861711 TAT-A-TA
1 TATAAGTA
*
861717 TATAAACTA
1 TAT-AAGTA
*
861726 TA-AAGTGTG
1 TATAA--GTA
861735 TATATA-TA
1 TATA-AGTA
861743 TATATA-TA
1 TATA-AGTA
861751 TATAAAG-A
1 TAT-AAGTA
*
861759 -ATAATTA
1 TATAAGTA
861766 TA-AAG-A
1 TATAAGTA
861772 CTA-AAGTA
1 -TATAAGTA
861780 TATAAGTA
1 TATAAGTA
861788 TATAA-TA
1 TATAAGTA
861795 TA-AAGTA
1 TATAAGTA
*
861802 TATAAATA
1 TATAAGTA
*
861810 TATAAACTA
1 TAT-AAGTA
861819 TAT-AGTA
1 TATAAGTA
*
861826 TAAAAGTA
1 TATAAGTA
*
861834 TATATA-CA
1 TATA-AGTA
861842 TATAA--A
1 TATAAGTA
861848 GTATAAGTA
1 -TATAAGTA
861857 TAT-A-TA
1 TATAAGTA
*
861863 TA-AACTA
1 TATAAGTA
*
861870 TA-AAGTG
1 TATAAGTA
* **
861877 TGTGTGTA
1 TATAAGTA
861885 TAT-A-TA
1 TATAAGTA
*
861891 TAAAAAGT-
1 T-ATAAGTA
*
861899 T-TTAGTA
1 TATAAGTA
861906 TA-AAGTA
1 TATAAGTA
*
861913 TATAGGTA
1 TATAAGTA
861921 TATAA-TA
1 TATAAGTA
*
861928 TA-AAATA
1 TATAAGTA
861935 TATAAGTA
1 TATAAGTA
861943 T-TAA--A
1 TATAAGTA
861948 TATAAGTA
1 TATAAGTA
861956 TATAA-TA
1 TATAAGTA
861963 TA-AAGTA
1 TATAAGTA
861970 TATAAGTA
1 TATAAGTA
861978 TATAA-TA
1 TATAAGTA
*
861985 TA-AAGTT
1 TATAAGTA
861992 TATAAGTA
1 TATAAGTA
862000 TAT-A-TA
1 TATAAGTA
862006 TAT-A-TA
1 TATAAGTA
862012 TATATA-TA
1 TATA-AGTA
862020 TATATA-TA
1 TATA-AGTA
862028 TATATA-TA
1 TATA-AGTA
862036 TATATA-TA
1 TATA-AGTA
862044 TATAAAGT-
1 TAT-AAGTA
*
862052 T-TTAGTA
1 TATAAGTA
862059 TATAA-TA
1 TATAAGTA
862066 TAT-AGTA
1 TATAAGTA
862073 T-TAAAGTA
1 TAT-AAGTA
862081 TATAA-TA
1 TATAAGTA
862088 TA-AAGTA
1 TATAAGTA
862095 TATAAGTA
1 TATAAGTA
*
862103 T-TTA-TA
1 TATAAGTA
* *
862109 CATAA-AA
1 TATAAGTA
862116 GTATAAGTA
1 -TATAAGTA
862125 TATATA-TA
1 TATA-AGTA
*
862133 TATAA-TT
1 TATAAGTA
862140 TATAAGTA
1 TATAAGTA
*
862148 T-TAAATA
1 TATAAGTA
862155 TA-AAGTA
1 TATAAGTA
862162 -ATAAAGTA
1 TAT-AAGTA
862170 TATAAGT-
1 TATAAGTA
862177 TATAAGTA
1 TATAAGTA
862185 T-TAAAGTA
1 TAT-AAGTA
*
862193 TAT-ACTA
1 TATAAGTA
*
862200 TA-GAGTA
1 TATAAGTA
862207 T-TAAGCTA
1 TATAAG-TA
862215 TAT-A--A
1 TATAAGTA
862220 TATAAGTA
1 TATAAGTA
* *
862228 T-TAAATG
1 TATAAGTA
*
862235 CA-AAGTA
1 TATAAGTA
862242 T-TAAAGTA
1 TAT-AAGTA
862250 TATAAGTA
1 TATAAGTA
862258 TA-AA-TA
1 TATAAGTA
*
862264 T-TAAATA
1 TATAAGTA
862271 TA-AAGTA
1 TATAAGTA
862278 TATAAGTA
1 TATAAGTA
862286 TATAA-TA
1 TATAAGTA
862293 TA
1 TA
862295 AATTATTAAA
Statistics
Matches: 650, Mismatches: 66, Indels: 217
0.70 0.07 0.23
Matches are distributed among these distances:
5 8 0.01
6 83 0.13
7 217 0.33
8 291 0.45
9 43 0.07
10 1 0.00
11 6 0.01
12 1 0.00
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (8 bp):
TATAAGTA
Found at i:862192 original size:45 final size:44
Alignment explanation
Indices: 861608--862322 Score: 176
Period size: 43 Copynumber: 16.2 Consensus size: 44
861598 ATTATAACAA
*
861608 ATAAAGTATATAAGCATATAATATAAAGTA-TATAAGTA-TATAAT
1 ATAAAGTATA-AAGTATATAATAT-AAGTATTATAAGTATTATAAT
* *
861652 ATAAAATATATAAGTAT-TAAATATAAGTA-TATAA-TA-TAAAAT
1 ATAAAGTATA-AAGTATAT-AATATAAGTATTATAAGTATTATAAT
* * *
861694 ATATAAGTATATAGGTATATATATATAA--ACTATAAAGTGTGTATATAT
1 ATA-AAGTATA-AAGTATATA-ATATAAGTATTAT-AAGTAT-TATA-AT
* *
861742 ATATATATATATAAAGAATAATTATAAAGACTAAAGTA-TATAAGTA-TATAAT
1 ATA-A-A-GTATAAAG--T-A-TAT-AATA-T-AAGTATTATAAGTATTATAAT
* *
861794 ATAAAGTATATAAATATATAAACTATATAGTA-TAAAAGTATATATACAT
1 ATAAAGTATA-AAGTATAT-AA-TATA-AGTATTATAAGTAT-TATA-AT
* * * *
861843 ATAAAGTAT-AAGTATAT-ATATAA--ACTATAAAGTGTGTGTGTAT
1 ATAAAGTATAAAGTATATAATATAAGTATTAT-AAGTAT-TAT-AAT
* * * * *
861886 ATATA-TAAAAAGT-TTTAGTATAAAGTA-TATAGGTA-TATAAT
1 ATAAAGTATAAAGTATATAATAT-AAGTATTATAAGTATTATAAT
*
861927 ATAAA--AT--A-TATA-AGTATTAA--A-TATAAGTA-TATAAT
1 ATAAAGTATAAAGTATATAATA-TAAGTATTATAAGTATTATAAT
861962 ATAAAGTATATAAGTATATAATATAAAGT-TTATAAGTA-TAT-AT
1 ATAAAGTATA-AAGTATATAATAT-AAGTATTATAAGTATTATAAT
* *
862005 ATATA-TATATA-TATAT-ATAT-A-TA-TATATA-TATATATATAT
1 ATAAAGTATAAAGTATATAATATAAGTATTATA-AGTAT-TATA-AT
**
862045 ATAAAGT-TTTAGTATATAATATATAGTATTA-AAGTA-TATAAT
1 ATAAAGTATAAAGTATATAATATA-AGTATTATAAGTATTATAAT
* * * *
862087 ATAAAGTATATAAGTATTTATACATAA-AAGTATAAGTATATATATAT
1 ATAAAGTATA-AAGTATATA-ATATAAGTATTATAAGTAT-TATA-AT
** *
862134 ATAATTTAT-AAGTAT-TAAATATAAAGTAATA-AAGTA-TATAAGT
1 ATAAAGTATAAAGTATAT-AATAT-AAGTATTATAAGTATTATAA-T
*
862177 -TATAAGTATTAAAGTATATACTATAGAGTA-T-TAAGCTA-TATAAT
1 ATA-AAGTA-TAAAGTATATAATATA-AGTATTATAAG-TATTATAAT
* * *
862221 AT-AAGTATTAAATGCAAAGTATTA-AAGTA-TATAAGTATAAATATTAAAT
1 ATAAAGTA-TAAA-GTATA-TAATATAAGTATTATAAGTAT---TA-T-AAT
* *
862270 ATAAAGTATATAAGTATATAATATAAATTATTA-AACTA-TATAAT
1 ATAAAGTATA-AAGTATATAATAT-AAGTATTATAAGTATTATAAT
862314 AT-AAGTATA
1 ATAAAGTATA
862323 CAATATAAAG
Statistics
Matches: 516, Mismatches: 60, Indels: 191
0.67 0.08 0.25
Matches are distributed among these distances:
35 19 0.04
36 7 0.01
37 11 0.02
38 6 0.01
39 4 0.01
40 16 0.03
41 19 0.04
42 44 0.09
43 94 0.18
44 88 0.17
45 56 0.11
46 31 0.06
47 23 0.04
48 17 0.03
49 28 0.05
50 22 0.04
51 4 0.01
52 6 0.01
53 9 0.02
54 2 0.00
55 6 0.01
56 3 0.01
57 1 0.00
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (44 bp):
ATAAAGTATAAAGTATATAATATAAGTATTATAAGTATTATAAT
Found at i:862249 original size:8 final size:7
Alignment explanation
Indices: 862236--862340 Score: 69
Period size: 8 Copynumber: 14.6 Consensus size: 7
862226 TATTAAATGC
862236 AAAGTATT
1 AAAGTA-T
862244 AAAGTAT
1 AAAGTAT
862251 ATAAGTAT
1 A-AAGTAT
862259 AAA-TATT
1 AAAGTA-T
862266 AAA-TAT
1 AAAGTAT
862272 AAAGTAT
1 AAAGTAT
862279 ATAAGTAT
1 A-AAGTAT
862287 ATAA-TAT
1 A-AAGTAT
*
862294 AAATTATT
1 AAAGTA-T
*
862302 AAACTAT
1 AAAGTAT
862309 ATAA-TAT
1 A-AAGTAT
862316 -AAGTAT
1 AAAGTAT
862322 ACAA-TAT
1 A-AAGTAT
862329 AAAGTAT
1 AAAGTAT
862336 CAAAG
1 -AAAG
862341 AAATAAGTAT
Statistics
Matches: 84, Mismatches: 1, Indels: 24
0.77 0.01 0.22
Matches are distributed among these distances:
5 2 0.02
6 13 0.15
7 32 0.38
8 37 0.44
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (7 bp):
AAAGTAT
Found at i:862761 original size:81 final size:80
Alignment explanation
Indices: 862585--862824 Score: 408
Period size: 81 Copynumber: 3.0 Consensus size: 80
862575 ATAAATTGAG
** *
862585 AGTTATATATATTAAATTATAAAATTTGTAGGATGAAATATAAATAAAATAAAAATTTAAAGCCT
1 AGTTATATATATTAAATTATAAAATTCATAGGATCAAAT-TAAATAAAAT-AAAATTTAAAGCCT
862650 AAATTAATACATTATAT
64 AAATTAATACATTATAT
862667 AGTTATATATATTAAATTATAAAATTCATAGGATCAAATTGAAATAAAATAAAATTTAAAGCCTA
1 AGTTATATATATTAAATTATAAAATTCATAGGATCAAATT-AAATAAAATAAAATTTAAAGCCTA
862732 AATTAATACATTATAT
65 AATTAATACATTATAT
*
862748 AGTTATATATATTAAATTATAAAATTCATAGGATCAAATTAAAATAAATTAAAATTTAAAGCCTA
1 AGTTATATATATTAAATTATAAAATTCATAGGATCAAATT-AAATAAAATAAAATTTAAAGCCTA
862813 AATTAATACATT
65 AATTAATACATT
862825 TTTGGACTAA
Statistics
Matches: 152, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
81 107 0.70
82 45 0.30
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.36
Consensus pattern (80 bp):
AGTTATATATATTAAATTATAAAATTCATAGGATCAAATTAAATAAAATAAAATTTAAAGCCTAA
ATTAATACATTATAT
Found at i:863470 original size:21 final size:21
Alignment explanation
Indices: 863444--863516 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
863434 ATTCTGACTA
*
863444 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCATAAT
* *
863465 TCGCATTGCGATTTACGT-AT
1 TCGCATTGCGATTTTCATAAT
*
863485 TCGCGTTGCGATTTTCATAAT
1 TCGCATTGCGATTTTCATAAT
*
863506 TCGCAATGCGA
1 TCGCATTGCGA
863517 ATACGTAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 17 0.39
21 27 0.61
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCATAAT
Found at i:863476 original size:41 final size:41
Alignment explanation
Indices: 863422--863516 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 41
863412 CAGTTTCCAG
* *
863422 ATTCGCAACGCGATTCTGAC-TA-TCGCATTGCGATTTTCCTA
1 ATTCGCAATGCGATT-T-ACGTATTCGCATTGCGATTTTCATA
* *
863463 ATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTTCATA
1 ATTCGCAATGCGATTTACGTATTCGCATTGCGATTTTCATA
863504 ATTCGCAATGCGA
1 ATTCGCAATGCGA
863517 ATACGTAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.04
40 3 0.06
41 42 0.89
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (41 bp):
ATTCGCAATGCGATTTACGTATTCGCATTGCGATTTTCATA
Found at i:863531 original size:20 final size:20
Alignment explanation
Indices: 863506--863575 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
863496 TTTTCATAAT
*
863506 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATAAGTAAA
* * *
863526 TCGCAACGCGATTAAATAAA
1 TCGCAATGCGAATAAGTAAA
* *
863546 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
863567 TCGCAATGC
1 TCGCAATGC
863576 AAATCTGACT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
20 26 0.65
21 14 0.35
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:863537 original size:41 final size:41
Alignment explanation
Indices: 863451--863572 Score: 104
Period size: 41 Copynumber: 3.0 Consensus size: 41
863441 CTATCGCATT
* * * * ***
863451 GCGATTTTCCTAATTCGCATTGCGATTTACGT-ATTCGCGTT
1 GCGATTTTCATAATTCGCAATGCGA-ATACGTAAATCGCAAC
863492 GCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAAC
1 GCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAAC
** * * *
863533 GCGA-TTAAATAAATCGCAATGCGAATTAGGAAAATCGCAA
1 GCGATTTTCATAATTCGCAATGCGAA-TACGTAAATCGCAA
863573 TGCAAATCTG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 23 0.34
41 44 0.66
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (41 bp):
GCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAAC
Found at i:863567 original size:21 final size:20
Alignment explanation
Indices: 863506--863597 Score: 73
Period size: 20 Copynumber: 4.5 Consensus size: 20
863496 TTTTCATAAT
*
863506 TCGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTA-GAAAA
* *
863526 TCGCAACGCG-ATTAAATAAA
1 TCGCAATGCGAATTAGA-AAA
863546 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTA-GAAAA
* **
863567 TCGCAATGCAAATCT-GACTA
1 TCGCAATGCGAAT-TAGAAAA
863587 TCGCAATGCGA
1 TCGCAATGCGA
863598 TTTACATAGC
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
19 1 0.02
20 36 0.62
21 19 0.33
22 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATTAGAAAA
Found at i:864181 original size:33 final size:33
Alignment explanation
Indices: 864130--864222 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
864120 CGAGAATGAA
* *
864130 AATCGCAACGCGTAAATGAATATCGCAACGAGAG
1 AATCACAACGCG-AAATGAAAATCGCAACGAGAG
* *
864164 AATCATAACGCGAAATGAAAATCGCAACGAGAT
1 AATCACAACGCGAAATGAAAATCGCAACGAGAG
* **
864197 AATCGCAACGCGAAACCAAAATCGCA
1 AATCACAACGCGAAATGAAAATCGCA
864223 TTGCGATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 41 0.80
34 10 0.20
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (33 bp):
AATCACAACGCGAAATGAAAATCGCAACGAGAG
Found at i:864240 original size:19 final size:19
Alignment explanation
Indices: 864218--864363 Score: 105
Period size: 19 Copynumber: 8.1 Consensus size: 19
864208 GAAACCAAAA
*
864218 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
864237 TCGCGTTACGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
864251 TCTCGTTGCGATTTTCTTT
1 TCGCGTTGCGATTTTCATT
864270 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
864284 TCTCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* ** *
864303 TCACGTTGCGATAGTAATT
1 TCGCGTTGCGATTTTCATT
864322 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
864342 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
864362 TC
1 TC
864364 AACCAAAAGA
Statistics
Matches: 98, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
14 18 0.18
16 6 0.06
17 6 0.06
19 36 0.37
20 31 0.32
21 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:864265 original size:33 final size:33
Alignment explanation
Indices: 864221--864314 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
864211 ACCAAAATCG
*
864221 CATTGCGATTTTCATTTCGCGTTACGATTCTCT
1 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
* *
864254 CGTTGCGATTTTCTTTTCGCGTTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
864287 CATTGCGATTTTCATTTCACGTTGCGAT
1 CATTGCGATTTTCATTTCGCGTTGCGAT
864315 AGTAATTTCC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:865691 original size:21 final size:20
Alignment explanation
Indices: 865620--865692 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
865610 CTCCACTTCG
865620 AGAGCCATCACCTCAC--CC
1 AGAGCCATCACCTCACAACC
*
865638 AGAGCCATCACCTGATCAACC
1 AGAGCCATCACCTCA-CAACC
* * *
865659 CGA-CTATACACCTCTACAACG
1 AGAGCCAT-CACCTC-ACAACC
865680 AGAGCCATCACCT
1 AGAGCCATCACCT
865693 ATCCCGTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
18 14 0.33
19 1 0.02
20 3 0.07
21 20 0.48
22 4 0.10
ACGTcount: A:0.32, C:0.41, G:0.12, T:0.15
Consensus pattern (20 bp):
AGAGCCATCACCTCACAACC
Found at i:866323 original size:21 final size:21
Alignment explanation
Indices: 866299--866365 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
866289 TCATTCCTCG
866299 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
866320 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
866341 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
866362 AGAG
1 AGAG
866366 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:866326 original size:42 final size:42
Alignment explanation
Indices: 866280--866365 Score: 95
Period size: 42 Copynumber: 2.0 Consensus size: 42
866270 ATCTTTAAAA
* *
866280 AGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAG
1 AGGCCACTATCA-TCCTCGAAGAGGT-CCCTCCCACCATTCAAG
* * *
866322 AGGCCACTGTCATCGTTGAAGAGGTCCCTCCCACCATTCAAG
1 AGGCCACTATCATCCTCGAAGAGGTCCCTCCCACCATTCAAG
866364 AG
1 AG
866366 CCCGATTCAC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
41 4 0.11
42 31 0.84
43 2 0.05
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.21
Consensus pattern (42 bp):
AGGCCACTATCATCCTCGAAGAGGTCCCTCCCACCATTCAAG
Found at i:868929 original size:12 final size:12
Alignment explanation
Indices: 868912--868936 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
868902 TCTTCGGGGA
868912 CTTTTTCTTCTT
1 CTTTTTCTTCTT
868924 CTTTTTCTTCTT
1 CTTTTTCTTCTT
868936 C
1 C
868937 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:869743 original size:12 final size:12
Alignment explanation
Indices: 869719--869762 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
869709 TGCCGGATGG
*
869719 GGAA-GGATGTA
1 GGAACGGATATA
869730 GGAACGGATATA
1 GGAACGGATATA
869742 GGAACGGATATA
1 GGAACGGATATA
869754 GGAACGGAT
1 GGAACGGAT
869763 GTCGTCGGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 4 0.13
12 27 0.87
ACGTcount: A:0.39, C:0.07, G:0.39, T:0.16
Consensus pattern (12 bp):
GGAACGGATATA
Found at i:870017 original size:41 final size:41
Alignment explanation
Indices: 869898--870035 Score: 152
Period size: 41 Copynumber: 3.4 Consensus size: 41
869888 AACTTTGAAA
* * *
869898 ATCGCATTGCGATTCTGTATTATCTCGTTGCGATAGTCAGA
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
* * *** ** * *
869939 ATCTCGTTGCGAAAGT-TAGAATCGCGTTGCAAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
*
869979 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
870020 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
870036 CCAAATTCGC
Statistics
Matches: 76, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 30 0.39
41 46 0.61
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
Found at i:870024 original size:20 final size:20
Alignment explanation
Indices: 869918--870032 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
869908 GATTCTGTAT
*
869918 TATCTCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * * *
869938 AATCTCGTTGCGAAAGTTAG
1 TATCGCGTTGCGATAGTCAG
* * *
869958 AATCGCGTTGCAAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
869978 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
869999 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
870019 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
870033 TTTCCAAATT
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
19 3 0.04
20 59 0.76
21 14 0.18
22 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:870051 original size:41 final size:41
Alignment explanation
Indices: 869972--870053 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
869962 GCGTTGCAAA
* ** * *
869972 AGTCAGTATCGCGTTGCGATTTTGTATTATCGCGTTGCGAT
1 AGTCAGTATCGCATTGCGATTTTCAAATATCGCATTGCGAT
870013 AGTCAGTATCGCATTGCGATTTTCCAAAT-TCGCATTGCGAT
1 AGTCAGTATCGCATTGCGATTTT-CAAATATCGCATTGCGAT
870054 TTACTTATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 33 0.94
42 2 0.06
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (41 bp):
AGTCAGTATCGCATTGCGATTTTCAAATATCGCATTGCGAT
Found at i:870065 original size:20 final size:21
Alignment explanation
Indices: 870021--870072 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
870011 ATAGTCAGTA
*
870021 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
870042 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
870062 TCGCATTGCGA
1 TCGCATTGCGA
870073 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:870114 original size:21 final size:22
Alignment explanation
Indices: 870062--870114 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
870052 ATTTACTTAT
870062 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
870083 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
870104 TCGCATTGCGA
1 TCGCATTGCGA
870115 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:870523 original size:17 final size:17
Alignment explanation
Indices: 870501--870534 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
870491 ACTATTTAAC
870501 ATGCAATGT-AACATGAA
1 ATGCAAT-TCAACATGAA
870518 ATGCAATTCAACATGAA
1 ATGCAATTCAACATGAA
870535 TTACTATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (17 bp):
ATGCAATTCAACATGAA
Found at i:871957 original size:2 final size:2
Alignment explanation
Indices: 871950--871978 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
871940 TTTTGGTTAG
871950 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
871979 GGTGATGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:881102 original size:13 final size:13
Alignment explanation
Indices: 881084--881110 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
881074 CATCAGTGAC
881084 ACATTCAAAAGTT
1 ACATTCAAAAGTT
881097 ACATTCAAAAGTT
1 ACATTCAAAAGTT
881110 A
1 A
881111 TTCACATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (13 bp):
ACATTCAAAAGTT
Found at i:882561 original size:42 final size:42
Alignment explanation
Indices: 882475--882564 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
882465 TAGTGCAGCA
* *
882475 TTTGTGCTCAAAACGCCGCTAAATATCAAATATGTTGCGACG
1 TTTGTGCCCAAAACGCCGCTAAATATCAAATATGATGCGACG
* * * * *
882517 TTTGTGCCCAAAATGCTGCTAAATATCAAATTTGATGTGGCG
1 TTTGTGCCCAAAACGCCGCTAAATATCAAATATGATGCGACG
882559 TTTGTG
1 TTTGTG
882565 ACTAAAAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (42 bp):
TTTGTGCCCAAAACGCCGCTAAATATCAAATATGATGCGACG
Found at i:885791 original size:14 final size:14
Alignment explanation
Indices: 885772--885822 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
885762 ACATCTAATT
*
885772 AAATTTATAAACAA
1 AAATTTATAAATAA
885786 AAATTTATATATATAA
1 AAATTTATA-A-ATAA
*
885802 AAATTTA-AAATTA
1 AAATTTATAAATAA
885815 AAATTTAT
1 AAATTTAT
885823 TTAAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 10 0.31
14 10 0.31
15 2 0.06
16 10 0.31
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTTATAAATAA
Found at i:887371 original size:12 final size:12
Alignment explanation
Indices: 887354--887410 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
887344 TTCATCCATT
887354 TATTTTTATTTA
1 TATTTTTATTTA
887366 TATTTTTATTTA
1 TATTTTTATTTA
* *
887378 TGTTATT-TTTA
1 TATTTTTATTTA
*
887389 TTTATTTTA-TTA
1 TAT-TTTTATTTA
*
887401 TATTATTATT
1 TATTTTTATT
887411 AATAAATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
11 10 0.28
12 26 0.72
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (12 bp):
TATTTTTATTTA
Found at i:887383 original size:27 final size:28
Alignment explanation
Indices: 887353--887406 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
887343 TTTCATCCAT
887353 TTATTTTTATTTATATTT-TTAT-TTATG
1 TTATTTTTATTTAT-TTTATTATATTATG
887380 TTATTTTTATTTATTTTATTATATTAT
1 TTATTTTTATTTATTTTATTATATTAT
887407 TATTAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 3 0.12
27 18 0.72
28 4 0.16
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (28 bp):
TTATTTTTATTTATTTTATTATATTATG
Found at i:887386 original size:15 final size:14
Alignment explanation
Indices: 887351--887395 Score: 67
Period size: 15 Copynumber: 3.3 Consensus size: 14
887341 TTTTTCATCC
887351 ATTTATTTTTATTT
1 ATTTATTTTTATTT
887365 A--TATTTTTATTT
1 ATTTATTTTTATTT
887377 ATGTTATTTTTATTT
1 AT-TTATTTTTATTT
887392 ATTT
1 ATTT
887396 TATTATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 12 0.43
14 3 0.11
15 13 0.46
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (14 bp):
ATTTATTTTTATTT
Found at i:891347 original size:8 final size:7
Alignment explanation
Indices: 891323--891364 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
891313 TTTTCATACA
891323 TGCA-TT
1 TGCATTT
891329 TGCATTT
1 TGCATTT
891336 TGCATCTT
1 TGCAT-TT
891344 TGCATTT
1 TGCATTT
* *
891351 TTCATTG
1 TGCATTT
891358 TGCATTT
1 TGCATTT
891365 ATACTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:891347 original size:15 final size:14
Alignment explanation
Indices: 891323--891364 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
891313 TTTTCATACA
891323 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
891336 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
891351 TTCATTGTGCATTT
1 TGCATTTTGCATTT
891365 ATACTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:893109 original size:2 final size:2
Alignment explanation
Indices: 893102--893130 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
893092 ATTTATCCTT
893102 TA TA 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 TA TA T
893131 CCTTTGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:895854 original size:115 final size:114
Alignment explanation
Indices: 895694--895917 Score: 360
Period size: 115 Copynumber: 2.0 Consensus size: 114
895684 AAGTGCCATG
* *
895694 TGCTCATAGTAGAAATAAGAAGACCCAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATC
* * * *
895759 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATAAATT
66 TGGTTCGGTAGGAACCCC-AAAACCAATCATTGGAATTAAAAGATAAATT
895809 TGCTCATAGTAGAAATAA-AGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAAT
1 TGCTCATAGTAGAAATAAGA-AGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAAT
*
895873 CTGGTTCGGTAGGAACCCCAGAACCAATCATTGGAATTAAAAGAT
65 CTGGTTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGAT
895918 GAACTGCATG
Statistics
Matches: 101, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
114 24 0.24
115 77 0.76
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATC
TGGTTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATAAATT
Found at i:898390 original size:22 final size:22
Alignment explanation
Indices: 898362--898416 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
898352 ATCTACACTC
898362 TTCAAAGATGATAGATTCTATT
1 TTCAAAGATGATAGATTCTATT
* *
898384 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTATT
898406 TTCAAAGATGA
1 TTCAAAGATGA
898417 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTATT
Found at i:899014 original size:113 final size:113
Alignment explanation
Indices: 898853--899380 Score: 832
Period size: 113 Copynumber: 4.7 Consensus size: 113
898843 ATTTCAGGAA
* *
898853 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
898918 CAACCTTTTGCTCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
66 CAACCTTTTGCTCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
898966 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
899031 CAA-CTTTTCGCTCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
66 CAACCTTTT-GCTCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
899079 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
899144 CAA-CTTTTCTCTCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
66 CAACCTTTT-GCTCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
* *
899192 AAGGTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * ** * ***
899257 CAACTTTTTGCGT-GAATTCATCATTCGATGGATCAATATTTCCAGAAA
66 CAACCTTTTGC-TCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
* * * *
899305 AAGTTCATAATGAGAAGAACTCATCTGAAG--AGGATAATAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
899368 CAACCTTTTGCTC
66 CAACCTTTTGCTC
899381 GACTCTATCG
Statistics
Matches: 391, Mismatches: 20, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
110 1 0.00
111 40 0.10
112 5 0.01
113 340 0.87
114 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (113 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
Found at i:899829 original size:12 final size:12
Alignment explanation
Indices: 899812--899868 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
899802 TTCATCCATT
899812 TATTTTTATTTA
1 TATTTTTATTTA
899824 TATTTTTATTTA
1 TATTTTTATTTA
* *
899836 TGTTATT-TTTA
1 TATTTTTATTTA
*
899847 TTTATTTTA-TTA
1 TAT-TTTTATTTA
*
899859 TATTATTATT
1 TATTTTTATT
899869 AATAAATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
11 10 0.28
12 26 0.72
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (12 bp):
TATTTTTATTTA
Found at i:899841 original size:27 final size:28
Alignment explanation
Indices: 899811--899864 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
899801 TTTCATCCAT
899811 TTATTTTTATTTATATTT-TTAT-TTATG
1 TTATTTTTATTTAT-TTTATTATATTATG
899838 TTATTTTTATTTATTTTATTATATTAT
1 TTATTTTTATTTATTTTATTATATTAT
899865 TATTAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 3 0.12
27 18 0.72
28 4 0.16
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (28 bp):
TTATTTTTATTTATTTTATTATATTATG
Found at i:899844 original size:15 final size:14
Alignment explanation
Indices: 899809--899853 Score: 67
Period size: 15 Copynumber: 3.3 Consensus size: 14
899799 TTTTTCATCC
899809 ATTTATTTTTATTT
1 ATTTATTTTTATTT
899823 A--TATTTTTATTT
1 ATTTATTTTTATTT
899835 ATGTTATTTTTATTT
1 AT-TTATTTTTATTT
899850 ATTT
1 ATTT
899854 TATTATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 12 0.43
14 3 0.11
15 13 0.46
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (14 bp):
ATTTATTTTTATTT
Found at i:899947 original size:17 final size:17
Alignment explanation
Indices: 899921--899960 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
899911 CAGTCCAGAT
*
899921 GACCCATTTACAAACCC
1 GACCCGTTTACAAACCC
*
899938 GACCCGTTTACAAGCCC
1 GACCCGTTTACAAACCC
*
899955 AACCCG
1 GACCCG
899961 GATCCAGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.42, G:0.12, T:0.15
Consensus pattern (17 bp):
GACCCGTTTACAAACCC
Found at i:909106 original size:18 final size:19
Alignment explanation
Indices: 909060--909106 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
909050 GGACCCTTAG
*
909060 TGCATCGATGCACTAAGAG
1 TGCATCGATGCACTAAGAA
909079 TGCATCGATGCA-TAA-AA
1 TGCATCGATGCACTAAGAA
909096 TGCATTCGATG
1 TGCA-TCGATG
909107 TTTTAAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 9 0.35
19 12 0.46
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCACTAAGAA
Found at i:909135 original size:64 final size:63
Alignment explanation
Indices: 909058--909224 Score: 225
Period size: 64 Copynumber: 2.6 Consensus size: 63
909048 TTGGACCCTT
* *
909058 AGTGCATCGATGCACTAAG-AGTGCATCGATGCATAAAATGCATTCGATGTTTT-A-AACAAGTC
1 AGTGCATCGATGCA-T-GGTAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AA-CC
909120 TG
62 TG
*
909122 AGTGCATCAATGCATGGTCTA-TGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTG
1 AGTGCATCGATGCATGG--TAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTG
909186 AGTGCATCGATGCATGGTAGTGCATCGATGCATAAAATG
1 AGTGCATCGATGCATGGTAGTGCATCGATGCATAAAATG
909225 TATTTGATAT
Statistics
Matches: 93, Mismatches: 4, Indels: 13
0.85 0.04 0.12
Matches are distributed among these distances:
62 3 0.03
63 20 0.22
64 64 0.69
65 4 0.04
66 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (63 bp):
AGTGCATCGATGCATGGTAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTG
Found at i:909262 original size:20 final size:20
Alignment explanation
Indices: 909237--909274 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
909227 TTTGATATGG
909237 TGAGTGCATCGATGCATCAA
1 TGAGTGCATCGATGCATCAA
*
909257 TGAGTGCATCGGTGCATC
1 TGAGTGCATCGATGCATC
909275 CTTTCTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAGTGCATCGATGCATCAA
Found at i:911729 original size:19 final size:20
Alignment explanation
Indices: 911698--911735 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
911688 GTGGAATGTG
911698 ATGATGTTTTGCACGATTTA
1 ATGATGTTTTGCACGATTTA
*
911718 ATGATG-TTTGCAGGATTT
1 ATGATGTTTTGCACGATTT
911736 GGAGATGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.45
Consensus pattern (20 bp):
ATGATGTTTTGCACGATTTA
Found at i:911970 original size:44 final size:45
Alignment explanation
Indices: 911912--912010 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 45
911902 GGCCTTGTGC
* * *
911912 ATCGATGCACATTC-AAGGCG-TGCATCGGTGCATCTTCAT-GATGT
1 ATCGATGCATATTCAAAGG-GATGCATCGATACATCTTCATAG-TGT
* *
911956 ATCGATGCATATTCAAAGGGATGCATCGATACGTTTTCATAGTGT
1 ATCGATGCATATTCAAAGGGATGCATCGATACATCTTCATAGTGT
912001 ATCGATGCAT
1 ATCGATGCAT
912011 TATGCACAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
44 14 0.30
45 32 0.68
46 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
ATCGATGCATATTCAAAGGGATGCATCGATACATCTTCATAGTGT
Found at i:920304 original size:63 final size:63
Alignment explanation
Indices: 920234--920374 Score: 216
Period size: 64 Copynumber: 2.2 Consensus size: 63
920224 GTGCACTAAG
* *
920234 AGTGCATCGATGCAT-AAATGCATTCGATGTTTT-A-AACAAGCGTGAGTGCATCGATGTATGGT
1 AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AA-CCTGAGTGCATCGATGCATGGT
920296 ATGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGATGCATGGT
1 A-GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGATGCATGGT
920360 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
920375 GGTAGTGCAT
Statistics
Matches: 73, Mismatches: 2, Indels: 7
0.89 0.02 0.09
Matches are distributed among these distances:
62 1 0.01
63 28 0.38
64 39 0.53
65 3 0.04
66 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (63 bp):
AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGATGCATGGT
Found at i:920365 original size:18 final size:18
Alignment explanation
Indices: 920342--920442 Score: 202
Period size: 18 Copynumber: 5.6 Consensus size: 18
920332 ATAAAACCTG
920342 AGTGCATCGATGCATGGT
1 AGTGCATCGATGCATGGT
920360 AGTGCATCGATGCATGGT
1 AGTGCATCGATGCATGGT
920378 AGTGCATCGATGCATGGT
1 AGTGCATCGATGCATGGT
920396 AGTGCATCGATGCATGGT
1 AGTGCATCGATGCATGGT
920414 AGTGCATCGATGCATGGT
1 AGTGCATCGATGCATGGT
920432 AGTGCATCGAT
1 AGTGCATCGAT
920443 TCATAAAATG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 83 1.00
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.28
Consensus pattern (18 bp):
AGTGCATCGATGCATGGT
Found at i:931560 original size:185 final size:186
Alignment explanation
Indices: 931317--931694 Score: 692
Period size: 185 Copynumber: 2.0 Consensus size: 186
931307 TTTCAATAAT
931317 TTTAAGAAAATAATTAATAGACATAAATAAGATATTTACTTTTAGAAATATCAGAAAAGGGCTTC
1 TTTAAG-AAATAATTAATAGACATAAATAAGATATTTACTTTTAGAAATATCAGAAAAGGGCTTC
931382 TAGGTGCTTTAAGACAGCTCTTTTCTTTGATATT-AAAAATAAATAAATATCAAAACATTTTATT
65 TAGGTGCTTTAAGACAGCTCTTTTCTTTGATATTAAAAAATAAATAAATATCAAAACATTTTATT
931446 TTAATATAGTAAGATATTTATTTATTC-AAAATATCAAAAAAGAGCTTCTAGGTACC
130 TTAATATAGTAAGATATTTATTTATTCAAAAATATCAAAAAAGAGCTTCTAGGTACC
*
931502 TTTAAGAAAT-ATTAATATACATAAATAAGATATTTACTTATTTAGAAATATCAGAAAAGGGCTT
1 TTTAAGAAATAATTAATAGACATAAATAAGATATTTAC-T-TTTAGAAATATCAGAAAAGGGCTT
931566 CTAGGTGCTTTAAGACAGCTCTTTTCTTTGATATTAAAAAATAAATAAATATCAAAACATTTTAT
64 CTAGGTGCTTTAAGACAGCTCTTTTCTTTGATATTAAAAAATAAATAAATATCAAAACATTTTAT
931631 TTTAATATAGTAAGATATTTATTTATTCAAAAATATCAAAAAAGAGCTTCTAGGTACC
129 TTTAATATAGTAAGATATTTATTTATTCAAAAATATCAAAAAAGAGCTTCTAGGTACC
931689 -TTAAGA
1 TTTAAGA
931695 CAGCTCTTTT
Statistics
Matches: 188, Mismatches: 1, Indels: 7
0.96 0.01 0.04
Matches are distributed among these distances:
183 26 0.14
184 5 0.03
185 65 0.35
186 63 0.34
187 29 0.15
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (186 bp):
TTTAAGAAATAATTAATAGACATAAATAAGATATTTACTTTTAGAAATATCAGAAAAGGGCTTCT
AGGTGCTTTAAGACAGCTCTTTTCTTTGATATTAAAAAATAAATAAATATCAAAACATTTTATTT
TAATATAGTAAGATATTTATTTATTCAAAAATATCAAAAAAGAGCTTCTAGGTACC
Found at i:931665 original size:114 final size:116
Alignment explanation
Indices: 931525--931855 Score: 397
Period size: 114 Copynumber: 2.8 Consensus size: 116
931515 AATATACATA
* * *
931525 AATAAGATATTTACTTATTTAGAAATATCAGAAAAGGGCTTCTAGGTGCTTTAAGACAGCTCTTT
1 AATAAGATATTTATTTA-TTAAAAATATCAGAAAAGGGCTTCTAGGTGCCTTAAGACAGCTCTTT
*
931590 TCTTTGATATTAAAAAATAAATAAATATCAAAACATTTTATT-T-TAA-TA-T
65 TCTTTGATATT-AAAAATAAATAAATATCAAAACATTTTATTATAAAATTATT
* * * *
931639 AGTAAGATATTTATTTATTCAAAAATATCAAAAAAGAGCTTCTAGGTACCTTAAGACAGCTCTTT
1 AATAAGATATTTATTTATT-AAAAATATCAGAAAAGGGCTTCTAGGTGCCTTAAGACAGCTCTTT
* * *
931704 TCTTTGATATTGAAAAATAAATAAATAACCAAACATTTTCTTAAAATAAAAATTATTTT
65 TCTTTGATATT-AAAAATAAATAAATATCAAAACATTTTATT---AT-AAAATTA--TT
* *
931763 AATAAGATATTTATTTATT-AAAATATCAGAAAATGACTTCTA-GTGCCTTAAGACAGCTCTTTT
1 AATAAGATATTTATTTATTAAAAATATCAGAAAAGGGCTTCTAGGTGCCTTAAGACAGCTCTTTT
*
931826 CTTCGATATT-AAAATAAATAAATATCAAAA
66 CTTTGATATTAAAAATAAATAAATATCAAAA
931856 ATATGATTAT
Statistics
Matches: 185, Mismatches: 21, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
113 2 0.01
114 93 0.50
118 1 0.01
119 18 0.10
120 2 0.01
121 31 0.17
122 19 0.10
124 19 0.10
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (116 bp):
AATAAGATATTTATTTATTAAAAATATCAGAAAAGGGCTTCTAGGTGCCTTAAGACAGCTCTTTT
CTTTGATATTAAAAATAAATAAATATCAAAACATTTTATTATAAAATTATT
Found at i:933132 original size:28 final size:28
Alignment explanation
Indices: 933100--933164 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
933090 TACTGCAGTT
933100 GGAAGCTGCTGGAATTTGCAACGTGGAG
1 GGAAGCTGCTGGAATTTGCAACGTGGAG
933128 GGAAGCTGCTGGAATTTGCAACGTGGAG
1 GGAAGCTGCTGGAATTTGCAACGTGGAG
933156 GG--GCTGCTG
1 GGAAGCTGCTG
933165 CAGCTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 7 0.19
28 30 0.81
ACGTcount: A:0.22, C:0.15, G:0.42, T:0.22
Consensus pattern (28 bp):
GGAAGCTGCTGGAATTTGCAACGTGGAG
Found at i:934312 original size:40 final size:41
Alignment explanation
Indices: 934212--934313 Score: 172
Period size: 40 Copynumber: 2.5 Consensus size: 41
934202 AAGTTGAACA
934212 AGTTCTTCTCATTATGAACT-TCTTCTTCCTTCTTCAGATG
1 AGTTCTTCTCATTATGAACTCTCTTCTTCCTTCTTCAGATG
* *
934252 AGTTCTTCTTATTATGAACTCT-TTCTTCTTTCTTCAGATG
1 AGTTCTTCTCATTATGAACTCTCTTCTTCCTTCTTCAGATG
934292 AGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTCT
934314 ACCTGGTAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 57 0.98
41 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.49
Consensus pattern (41 bp):
AGTTCTTCTCATTATGAACTCTCTTCTTCCTTCTTCAGATG
Found at i:934381 original size:153 final size:154
Alignment explanation
Indices: 934098--934425 Score: 586
Period size: 153 Copynumber: 2.1 Consensus size: 154
934088 AGGTTGAACA
* *
934098 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACC
1 AGTTCTTCTCATTATGAACTCTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACC
934163 TTCGTAATGTTGATCCATCGAATAATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
66 TTCGTAATGTTGATCCATCGAATAATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
934228 AACTTCTTCTTCCTTCTTCAGATG
131 AACTTCTTCTTCCTTCTTCAGATG
* *
934252 AGTTCTTCTTATTATGAACTCTTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACC
1 AGTTCTTCTCATTATGAACTCTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACC
* *
934317 -TGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
66 TTCGTAATGTTGATCCATCGAATAATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
*
934381 AACTTCTTCTTCTTTCTTCAGATG
131 AACTTCTTCTTCCTTCTTCAGATG
934405 AGTTCTTCTCATTATGAACTC
1 AGTTCTTCTCATTATGAACTC
934426 GACCTGGTAA
Statistics
Matches: 166, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
153 105 0.63
154 61 0.37
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (154 bp):
AGTTCTTCTCATTATGAACTCTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACC
TTCGTAATGTTGATCCATCGAATAATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATG
AACTTCTTCTTCCTTCTTCAGATG
Found at i:934409 original size:113 final size:113
Alignment explanation
Indices: 934252--934770 Score: 950
Period size: 113 Copynumber: 4.6 Consensus size: 113
934242 TCTTCAGATG
* * *
934252 AGTTCTTCTTATTATGAAC-TCTTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC
1 AGTTCTTCTCATTATGAACTTC-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
*
934316 CTGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACA
65 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACA
*
934365 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC
*
934430 TGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACA
66 TGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACA
*
934478 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACA
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC
934543 TGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACA
66 TGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACA
934591 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC
934656 TGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACA
66 TGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACA
*
934704 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC
934769 TG
66 TG
934771 AAAATGTTTT
Statistics
Matches: 398, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
113 396 0.99
114 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC
TGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACA
Found at i:934491 original size:266 final size:265
Alignment explanation
Indices: 933989--934538 Score: 973
Period size: 266 Copynumber: 2.1 Consensus size: 265
933979 AGGTTTAACA
933989 AGTTCTTCTTATTATGAA--CTTCTTCTTTCTTCAGATGAGTTCTCTCATTATGAACTCTACCTG
1 AGTTCTTCTTATTATGAACTCTTCTTCTTTCTTCAGATGAGTTCTCTCATTATGAACTCTACCTG
934052 GCAATGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
66 GCAATGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
* **
934117 TTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACCTTCGTAATGTTGATCCATC
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTTCGTAATGTTGATCCATC
934182 GAATAATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
196 GAATAATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
934247 AGATG
261 AGATG
934252 AGTTCTTCTTATTATGAACTCTTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACC
1 AGTTCTTCTTATTATGAACTC-TTCTTCTTTCTTCAGATGAGTTC-TCTCATTATGAACTCTACC
*
934317 TGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAA-GTTGAACAAGTTCTTCTCATTATG
64 TGGCAATGTTGATCCATCGAATGATGAATTCAAGC-AAAAGGTTGAACAAGTTCTTCTCATTATG
* *
934381 AACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC-TGGTAATGTTGATCC
128 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTTCGTAATGTTGATCC
*
934445 ATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
193 ATCGAATAATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
934510 TTCAGATG
258 TTCAGATG
*
934518 AGTTCTTCTCATTATGAACTC
1 AGTTCTTCTTATTATGAACTC
934539 GACATGGTAA
Statistics
Matches: 274, Mismatches: 8, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
263 18 0.07
265 1 0.00
266 129 0.47
267 122 0.45
268 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (265 bp):
AGTTCTTCTTATTATGAACTCTTCTTCTTTCTTCAGATGAGTTCTCTCATTATGAACTCTACCTG
GCAATGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTTCGTAATGTTGATCCATC
GAATAATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
AGATG
Found at i:934916 original size:76 final size:75
Alignment explanation
Indices: 934790--934970 Score: 265
Period size: 76 Copynumber: 2.4 Consensus size: 75
934780 TAATAATAAA
* * * *
934790 AAACATTC-TGCACTGTAGGGCTTACAGCTGACTCGAAGGTTTTGAAAACATCAAAAAGCTCCCA
1 AAACA-TCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCA
934854 AAGGCTTTTTGG
65 AA-GCTTTTTGG
* * *
934866 AAACATCATGCACTGTAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAA
934931 AGCTTTTTGG
66 AGCTTTTTGG
*
934941 AAACATCATACACTGTAGGACTTACAGATG
1 AAACATCATGCACTGTAGGACTTACAGATG
934971 TGGGAAATAG
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
75 39 0.41
76 56 0.59
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (75 bp):
AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAA
AGCTTTTTGG
Found at i:935672 original size:22 final size:22
Alignment explanation
Indices: 935647--935701 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
935637 AATAAAGCTT
935647 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
935669 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
935691 TCATCTTTGAA
1 TCATCTTTGAA
935702 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:936146 original size:54 final size:54
Alignment explanation
Indices: 936064--936221 Score: 262
Period size: 54 Copynumber: 2.9 Consensus size: 54
936054 TCATAATAGC
* *
936064 ATGTTCGTAAAACATTTGACAGCGCATTCATCCTTTCCTGTGGCTTCTGCTCAG
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAG
* *
936118 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGCTCAG
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAG
* *
936172 ACGTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
936222 CAAGATTTCT
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAG
Found at i:938477 original size:114 final size:114
Alignment explanation
Indices: 938277--938499 Score: 365
Period size: 114 Copynumber: 2.0 Consensus size: 114
938267 GATCATGCAG
* * *
938277 TTCATCTTTCAATTCTAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
* *
938342 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAA
* * * *
938391 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCGTACCAAATCAGATCATATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
938456 ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGA
66 ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGA
938500 TAACGTGGCA
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 100 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAA
Found at i:944720 original size:111 final size:115
Alignment explanation
Indices: 944557--944880 Score: 356
Period size: 111 Copynumber: 2.8 Consensus size: 115
944547 TATACATAAA
* * * *
944557 AAGATATTTACTTATTTAGAAATATCAGAAAAGGGCTTCTAGGTGCTTTAAGACAGCTCTTTTCT
1 AAGATATTTACTTATTCAGAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAGCTCTTTTCT
*
944622 TTGATATTAAAAAATAAATAAAT-ATCAAAACATTTTATTTTAATATAGT
66 TTGATATTAAAAAATAAATAAATAACCAAAACATTTTATTTTAATATAGT
*
944671 AAGATATTTATTTATTCA-AAATATCAG-AAAGAGCTT-TAGGTACCTTAAGACAGCTCTTTTCT
1 AAGATATTTACTTATTCAGAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAGCTCTTTTCT
* * * *
944733 TTGATATTGAAAAATAAATAAATAACCAAAACATTTTCTTAAAATAAAAATTTATTTTAAT
66 TTGATATTAAAAAATAAATAAATAACCAAAACA--TT-TT---AT-----TTTAATATAGT
* * * *
944794 AAGATATTTATTTATTTA-AAAGTATCAGAAAAGGGCTTCTAGGTGCCTTAAGACAGCTC-TTTC
1 AAGATATTTACTTATTCAGAAA-TATCAGAAAAGAGCTTCTAGGTACCTTAAGACAGCTCTTTTC
*
944857 TTCGATATT-AAAAATAAATAAATA
65 TTTGATATTAAAAAATAAATAAATA
944881 TCAAAATATG
Statistics
Matches: 181, Mismatches: 14, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
111 46 0.25
112 16 0.09
113 9 0.05
114 18 0.10
115 2 0.01
118 2 0.01
123 28 0.15
124 21 0.12
125 20 0.11
126 19 0.10
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (115 bp):
AAGATATTTACTTATTCAGAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAGCTCTTTTCT
TTGATATTAAAAAATAAATAAATAACCAAAACATTTTATTTTAATATAGT
Found at i:946967 original size:26 final size:27
Alignment explanation
Indices: 946925--946985 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 27
946915 GGTTTTGTAA
946925 TATTA-AATAATATATATAATAATTAT
1 TATTATAATAATATATATAATAATTAT
*
946951 TATTATAATTATA-ATATAATAATTAT
1 TATTATAATAATATATATAATAATTAT
946977 TA-TATAATA
1 TATTATAATA
946986 CATTAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 6 0.19
26 20 0.62
27 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTATAATAATATATATAATAATTAT
Found at i:946990 original size:29 final size:26
Alignment explanation
Indices: 946938--947002 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 26
946928 TAAATAATAT
*
946938 ATATAATAATTATTATTATAATTATA
1 ATATAATAATTATTATTATAATTAAA
946964 ATATAATAATTATTATATAATACATTAAA
1 ATATAATAATTATTAT-T-ATA-ATTAAA
*
946993 ATAAAATAAT
1 ATATAATAAT
947003 AAAAATGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 16 0.47
27 1 0.03
28 3 0.09
29 14 0.41
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATAATAATTATTATTATAATTAAA
Found at i:947415 original size:112 final size:113
Alignment explanation
Indices: 947213--947513 Score: 443
Period size: 113 Copynumber: 2.7 Consensus size: 113
947203 TAGAGTCATT
* *
947213 CAAAAGGTTGAATAAGCTCTTCTTATTATGAAC-T-TTC-T-CTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * *
947274 TTATGAACTTTCTCTGTAAAGGTTGATCCATTAAGTGATGAATTCAAG
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAAG
*
947322 CAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
947386 TTATGAACTCTT-TCTGGAAAAGATAATCCATCAAATGATGAATTCAAG
66 TTATGAACT-TTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAAG
* * *
947434 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
947499 TTATGAACTTTCTCT
66 TTATGAACTTTCTCT
947514 TTCTTCAGAT
Statistics
Matches: 172, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
108 25 0.15
109 6 0.03
110 3 0.02
111 1 0.01
112 68 0.40
113 69 0.40
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (113 bp):
CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAAG
Found at i:947487 original size:113 final size:112
Alignment explanation
Indices: 947213--947513 Score: 441
Period size: 112 Copynumber: 2.7 Consensus size: 112
947203 TAGAGTCATT
* *
947213 CAAAAGGTTGAATAAGCTCTTCTTATTATGAAC-T-TTC-TCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCAT
* * * * * *
947275 TATGAACTTTCTCTGTAAAGGTTGATCCATTAAGTGATGAATTCAAG
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAAG
*
947322 CAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCA
947386 TTATGAACTCTT-TCTGGAAAAGATAATCCATCAAATGATGAATTCAAG
65 TTATGAACT-TTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAAG
* *
947434 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCA
947499 TTATGAACTTTCTCT
65 TTATGAACTTTCTCT
947514 TTCTTCAGAT
Statistics
Matches: 172, Mismatches: 12, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
108 25 0.15
109 6 0.03
110 3 0.02
111 1 0.01
112 69 0.40
113 68 0.40
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (112 bp):
CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAAG
Found at i:947494 original size:150 final size:152
Alignment explanation
Indices: 947335--947815 Score: 706
Period size: 150 Copynumber: 3.2 Consensus size: 152
947325 AAGTTGAACA
* *
947335 AGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCTTTC
1 AGTTCTTCTCATTATGAAC-TCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCTATC
* * * * *
947400 TGGAAAAGATAATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
65 TGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGA
* *
947465 ACTTCTTCTTCATTCTTCAGATG
130 ACTTATTCTTCCTTCTTCAGATG
* * *
947488 AGTTCTTCTCATTATGAACT-TTC-TCTTTCTTCAGATGAATTCTTCTCATTATGAACTATACCT
1 AGTTCTTCTCATTATGAACTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCTATCT
947551 GGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA
66 GGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA
947616 CTTATTCTTCCTTCTTCAGATG
131 CTTATTCTTCCTTCTTCAGATG
947638 ACGAATTCTTCTCATTATGAA--C-TCTT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACT
1 A-G--TTCTTCTCATTATGAACTCTTCTTCCTTCTTCAGATGA--A-TTCTTCTCATTATGAACT
* * *
947699 CTATCTGGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAGGTTGTACAAATTCTTCTTAT
60 CTATCTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCAT
*
947764 TATGAACTTTTTCTTCCTTCTTCAGATG
125 TATGAACTTATTCTTCCTTCTTCAGATG
947792 AGTTCTTCTCATTATGAACT-TTCT
1 AGTTCTTCTCATTATGAACTCTTCT
947816 CTGGAAAAGT
Statistics
Matches: 298, Mismatches: 19, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
150 117 0.39
151 34 0.11
152 2 0.01
153 39 0.13
154 106 0.36
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (152 bp):
AGTTCTTCTCATTATGAACTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCTATCT
GGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA
CTTATTCTTCCTTCTTCAGATG
Found at i:947531 original size:37 final size:39
Alignment explanation
Indices: 947448--947544 Score: 153
Period size: 37 Copynumber: 2.5 Consensus size: 39
947438 AGGTTGAACA
947448 AATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATG
1 AATTCTTCTCATTATGAAC-TCTTCTTCATTCTTCAGATG
* *
947488 AGTTCTTCTCATTATGAACT-TTC-TCTTTCTTCAGATG
1 AATTCTTCTCATTATGAACTCTTCTTCATTCTTCAGATG
947525 AATTCTTCTCATTATGAACT
1 AATTCTTCTCATTATGAACT
947545 ATACCTGGCA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
37 32 0.59
38 3 0.06
39 1 0.02
40 18 0.33
ACGTcount: A:0.23, C:0.22, G:0.08, T:0.47
Consensus pattern (39 bp):
AATTCTTCTCATTATGAACTCTTCTTCATTCTTCAGATG
Found at i:947657 original size:19 final size:19
Alignment explanation
Indices: 947635--947695 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
947625 CCTTCTTCAG
947635 ATGACGAATTCTTCTCATT
1 ATGACGAATTCTTCTCATT
** *
947654 ATGAAC-TCTTCTTCTTCA-G
1 ATG-ACGAATTCTTC-TCATT
*
947673 ATGACGAGTTCTTCTCATT
1 ATGACGAATTCTTCTCATT
947692 ATGA
1 ATGA
947696 ACTCTATCTG
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 5 0.16
19 22 0.69
20 5 0.16
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (19 bp):
ATGACGAATTCTTCTCATT
Found at i:947673 original size:38 final size:39
Alignment explanation
Indices: 947598--947700 Score: 154
Period size: 38 Copynumber: 2.6 Consensus size: 39
947588 AGGTTGAACA
947598 AATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGACG
1 AATTCTTCTCATTATGAAC----TCTTCCTTCTTCAGATGACG
947641 AATTCTTCTCATTATGAACTCTT-CTTCTTCAGATGACG
1 AATTCTTCTCATTATGAACTCTTCCTTCTTCAGATGACG
*
947679 AGTTCTTCTCATTATGAACTCT
1 AATTCTTCTCATTATGAACTCT
947701 ATCTGGCAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
38 36 0.61
39 4 0.07
43 19 0.32
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (39 bp):
AATTCTTCTCATTATGAACTCTTCCTTCTTCAGATGACG
Found at i:947809 original size:113 final size:113
Alignment explanation
Indices: 947641--948400 Score: 1082
Period size: 113 Copynumber: 6.8 Consensus size: 113
947631 TCAGATGACG
** * * *
947641 AATTCTTCTCATTATGAAC-TCTTCTT-CTTC-AGATGACGAGTTCTTCTCATTATGAACTCTAT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATGAACTTTCT
* * * * * * ** *
947703 CTGGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAGGTTGTACA
65 CTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACA
* *
947752 AATTCTTCTTATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* *
947817 TGGAAAAGTTGATCTATCAAGTGATGAATTCAGGCAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACA
*
947865 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
947930 TGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACA
*
947978 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
948043 TGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACA
*
948091 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
948156 TGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACA
* *
948204 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAAGTAATGAGTTCTTCTCATTATGAACTCT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC-AG--ATGAGTTCTTCTCATTATGAACT-T
* *** * ** *
948269 AC-CTGGAAATTTTAATCCATCACA-TGATGAATTCAAACAAAAGGTTAAACA
62 TCTCTGGAAAAGCTGATCCATCA-AGTGATGAATTCAGGCAAAAGGTTGAACA
948320 AATTCTTCTCATTATGAA----------CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
948375 TGGAAAAGCTGATCCATCAAGTGATG
66 TGGAAAAGCTGATCCATCAAGTGATG
948401 GATTTAAATC
Statistics
Matches: 601, Mismatches: 38, Indels: 28
0.90 0.06 0.04
Matches are distributed among these distances:
102 3 0.00
103 44 0.07
105 2 0.00
106 6 0.01
111 18 0.03
112 6 0.01
113 435 0.72
114 3 0.00
116 81 0.13
117 3 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACA
Found at i:949488 original size:83 final size:83
Alignment explanation
Indices: 949340--949559 Score: 359
Period size: 83 Copynumber: 2.7 Consensus size: 83
949330 GGTTTCATAT
* *
949340 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
949405 TTCAATAACTGGTTTTAC
66 TTCAATAACTGGTTTTAC
* * *
949423 CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGATCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
* *
949488 TTCAATGATTGGTTTTAC
66 TTCAATAACTGGTTTTAC
* *
949506 CAAACCAGATCAGATAAATCAAAGAACACTTCCAGAAGATGCTATGAGTACATT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
949560 GCATTTGTTC
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 126 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.26
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
TTCAATAACTGGTTTTAC
Found at i:950719 original size:8 final size:8
Alignment explanation
Indices: 950706--950755 Score: 57
Period size: 9 Copynumber: 6.0 Consensus size: 8
950696 CTTGACCCCC
950706 CTTTTTTT
1 CTTTTTTT
950714 C-TTTTTT
1 CTTTTTTT
*
950721 CTTTTTCT
1 CTTTTTTT
950729 CTTTTTTTT
1 C-TTTTTTT
950738 CTTTTTTCTT
1 C-TTTTT-TT
950748 CTTTTTTT
1 CTTTTTTT
950756 TTCAAGCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
7 7 0.19
8 9 0.24
9 18 0.49
10 3 0.08
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
CTTTTTTT
Found at i:950720 original size:7 final size:7
Alignment explanation
Indices: 950708--950758 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
950698 TGACCCCCCT
950708 TTTTTTC
1 TTTTTTC
950715 TTTTTTC
1 TTTTTTC
950722 TTTTTCTC
1 TTTTT-TC
950730 TTTTTTTTC
1 --TTTTTTC
950739 TTTTTTC
1 TTTTTTC
*
950746 TTCTTT-
1 TTTTTTC
950752 TTTTTTC
1 TTTTTTC
950759 AAGCATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
6 5 0.13
7 24 0.63
8 2 0.05
9 2 0.05
10 5 0.13
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:950737 original size:17 final size:19
Alignment explanation
Indices: 950715--950756 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
950705 CCTTTTTTTC
950715 TTTTTTC-TTTTTC-TCTT
1 TTTTTTCTTTTTTCTTCTT
950732 TTTTTTCTTTTTTCTTCTT
1 TTTTTTCTTTTTTCTTCTT
950751 TTTTTT
1 TTTTTT
950757 TCAAGCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 7 0.30
18 6 0.26
19 10 0.43
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTCTTTTTTCTTCTT
Found at i:958103 original size:15 final size:15
Alignment explanation
Indices: 958080--958111 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
958070 TGAAATGAAT
958080 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
958095 AATGCATGTATGCAA
1 AATGAATGTATGCAA
958110 AA
1 AA
958112 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:963572 original size:3 final size:3
Alignment explanation
Indices: 963554--963609 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
963544 TGTAATATTA
* * * * *
963554 AAT AAT ATAT ATT AAT AAT AAT TAT TAT TAT AAT TAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
963600 AAT AAT AAT A
1 AAT AAT AAT A
963610 TAAATAACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
AAT
Found at i:963595 original size:9 final size:9
Alignment explanation
Indices: 963546--963605 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
963536 TTGGGTTTTG
963546 TAAT-ATTA
1 TAATAATTA
963554 -AATAATATA
1 TAATAAT-TA
* *
963563 TATTAATAA
1 TAATAATTA
*
963572 TAATTATTA
1 TAATAATTA
*
963581 TTATAATTA
1 TAATAATTA
*
963590 TAATAATAA
1 TAATAATTA
963599 TAATAAT
1 TAATAAT
963606 AATATAAATA
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 30 0.75
10 5 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TAATAATTA
Found at i:969295 original size:30 final size:29
Alignment explanation
Indices: 969253--969327 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 29
969243 CAAACCCGTC
**
969253 CCCGTCCCCCGTTTAGCATAAACGGTTTTTT
1 CCCGT-CCCCGTTTAGCATAAAC-AATTTTT
969284 CCCGTCCCCGTTTAGCATAAACAATTTTT
1 CCCGTCCCCGTTTAGCATAAACAATTTTT
969313 CTCCGTCCCCGTTTA
1 C-CCGTCCCCGTTTA
969328 ATTCAGTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
29 6 0.15
30 30 0.73
31 5 0.12
ACGTcount: A:0.17, C:0.35, G:0.13, T:0.35
Consensus pattern (29 bp):
CCCGTCCCCGTTTAGCATAAACAATTTTT
Found at i:972995 original size:258 final size:258
Alignment explanation
Indices: 972538--973005 Score: 875
Period size: 258 Copynumber: 1.8 Consensus size: 258
972528 CTATCATACA
972538 GTCTTGTGTCCGCATTTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGATTCAAGTCGAACGG
1 GTCTTGTGTCCGCATTTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGATTCAAGTCGAACGG
972603 AATGAGGCATCGACACTTTCGATTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGATTCAAGT
66 AATGAGGCATCGACACTTTCGATTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGATTCAAGT
* *
972668 CGAACAGAATGAGGCATCGGCACTTCCGATTCAAATCGAACAGAAGGAAGCATCGGCACTTCCGA
131 CGAACAGAAGGAGACATCGGCACTTCCGATTCAAATCGAACAGAAGGAAGCATCGGCACTTCCGA
972733 TTCAAATCGAACAGACAGATGTATCGCACTTTCGTTTCAAGTGTTCGTCTTTTCATCAAGAAG
196 TTCAAATCGAACAGACAGATGTATCGCACTTTCGTTTCAAGTGTTCGTCTTTTCATCAAGAAG
972796 GTCTTGTGTCCGCATTTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGATTCAAGTCGAACGG
1 GTCTTGTGTCCGCATTTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGATTCAAGTCGAACGG
972861 AATGAGGCATCGACACTTTCGATTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGATTCAAGT
66 AATGAGGCATCGACACTTTCGATTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGATTCAAGT
* * *
972926 CGAACGGAAGGAGACATCGGCACTTTCGATTCAAATCGAACGGAAGG-AGACATCGGCACTTCCG
131 CGAACAGAAGGAGACATCGGCACTTCCGATTCAAATCGAACAGAAGGAAG-CATCGGCACTTCCG
972990 ATTCAAATCGAACAGA
195 ATTCAAATCGAACAGA
973006 AGGAAGCATC
Statistics
Matches: 204, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
257 2 0.01
258 202 0.99
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (258 bp):
GTCTTGTGTCCGCATTTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGATTCAAGTCGAACGG
AATGAGGCATCGACACTTTCGATTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGATTCAAGT
CGAACAGAAGGAGACATCGGCACTTCCGATTCAAATCGAACAGAAGGAAGCATCGGCACTTCCGA
TTCAAATCGAACAGACAGATGTATCGCACTTTCGTTTCAAGTGTTCGTCTTTTCATCAAGAAG
Found at i:973041 original size:36 final size:36
Alignment explanation
Indices: 972553--973038 Score: 523
Period size: 36 Copynumber: 13.3 Consensus size: 36
972543 GTGTCCGCAT
972553 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
1 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
* *
972589 TTCAAGTCGAACGGAATGAGGCATCGACACTTTCGA
1 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
972625 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
1 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
*
972661 TTCAAGTCGAACAGAATGAGGCATCGGCACTTCCGA
1 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
* * * *
972697 TTCAAATCGAACAGAAGGAAGCATCGGCACTTCCGA
1 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
* * * * * *
972733 TTCAAATCGAACAGACA-GATGTATC-GCACTTTCGT
1 TTCAAGTCGAACGGA-ATGAGGCATCGGCACTTCCGA
* *** * * * **
972768 TTCAAGTGTTCG-TCTTTTCATCAAG-A-AGGTCTTGTGTCCGCA
1 TTCAA--G-TCGAAC--GGAATGAGGCATCGG-C-ACT-TCCG-A
972810 TTTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
1 -TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
* *
972847 TTCAAGTCGAACGGAATGAGGCATCGACACTTTCGA
1 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
972883 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
1 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
* * *
972919 TTCAAGTCGAACGGAAGGAGACATCGGCACTTTCGA
1 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
* * *
972955 TTCAAATCGAACGGAAGGAGACATCGGCACTTCCGA
1 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
* * * *
972991 TTCAAATCGAACAGAAGGAAGCATCGGCACTTCCGA
1 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
*
973027 TTCAAATCGAAC
1 TTCAAGTCGAAC
973039 AGACAGATGT
Statistics
Matches: 389, Mismatches: 45, Indels: 32
0.83 0.10 0.07
Matches are distributed among these distances:
35 13 0.03
36 337 0.87
37 3 0.01
38 10 0.03
39 8 0.02
40 6 0.02
41 7 0.02
43 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (36 bp):
TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
Found at i:973082 original size:294 final size:294
Alignment explanation
Indices: 972553--973091 Score: 970
Period size: 294 Copynumber: 1.8 Consensus size: 294
972543 GTGTCCGCAT
*
972553 TTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGATTCAAGTCGAACGGAATGAGGCATCGACA
1 TTCAAGTCGAACGGAATGAGGCATCGACACTTCCGATTCAAGTCGAACGGAATGAGGCATCGACA
* * * * * *
972618 CTTTCGATTCAAGTCGAACGGAATGAGGCATCGGCACTTCCGATTCAAGTCGAACAGAATGAGGC
66 CTTCCGATTCAAGTCGAACGGAAGGAGACATCGGCACTTCCGATTCAAATCGAACAGAAGGAGAC
972683 ATCGGCACTTCCGATTCAAATCGAACAGAAGGAAGCATCGGCACTTCCGATTCAAATCGAACAGA
131 ATCGGCACTTCCGATTCAAATCGAACAGAAGGAAGCATCGGCACTTCCGATTCAAATCGAACAGA
972748 CAGATGTATCGCACTTTCGTTTCAAGTGTTCGTCTTTTCATCAAGAAGGTCTTGTGTCCGCATTT
196 CAGATGTATCGCACTTTCGTTTCAAGTGTTCGTCTTTTCATCAAGAAGGTCTTGTGTCCGCATTT
972813 CAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
261 CAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
* *
972847 TTCAAGTCGAACGGAATGAGGCATCGACACTTTCGATTCAAGTCGAACGGAATGAGGCATCGGCA
1 TTCAAGTCGAACGGAATGAGGCATCGACACTTCCGATTCAAGTCGAACGGAATGAGGCATCGACA
* *
972912 CTTCCGATTCAAGTCGAACGGAAGGAGACATCGGCACTTTCGATTCAAATCGAACGGAAGGAGAC
66 CTTCCGATTCAAGTCGAACGGAAGGAGACATCGGCACTTCCGATTCAAATCGAACAGAAGGAGAC
972977 ATCGGCACTTCCGATTCAAATCGAACAGAAGGAAGCATCGGCACTTCCGATTCAAATCGAACAGA
131 ATCGGCACTTCCGATTCAAATCGAACAGAAGGAAGCATCGGCACTTCCGATTCAAATCGAACAGA
*
973042 CAGATGTATCGCACTTTCGTTTTAAGTGTTCGTCTTTTCATCAAGAAGGT
196 CAGATGTATCGCACTTTCGTTTCAAGTGTTCGTCTTTTCATCAAGAAGGT
973092 TGAAGAAGTC
Statistics
Matches: 233, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
294 233 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.23
Consensus pattern (294 bp):
TTCAAGTCGAACGGAATGAGGCATCGACACTTCCGATTCAAGTCGAACGGAATGAGGCATCGACA
CTTCCGATTCAAGTCGAACGGAAGGAGACATCGGCACTTCCGATTCAAATCGAACAGAAGGAGAC
ATCGGCACTTCCGATTCAAATCGAACAGAAGGAAGCATCGGCACTTCCGATTCAAATCGAACAGA
CAGATGTATCGCACTTTCGTTTCAAGTGTTCGTCTTTTCATCAAGAAGGTCTTGTGTCCGCATTT
CAAGTCGAACGGAATGAGGCATCGGCACTTCCGA
Found at i:974226 original size:2 final size:2
Alignment explanation
Indices: 974219--974250 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
974209 TTTTTCAAAC
974219 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
974251 TTATTACGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:981920 original size:21 final size:22
Alignment explanation
Indices: 981876--981930 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
981866 AATTGGGCAT
*
981876 CCCTTTTTGACCCATTCAGTCC
1 CCCTTTTTGACTCATTCAGTCC
981898 CCCTTTTTGACTCATTCAG-CC
1 CCCTTTTTGACTCATTCAGTCC
*
981919 CCCTTCTTGACT
1 CCCTTTTTGACT
981931 TTCAAGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.13, C:0.40, G:0.09, T:0.38
Consensus pattern (22 bp):
CCCTTTTTGACTCATTCAGTCC
Found at i:987408 original size:2 final size:2
Alignment explanation
Indices: 987401--987426 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
987391 ACTGTAAATG
987401 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
987427 GCCCTCTTTT
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:991324 original size:21 final size:21
Alignment explanation
Indices: 991300--991360 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
991290 AACTTTGAAA
991300 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
991321 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
991335 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
991356 AAATG
1 AAATG
991361 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:991338 original size:35 final size:35
Alignment explanation
Indices: 991299--991410 Score: 172
Period size: 35 Copynumber: 3.2 Consensus size: 35
991289 CAACTTTGAA
991299 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
991334 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
* * *
991369 AAAAATAGTTTTTCAAAGTTTGGTAGATGTTT-GTTG
1 -AAAAT-GGTTTTCAAAGTTTGGTAAATGTTTCTTTG
991405 AAAATG
1 AAAATG
991411 ATAATGGGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
34 1 0.01
35 40 0.56
36 8 0.11
37 23 0.32
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Found at i:991827 original size:16 final size:17
Alignment explanation
Indices: 991806--991837 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
991796 TACTATTCAT
991806 GTGAATAGT-GAATTTC
1 GTGAATAGTAGAATTTC
991822 GTGAATAGTAGAATTT
1 GTGAATAGTAGAATTT
991838 TGTCGGCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (17 bp):
GTGAATAGTAGAATTTC
Found at i:995934 original size:21 final size:21
Alignment explanation
Indices: 995910--995970 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
995900 AACTTTGAAA
995910 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
995931 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
*
995945 AAATGGTTTTCAAAGTTTGAT
1 AAATGGTTTTCAAAGTTTGGT
995966 AAATG
1 AAATG
995971 TTTCTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 9 0.30
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:996016 original size:36 final size:36
Alignment explanation
Indices: 995902--996021 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
995892 TGGTAACCAA
995902 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
995939 CTTTG-AAAATGGTTTTCAAAGTTTGATAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
995974 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
996011 -GTTGAAAAATG
1 CTTTGAAAAATG
996022 ATAATGGGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 35 0.46
36 14 0.18
37 27 0.36
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:997122 original size:30 final size:30
Alignment explanation
Indices: 997059--997168 Score: 96
Period size: 31 Copynumber: 3.6 Consensus size: 30
997049 TCAGCTTGAC
* * * * *
997059 CCCTAAACTTTAAATGAGTTATTATTTTGA
1 CCCTTAACTTTAGATAAATTATTATTTTAA
* *
997089 CCCTGT-ATTTTAGATAAATTATCATTTTAA
1 CCCT-TAACTTTAGATAAATTATTATTTTAA
*
997119 CCCTTAAACTTTAGATAAATTATTATTTTAT
1 CCCTT-AACTTTAGATAAATTATTATTTTAA
* *
997150 CCTTTAAACTTTAAATAAA
1 CCCTT-AACTTTAGATAAA
997169 ATATCAATAT
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
29 1 0.02
30 26 0.40
31 38 0.58
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (30 bp):
CCCTTAACTTTAGATAAATTATTATTTTAA
Found at i:997135 original size:31 final size:31
Alignment explanation
Indices: 997097--997174 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
997087 GACCCTGTAT
997097 TTTAGATAAATTATCATTTTAACCCTTAAAC
1 TTTAGATAAATTATCATTTTAACCCTTAAAC
* * *
997128 TTTAGATAAATTATTATTTTATCCTTTAAAC
1 TTTAGATAAATTATCATTTTAACCCTTAAAC
* *
997159 TTTAAATAAAATATCA
1 TTTAGATAAATTATCA
997175 ATATAACTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.45
Consensus pattern (31 bp):
TTTAGATAAATTATCATTTTAACCCTTAAAC
Found at i:998507 original size:57 final size:57
Alignment explanation
Indices: 998445--998562 Score: 236
Period size: 57 Copynumber: 2.1 Consensus size: 57
998435 ATATTTTACC
998445 TTAAATATTATGTTGTAGTTAATTTGAATCATTTTGTTTCACTTGATTTTATGGTTT
1 TTAAATATTATGTTGTAGTTAATTTGAATCATTTTGTTTCACTTGATTTTATGGTTT
998502 TTAAATATTATGTTGTAGTTAATTTGAATCATTTTGTTTCACTTGATTTTATGGTTT
1 TTAAATATTATGTTGTAGTTAATTTGAATCATTTTGTTTCACTTGATTTTATGGTTT
998559 TTAA
1 TTAA
998563 CTTATATATG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (57 bp):
TTAAATATTATGTTGTAGTTAATTTGAATCATTTTGTTTCACTTGATTTTATGGTTT
Done.