Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold158
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: 3161772
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 138004 characters in sequence are not A, C, G, or T
File 3 of 9
Found at i:703826 original size:20 final size:20
Alignment explanation
Indices: 703788--703827 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
703778 AACATTCCTT
*
703788 AACTTAAGATAACATAAAAA
1 AACTTAAGATAAAATAAAAA
703808 AACTT-AGATAAAATCAAAAA
1 AACTTAAGATAAAAT-AAAAA
703828 TCATACTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.65, C:0.10, G:0.05, T:0.20
Consensus pattern (20 bp):
AACTTAAGATAAAATAAAAA
Found at i:711166 original size:17 final size:17
Alignment explanation
Indices: 711104--711168 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 17
711094 ATTTTAATAG
711104 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
*
711121 TTAAATATATTAAAGTGATT-A
1 TT-TA-ATATTAAA-T--TTAA
711142 TCTTAATATTAAATTTAA
1 T-TTAATATTAAATTTAA
711160 TTTAATATT
1 TTTAATATT
711169 TATCTTGTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
17 12 0.31
18 3 0.08
19 9 0.23
20 9 0.23
21 3 0.08
22 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:711212 original size:62 final size:59
Alignment explanation
Indices: 711144--711260 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
711134 AGTGATTATC
* * *
711144 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-TA-ATAAACATTATATTAATTTAATAAGAT
* *
711206 TTAATATTATATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTAATAAACATTATATTAATTTAATA
711261 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
60 2 0.04
61 1 0.02
62 27 0.54
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTAATAAACATTATATTAATTTAATAAGAT
Found at i:711475 original size:23 final size:23
Alignment explanation
Indices: 711432--711481 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
711422 TATTTAGAGA
* *
711432 AATTGTAAAATTACTCCACTGGT
1 AATTGTAAAATTACTACACTGGG
*
711455 AATTGTAAAATTACTATACTGGG
1 AATTGTAAAATTACTACACTGGG
711478 AATT
1 AATT
711482 TTTGTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (23 bp):
AATTGTAAAATTACTACACTGGG
Found at i:712223 original size:34 final size:38
Alignment explanation
Indices: 712184--712255 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 38
712174 TATATTTGTT
*
712184 TTATAATTGT-T-TATA-ATATTTATAT-TATGAAATA
1 TTATAATTGTATATATATATATATATATATATGAAATA
712218 TTATAATTGTGATATATATATATATATATATATGAAAT
1 TTATAATTGT-ATATATATATATATATATATATGAAAT
712256 GATCCACAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
34 10 0.31
36 1 0.03
37 4 0.12
38 9 0.28
39 8 0.25
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (38 bp):
TTATAATTGTATATATATATATATATATATATGAAATA
Found at i:712861 original size:650 final size:650
Alignment explanation
Indices: 711620--712919 Score: 2584
Period size: 650 Copynumber: 2.0 Consensus size: 650
711610 ATCATAACCA
711620 AGATCTTATTTTGGAAAAACTTTTAAAACTCTGATTTTTCCCTAAATTTATTTTCCGCTTCATTT
1 AGATCTTATTTTGGAAAAACTTTTAAAACTCTGATTTTTCCCTAAATTTATTTTCCGCTTCATTT
711685 TCCAAACTCGTTTTTCCAACAATTGGTATCATGAGTTAGGTTGTGTTTTATCTATAAGTATAAAT
66 TCCAAACTCGTTTTTCCAACAATTGGTATCATGAGTTAGGTTGTGTTTTATCTATAAGTATAAAT
711750 AGCTAATCAAAATAAATTTCTCTTCTTCTTGAATGATTTGAATATATAGAAAGTGGCATTCTTTA
131 AGCTAATCAAAATAAATTTCTCTTCTTCTTGAATGATTTGAATATATAGAAAGTGGCATTCTTTA
711815 GATCTTATGCATGTTTTGAGTTATAAATGGGAATGGATGAGATATTATATATTTGTTATATAATC
196 GATCTTATGCATGTTTTGAGTTATAAATGGGAATGGATGAGATATTATATATTTGTTATATAATC
711880 ATTTTTACTGTCGAGGTTGTGGTTCTTAGGAAATAGACCGTGGACTATCATTTCCATGTAGGGCT
261 ATTTTTACTGTCGAGGTTGTGGTTCTTAGGAAATAGACCGTGGACTATCATTTCCATGTAGGGCT
711945 ATATTTTTTAAAAATCCATAGAATTCTTGTGAGCTAGAAACGGGAATAGGACTTAAATGTAATTT
326 ATATTTTTTAAAAATCCATAGAATTCTTGTGAGCTAGAAACGGGAATAGGACTTAAATGTAATTT
712010 TTCCAAAAAAGTCCATGAACGAGGAAAAGATGCGATGGCGGTTGATGACCCAATGAATGTCTTGT
391 TTCCAAAAAAGTCCATGAACGAGGAAAAGATGCGATGGCGGTTGATGACCCAATGAATGTCTTGT
712075 GGTGAAAAATTATGTAATTTTAGTTTTCCATTTATTTTCTAGGAATATAACCATTTAAAACCCTG
456 GGTGAAAAATTATGTAATTTTAGTTTTCCATTTATTTTCTAGGAATATAACCATTTAAAACCCTG
712140 GCTGCCAATTTTATTTTAATTATCTATCTCATTATATATTTGTTTTATAATTGTTTATAATATTT
521 GCTGCCAATTTTATTTTAATTATCTATCTCATTATATATTTGTTTTATAATTGTTTATAATATTT
712205 ATATTATGAAATATTATAATTGTGATATATATATATATATATATATGAAATGATCCACAGTTGAC
586 ATATTATGAAATATTATAATTGTGATATATATATATATATATATATGAAATGATCCACAGTTGAC
712270 AGATCTTATTTTGGAAAAACTTTTAAAACTCTGATTTTTCCCTAAATTTATTTTCCGCTTCATTT
1 AGATCTTATTTTGGAAAAACTTTTAAAACTCTGATTTTTCCCTAAATTTATTTTCCGCTTCATTT
712335 TCCAAACTCGTTTTTCCAACAATTGGTATCATGAGTTAGGTTGTGTTTTATCTATAAGTATAAAT
66 TCCAAACTCGTTTTTCCAACAATTGGTATCATGAGTTAGGTTGTGTTTTATCTATAAGTATAAAT
712400 AGCTAATCAAAATAAATTTCTCTTCTTCTTGAATGATTTGAATATATAGAAAGTGGCATTCTTTA
131 AGCTAATCAAAATAAATTTCTCTTCTTCTTGAATGATTTGAATATATAGAAAGTGGCATTCTTTA
712465 GATCTTATGCATGTTTTGAGTTATAAATGGGAATGGATGAGATATTATATATTTGTTATATAATC
196 GATCTTATGCATGTTTTGAGTTATAAATGGGAATGGATGAGATATTATATATTTGTTATATAATC
712530 ATTTTTACTGTCGAGGTTGTGGTTCTTAGGAAATAGACCGTGGACTATCATTTCCATGTAGGGCT
261 ATTTTTACTGTCGAGGTTGTGGTTCTTAGGAAATAGACCGTGGACTATCATTTCCATGTAGGGCT
712595 ATATTTTTTAAAAATCCATAGAATTCTTGTGAGCTAGAAACGGGAATAGGACTTAAATGTAATTT
326 ATATTTTTTAAAAATCCATAGAATTCTTGTGAGCTAGAAACGGGAATAGGACTTAAATGTAATTT
712660 TTCCAAAAGAAGTCCATG-ACGAGGAAAAGATGCGATGGCGGTTGATGACCCAATGAATGTCTTG
391 TTCCAAAA-AAGTCCATGAACGAGGAAAAGATGCGATGGCGGTTGATGACCCAATGAATGTCTTG
712724 TGGTGAAAAATTATGTAATTTTAGTTTTCCATTTATTTTCTAGGAATATAACCATTTAAAACCCT
455 TGGTGAAAAATTATGTAATTTTAGTTTTCCATTTATTTTCTAGGAATATAACCATTTAAAACCCT
712789 GGCTGCCAATTTTATTTTAATTATCTATCTCATTATATATTTGTTTTATAATTGTTTATAATATT
520 GGCTGCCAATTTTATTTTAATTATCTATCTCATTATATATTTGTTTTATAATTGTTTATAATATT
712854 TATATTATGAAATATTATAATTGTGATATATATATATATATATATATGAAATGATCCACAGTTGA
585 TATATTATGAAATATTATAATTGTGATATATATATATATATATATATGAAATGATCCACAGTTGA
712919 C
650 C
712920 CGATTAAAAA
Statistics
Matches: 649, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
650 640 0.99
651 9 0.01
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (650 bp):
AGATCTTATTTTGGAAAAACTTTTAAAACTCTGATTTTTCCCTAAATTTATTTTCCGCTTCATTT
TCCAAACTCGTTTTTCCAACAATTGGTATCATGAGTTAGGTTGTGTTTTATCTATAAGTATAAAT
AGCTAATCAAAATAAATTTCTCTTCTTCTTGAATGATTTGAATATATAGAAAGTGGCATTCTTTA
GATCTTATGCATGTTTTGAGTTATAAATGGGAATGGATGAGATATTATATATTTGTTATATAATC
ATTTTTACTGTCGAGGTTGTGGTTCTTAGGAAATAGACCGTGGACTATCATTTCCATGTAGGGCT
ATATTTTTTAAAAATCCATAGAATTCTTGTGAGCTAGAAACGGGAATAGGACTTAAATGTAATTT
TTCCAAAAAAGTCCATGAACGAGGAAAAGATGCGATGGCGGTTGATGACCCAATGAATGTCTTGT
GGTGAAAAATTATGTAATTTTAGTTTTCCATTTATTTTCTAGGAATATAACCATTTAAAACCCTG
GCTGCCAATTTTATTTTAATTATCTATCTCATTATATATTTGTTTTATAATTGTTTATAATATTT
ATATTATGAAATATTATAATTGTGATATATATATATATATATATATGAAATGATCCACAGTTGAC
Found at i:712873 original size:34 final size:38
Alignment explanation
Indices: 712834--712905 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 38
712824 TATATTTGTT
*
712834 TTATAATTGT-T-TATA-ATATTTATAT-TATGAAATA
1 TTATAATTGTATATATATATATATATATATATGAAATA
712868 TTATAATTGTGATATATATATATATATATATATGAAAT
1 TTATAATTGT-ATATATATATATATATATATATGAAAT
712906 GATCCACAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
34 10 0.31
36 1 0.03
37 4 0.12
38 9 0.28
39 8 0.25
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (38 bp):
TTATAATTGTATATATATATATATATATATATGAAATA
Found at i:717628 original size:24 final size:24
Alignment explanation
Indices: 717601--717651 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
717591 TCCTAACGTG
717601 ATAGGATTTTATGGGACGTAATGT
1 ATAGGATTTTATGGGACGTAATGT
717625 ATAGGATTTTATGGGACGTAATGT
1 ATAGGATTTTATGGGACGTAATGT
717649 ATA
1 ATA
717652 ATCATCAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.37
Consensus pattern (24 bp):
ATAGGATTTTATGGGACGTAATGT
Found at i:718450 original size:26 final size:26
Alignment explanation
Indices: 718397--718463 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
718387 TACATATATA
* *
718397 CTCACACGAGCTGTGAAAAGAGTATG
1 CTCACACGAGCTATGAAAAGAGCATG
* * *
718423 CTCACACGAGCTATGAAATGGGCCTG
1 CTCACACGAGCTATGAAAAGAGCATG
*
718449 CTCACACTAGCTATG
1 CTCACACGAGCTATG
718464 GGTCGGAACG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (26 bp):
CTCACACGAGCTATGAAAAGAGCATG
Found at i:720452 original size:15 final size:15
Alignment explanation
Indices: 720432--720463 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
720422 CATTTCATTA
*
720432 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
720447 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
720462 TT
1 TT
720464 TGCATGCATA
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:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:720877 original size:24 final size:24
Alignment explanation
Indices: 720845--720891 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
720835 TAAATATTGA
720845 GTTAGTCATTGACCATGCGTATGT
1 GTTAGTCATTGACCATGCGTATGT
720869 GTTAGTCATTGACCATGCGTATG
1 GTTAGTCATTGACCATGCGTATG
720892 CAACTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (24 bp):
GTTAGTCATTGACCATGCGTATGT
Found at i:722133 original size:37 final size:37
Alignment explanation
Indices: 722090--722193 Score: 89
Period size: 37 Copynumber: 3.0 Consensus size: 37
722080 AATATTATTT
722090 TAATAGTTTAATATTATATTTAATTTAATATTTATCC
1 TAATAGTTTAATATTATATTTAATTTAATATTTATCC
***
722127 TAATAG--T-AT-TT-TA-TTAATTTAATA-TTAAAG
1 TAATAGTTTAATATTATATTTAATTTAATATTTATCC
* *
722157 TAACTA-TCTTAATATTAAATTTAATTTAATGTTTATC
1 TAA-TAGT-TTAATATTATATTTAATTTAATATTTATC
722194 TTGTACATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 17
0.68 0.09 0.23
Matches are distributed among these distances:
30 6 0.12
31 13 0.25
32 2 0.04
33 3 0.06
34 4 0.08
35 3 0.06
36 1 0.02
37 16 0.31
38 3 0.06
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (37 bp):
TAATAGTTTAATATTATATTTAATTTAATATTTATCC
Found at i:738024 original size:18 final size:18
Alignment explanation
Indices: 738002--738047 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
737992 TCAAAATTCA
738002 AAAATTAAAAAATAATTTT
1 AAAATTAAAAAA-AATTTT
*
738021 -AAATATATAAAAAATTTT
1 AAAAT-TAAAAAAAATTTT
738039 AAAATTAAA
1 AAAATTAAA
738048 TGCTATCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTAAAAAAAATTTT
Found at i:739008 original size:19 final size:21
Alignment explanation
Indices: 738972--739010 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
738962 ATAGAAATTT
*
738972 TGATTTTTTTTATATTTAAAA
1 TGATTTTTTGTATATTTAAAA
738993 TGATTTTTTGT-T-TTTAAA
1 TGATTTTTTGTATATTTAAA
739011 TTTTAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (21 bp):
TGATTTTTTGTATATTTAAAA
Found at i:739013 original size:25 final size:25
Alignment explanation
Indices: 738978--739069 Score: 73
Period size: 25 Copynumber: 3.7 Consensus size: 25
738968 ATTTTGATTT
*
738978 TTTTTATATTTAAAATGATTTTTTG
1 TTTTTAAATTTAAAATGATTTTTTG
* * *
739003 TTTTTAAATTTTAAATAATTTTTTCA
1 TTTTTAAATTTAAAATGATTTTTT-G
* **
739029 TTTTTATACTTT-AAATTTTTTTTATG
1 TTTTTA-AATTTAAAATGATTTTT-TG
739055 TTTTT--ATTTAAAATG
1 TTTTTAAATTTAAAATG
739070 TGAAAAATTA
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
23 3 0.06
24 4 0.08
25 21 0.40
26 20 0.38
27 5 0.09
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTTTAAATTTAAAATGATTTTTTG
Found at i:739015 original size:26 final size:24
Alignment explanation
Indices: 738978--739060 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 24
738968 ATTTTGATTT
* *
738978 TTTTTATATTTAAAATGATTTTTTG
1 TTTTTAAATTT-AAATAATTTTTTG
*
739003 TTTTTAAATTTTAAATAATTTTTTCA
1 TTTTTAAA-TTTAAATAATTTTTT-G
* **
739029 TTTTTATACTTTAAATTTTTTTTATG
1 TTTTTA-AATTTAAATAATTTTT-TG
739055 TTTTTA
1 TTTTTA
739061 TTTAAAATGT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
25 18 0.38
26 27 0.57
27 2 0.04
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (24 bp):
TTTTTAAATTTAAATAATTTTTTG
Found at i:740530 original size:6 final size:6
Alignment explanation
Indices: 740499--740529 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
740489 TATGGTTGTG
*
740499 TTTATA TTTATA TTTATA TTTATA TATATA T
1 TTTATA TTTATA TTTATA TTTATA TTTATA T
740530 AGTATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTATA
Found at i:742786 original size:30 final size:31
Alignment explanation
Indices: 742736--742797 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
742726 TTGTACCAAC
*
742736 ATATACACGTACCAAGATCAACATTTAGCATT
1 ATATACAC-TACCAAAATCAACATTTAGCATT
742768 ATATACA-TACCAAAATCAACATTTAGCATT
1 ATATACACTACCAAAATCAACATTTAGCATT
742798 CAACCAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 22 0.76
32 7 0.24
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (31 bp):
ATATACACTACCAAAATCAACATTTAGCATT
Found at i:750300 original size:72 final size:72
Alignment explanation
Indices: 750183--750324 Score: 266
Period size: 72 Copynumber: 2.0 Consensus size: 72
750173 CCCCGCCGCT
*
750183 ACACCCTATTCAATCTAACTATCTGCAGTGTTAAAAAGGGGTGTGTGAGGTCTTGTGAACTCAGT
1 ACACCCTATTCAATCTAACTATCTGCAGTGTTAAAAAGGGGTGTGTGAGCTCTTGTGAACTCAGT
750248 GAATAGA
66 GAATAGA
*
750255 ACACCCTATTCGATCTAACTATCTGCAGTGTTAAAAAGGGGTGTGTGAGCTCTTGTGAACTCAGT
1 ACACCCTATTCAATCTAACTATCTGCAGTGTTAAAAAGGGGTGTGTGAGCTCTTGTGAACTCAGT
750320 GAATA
66 GAATA
750325 TATAGGAAAG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (72 bp):
ACACCCTATTCAATCTAACTATCTGCAGTGTTAAAAAGGGGTGTGTGAGCTCTTGTGAACTCAGT
GAATAGA
Found at i:762199 original size:85 final size:86
Alignment explanation
Indices: 762056--762226 Score: 335
Period size: 85 Copynumber: 2.0 Consensus size: 86
762046 CTGATTATGA
762056 CAAAAAAAAATAGAATTAAGGTGATATTTACAATTTTTTAAACTTTTTTTTTATAAATTTTATCT
1 CAAAAAAAAATAGAATTAAGGTGATATTTACAATTTTTTAAACTTTTTTTTTATAAATTTTATCT
762121 TAAATTATTA-ATTAAATATT
66 TAAATTATTATATTAAATATT
762141 CAAAAAAAAATAGAATTAAGGTGATATTTACAATTTTTTAAACTTTTTTTTTATAAATTTTATCT
1 CAAAAAAAAATAGAATTAAGGTGATATTTACAATTTTTTAAACTTTTTTTTTATAAATTTTATCT
762206 TAAATTATTATATTAAATATT
66 TAAATTATTATATTAAATATT
762227 ATTATTATCT
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 75 0.88
86 10 0.12
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (86 bp):
CAAAAAAAAATAGAATTAAGGTGATATTTACAATTTTTTAAACTTTTTTTTTATAAATTTTATCT
TAAATTATTATATTAAATATT
Found at i:766035 original size:3 final size:3
Alignment explanation
Indices: 766022--766102 Score: 69
Period size: 3 Copynumber: 26.3 Consensus size: 3
766012 TTTAGTCCCG
* *
766022 TTA TT- TTA TTA TTA TTA TTA -AA TTAA TTA GCTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA TTA TTA
*
766066 TTA CTA TTA TTA TTA TTA TTA TTGCA TTTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TT--A -TTA TTA TTA T
766103 GATCATTTAC
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
2 5 0.08
3 51 0.78
4 6 0.09
5 1 0.02
6 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:766408 original size:16 final size:16
Alignment explanation
Indices: 766389--766424 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
766379 ATATTTTATA
*
766389 ATTTATGTATACATAT
1 ATTTATGTATACATAC
*
766405 ATTTATGTCTACATAC
1 ATTTATGTATACATAC
766421 ATTT
1 ATTT
766425 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTTATGTATACATAC
Found at i:767731 original size:1 final size:1
Alignment explanation
Indices: 767725--767751 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
767715 AACTTAACAT
767725 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
767752 CTAAAATGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:769734 original size:24 final size:24
Alignment explanation
Indices: 769702--769749 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
769692 TGCCTTTGAA
769702 TCCTTATGGATGATTAAGTTTAAG
1 TCCTTATGGATGATTAAGTTTAAG
769726 TCCTTATGGATGATTAAGTTTAAG
1 TCCTTATGGATGATTAAGTTTAAG
769750 GAAGCTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (24 bp):
TCCTTATGGATGATTAAGTTTAAG
Found at i:772292 original size:15 final size:15
Alignment explanation
Indices: 772254--772295 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
772244 TTAAAATAAG
*
772254 TAAT-TATTTTAATT
1 TAATATATTTTTATT
772268 TAATAT-TTTTTATT
1 TAATATATTTTTATT
*
772282 TATTATATTTTTAT
1 TAATATATTTTTAT
772296 ATATAGTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TAATATATTTTTATT
Found at i:775005 original size:21 final size:20
Alignment explanation
Indices: 774972--775010 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
774962 TTTTTATATA
*
774972 TTTTTAAATATAATAATTAT
1 TTTTTAAATATAAAAATTAT
*
774992 TTTTTAATTCATAAAAATT
1 TTTTTAAAT-ATAAAAATT
775011 CAATAACTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTTAAATATAAAAATTAT
Found at i:775237 original size:27 final size:27
Alignment explanation
Indices: 775173--775237 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
775163 GGTCGAGGGT
*
775173 CTGCCACAGGCGGCACCAAAGGTGCCA
1 CTGCCACAGGCAGCACCAAAGGTGCCA
* * *
775200 GTGGCAGAGGCAGCACCAAAGGTGCCA
1 CTGCCACAGGCAGCACCAAAGGTGCCA
775227 CTGCCACAGGC
1 CTGCCACAGGC
775238 GACACCTGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.34, G:0.32, T:0.08
Consensus pattern (27 bp):
CTGCCACAGGCAGCACCAAAGGTGCCA
Found at i:775346 original size:3 final size:3
Alignment explanation
Indices: 775313--775374 Score: 76
Period size: 3 Copynumber: 21.3 Consensus size: 3
775303 TCAGCTGCAC
* *
775313 GAA GGA GAA GAAA GAA -AA GAA -AA GGA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
775357 GAA GAA GAA GAA -AA GAA G
1 GAA GAA GAA GAA GAA GAA G
775375 GAGGAGGAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 6 0.12
3 42 0.82
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:775446 original size:21 final size:20
Alignment explanation
Indices: 775413--775451 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
775403 TGCCGGAAAA
775413 AGAAAAGAAAAAGAGAGAACG
1 AGAAAAGAAAAAG-GAGAACG
* *
775434 AGAATAGAGAAAGGAGAA
1 AGAAAAGAAAAAGGAGAA
775452 AGAAAGAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.64, C:0.03, G:0.31, T:0.03
Consensus pattern (20 bp):
AGAAAAGAAAAAGGAGAACG
Found at i:775765 original size:36 final size:36
Alignment explanation
Indices: 775646--775766 Score: 93
Period size: 36 Copynumber: 3.3 Consensus size: 36
775636 AAACTAATAT
* **
775646 TATTATTATGGTTAGTTATTAGGATTAGTAAAAAAC
1 TATTATTATTGTTAGTTATTATTATTAGTAAAAAAC
* *** *
775682 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACAC
1 T-ATTATTATTGTTAGTTA-T-T-ATTATTAG-TAAAAAAC
* *
775722 TA-CATTATTGTTAGTTATTATTTTTAGTAAAAAAC
1 TATTATTATTGTTAGTTATTATTATTAGTAAAAAAC
775757 TATTATTATT
1 TATTATTATT
775767 ATTGTGTTAG
Statistics
Matches: 63, Mismatches: 15, Indels: 14
0.68 0.16 0.15
Matches are distributed among these distances:
35 6 0.10
36 21 0.33
37 10 0.16
38 8 0.13
39 13 0.21
40 5 0.08
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTATTAGTAAAAAAC
Found at i:778407 original size:35 final size:34
Alignment explanation
Indices: 778350--778416 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
778340 ATAATAGAAA
* *
778350 TGAGAAAGAAAGAAACAGAGAAGCAAAACGAAAAT
1 TGAGAAAGAAAGAAACAAAGAAG-AAAAAGAAAAT
*
778385 TGAGAAAGAAA-AAGAGAAAGAAGAAAAAGAAA
1 TGAGAAAGAAAGAA-ACAAAGAAGAAAAAGAAA
778417 GAGAACACGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 10 0.36
35 18 0.64
ACGTcount: A:0.67, C:0.04, G:0.24, T:0.04
Consensus pattern (34 bp):
TGAGAAAGAAAGAAACAAAGAAGAAAAAGAAAAT
Found at i:779146 original size:25 final size:25
Alignment explanation
Indices: 779118--779252 Score: 133
Period size: 25 Copynumber: 5.6 Consensus size: 25
779108 ACTTTAGCGC
*
779118 GCTCTCTGATTATTATCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTGGT
779143 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTGGT
**
779168 GCTCTCTGA-TATTTAGCACGTCAGT
1 GCTCTCTGATTA-TTAGCACGTTGGT
* *
779193 GCTCTCTG--T-TTAGCACATTTGT
1 GCTCTCTGATTATTAGCACGTTGGT
* *
779215 GCTCTCTG--TA-TAGCACTTTAGT
1 GCTCTCTGATTATTAGCACGTTGGT
779237 GCTCTCTG-TTCATTAG
1 GCTCTCTGATT-ATTAG
779253 TGCATAATAA
Statistics
Matches: 97, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
22 37 0.38
23 1 0.01
24 4 0.04
25 55 0.57
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.41
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTGGT
Found at i:779195 original size:50 final size:49
Alignment explanation
Indices: 779118--779252 Score: 147
Period size: 50 Copynumber: 2.8 Consensus size: 49
779108 ACTTTAGCGC
* * *
779118 GCTCTCTGAT-TATTATCACGTTGGTGCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATAT-TTAGCACGTTAGTGCTCTCTG-TTATTAGCACATTGGT
* *
779168 GCTCTCTGATATTTAGCACGTCAGTGCTCTCTG-T-TTAGCACATTTGT
1 GCTCTCTGATATTTAGCACGTTAGTGCTCTCTGTTATTAGCACATTGGT
*
779215 GCTCTCTG-TA--TAGCACTTTAGTGCTCTCTGTTCATTAG
1 GCTCTCTGATATTTAGCACGTTAGTGCTCTCTGTT-ATTAG
779253 TGCATAATAA
Statistics
Matches: 74, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
44 18 0.24
45 1 0.01
46 2 0.03
47 23 0.31
48 1 0.01
50 28 0.38
51 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.41
Consensus pattern (49 bp):
GCTCTCTGATATTTAGCACGTTAGTGCTCTCTGTTATTAGCACATTGGT
Found at i:779207 original size:22 final size:22
Alignment explanation
Indices: 779134--779246 Score: 109
Period size: 22 Copynumber: 4.9 Consensus size: 22
779124 TGATTATTAT
*
779134 CACGTTGGTGCTCTCTGATTATTAG
1 CACGTTAGTGCTCTCTG--T-TTAG
*
779159 CACGTTGGTGCTCTCTGATATTTAG
1 CACGTTAGTGCTCTCTG---TTTAG
*
779184 CACGTCAGTGCTCTCTGTTTAG
1 CACGTTAGTGCTCTCTGTTTAG
* * *
779206 CACATTTGTGCTCTCTGTATAG
1 CACGTTAGTGCTCTCTGTTTAG
*
779228 CACTTTAGTGCTCTCTGTT
1 CACGTTAGTGCTCTCTGTT
779247 CATTAGTGCA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
22 39 0.51
25 36 0.47
26 1 0.01
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (22 bp):
CACGTTAGTGCTCTCTGTTTAG
Found at i:786811 original size:157 final size:156
Alignment explanation
Indices: 786383--786886 Score: 780
Period size: 157 Copynumber: 3.2 Consensus size: 156
786373 GATTTTTCTT
* *
786383 ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
1 ATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATA
* * *
786448 AAGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGTAAAAACCCCTTATTTTGGC
66 ATGTTTGAAATGTATTATTTTAGT-TTTTTTTTATATAAATTTAGTAAAAA-CCCTTATTTTGGC
786513 CATTTGTTCGTATTTTTCTTATTTTCGG
129 CATTTGTTCGTATTTTTCTTATTTTCGG
*
786541 ATTTTATTACTTTCAAAAAATGT--TATTTTCATATTTTCA-TATTTTATATTATTTTAGTACAT
1 ATTTTATTACTTTCAAAAAATATACTATTTTCATATTTT-ATTATTTTATATTATTTTAGTACAT
* *
786603 AATGTTTGAAATGTATTATTTTAGTGTATTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGC
65 AATGTTTGAAATGTATTATTTTAGTTTTTTTTTATATAAATTTAGT-AAAAACCCTTATTTTGGC
*
786668 CATTTGTTCGTATTTTTCTTATTTTCGA
129 CATTTGTTCGTATTTTTCTTATTTTCGG
*
786696 ATTTTATTACTTTAAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATA
1 ATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATA
*
786761 TTGTTTGAAATGTATTATTTTAGTTTTTTTTTATATAAATTTAGTGAAAAACCCTTATTTTGGCC
66 ATGTTTGAAATGTATTATTTTAGTTTTTTTTTATATAAATTTAGT-AAAAACCCTTATTTTGGCC
* *
786826 ATTTGTTCGTATTTTTCTTTTTTTTTTGG
130 ATTTGTTCGTATTTTTC--TTATTTTCGG
* **
786855 ATTTTATTACTTTTAGTAAATATACTATTTTC
1 ATTTTATTACTTTCAAAAAATATACTATTTTC
786887 GTTTTTCATT
Statistics
Matches: 319, Mismatches: 20, Indels: 13
0.91 0.06 0.04
Matches are distributed among these distances:
155 79 0.25
156 65 0.20
157 117 0.37
158 22 0.07
159 36 0.11
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (156 bp):
ATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATA
ATGTTTGAAATGTATTATTTTAGTTTTTTTTTATATAAATTTAGTAAAAACCCTTATTTTGGCCA
TTTGTTCGTATTTTTCTTATTTTCGG
Found at i:786902 original size:17 final size:17
Alignment explanation
Indices: 786882--786914 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
786872 AAATATACTA
786882 TTTTCGT-TTTTCATTTC
1 TTTTCGTATTTT-ATTTC
786899 TTTTCGTATTTTATTT
1 TTTTCGTATTTTATTT
786915 TTTCATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTCGTATTTTATTTC
Found at i:787084 original size:30 final size:30
Alignment explanation
Indices: 787050--787195 Score: 126
Period size: 30 Copynumber: 5.4 Consensus size: 30
787040 AAATTAAATA
787050 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
787080 AAATAATAAAACATA-AA--TA-ATAA-AT
1 AAATAATAAAACATAGAATGTACATAACAT
*
787105 AAATAAT--AAC-----AT-TA-ATAATA-
1 AAATAATAAAACATAGAATGTACATAACAT
* * *
787125 AAATAATAAGACATAGTATGAACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
*
787155 AAATAATAAAACATAGAATGTACAAAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
787185 AAA-AATTAAAA
1 AAATAA-TAAAA
787196 TTAAATTATG
Statistics
Matches: 96, Mismatches: 7, Indels: 26
0.74 0.05 0.20
Matches are distributed among these distances:
19 1 0.01
20 13 0.14
21 1 0.01
22 2 0.02
23 3 0.03
25 9 0.09
26 4 0.04
27 4 0.04
28 1 0.01
29 9 0.09
30 49 0.51
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:787099 original size:23 final size:22
Alignment explanation
Indices: 787073--787139 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
787063 TAGAATGTAC
787073 ATAACATAAATAATAAAACATAA
1 ATAA-ATAAATAATAAAACATAA
*
787096 AT-AATAAATAAATAATAACATTA
1 ATAAATAAAT-AATAA-AACATAA
*
787119 AT-AATAAAATAATAAGACATA
1 ATAAAT-AAATAATAAAACATA
787140 GTATGAACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 6 0.16
22 10 0.26
23 18 0.47
24 4 0.11
ACGTcount: A:0.67, C:0.06, G:0.01, T:0.25
Consensus pattern (22 bp):
ATAAATAAATAATAAAACATAA
Found at i:787160 original size:38 final size:37
Alignment explanation
Indices: 787046--787165 Score: 131
Period size: 38 Copynumber: 3.2 Consensus size: 37
787036 AAATAAATTA
787046 AATAAAATAATAAAACATAGAATGTACATAACATAAAT
1 AATAAAATAATAAAACATAGAATG-ACATAACATAAAT
*
787084 AATAAAACATAAATAATAA-ATA-AAT-A-ATAACATTAAT
1 AAT-AAA-AT-AATAA-AACATAGAATGACATAACATAAAT
* *
787121 AATAAAATAATAAGACATAGTATGAACATAACATAAAT
1 AATAAAATAATAAAACATAGAATG-ACATAACATAAAT
787159 AATAAAA
1 AATAAAA
787166 CATAGAATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
33 1 0.01
34 8 0.12
35 4 0.06
36 3 0.04
37 14 0.20
38 21 0.30
39 3 0.04
40 5 0.07
41 8 0.12
42 2 0.03
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (37 bp):
AATAAAATAATAAAACATAGAATGACATAACATAAAT
Found at i:787482 original size:14 final size:14
Alignment explanation
Indices: 787399--787483 Score: 61
Period size: 13 Copynumber: 6.3 Consensus size: 14
787389 CCCTCCCTCT
*
787399 TCTTCTTCTCCTTC
1 TCTTCTTCTTCTTC
* *
787413 TCTTTTTCTTTTTC
1 TCTTCTTCTTCTTC
*
787427 -CTTTTTCTTCTT-
1 TCTTCTTCTTCTTC
* * *
787439 TCTGCTCCTCCTTCC
1 TCTTCTTCTTCTT-C
*
787454 CCTTCTTCTTCTTC
1 TCTTCTTCTTCTTC
787468 TCTTCTT-TTCTT-
1 TCTTCTTCTTCTTC
787480 TCTT
1 TCTT
787484 GCAGCTTCAT
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
12 4 0.07
13 24 0.44
14 18 0.33
15 9 0.16
ACGTcount: A:0.00, C:0.35, G:0.01, T:0.64
Consensus pattern (14 bp):
TCTTCTTCTTCTTC
Found at i:788494 original size:3 final size:3
Alignment explanation
Indices: 788486--788570 Score: 52
Period size: 3 Copynumber: 29.3 Consensus size: 3
788476 CTTCCCTCCC
* * * * * * *
788486 TCT TCT TCT TCT CCT TC- TCT TTT TCT TCCT TCT GCG CCT CCT TCC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT
* *
788531 CCT TCT TTT TCT TC- TCT TC- TCT TCT TCT T-T TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
788571 TCCTGCAGCT
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
2 8 0.13
3 51 0.82
4 3 0.05
ACGTcount: A:0.00, C:0.38, G:0.02, T:0.60
Consensus pattern (3 bp):
TCT
Found at i:788571 original size:11 final size:11
Alignment explanation
Indices: 788532--788571 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
788522 CCTCCTTCCC
788532 CTTCTTTTTCTT
1 CTTC-TTTTCTT
*
788544 C-TCTTCTCTT
1 CTTCTTTTCTT
788554 CTTCTTTTCTT
1 CTTCTTTTCTT
788565 CTTCTTT
1 CTTCTTT
788572 CCTGCAGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 7 0.28
11 17 0.68
12 1 0.04
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTCTTTTCTT
Found at i:800460 original size:31 final size:32
Alignment explanation
Indices: 800414--800475 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
800404 CCAATAATAA
*
800414 TGACTATTTCAGTTCCCAAATATGAAAACAAG
1 TGACTATTTCAGTTCCCAAATATAAAAACAAG
* *
800446 TGACTGTTTC-GTTCCCAAATCTAAAAACAA
1 TGACTATTTCAGTTCCCAAATATAAAAACAA
800476 ATAAGGTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (32 bp):
TGACTATTTCAGTTCCCAAATATAAAAACAAG
Found at i:805060 original size:87 final size:87
Alignment explanation
Indices: 804955--805130 Score: 352
Period size: 87 Copynumber: 2.0 Consensus size: 87
804945 AATCAAAATG
804955 ATAAAACATATACAACATAATGGTGACTAACAGTCTTTTTGGTCGGCAAGACCAAGATTCTGAAT
1 ATAAAACATATACAACATAATGGTGACTAACAGTCTTTTTGGTCGGCAAGACCAAGATTCTGAAT
805020 GCAATGGAACATGACATTTCAA
66 GCAATGGAACATGACATTTCAA
805042 ATAAAACATATACAACATAATGGTGACTAACAGTCTTTTTGGTCGGCAAGACCAAGATTCTGAAT
1 ATAAAACATATACAACATAATGGTGACTAACAGTCTTTTTGGTCGGCAAGACCAAGATTCTGAAT
805107 GCAATGGAACATGACATTTCAA
66 GCAATGGAACATGACATTTCAA
805129 AT
1 AT
805131 TTGTAGTAGC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (87 bp):
ATAAAACATATACAACATAATGGTGACTAACAGTCTTTTTGGTCGGCAAGACCAAGATTCTGAAT
GCAATGGAACATGACATTTCAA
Found at i:806753 original size:20 final size:21
Alignment explanation
Indices: 806718--806758 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
806708 AACTTCAAAA
806718 AATTATTTTAATATAT-TTTT
1 AATTATTTTAATATATCTTTT
806738 AATT-TTTTAATCATATCTTTT
1 AATTATTTTAAT-ATATCTTTT
806759 TACAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 8 0.42
21 4 0.21
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
AATTATTTTAATATATCTTTT
Found at i:814215 original size:5 final size:5
Alignment explanation
Indices: 814205--814229 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
814195 ATCATTGATG
814205 AGAAA AGAAA AGAAA AGAAA AGAAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA
814230 TGTATGATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:816417 original size:25 final size:25
Alignment explanation
Indices: 816376--816432 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
816366 ACAATCCATG
** * *
816376 TAAATCATGTATTTCATGTAACTTT
1 TAAATCATGTAAATCATATAACATT
816401 TAAATCATGTAAATCATATAACATT
1 TAAATCATGTAAATCATATAACATT
*
816426 TATATCA
1 TAAATCA
816433 ATTCTTTCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (25 bp):
TAAATCATGTAAATCATATAACATT
Found at i:816724 original size:23 final size:23
Alignment explanation
Indices: 816693--816760 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
816683 TCGAGCTGAT
816693 AAACAGTAAGCTCTATAGAGCTG
1 AAACAGTAAGCTCTATAGAGCTG
* *
816716 AAACGGTAAGCTCCATAGAGCTG
1 AAACAGTAAGCTCTATAGAGCTG
816739 AAACAGTAAGCTC-ATACGAGCT
1 AAACAGTAAGCTCTATA-GAGCT
816761 ATGGTGAGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 3 0.07
23 38 0.93
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (23 bp):
AAACAGTAAGCTCTATAGAGCTG
Found at i:821777 original size:7 final size:7
Alignment explanation
Indices: 821765--821809 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
821755 ACAAAGGAAC
821765 AAAAAGA
1 AAAAAGA
821772 AAAAAGA
1 AAAAAGA
821779 AAAAAGA
1 AAAAAGA
821786 AAAAA-A
1 AAAAAGA
* *
821792 ACAAACA
1 AAAAAGA
*
821799 AACAAGA
1 AAAAAGA
821806 AAAA
1 AAAA
821810 TACTAGCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:822180 original size:39 final size:38
Alignment explanation
Indices: 822089--822181 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 38
822079 TTTTTGAATA
822089 TTCTT-TAATTTTTTTTCAAAATTTTTTTCTTTTCTTT
1 TTCTTGTAATTTTTTTTCAAAATTTTTTTCTTTTCTTT
* *
822126 TTCTTTTCAACTTTTTTTCAAAATTTCTTTT-TCTTT-TTT
1 TTCTTGT-AATTTTTTTTCAAAATTT-TTTTCT-TTTCTTT
822165 TTCTTCGTAATTTTTTT
1 TTCTT-GTAATTTTTTT
822182 CATTTTTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
37 5 0.10
38 1 0.02
39 34 0.71
40 8 0.17
ACGTcount: A:0.15, C:0.13, G:0.01, T:0.71
Consensus pattern (38 bp):
TTCTTGTAATTTTTTTTCAAAATTTTTTTCTTTTCTTT
Found at i:824968 original size:14 final size:13
Alignment explanation
Indices: 824949--825006 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 13
824939 CAAACAAACG
*
824949 AAAAATTAAAATGT
1 AAAAATAAAAAT-T
*
824963 AAAAAT-GAAATT
1 AAAAATAAAAATT
824975 AAAAATAAAAATAT
1 AAAAATAAAAAT-T
*
824989 TAAAATAAAAA-T
1 AAAAATAAAAATT
825001 AAAAAT
1 AAAAAT
825007 GGCTAAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
12 13 0.34
13 8 0.21
14 17 0.45
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AAAAATAAAAATT
Found at i:824985 original size:6 final size:6
Alignment explanation
Indices: 824962--825006 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
824952 AATTAAAATG
* *
824962 TAAAAA TGAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA T
825007 GGCTAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (6 bp):
TAAAAA
Found at i:824985 original size:26 final size:26
Alignment explanation
Indices: 824949--825006 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
824939 CAAACAAACG
* * * *
824949 AAAAATTAAAATGTAAAAATGAAATT
1 AAAAATAAAAATATAAAAATAAAAAT
*
824975 AAAAATAAAAATATTAAAATAAAAAT
1 AAAAATAAAAATATAAAAATAAAAAT
825001 AAAAAT
1 AAAAAT
825007 GGCTAAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (26 bp):
AAAAATAAAAATATAAAAATAAAAAT
Found at i:829322 original size:71 final size:71
Alignment explanation
Indices: 829185--829346 Score: 227
Period size: 71 Copynumber: 2.3 Consensus size: 71
829175 TTGTGGATTC
* * *
829185 TTCACAGCTTGTGTAAGCAACATCATGTAAAGTTACCATCCCGACTCACAACTCATGTGACTAGG
1 TTCACAGCTCGTGTGAGCAAAATCATGTAAAGTTACCATCCCGACTCACAACTCATGTGACTAGG
829250 CTTATT
66 CTTATT
* * *
829256 TTCATAGCTCGTGTGAGCAAAATCATGTAAAGTTACCATCCCGATTCACAACTCGTGTGAGC-AG
1 TTCACAGCTCGTGTGAGCAAAATCATGTAAAGTTACCATCCCGACTCACAACTCATGTGA-CTAG
829320 GCTTATT
65 GCTTATT
* * *
829327 CTCAGAACTCGTGTGAGCAA
1 TTCACAGCTCGTGTGAGCAA
829347 CCTTATCTCA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
71 80 0.99
72 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (71 bp):
TTCACAGCTCGTGTGAGCAAAATCATGTAAAGTTACCATCCCGACTCACAACTCATGTGACTAGG
CTTATT
Found at i:829351 original size:27 final size:26
Alignment explanation
Indices: 829305--829356 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
829295 CCCGATTCAC
**
829305 AACTCGTGTGAGCAGGCTTATTCTCAG
1 AACTCGTGTGAGCAACCTTA-TCTCAG
829332 AACTCGTGTGAGCAACCTTATCTCA
1 AACTCGTGTGAGCAACCTTATCTCA
829357 TGTGTCCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (26 bp):
AACTCGTGTGAGCAACCTTATCTCAG
Found at i:829967 original size:24 final size:24
Alignment explanation
Indices: 829931--829990 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
829921 TGCCAAAAGA
829931 TTTCCA-TACTTAGCTACATTATG
1 TTTCCATTACTTAGCTACATTATG
829954 TTTCCATTACTTAGCTACATTATG
1 TTTCCATTACTTAGCTACATTATG
829978 TTTCCATTACTTA
1 TTTCCATTACTTA
829991 ATTGTTGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 6 0.17
24 30 0.83
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.47
Consensus pattern (24 bp):
TTTCCATTACTTAGCTACATTATG
Found at i:830930 original size:501 final size:502
Alignment explanation
Indices: 829988--830997 Score: 2004
Period size: 501 Copynumber: 2.0 Consensus size: 502
829978 TTTCCATTAC
829988 TTAATTGTTGATTTATTAGGGTAAGCTAATTGAATTTTATATGAACTTATTAAGTATTCGTAATA
1 TTAATTGTTGATTTATTAGGGTAAGCTAATTGAATTTTATATGAACTTATTAAGTATTCGTAATA
830053 CTTATCTTATTTACAGCTTTTTTACCCAAATAATATAAAAAATAATTAATTATGAAAAATGTACG
66 CTTATCTTATTTACAGCTTTTTTACCCAAATAATATAAAAAATAATTAATTATGAAAAATGTACG
830118 AAAAATAGATGAATTACAAAAATAGACATTTGCTACAGTGTTTTAACAATACTGCTTGACATATT
131 AAAAATAGATGAATTACAAAAATAGACATTTGCTACAGTGTTTTAACAATACTGCTTGACATATT
830183 GGCAGGACCAGACTGAAATGTGATGACCTAAAATATTCAGGGACCTGATATGTAAATTTCATATT
196 GGCAGGACCAGACTGAAATGTGATGACCTAAAATATTCAGGGACCTGATATGTAAATTTCATATT
830248 TTGGTTAGCAGCTAAAAAAAAGGCTTTAAGGGTGTCACCTGACAGTGTGGCGGCATCAAACTTAA
261 TTGGTTAGCAGCTAAAAAAAAGGCTTTAAGGGTGTCACCTGACAGTGTGGCGGCATCAAACTTAA
830313 ATGGGTAAATTGCTTTATAAACTCCCTTGTTTATTATTTTCTTTTATTCTCCTTTAACACAAAAA
326 ATGGGTAAATTGCTTTATAAACTCCCTTGTTTATTATTTTCTTTTATTCTCCTTTAACACAAAAA
830378 ATAGAGAGGCTTCTTTCTAATTAGTCCAAAAAGTTTTTTCTACCAAAAAGTATTTTTATAAAAAA
391 ATAGAGAGGCTTCTTTCTAATTAGTCCAAAAAGTTTTTTCTACCAAAAAGTATTTTTATAAAAAA
830443 GCCGATTCCAATTGGAAATGAATTTTATTTATA-TTTAAAAAATAAT
456 GCCGATTCCAATTGGAAATGAATTTTATTTATATTTTAAAAAATAAT
830489 TTAATTGTTGATTTATTAGGGTAAGCTAATTGAATTTTATATGAACTTATTAAGTATTCGTAATA
1 TTAATTGTTGATTTATTAGGGTAAGCTAATTGAATTTTATATGAACTTATTAAGTATTCGTAATA
830554 CTTATCTTATTTACAGCTTTTTTACCCAAATAATATAAAAAATAATTAATTATGAAAAATGTACG
66 CTTATCTTATTTACAGCTTTTTTACCCAAATAATATAAAAAATAATTAATTATGAAAAATGTACG
830619 AAAAATAGATGAATTACAAAAATAGACATTTGCTACAGTGTTTTAACAATACTGCTTGACATATT
131 AAAAATAGATGAATTACAAAAATAGACATTTGCTACAGTGTTTTAACAATACTGCTTGACATATT
830684 GGCAGGACCAGACTGAAATGTGATGACCTAAAATATTCAGGGACCTGATATGTAAATTTCATATT
196 GGCAGGACCAGACTGAAATGTGATGACCTAAAATATTCAGGGACCTGATATGTAAATTTCATATT
830749 TTGGTTAGCAGCTAAAAAAAAGGCTTTAAGGGTGTCACCTGACAGTGTGGCGGCATCAAACTTAA
261 TTGGTTAGCAGCTAAAAAAAAGGCTTTAAGGGTGTCACCTGACAGTGTGGCGGCATCAAACTTAA
830814 ATGGGTAAATTGCTTTATAAACTCCCTTGTTTATTATTTTCTTTTATTCTCCTTTAACACAAAAA
326 ATGGGTAAATTGCTTTATAAACTCCCTTGTTTATTATTTTCTTTTATTCTCCTTTAACACAAAAA
830879 ATAGAGAGGCTTCTTTCTAATTAGTCCAAAAAGTTTTTTCTACCAAAAAGTATTTTTATAAAAAA
391 ATAGAGAGGCTTCTTTCTAATTAGTCCAAAAAGTTTTTTCTACCAAAAAGTATTTTTATAAAAAA
830944 GCCGATTCCAATTGGAAATGAATTTTATTTATATTTTAAAAAATAAT
456 GCCGATTCCAATTGGAAATGAATTTTATTTATATTTTAAAAAATAAT
830991 TATAATT
1 T-TAATT
830998 TTATTATCAA
Statistics
Matches: 507, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
501 488 0.96
502 14 0.03
503 5 0.01
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (502 bp):
TTAATTGTTGATTTATTAGGGTAAGCTAATTGAATTTTATATGAACTTATTAAGTATTCGTAATA
CTTATCTTATTTACAGCTTTTTTACCCAAATAATATAAAAAATAATTAATTATGAAAAATGTACG
AAAAATAGATGAATTACAAAAATAGACATTTGCTACAGTGTTTTAACAATACTGCTTGACATATT
GGCAGGACCAGACTGAAATGTGATGACCTAAAATATTCAGGGACCTGATATGTAAATTTCATATT
TTGGTTAGCAGCTAAAAAAAAGGCTTTAAGGGTGTCACCTGACAGTGTGGCGGCATCAAACTTAA
ATGGGTAAATTGCTTTATAAACTCCCTTGTTTATTATTTTCTTTTATTCTCCTTTAACACAAAAA
ATAGAGAGGCTTCTTTCTAATTAGTCCAAAAAGTTTTTTCTACCAAAAAGTATTTTTATAAAAAA
GCCGATTCCAATTGGAAATGAATTTTATTTATATTTTAAAAAATAAT
Found at i:840138 original size:44 final size:44
Alignment explanation
Indices: 840086--840205 Score: 222
Period size: 44 Copynumber: 2.7 Consensus size: 44
840076 TTATGATAGG
840086 TAATATGTGAGAATACTTGTATGTGATATATGATGTACTTATTT
1 TAATATGTGAGAATACTTGTATGTGATATATGATGTACTTATTT
*
840130 TAATATGTGAGAATACTTGTATGTGCTATATGATGTACTTATTT
1 TAATATGTGAGAATACTTGTATGTGATATATGATGTACTTATTT
*
840174 TAATATGAGAGAATACTTGTATGTGATATATG
1 TAATATGTGAGAATACTTGTATGTGATATATG
840206 TGGTTGGATA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 73 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (44 bp):
TAATATGTGAGAATACTTGTATGTGATATATGATGTACTTATTT
Found at i:843173 original size:68 final size:68
Alignment explanation
Indices: 843098--843249 Score: 205
Period size: 68 Copynumber: 2.2 Consensus size: 68
843088 TGTCATAGCT
*
843098 GAGCTATGGTCTTACACCTTGTAACCCAATGTTTAACGTCCTGGCGGACTCTATTGGTTGCCATA
1 GAGCTATGGTCTTACACCTTGTAACCCAATGTTTAACGTCCTGGCAGACTCTATTGGTTGCCATA
**
843163 GTC
66 ACC
* * * ** * * *
843166 GGGCTATGTTCTTACACTTTGTAACCCCGTGTTTAATGTCCTGGTAGACTTTATTGGTTGCCATA
1 GAGCTATGGTCTTACACCTTGTAACCCAATGTTTAACGTCCTGGCAGACTCTATTGGTTGCCATA
843231 ACC
66 ACC
843234 GAGCTATGGTCTTACA
1 GAGCTATGGTCTTACA
843250 TGTTGAACCT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (68 bp):
GAGCTATGGTCTTACACCTTGTAACCCAATGTTTAACGTCCTGGCAGACTCTATTGGTTGCCATA
ACC
Found at i:845932 original size:38 final size:38
Alignment explanation
Indices: 845881--845967 Score: 120
Period size: 38 Copynumber: 2.3 Consensus size: 38
845871 TGGAATTGAA
* *
845881 TATCTACTGGTCCTCCAGGGCGACACCGTGACGACTGT
1 TATCTAATGGTCCTCCAGGGCGACACCGTGACGACGGT
*** *
845919 TATCTAATGGTCCTTTGGGGTGACACCGTGACGACGGT
1 TATCTAATGGTCCTCCAGGGCGACACCGTGACGACGGT
845957 TATCTAATGGT
1 TATCTAATGGT
845968 TCTTTGGGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.29
Consensus pattern (38 bp):
TATCTAATGGTCCTCCAGGGCGACACCGTGACGACGGT
Found at i:845973 original size:38 final size:38
Alignment explanation
Indices: 845902--846024 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 38
845892 CCTCCAGGGC
* *
845902 GACACCGTGACGACTGTTATCTAATGGTCCTTTGGGGT
1 GACACCGTGACGACAGTTATCTAATGGTTCTTTGGGGT
*
845940 GACACCGTGACGACGGTTATCTAATGGTTCTTTGGGGT
1 GACACCGTGACGACAGTTATCTAATGGTTCTTTGGGGT
* ** * * * *
845978 GATACTATGACAACAGTTATCTACTGG-TCTTATAGGGC
1 GACACCGTGACGACAGTTATCTAATGGTTCTT-TGGGGT
846016 GACACCGTG
1 GACACCGTG
846025 TAAACAATAT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
37 4 0.06
38 67 0.94
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (38 bp):
GACACCGTGACGACAGTTATCTAATGGTTCTTTGGGGT
Found at i:855559 original size:21 final size:22
Alignment explanation
Indices: 855533--855575 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
855523 TAAATATTTT
855533 TATATTTAAA-TTATAATATAA
1 TATATTTAAATTTATAATATAA
855554 TATATTTAAATTTTATAATATA
1 TATATTTAAA-TTTATAATATA
855576 TAAGCAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
23 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATTTAAATTTATAATATAA
Found at i:855745 original size:109 final size:110
Alignment explanation
Indices: 855554--855774 Score: 410
Period size: 109 Copynumber: 2.0 Consensus size: 110
855544 TATAATATAA
855554 TATATTTAAATTTTATAATATATAAGCAAAAGGAAAAATAATACATTATAAACATGAAAATATGT
1 TATATTTAAATTTTATAATATATAAGCAAAAGGAAAAATAATACATTATAAACATGAAAATATGT
855619 TAGGTCAACTTCGGGTTTTGAATATAAAAACCAAA-GGCCTAATC
66 TAGGTCAACTTCGGGTTTTGAATATAAAAACCAAACGGCCTAATC
855663 TATATTTAAATTTTAT-ATGATATAAGCAAAAGGAAAAATAATACATTATAAACATGAAAATATG
1 TATATTTAAATTTTATAAT-ATATAAGCAAAAGGAAAAATAATACATTATAAACATGAAAATATG
855727 TTAGGTCAACTTCGGGTTTTGAATATAAAAACCAAACGGGCCTAATC
65 TTAGGTCAACTTCGGGTTTTGAATATAAAAACCAAAC-GGCCTAATC
855774 T
1 T
855775 TTTTTGTTCA
Statistics
Matches: 109, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
108 2 0.02
109 97 0.89
111 10 0.09
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (110 bp):
TATATTTAAATTTTATAATATATAAGCAAAAGGAAAAATAATACATTATAAACATGAAAATATGT
TAGGTCAACTTCGGGTTTTGAATATAAAAACCAAACGGCCTAATC
Found at i:856749 original size:45 final size:45
Alignment explanation
Indices: 856685--856775 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
856675 GCAAGAACTT
*
856685 AACTACTTTTTCCCTGAAAAACATGTGAACCCACTATTTTGCAAC
1 AACTACTTTTTCCCTGAAAAACATGTGAACCCAATATTTTGCAAC
856730 AACTACTTTTTCCCTGAAAAACATGTGAACCCAATATTTTGCAAC
1 AACTACTTTTTCCCTGAAAAACATGTGAACCCAATATTTTGCAAC
856775 A
1 A
856776 CAATATACCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (45 bp):
AACTACTTTTTCCCTGAAAAACATGTGAACCCAATATTTTGCAAC
Found at i:869723 original size:50 final size:49
Alignment explanation
Indices: 869587--869936 Score: 450
Period size: 50 Copynumber: 7.0 Consensus size: 49
869577 TTTCCTGTAC
* * ** *
869587 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * **
869636 ATGCCCATGCCATGT-CCAGACATGGTCTGACGGGGGACCTCTCATCTCAG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-G
*
869686 TTCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-G
* *
869736 TGCCAATGCCATGTCCCAGACATGGTCTTACATGTGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC-TCG
* * * *
869786 TGCCAACGCCATGTCTCAGACATGGTTTTACATGGGACCTCTAATCTCG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * *
869835 ATGCCAACGCCATGTCCCAGACATGGTCTAACATGGGACCTTTCATCTCAG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-G
* *
869886 TGCCAACGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
869935 TG
1 TG
869937 TTTACATAGA
Statistics
Matches: 263, Mismatches: 32, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
49 43 0.16
50 218 0.83
51 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:870016 original size:44 final size:44
Alignment explanation
Indices: 869960--870046 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
869950 ACCATGGTAC
*
869960 TTTTCCGTCAATTCTT-TCTTAATTGCCATGTTATAAACATGGAA
1 TTTTCCATCAATTCTTCT-TTAATTGCCATGTTATAAACATGGAA
870004 TTTTCCATCAATTCTTCTTTAATTGCCATGTTATAAACATGGA
1 TTTTCCATCAATTCTTCTTTAATTGCCATGTTATAAACATGGA
870047 CCTTGAGATA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 40 0.98
45 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (44 bp):
TTTTCCATCAATTCTTCTTTAATTGCCATGTTATAAACATGGAA
Found at i:872605 original size:18 final size:19
Alignment explanation
Indices: 872582--872620 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
872572 TACAAATGCA
*
872582 AACATT-ACATAATTATTT
1 AACATTCACATAATGATTT
*
872600 AACATTCACATCATGATTT
1 AACATTCACATAATGATTT
872619 AA
1 AA
872621 TCTTATCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (19 bp):
AACATTCACATAATGATTT
Found at i:873175 original size:6 final size:6
Alignment explanation
Indices: 873164--873189 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
873154 CACTATCTCA
873164 TATTCT TATTCT TATTCT TATTCT TA
1 TATTCT TATTCT TATTCT TATTCT TA
873190 GCCCAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.65
Consensus pattern (6 bp):
TATTCT
Found at i:873287 original size:22 final size:22
Alignment explanation
Indices: 873262--873316 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
873252 TGCACTAATG
873262 AACAGAGAGCAC-TGAAGTGCTA
1 AACAGAGAGCACAT-AAGTGCTA
* *
873284 AACAGAAAGCACATATGTGCTA
1 AACAGAGAGCACATAAGTGCTA
873306 AACAGAGAGCA
1 AACAGAGAGCA
873317 TTGACATGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (22 bp):
AACAGAGAGCACATAAGTGCTA
Found at i:873326 original size:22 final size:21
Alignment explanation
Indices: 873262--873327 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 21
873252 TGCACTAATG
*
873262 AACAGAGAGCACTGAAGTGCTA
1 AACAGAGAGCAATGAA-TGCTA
* *
873284 AACAGAAAGCACAT-ATGTGCTA
1 AACAGAGAGCA-ATGA-ATGCTA
*
873306 AACAGAGAGCATTGACATGCTA
1 AACAGAGAGCAATGA-ATGCTA
873328 GTGATGCGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (21 bp):
AACAGAGAGCAATGAATGCTA
Found at i:874499 original size:29 final size:29
Alignment explanation
Indices: 874467--874523 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
874457 ATTTTTTTAA
874467 TTTTTTAATTTTTCAATATTTTAAAATACT
1 TTTTTTAATTTTTCAAT-TTTTAAAATACT
* **
874497 TTTTTTTATTTTTTTATTTTTAAAATA
1 TTTTTTAATTTTTCAATTTTTAAAATA
874524 AATTTTTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTTTTAATTTTTCAATTTTTAAAATACT
Found at i:874529 original size:29 final size:30
Alignment explanation
Indices: 874465--874530 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
874455 ATATTTTTTT
874465 AATTTTTTAATTTTTCAATATTTTAAAATA
1 AATTTTTTAATTTTTCAATATTTTAAAATA
** * **
874495 CTTTTTTTTATTTTTTTAT-TTTTAAAATA
1 AATTTTTTAATTTTTCAATATTTTAAAATA
874524 AATTTTT
1 AATTTTT
874531 GGTGTTTATT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (30 bp):
AATTTTTTAATTTTTCAATATTTTAAAATA
Found at i:874566 original size:15 final size:15
Alignment explanation
Indices: 874546--874576 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
874536 TTATTAAAAA
*
874546 TGGGCCGGGCCGGGC
1 TGGGCCGGGCCAGGC
874561 TGGGCCGGGCCAGGC
1 TGGGCCGGGCCAGGC
874576 T
1 T
874577 TATGATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.03, C:0.32, G:0.55, T:0.10
Consensus pattern (15 bp):
TGGGCCGGGCCAGGC
Found at i:874798 original size:196 final size:188
Alignment explanation
Indices: 874450--874821 Score: 448
Period size: 196 Copynumber: 1.9 Consensus size: 188
874440 CCAAATATAA
* **
874450 TAAATATATTTTTTTAATTTTTTAATTTTTCAATATTTTAAAATACTTTTTTTTATTTTTTTATT
1 TAAATATACTTTTTTAATTTTTTAATTTTAAAATATTTTAAAATACTTTTTTTTATTTTTTTATT
* * *
874515 TTTAAAATAAATTTTTGGTGTTTATTAAAAATGGGCCGGGCCGGGCTGGGCCGGGCCAGGCTTAT
66 TTTAAAATAAATTTTTGGTATTTATTAAAAACGGGCCGGGCCGAGC---GCC-GG-C-GGCTTAT
* *
874580 GATATTTTCCCGGGCTGGGCCTGGGCAAAATT-TCAGGCCCATATTTTATGTGTTTTTTTTTTCT
125 GATATTTTCCCGAGCCGGGCCTGGGCAAAATTCT-AGGCCCATATTTTATGTGTTTTTTTTTTCT
874644 TAAA-ATACTTTTTTAATTTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTTAATTTTT
1 TAAATATACTTTTTTAA--TTTTTT-AATTTTAAAATA-TTTTAAAATACTTTTTTTT-A--TTT
874708 GTTTTAATTTTTAAAATAAATTTTTGGTATTTATTTAAAAAACGGGCCGGGCCGAGC-CC-G-GG
59 -TTTT-ATTTTTAAAATAAATTTTTGGTATTTA-TT-AAAAACGGGCCGGGCCGAGCGCCGGCGG
* *
874770 CTTATGAATTTTTTCCCGAGCCGGGCCTGGGTAAAATTCTAGGCCCATATTT
120 CTTATG-ATATTTTCCCGAGCCGGGCCTGGGCAAAATTCTAGGCCCATATTT
874822 CGGGCCGGGC
Statistics
Matches: 155, Mismatches: 10, Indels: 24
0.82 0.05 0.13
Matches are distributed among these distances:
193 11 0.07
194 4 0.03
195 14 0.09
196 49 0.32
197 20 0.13
198 2 0.01
200 5 0.03
201 4 0.03
202 26 0.17
203 2 0.01
204 18 0.12
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (188 bp):
TAAATATACTTTTTTAATTTTTTAATTTTAAAATATTTTAAAATACTTTTTTTTATTTTTTTATT
TTTAAAATAAATTTTTGGTATTTATTAAAAACGGGCCGGGCCGAGCGCCGGCGGCTTATGATATT
TTCCCGAGCCGGGCCTGGGCAAAATTCTAGGCCCATATTTTATGTGTTTTTTTTTTCT
Found at i:875025 original size:15 final size:14
Alignment explanation
Indices: 875004--875039 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
874994 ATAATCCTTA
*
875004 ATAATTATCTTAAT
1 ATAATTATCCTAAT
875018 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
875033 ATAATTA
1 ATAATTA
875040 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:875376 original size:25 final size:25
Alignment explanation
Indices: 875315--875377 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
875305 ATCAGCTAGT
* * *
875315 AATCAGAGAGCACTGACGTGGTAAT
1 AATCAGAGAGCGCTGACGTGCTAAG
*
875340 AATCAGAGAGCGCTGATGTGCTAAG
1 AATCAGAGAGCGCTGACGTGCTAAG
875365 AATCAGAGAGCGC
1 AATCAGAGAGCGC
875378 GCTAAAGTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (25 bp):
AATCAGAGAGCGCTGACGTGCTAAG
Found at i:876402 original size:23 final size:23
Alignment explanation
Indices: 876372--876418 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
876362 AATAAGTATG
876372 TACATATATTAATTACAAATGTA
1 TACATATATTAATTACAAATGTA
* *
876395 TACATATATTTATTACACATGTA
1 TACATATATTAATTACAAATGTA
876418 T
1 T
876419 TTATAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (23 bp):
TACATATATTAATTACAAATGTA
Found at i:882860 original size:15 final size:15
Alignment explanation
Indices: 882837--882873 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
882827 CAAAACAAAG
*
882837 AATCCATCAGGAATC
1 AATCTATCAGGAATC
882852 AATCTATCAGGAATC
1 AATCTATCAGGAATC
882867 AATCTAT
1 AATCTAT
882874 GTATACGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.27
Consensus pattern (15 bp):
AATCTATCAGGAATC
Found at i:889785 original size:14 final size:14
Alignment explanation
Indices: 889766--889793 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
889756 TGTTGTCTTA
889766 TGAGCAAGCAAAGT
1 TGAGCAAGCAAAGT
889780 TGAGCAAGCAAAGT
1 TGAGCAAGCAAAGT
889794 ATAGATTCAT
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:0.14, G:0.29, T:0.14
Consensus pattern (14 bp):
TGAGCAAGCAAAGT
Found at i:890824 original size:11 final size:11
Alignment explanation
Indices: 890808--890832 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
890798 TGCCATTGAT
890808 GACAATCCAAA
1 GACAATCCAAA
890819 GACAATCCAAA
1 GACAATCCAAA
890830 GAC
1 GAC
890833 TATACCTGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.28, G:0.12, T:0.08
Consensus pattern (11 bp):
GACAATCCAAA
Found at i:891067 original size:31 final size:31
Alignment explanation
Indices: 891029--891091 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
891019 TTTCTCCATT
891029 TCCTTTCAGACCCATTTCTGCTAGCCCCACA
1 TCCTTTCAGACCCATTTCTGCTAGCCCCACA
891060 TCCTTTCAGACCCATTTCTGCTAGCCCCACA
1 TCCTTTCAGACCCATTTCTGCTAGCCCCACA
891091 T
1 T
891092 TCTATCTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.41, G:0.10, T:0.30
Consensus pattern (31 bp):
TCCTTTCAGACCCATTTCTGCTAGCCCCACA
Found at i:891753 original size:20 final size:21
Alignment explanation
Indices: 891728--891769 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
891718 CATGATATTG
891728 GTACATTTTT-ATAAATGGAA
1 GTACATTTTTCATAAATGGAA
891748 GTACATTTTTCATAAATGGAA
1 GTACATTTTTCATAAATGGAA
891769 G
1 G
891770 CGACAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (21 bp):
GTACATTTTTCATAAATGGAA
Found at i:903168 original size:13 final size:13
Alignment explanation
Indices: 903137--903173 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
903127 TTATTATAAA
903137 CAAAATAAACAACC
1 CAAAATAAA-AACC
*
903151 CAAAATAAAAATC
1 CAAAATAAAAACC
903164 CAAAATAAAA
1 CAAAATAAAA
903174 CAAAAACGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.70, C:0.19, G:0.00, T:0.11
Consensus pattern (13 bp):
CAAAATAAAAACC
Found at i:906237 original size:21 final size:21
Alignment explanation
Indices: 906213--906254 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
906203 GAAGTTAAAA
906213 TGTTTTAATTTCTCA-TTAATT
1 TGTTTTAATTTC-CATTTAATT
906234 TGTTTTAATTTCCATTTAATT
1 TGTTTTAATTTCCATTTAATT
906255 ACAAAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.62
Consensus pattern (21 bp):
TGTTTTAATTTCCATTTAATT
Found at i:911725 original size:6 final size:6
Alignment explanation
Indices: 911708--911745 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
911698 TACCTTCTTC
*
911708 TCCCCTT TCCCCT TCCCCT TCCCTT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
911746 GGGTTGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
TCCCCT
Found at i:911745 original size:18 final size:18
Alignment explanation
Indices: 911710--911745 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
911700 CCTTCTTCTC
911710 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
911728 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
911746 GGGTTGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (18 bp):
CCCTTTCCCCTTCCCCTT
Found at i:913541 original size:39 final size:39
Alignment explanation
Indices: 913492--913572 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
913482 TTCTTCATGG
*
913492 TTATTTTTGCTTTCATGTTATCAACCATTTATTATGACC
1 TTATTCTTGCTTTCATGTTATCAACCATTTATTATGACC
913531 TTATTCTTGCTTTCATGTTATCAACCATTTATTATGACC
1 TTATTCTTGCTTTCATGTTATCAACCATTTATTATGACC
913570 TTA
1 TTA
913573 CTTTGCTACG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.07, T:0.51
Consensus pattern (39 bp):
TTATTCTTGCTTTCATGTTATCAACCATTTATTATGACC
Found at i:914838 original size:21 final size:21
Alignment explanation
Indices: 914789--914841 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
914779 CGTTGTTTTT
**
914789 AATCTCAATGCTACAGTACCC
1 AATCTCACCGCTACAGTACCC
914810 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTACCC
914831 AATCTCACCGC
1 AATCTCACCGC
914842 CACCGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTACCC
Found at i:915708 original size:31 final size:29
Alignment explanation
Indices: 915677--915732 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
915667 AAAATTTGAA
915677 AAAGGTAAAC-TTTTAGTCACTTATATTTG
1 AAAGGT-AACGTTTTAGTCACTTATATTTG
* *
915706 AAATGTTACGTTTTAGTCACTTATATT
1 AAAGGTAACGTTTTAGTCACTTATATT
915733 AACGTATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (29 bp):
AAAGGTAACGTTTTAGTCACTTATATTTG
Found at i:915963 original size:20 final size:21
Alignment explanation
Indices: 915938--915979 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
915928 TTTCATTATC
* *
915938 TTCTA-CTTCTTCATCTGTTT
1 TTCTACCTTCTCCATCTCTTT
915958 TTCTACCTTCTCCATCTCTTT
1 TTCTACCTTCTCCATCTCTTT
915979 T
1 T
915980 AATATAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.10, C:0.31, G:0.02, T:0.57
Consensus pattern (21 bp):
TTCTACCTTCTCCATCTCTTT
Found at i:925926 original size:2 final size:2
Alignment explanation
Indices: 925919--925950 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
925909 TGAGTGGGAA
925919 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
925951 CTTATTTTCT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:930928 original size:20 final size:20
Alignment explanation
Indices: 930892--930942 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
930882 TCATTCTACT
*
930892 AAAAATTA--TAAATTATAA
1 AAAAATTATTTAAAATATAA
*
930910 AAAAATTATTTAAAATATAT
1 AAAAATTATTTAAAATATAA
*
930930 GAAAATT-TTTAAA
1 AAAAATTATTTAAA
930943 GTCGTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.29
19 6 0.21
20 14 0.50
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAAATTATTTAAAATATAA
Found at i:936751 original size:6 final size:7
Alignment explanation
Indices: 936732--936759 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
936722 AGTTCAGATC
936732 GGTTTTT
1 GGTTTTT
936739 GGTTTTT
1 GGTTTTT
936746 GGTTTTT
1 GGTTTTT
936753 GGTTTTT
1 GGTTTTT
936760 TTACTTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (7 bp):
GGTTTTT
Found at i:936903 original size:16 final size:15
Alignment explanation
Indices: 936884--936920 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
936874 ATTATAAAAG
936884 AAAAAT-AATAATATT
1 AAAAATAAATAATA-T
936899 AAAAATAAATAATAT
1 AAAAATAAATAATAT
936914 AAAAATA
1 AAAAATA
936921 TGCAATCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAATAAATAATAT
Found at i:936982 original size:15 final size:16
Alignment explanation
Indices: 936953--936987 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
936943 TTATAAAAAT
*
936953 ATATAAAATTTTAATA
1 ATATAAAATTATAATA
936969 ATATAAAA-TATAATA
1 ATATAAAATTATAATA
936984 ATAT
1 ATAT
936988 GTATTAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAAAATTATAATA
Found at i:950097 original size:20 final size:20
Alignment explanation
Indices: 950072--950120 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
950062 TGAGTTATTT
950072 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
950092 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
950112 AAG-AAGCAA
1 AAGTAAGCAA
950121 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:952730 original size:33 final size:33
Alignment explanation
Indices: 952688--952985 Score: 149
Period size: 33 Copynumber: 8.4 Consensus size: 33
952678 GTGGATTCAA
*
952688 CACTTAGCAACCACCAGTGATTCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
*
952721 CACTTAGCAACCCCTTTCACATTCAATGATACGGTGGAATCAG
1 CACTTAGCAA---C---CAC---CAATGATTCGG-GGAATCAG
* * * *
952764 CAATTAGCAATCACCAATGAATCGGGGAATAAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * * *
952797 TACTTAGCAACCCCTTTCACATTTAGGATACGGTGGGATCAG
1 CACTTAGCAACCAC---CA-A--T--GATTCGG-GGAATCAG
*
952839 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * *
952872 CACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAG
1 CACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGAATCAG
*
952914 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* *
952947 CCCTTAGCAACC-CC-----TTGGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
952974 CACTTAGCAACC
1 CACTTAGCAACC
952986 CCCTTTATAT
Statistics
Matches: 205, Mismatches: 32, Indels: 62
0.69 0.11 0.21
Matches are distributed among these distances:
27 22 0.11
32 2 0.01
33 63 0.31
34 21 0.10
36 7 0.03
37 5 0.02
38 2 0.01
39 9 0.04
41 12 0.06
42 45 0.22
43 17 0.08
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAG
Found at i:952845 original size:42 final size:41
Alignment explanation
Indices: 952713--952962 Score: 172
Period size: 33 Copynumber: 6.6 Consensus size: 41
952703 AGTGATTCGG
*
952713 GGAATCAGCACTTAGCAACCCCTTTCACATTCA-ATGATACGGT
1 GGAATCAGCACTTAGCAACCCC-TTCACATTTAGA--ATACGGT
* * *
952756 GGAATCAGCAATTAGCAATCAC--CA-A--T-GAAT-CGG-
1 GGAATCAGCACTTAGCAACCCCTTCACATTTAGAATACGGT
* * *
952789 GGAATAAGTACTTAGCAACCCCTTTCACATTTAGGATACGGT
1 GGAATCAGCACTTAGCAACCCC-TTCACATTTAGAATACGGT
* *
952831 GGGATCAGCACTTAGCAACCAC--CA-A--T-GAAT-CGG-
1 GGAATCAGCACTTAGCAACCCCTTCACATTTAGAATACGGT
*
952864 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAA-CCCCTTCACATTTAGAATACGGT
*
952906 GGAATCAGCACTTAGCAACCAC--CA-A--T-GAAT-CGG-
1 GGAATCAGCACTTAGCAACCCCTTCACATTTAGAATACGGT
*
952939 GGAATCAGCCCTTAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCCCTT
952963 GGGGGAATCA
Statistics
Matches: 164, Mismatches: 22, Indels: 50
0.69 0.09 0.21
Matches are distributed among these distances:
33 54 0.33
34 12 0.07
35 8 0.05
36 6 0.04
37 3 0.02
38 2 0.01
39 7 0.04
40 8 0.05
41 9 0.05
42 36 0.22
43 19 0.12
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCTTCACATTTAGAATACGGT
Found at i:952856 original size:75 final size:75
Alignment explanation
Indices: 952676--952962 Score: 439
Period size: 75 Copynumber: 3.8 Consensus size: 75
952666 TATCCGTTAT
* * * *
952676 CGGTGGATTCAACACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
952741 ATTCAATGATA
66 ATTTAA-GATA
* * * *
952752 CGGTGGAATCAGCAATTAGCAATCACCAATGAATCGGGGAATAAGTACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
952817 ATTTAGGATA
66 ATTTAAGATA
* *
952827 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
952892 ATTTAAAATA
66 ATTTAAGATA
*
952902 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCCCTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
952963 GGGGGAATCA
Statistics
Matches: 190, Mismatches: 21, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
75 129 0.68
76 61 0.32
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTTAAGATA
Found at i:959961 original size:33 final size:33
Alignment explanation
Indices: 959915--960117 Score: 156
Period size: 33 Copynumber: 5.6 Consensus size: 33
959905 ATTATACGGT
959915 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * *
959948 GGAATCAGTACTTAGAAACCCCTTTCACATTTAAGATAT-GG
1 GGAATCAGCACTTAGCAACCAC---CA-A--T--GA-ATCGG
*
959989 TGGGATCAGCACTTAGCAACCACCAATGAATCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * *
960023 GGAATCAGCACTTAACAACCCCCTTCACATTTAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAAT-CGG
*
960064 TGGAATCAGCACTTAGCAACCACCAACGAATCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
960098 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
960118 CCTTAGGGGA
Statistics
Matches: 135, Mismatches: 15, Indels: 40
0.71 0.08 0.21
Matches are distributed among these distances:
33 57 0.42
34 10 0.07
35 3 0.02
36 5 0.04
37 2 0.01
38 2 0.01
39 6 0.04
40 3 0.02
41 10 0.07
42 37 0.27
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:959961 original size:76 final size:75
Alignment explanation
Indices: 959835--960121 Score: 430
Period size: 75 Copynumber: 3.8 Consensus size: 75
959825 TATCCGTTAT
* * * * *
959835 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGAGGAATCAACACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
959900 ATTCAATTATA
66 ATTTAA-TATA
* *
959911 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGTACTTAGAAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
959976 ATTTAAGATA
66 ATTTAATATA
* * * *
959986 TGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAACAACCCCCTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
960051 ATTTAAAATA
66 ATTTAATATA
*
960061 CGGTGGAATCAGCACTTAGCAACCACCAACGAATCGGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
960122 AGGGGAATCA
Statistics
Matches: 190, Mismatches: 21, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
75 127 0.67
76 63 0.33
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTTAATATA
Found at i:965413 original size:42 final size:43
Alignment explanation
Indices: 965312--965415 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
965302 TCTCTAGATT
* * *
965312 GTGTGCAATTCGAAATAGGGCCACACAGTCGTGTTGCCATACC
1 GTGTGCAATTCAAAATAGGGCCACACAGCCGTGTTGCCAGACC
* * * * * *
965355 ATGTGCAATTCCAAATAGGGTCATACGGCCGTGTTG-TAGACC
1 GTGTGCAATTCAAAATAGGGCCACACAGCCGTGTTGCCAGACC
965397 GTGTGCAATTCAAAATAGG
1 GTGTGCAATTCAAAATAGG
965416 ATCACATGAT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 21 0.41
43 30 0.59
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (43 bp):
GTGTGCAATTCAAAATAGGGCCACACAGCCGTGTTGCCAGACC
Found at i:965430 original size:42 final size:42
Alignment explanation
Indices: 965312--965430 Score: 105
Period size: 42 Copynumber: 2.8 Consensus size: 42
965302 TCTCTAGATT
* * * *
965312 GTGTGCAATTCGAAATAGGGCCACACAGTCGTGTTGCCATACC
1 GTGTGCAATTCAAAATAGGGTCACAGA-TCGTGTTGCCAGACC
* * * ** *
965355 ATGTGCAATTCCAAATAGGGTCATACGGCCGTGTTG-TAGACC
1 GTGTGCAATTCAAAATAGGGTCACA-GATCGTGTTGCCAGACC
*
965397 GTGTGCAATTCAAAATAGGATCACATGATCGTGT
1 GTGTGCAATTCAAAATAGGGTCACA-GATCGTGT
965431 CACAAATTGT
Statistics
Matches: 59, Mismatches: 16, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
42 31 0.53
43 28 0.47
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (42 bp):
GTGTGCAATTCAAAATAGGGTCACAGATCGTGTTGCCAGACC
Found at i:967766 original size:68 final size:68
Alignment explanation
Indices: 967657--967840 Score: 232
Period size: 68 Copynumber: 2.7 Consensus size: 68
967647 GAAAGTCTGC
*
967657 CAGGACATTAAACATG-GAGATTACAAGTGTAAGACCATAGCTCAACTATGGCAACCAATAGAGC
1 CAGGACATTAAACATGAG-GATTACAAGTGTAAGACCATAGCTCAACTATGGAAACCAATAGAG-
967721 CCT-T
64 CCTGT
* * * * *
967725 CAGGACATTAGACATGAGGATTACAGGTGTAAGATCATAGCTCGACTATGGAAACCAATAGAGTC
1 CAGGACATTAAACATGAGGATTACAAGTGTAAGACCATAGCTCAACTATGGAAACCAATAGAGCC
967790 TGT
66 TGT
* * *
967793 CAGGACATTAAACATGAGGCATGATAA--GTAAGACCATAGCTCGACTAT
1 CAGGACATTAAACATGAGG-ATTACAAGTGTAAGACCATAGCTCAACTAT
967841 AGCAACATAT
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
67 22 0.22
68 75 0.74
69 5 0.05
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (68 bp):
CAGGACATTAAACATGAGGATTACAAGTGTAAGACCATAGCTCAACTATGGAAACCAATAGAGCC
TGT
Found at i:967855 original size:67 final size:66
Alignment explanation
Indices: 967650--967856 Score: 231
Period size: 68 Copynumber: 3.1 Consensus size: 66
967640 AACATGTGAA
* *
967650 AGTCTGCCAGGACATTAAACATG-GAGATTACAAGTGTAAGACCATAGCTCAACTATGGCAACCA
1 AGTCTGTCAGGACATTAAACATGAG-GATTACAA--GTAAGACCATAGCTCGACTATGGCAACCA
967714 ATAG
63 ATAG
* * * * *
967718 AGCCCT-TCAGGACATTAGACATGAGGATTACAGGTGTAAGATCATAGCTCGACTATGGAAACCA
1 AG-TCTGTCAGGACATTAAACATGAGGATTACA--AGTAAGACCATAGCTCGACTATGGCAACCA
967782 ATAG
63 ATAG
* * *
967786 AGTCTGTCAGGACATTAAACATGAGGCATGATAAGTAAGACCATAGCTCGACTATAGCAA-CATA
1 AGTCTGTCAGGACATTAAACATGAGG-ATTACAAGTAAGACCATAGCTCGACTATGGCAACCA-A
967850 TAG
64 TAG
967853 AGTC
1 AGTC
967857 AATTGGGACA
Statistics
Matches: 117, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
66 2 0.02
67 33 0.28
68 75 0.64
69 7 0.06
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (66 bp):
AGTCTGTCAGGACATTAAACATGAGGATTACAAGTAAGACCATAGCTCGACTATGGCAACCAATA
G
Found at i:977985 original size:217 final size:217
Alignment explanation
Indices: 977712--978163 Score: 606
Period size: 217 Copynumber: 2.1 Consensus size: 217
977702 GATTTGTTTA
* * * * * *
977712 TTCAGTCTACCCCACTACAATTTCAGGGGGATAAGACTTACTTTCTTGGTCTGCTCCATTGCAAC
1 TTCAGTCTGCCCCACTACAATTTCAGGAGGATAAGACCTACTTACTTAGTCTGCTCCACTGCAAC
* *
977777 TTCAGGGAGATAAGACCT-GATATGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCAGTGGTT
66 TTCAGGGAGATAAGA-CTAGATATGATCTGCTCTCTACAACTTCAGAGAGATAAGATCAGTGATT
* *
977841 TTAATCCGCTCCACTGCAA-CTTCAAGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAAC
130 TTAATCCGATCCACTGCAACCTT-AAGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGCAAC
*
977905 TTCAGGGAGATAAGATTCGCCA-TC
194 CTCAGGGAGATAAGATTCG-CAGTC
* * * *
977929 TTCAGTCTGCCTCACTGCAACTTT-AGGAGGATAAGACCTGCTTACTTAGTCTGCTCCACTGTAA
1 TTCAGTCTGCCCCACTACAA-TTTCAGGAGGATAAGACCTACTTACTTAGTCTGCTCCACTGCAA
* * *
977993 CTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTACAACTTCAGAGAGATAAGATCCGTTATT
65 CTTCAGGGAGATAAGACTAGATATGATCTGCTCTCTACAACTTCAGAGAGATAAGATCAGTGATT
* * * * *
978058 TTAATCTGATCCGCTGTAACCTTAGGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGTAACC
130 TTAATCCGATCCACTGCAACCTTAAGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGCAACC
*
978123 TCAGGGAGATAAGATTTGCAGTC
195 TCAGGGAGATAAGATTCGCAGTC
* *
978146 TTCAATCTGCTCCACTAC
1 TTCAGTCTGCCCCACTAC
978164 TGCTCATGGA
Statistics
Matches: 203, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
216 4 0.02
217 193 0.95
218 6 0.03
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
TTCAGTCTGCCCCACTACAATTTCAGGAGGATAAGACCTACTTACTTAGTCTGCTCCACTGCAAC
TTCAGGGAGATAAGACTAGATATGATCTGCTCTCTACAACTTCAGAGAGATAAGATCAGTGATTT
TAATCCGATCCACTGCAACCTTAAGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGCAACCT
CAGGGAGATAAGATTCGCAGTC
Found at i:978138 original size:44 final size:44
Alignment explanation
Indices: 977761--978138 Score: 212
Period size: 44 Copynumber: 8.8 Consensus size: 44
977751 ACTTTCTTGG
* ** * * *
977761 TCTGCTCCATTGCAACTTCAGGGAGATAAGA--CCT-GATATGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAA
* * * * *
977802 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCAGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAA
* * *
977845 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAA
* * *
977889 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TCGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGC-T-TT-AA
* ** * *
977934 TCTGC-CTCACTGCAACTTTA-GGAGGATAAGACCTGCTT-AC-TTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGA--TTATTGGCTTTAA
* * * * *
977978 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTA---GATGTGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAA
* * * ** **
978019 TCTGCT-CTCTACAACTTCAGAGAGATAAGATCCGTT-ATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATTGGCTTTAA
* * *
978062 TCTGATCCGCTGTAACCTT-AGGGAGATAAGATTATTGGCTTTAA
1 TCTGCTCCACTGCAA-CTTCAGGGAGATAAGATTATTGGCTTTAA
* *
978106 TCTGCTCCACTGTAACCTCAGGGAGATAAGATT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT
978139 TGCAGTCTTC
Statistics
Matches: 255, Mismatches: 59, Indels: 43
0.71 0.17 0.12
Matches are distributed among these distances:
40 41 0.16
41 13 0.05
42 4 0.02
43 23 0.09
44 138 0.54
45 34 0.13
48 1 0.00
49 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAA
Found at i:978349 original size:44 final size:44
Alignment explanation
Indices: 978284--978616 Score: 241
Period size: 44 Copynumber: 7.6 Consensus size: 44
978274 TGTCTTCGAT
* *
978284 CTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
** ** * *
978328 CTACTCCACTGTTGCTCAGGGAGATAA-AGT-TGGGGA-TTTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGA-TCT-GTAATTTTCAAC
* * *
978371 CTGCTCCACTACTGC-CTAGGGAGATAACATTTGTAATTTTCAAC
1 CTACTCCACTACTGCTC-AGGGAGATAAGATCTGTAATTTTCAAC
* * ** * * *
978415 CTACTCCACTACTGCTTAGGGAGATAA-AGCTAGGGA-CTTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGATCT-GTAATTTTCAAC
* *
978458 CTACTCCACTACTGCTTACGGAGATAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
* * * * ** * * *
978502 CTACTGCACTGCTGCTCAAGGAGATAAG-GCTGGGGA-CTTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGATCT-GTAATTTTCAAC
* * * *
978545 ATGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
* * *
978589 CTATTCTACTGCTGCTCAGGGAGATAAG
1 CTACTCCACTACTGCTCAGGGAGATAAG
978617 GCTGGGGACT
Statistics
Matches: 215, Mismatches: 61, Indels: 26
0.71 0.20 0.09
Matches are distributed among these distances:
42 1 0.00
43 95 0.44
44 119 0.55
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
Found at i:978392 original size:43 final size:43
Alignment explanation
Indices: 978278--978658 Score: 209
Period size: 43 Copynumber: 8.8 Consensus size: 43
978268 GGCTAGTGTC
* **
978278 TTCGATCTACTCCACTACTGTTTAGGGAGAT-AAGATCT-GTAATT
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAG-T-TGGGGA-T
* * ** *
978322 TTCAACCTACTCCACTGTTGCTCAGGGAGATAAAGTTGGGGAT
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAGTTGGGGAT
* * * **
978365 TTCGATCTGCTCCACTACTGCCTAGGGAGATAACA-TTTGTAATT
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAA-AGTTGGGGA-T
* * * * *
978409 TTCAACCTACTCCACTACTGCTTAGGGAGATAAAGCTAGGGAC
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAGTTGGGGAT
* **
978452 TTCGATCTACTCCACTACTGCTTACGGAGAT-AAGATCT-GTAATT
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAG-T-TGGGGA-T
* * * * * * * * *
978496 TTCAACCTACTGCACTGCTGCTCAAGGAGATAAGGCTGGGGAC
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAGTTGGGGAT
* * * **
978539 TTCGATATGCTCCATTACTGCTTAGGGAGAT-AAGATCT-GTAATT
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAG-T-TGGGGA-T
* * * * * * * * *
978583 TTCAACCTATTCTACTGCTGCTCAGGGAGATAAGGCTGGGGAC
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAGTTGGGGAT
*
978626 TTCGATCTGCTCCACTACTGCTTAGGGAGATAA
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAA
978659 GATCTTTGAT
Statistics
Matches: 242, Mismatches: 80, Indels: 31
0.69 0.23 0.09
Matches are distributed among these distances:
42 5 0.02
43 115 0.48
44 115 0.48
45 7 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
TTCGATCTACTCCACTACTGCTTAGGGAGATAAAGTTGGGGAT
Found at i:978687 original size:87 final size:87
Alignment explanation
Indices: 978277--978663 Score: 585
Period size: 87 Copynumber: 4.4 Consensus size: 87
978267 AGGCTAGTGT
* * *
978277 CTTCGATCTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
*
978342 CTCAGGGAGATAAAGTTGGGGA
66 CTCAGGGAGATAAAGCTGGGGA
* * * * *
978364 TTTCGATCTGCTCCACTACTGCCTAGGGAGATAACATTTGTAATTTTCAACCTACTCCACTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
* *
978429 CTTAGGGAGATAAAGCTAGGGA
66 CTCAGGGAGATAAAGCTGGGGA
* * *
978451 CTTCGATCTACTCCACTACTGCTTACGGAGATAAGATCTGTAATTTTCAACCTACTGCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
* *
978516 CTCAAGGAGATAAGGCTGGGGA
66 CTCAGGGAGATAAAGCTGGGGA
* * * *
978538 CTTCGATATGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCTACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
*
978603 CTCAGGGAGATAAGGCTGGGGA
66 CTCAGGGAGATAAAGCTGGGGA
978625 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
978664 TTGATTTTTA
Statistics
Matches: 267, Mismatches: 33, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 267 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (87 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
CTCAGGGAGATAAAGCTGGGGA
Found at i:993131 original size:11 final size:11
Alignment explanation
Indices: 993115--993145 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
993105 TCCAGTGGAG
993115 TCGCCAAGCTA
1 TCGCCAAGCTA
993126 TCGCCAAGCTA
1 TCGCCAAGCTA
993137 TCGCCAAGC
1 TCGCCAAGC
993146 ACCCTCGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.26, C:0.39, G:0.19, T:0.16
Consensus pattern (11 bp):
TCGCCAAGCTA
Found at i:998104 original size:54 final size:54
Alignment explanation
Indices: 997987--998095 Score: 143
Period size: 54 Copynumber: 2.0 Consensus size: 54
997977 ATTTTTTTTC
*
997987 TTCAAAA-TTTAAATTTTGTTGAGGAATCTTAAAATTAATAATTTTAAATTTGA
1 TTCAAAATTTTAAATTTTGTTGAGGAATCTTAAAATTAAGAATTTTAAATTTGA
* * *
998040 TTCAAAATTTTAAA-TTTGATTGAGGCATCTTAAAATT-CGAATTCTTAATTTTGA
1 TTCAAAATTTTAAATTTTG-TTGAGGAATCTTAAAATTAAGAATT-TTAAATTTGA
998094 TT
1 TT
998096 TTATATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
53 15 0.31
54 34 0.69
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (54 bp):
TTCAAAATTTTAAATTTTGTTGAGGAATCTTAAAATTAAGAATTTTAAATTTGA
Found at i:1001458 original size:68 final size:68
Alignment explanation
Indices: 1001347--1001495 Score: 183
Period size: 68 Copynumber: 2.2 Consensus size: 68
1001337 TCCGTTAGAG
* * * * * *
1001347 CATTAAAAATTGGGATTACAGGTGTAAGACTATAGCTCAACTATGACATCTAATAGAGTCTG-CT
1 CATTAAAAATGGGGATTACAAGCGTAAAACTATAGCTCAACTATGACAACTAATAGAGTCCGTC-
1001411 AGGA
65 AGGA
* * * * *
1001415 CATTAAACATGGGGATTACAAGCGTAAAATTGTAGCTCCACTATGGCAACTAATAGAGTCCGTCA
1 CATTAAAAATGGGGATTACAAGCGTAAAACTATAGCTCAACTATGACAACTAATAGAGTCCGTCA
1001480 GGA
66 GGA
1001483 CATTAAAAATGGG
1 CATTAAAAATGGG
1001496 TTATAATGAG
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
68 67 0.99
69 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (68 bp):
CATTAAAAATGGGGATTACAAGCGTAAAACTATAGCTCAACTATGACAACTAATAGAGTCCGTCA
GGA
Found at i:1001614 original size:27 final size:27
Alignment explanation
Indices: 1001563--1001621 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
1001553 TAAATGTGCG
**
1001563 TAGTCCGCAAGGACAATAATCATGGGA
1 TAGTCCGCAAGGACAATAAAAATGGGA
* *
1001590 TAGTCCGCCAGGACAATAAAAATGGGG
1 TAGTCCGCAAGGACAATAAAAATGGGA
1001617 TAGTC
1 TAGTC
1001622 ATGATAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (27 bp):
TAGTCCGCAAGGACAATAAAAATGGGA
Found at i:1002470 original size:67 final size:67
Alignment explanation
Indices: 1002398--1002566 Score: 180
Period size: 67 Copynumber: 2.5 Consensus size: 67
1002388 CCGTTGGGAT
* * * * **
1002398 AGTAAACACGAGGTATGTTGTGTAAGATCATGGCTCGACTGTGGTGACATAAACAGTCCGTCAG-
1 AGTAAACACGAGGTATGTTGTGTAAGACCATAGCTCGACTATAGCAACATAAACAGTCCG-CAGA
*
1002462 GAC
65 AAC
* * * * *
1002465 AGTAAACA-TAGGGTATGTTGTCTAAGACCATAGCTCGACTATAGCAACATAGAGAGTCCGCCGA
1 AGTAAACACGA-GGTATGTTGTGTAAGACCATAGCTCGACTATAGCAACATAAACAGTCCGCAGA
1002529 AAC
65 AAC
* *
1002532 AGTAAACACGGGGTATGATGTGTAAGACCATAGCT
1 AGTAAACACGAGGTATGTTGTGTAAGACCATAGCT
1002567 TAGTTATGGA
Statistics
Matches: 83, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
66 3 0.04
67 80 0.96
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.22
Consensus pattern (67 bp):
AGTAAACACGAGGTATGTTGTGTAAGACCATAGCTCGACTATAGCAACATAAACAGTCCGCAGAA
AC
Found at i:1004498 original size:71 final size:70
Alignment explanation
Indices: 1004344--1004504 Score: 207
Period size: 71 Copynumber: 2.3 Consensus size: 70
1004334 TTATCAACTT
* *
1004344 TTAGAACCGAATGTATATTCACTATAAACATGAATAGCCGAATGCTTATATACATATATGCTTAA
1 TTAGAACCAAATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATA-GCTTAA
*
1004409 CAGATA
65 CAAATA
** * * *
1004415 TTAGCTCAAAATGTATATACACTTTGAACATGAATAGCCGAATGCATATATATACATATA-CTTA
1 TTAGAACCAAATGTATATACACTATAAACATGAATAGCCGAATGC-T-TATATACATATAGCTTA
1004479 ACAAATA
64 ACAAATA
*
1004486 TTATAACCAAATGTATATA
1 TTAGAACCAAATGTATATA
1004505 TGTATTTATC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
71 63 0.83
72 1 0.01
73 12 0.16
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.32
Consensus pattern (70 bp):
TTAGAACCAAATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATAGCTTAAC
AAATA
Found at i:1004559 original size:35 final size:35
Alignment explanation
Indices: 1004487--1004566 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
1004477 TAACAAATAT
* * * *
1004487 TATAACCAAATGTATATATGTATTTATCACCTGCA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
* **
1004522 TATATCCAAATGCATATATGTACTTAACATGTACA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
*
1004557 TATAATCAAA
1 TATAACCAAA
1004567 CCTATACAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (35 bp):
TATAACCAAATGCATATATGTACTTAACACCTACA
Found at i:1005012 original size:41 final size:41
Alignment explanation
Indices: 1004967--1005154 Score: 297
Period size: 41 Copynumber: 4.6 Consensus size: 41
1004957 ACCAGCAATT
* *
1004967 AGCCTGTTAGACGTAAAGTCTGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* *
1005008 AGCCTGCTAGACATAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* *
1005049 AGCCTGCTAGACGTAAAGT-TCGAAATATTTCACCGGTATCA
1 AGCCTGCTAGACGTAAAGTCT-GAAACATTTCACCGGCATCA
*
1005090 AGCTTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1005131 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
1005155 TCATCTTACT
Statistics
Matches: 133, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 131 0.98
42 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:1014273 original size:20 final size:20
Alignment explanation
Indices: 1014240--1014285 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1014230 TTGTTAAGTT
*
1014240 AAAAGAAGATAAAGTAAAGG
1 AAAAGAAGAGAAAGTAAAGG
* *
1014260 AAAAGCAGAGAAAGTAAATG
1 AAAAGAAGAGAAAGTAAAGG
1014280 AAAAGA
1 AAAAGA
1014286 GAAGTGAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.09
Consensus pattern (20 bp):
AAAAGAAGAGAAAGTAAAGG
Found at i:1017545 original size:40 final size:40
Alignment explanation
Indices: 1017495--1017772 Score: 152
Period size: 40 Copynumber: 7.2 Consensus size: 40
1017485 ACGCCCAGTG
*
1017495 CTAGTTGGATAAACCGACGATATCAAATGTGTGCCCAGCA
1 CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCA
* * * * * *
1017535 CTATTCGGATAAACTGAC-A-AT-GAGT-TGCGCCCAGCG
1 CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCA
* * *
1017571 TTAGTCAGG-TAAACTGACAATATCAAATGTGTGCCCAGCA
1 CTAGTC-GGATAAACCGACGATATCAAATGTGTGCCCAGCA
* ** * * * * *
1017611 CTAGTTGGATGTACCAAC-A-AT-GAGT-TGTGCCCAACG
1 CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCA
* * *
1017647 CTAGTCGGGTAAATCGATGATATCAAATGTGTGCCCAGCA
1 CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCA
* ** * * * * *
1017687 CTAGTTGGATGTACCGA-TA-AT-GAGT-TGCGCCCAGCG
1 CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCA
* *
1017723 CTAGTCGTG-TAAACTGACGATATCAAATGTGTGCCCAACA
1 CTAGTCG-GATAAACCGACGATATCAAATGTGTGCCCAGCA
*
1017763 CTAGTTGGAT
1 CTAGTCGGAT
1017773 GTACTAACAA
Statistics
Matches: 167, Mismatches: 55, Indels: 32
0.66 0.22 0.13
Matches are distributed among these distances:
36 62 0.37
37 12 0.07
38 12 0.07
39 12 0.07
40 69 0.41
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (40 bp):
CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCA
Done.