Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_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: 4819703
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 21
Found at i:2845097 original size:20 final size:21
Alignment explanation
Indices: 2845062--2845101 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2845052 ACTATACAAG
2845062 TGGTCTCTTATGATTTTGGTT
1 TGGTCTCTTATGATTTTGGTT
*
2845083 TGGTCTGTT-TGATTTTGGT
1 TGGTCTCTTATGATTTTGGT
2845102 CATTAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.07, C:0.07, G:0.28, T:0.57
Consensus pattern (21 bp):
TGGTCTCTTATGATTTTGGTT
Found at i:2846331 original size:15 final size:15
Alignment explanation
Indices: 2846313--2846366 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
2846303 AAGTAGAAGT
*
2846313 AGAAGAAGAAGTTGA
1 AGAAGAAGAAGATGA
* *
2846328 AGAAGACGATGATGA
1 AGAAGAAGAAGATGA
2846343 AGAAG-AG--GATGA
1 AGAAGAAGAAGATGA
*
2846355 AGAAGACGAAGA
1 AGAAGAAGAAGA
2846367 AACTCCAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 10 0.32
13 1 0.03
14 1 0.03
15 19 0.61
ACGTcount: A:0.52, C:0.04, G:0.35, T:0.09
Consensus pattern (15 bp):
AGAAGAAGAAGATGA
Found at i:2853594 original size:65 final size:65
Alignment explanation
Indices: 2853462--2853621 Score: 229
Period size: 65 Copynumber: 2.5 Consensus size: 65
2853452 TGCACTAAGA
* * * *
2853462 GTGCATCGATGCATGAAGTGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGTCTT
1 GTGCATCGATGCATAAAATGCATTTGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATGTCAT
2853526 GTGCATCGATGCATAAAATGCATTTGATGTTTTCATACAA-A-CCTGAGTGCATCGATGCATGGT
1 GTGCATCGATGCATAAAATGCATTTGATGTTTTCA-A-AATAGCCTGAGTGCATCGATGCAT-GT
2853589 -AT
63 CAT
2853591 GTGCATCGATGCATAAAATGCATTTGATGTT
1 GTGCATCGATGCATAAAATGCATTTGATGTT
2853622 CAATTTATTC
Statistics
Matches: 88, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
64 26 0.30
65 56 0.64
66 4 0.05
67 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTTGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATGTCAT
Found at i:2853660 original size:65 final size:63
Alignment explanation
Indices: 2853462--2853665 Score: 213
Period size: 65 Copynumber: 3.2 Consensus size: 63
2853452 TGCACTAAGA
* * * *
2853462 GTGCATCGATGCATGAAGTGCATTCGATG-TTTCA-A-AATAGCCTGAGTGCATCGATGCATGTC
1 GTGCATCGATGCATAAAATGCATTTGATGTTTTCATACAA-A--CTGAGTGCATCGATGCATG-G
2853524 TT
62 TT
2853526 GTGCATCGATGCATAAAATGCATTTGATGTTTTCATACAAACCTGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATAAAATGCATTTGATGTTTTCATACAAA-CTGAGTGCATCGATGCATGGT-T
* *
2853591 GTGCATCGATGCATAAAATGCATTTGATGTTCAATTTATTC-AA-TG-GTGCATCGATGCATGGA
1 GTGCATCGATGCATAAAATGCATTTGATGTT---TTCATACAAACTGAGTGCATCGATGCATGG-
2853653 TT
62 TT
2853655 GGTGCATCGAT
1 -GTGCATCGAT
2853666 ACACTCTTTT
Statistics
Matches: 125, Mismatches: 6, Indels: 17
0.84 0.04 0.11
Matches are distributed among these distances:
64 44 0.35
65 70 0.56
66 2 0.02
67 4 0.03
68 5 0.04
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTTGATGTTTTCATACAAACTGAGTGCATCGATGCATGGTT
Found at i:2854280 original size:2 final size:2
Alignment explanation
Indices: 2854273--2854353 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
2854263 ACCAAACCAA
2854273 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2854315 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2854354 AGTTCAAATA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2854414 original size:21 final size:22
Alignment explanation
Indices: 2854388--2854430 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2854378 AATATAAATC
* *
2854388 CAAACAAATTCAAAC-ATCCAA
1 CAAACAAAGTAAAACAATCCAA
2854409 CAAACAAAGTAAAACAATCCAA
1 CAAACAAAGTAAAACAATCCAA
2854431 AAGCATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.60, C:0.26, G:0.02, T:0.12
Consensus pattern (22 bp):
CAAACAAAGTAAAACAATCCAA
Found at i:2856459 original size:23 final size:22
Alignment explanation
Indices: 2856428--2856505 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 22
2856418 GGCCTTGTGC
2856428 ATCGATGCACATTCAAGGAGTGA
1 ATCGATGCACATTCAAGG-GTGA
* * * *
2856451 ATCGGTGCACCTTC-ATGGTGT
1 ATCGATGCACATTCAAGGGTGA
* *
2856472 ATCGATGCACATTCAAAAGGATGC
1 ATCGATGCACATTC--AAGGGTGA
2856496 ATCGATGCAC
1 ATCGATGCAC
2856506 TGTTTAGTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 15 0.35
22 2 0.05
23 12 0.28
24 14 0.33
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (22 bp):
ATCGATGCACATTCAAGGGTGA
Found at i:2860360 original size:21 final size:21
Alignment explanation
Indices: 2860335--2860374 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2860325 AAGACTATTT
2860335 TCATTTTT-TAATTTTGAAACA
1 TCATTTTTGT-ATTTTGAAACA
2860356 TCATTTTTGTATTTTGAAA
1 TCATTTTTGTATTTTGAAA
2860375 ATAGAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTGTATTTTGAAACA
Found at i:2862381 original size:45 final size:44
Alignment explanation
Indices: 2862297--2862385 Score: 101
Period size: 45 Copynumber: 2.0 Consensus size: 44
2862287 GGTGCACTAA
**
2862297 GAGTGCATCGATGCATGAAGTGCAATCGATGTTTCAAAATAGCAT
1 GAGTGCATCGATGCATGAAGTGCAATCGATGCATCAAAAT-GCAT
**
2862342 GAGTGCATCGATGCATGTCTTGTGC-ATCGATGCAT-AAAATGCAT
1 GAGTGCATCGATGCATG--AAGTGCAATCGATGCATCAAAATGCAT
2862386 TCGATGTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
44 4 0.11
45 22 0.58
46 8 0.21
47 4 0.11
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (44 bp):
GAGTGCATCGATGCATGAAGTGCAATCGATGCATCAAAATGCAT
Found at i:2862423 original size:65 final size:65
Alignment explanation
Indices: 2862299--2862458 Score: 193
Period size: 65 Copynumber: 2.5 Consensus size: 65
2862289 TGCACTAAGA
* * * *
2862299 GTGCATCGATGCATGAAGTGCAATCGATG-TTTCAAAATAGCATGAGTGCATCGATGCAT-GTCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCATGAGTGCATCGATGCATGGT-A
2862362 T
65 T
*
2862363 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATACAA-A-CCTGAGTGCATCGATGCATGGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-A-AATAGCATGAGTGCATCGATGCATGGT
2862426 AT
64 AT
* * *
2862428 GTTCATCGATGCATAAACTGTATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
2862459 CAATTTATTC
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 26 0.31
65 52 0.62
66 4 0.05
67 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCATGAGTGCATCGATGCATGGTAT
Found at i:2866075 original size:3 final size:3
Alignment explanation
Indices: 2866067--2866099 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
2866057 TCCAGATTTC
2866067 TCT TCT TCT TCT TCT TCT TCT TCTT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TC
2866100 CCCGTGAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:2866709 original size:19 final size:19
Alignment explanation
Indices: 2866685--2866734 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
2866675 ATGCCATCAA
2866685 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
2866704 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
2866723 TGCATCGATGCA
1 TGCATCGATGCA
2866735 CCACCCTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (19 bp):
TGCATCGATGCATAAGGAG
Found at i:2867456 original size:23 final size:23
Alignment explanation
Indices: 2867430--2867473 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2867420 TGGCACTACG
2867430 GTGCAATTCTACATGGCACTTAA
1 GTGCAATTCTACATGGCACTTAA
*
2867453 GTGCAATTCTACGTGGCACTT
1 GTGCAATTCTACATGGCACTT
2867474 CGGTGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (23 bp):
GTGCAATTCTACATGGCACTTAA
Found at i:2873862 original size:31 final size:31
Alignment explanation
Indices: 2873824--2873914 Score: 141
Period size: 31 Copynumber: 3.0 Consensus size: 31
2873814 TTATATAAGC
2873824 TATGTGATAAAGTGATGGAACATGATATGTT
1 TATGTGATAAAGTGATGGAACATGATATGTT
2873855 TATGTGATAAAGTGATGGAACATGATATGTT
1 TATGTGATAAAGTGATGGAACATGATATGTT
* *
2873886 TATGTAATAAAGAT-ATGGAA-ATTATATGT
1 TATGTGATAAAG-TGATGGAACATGATATGT
2873915 CTATACAATA
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
30 8 0.14
31 48 0.84
32 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.36
Consensus pattern (31 bp):
TATGTGATAAAGTGATGGAACATGATATGTT
Found at i:2874171 original size:23 final size:23
Alignment explanation
Indices: 2874145--2874196 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
2874135 ATGGAACTAT
*
2874145 GGTGTAATTCTACGTGGCACTTC
1 GGTGCAATTCTACGTGGCACTTC
*
2874168 GGTGCAATTCTACGTGGCATTTC
1 GGTGCAATTCTACGTGGCACTTC
2874191 GGTGCA
1 GGTGCA
2874197 TTTATACGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (23 bp):
GGTGCAATTCTACGTGGCACTTC
Found at i:2874204 original size:23 final size:23
Alignment explanation
Indices: 2874145--2874204 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
2874135 ATGGAACTAT
* *
2874145 GGTGTAATTCTACGTGGCACTTC
1 GGTGCAATTATACGTGGCACTTC
* *
2874168 GGTGCAATTCTACGTGGCATTTC
1 GGTGCAATTATACGTGGCACTTC
*
2874191 GGTGCATTTATACG
1 GGTGCAATTATACG
2874205 AGCTGTGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (23 bp):
GGTGCAATTATACGTGGCACTTC
Found at i:2879334 original size:2 final size:2
Alignment explanation
Indices: 2879327--2879388 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
2879317 TTAACTGCAT
2879327 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
2879369 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
2879389 AGACGCCATT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2879949 original size:20 final size:20
Alignment explanation
Indices: 2879891--2880013 Score: 65
Period size: 20 Copynumber: 6.2 Consensus size: 20
2879881 TTTTTTGAGT
2879891 AACTCGATTTT-TAAATTCGC
1 AACTCGATTTTCT-AATTCGC
* * * *
2879911 AACACGAGTTACGT-TTTCGC
1 AACTCGATTTTC-TAATTCGC
2879931 AACTCGATTTTCTAATTCGC
1 AACTCGATTTTCTAATTCGC
* * * *
2879951 AACGCAAGTTTC-AATTTTGC
1 AACTCGATTTTCTAA-TTCGC
* * * *
2879971 AACACGAATTTCGT-TTTTGC
1 AACTCGATTTTC-TAATTCGC
*
2879991 AACTCGATTTTCGAATTCGC
1 AACTCGATTTTCTAATTCGC
2880011 AAC
1 AAC
2880014 GCGAATTTAA
Statistics
Matches: 75, Mismatches: 21, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
19 3 0.04
20 71 0.95
22 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (20 bp):
AACTCGATTTTCTAATTCGC
Found at i:2879973 original size:40 final size:41
Alignment explanation
Indices: 2879891--2879982 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 41
2879881 TTTTTTGAGT
* *
2879891 AACTCGATTTT-TAAATTCGCAACACGAGTTACGTTTTCGC
1 AACTCGATTTTCTAAATTCGCAACACAAGTTACATTTTCGC
* *
2879931 AACTCGATTTTCT-AATTCGCAACGCAAGTTTCAATTTT-GC
1 AACTCGATTTTCTAAATTCGCAACACAAGTTAC-ATTTTCGC
* *
2879971 AACACGAATTTC
1 AACTCGATTTTC
2879983 GTTTTTGCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
40 39 0.89
41 5 0.11
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (41 bp):
AACTCGATTTTCTAAATTCGCAACACAAGTTACATTTTCGC
Found at i:2879977 original size:60 final size:60
Alignment explanation
Indices: 2879900--2880033 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 60
2879890 TAACTCGATT
* * *
2879900 TTTAAA-TTCGCAACACGAGTTACGTTTTCGCAACTCGATTTTCTAATTCGCAACGC-AA
1 TTTAAATTTTGCAACACGAATTACGTTTTCGCAACTCGATTTTCGAATTCGCAACGCGAA
* * *
2879958 GTTTCAATTTTGCAACACGAATTTCGTTTTTGCAACTCGATTTTCGAATTCGCAACGCGAA
1 -TTTAAATTTTGCAACACGAATTACGTTTTCGCAACTCGATTTTCGAATTCGCAACGCGAA
2880019 TTTAAATTTTGCAAC
1 TTTAAATTTTGCAAC
2880034 TCAACTTTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
59 5 0.08
60 59 0.89
61 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (60 bp):
TTTAAATTTTGCAACACGAATTACGTTTTCGCAACTCGATTTTCGAATTCGCAACGCGAA
Found at i:2879993 original size:40 final size:40
Alignment explanation
Indices: 2879949--2880055 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 40
2879939 TTTCTAATTC
* * * ***
2879949 GCAACGCAAGTTTCAATTTTGCAACACGAATTTCGTTTTT
1 GCAACTCAACTTTCAATTTCGCAACACGAATTTAAATTTT
* * *
2879989 GCAACTCGATTTTCGAA-TTCGCAACGCGAATTTAAATTTT
1 GCAACTCAACTTTC-AATTTCGCAACACGAATTTAAATTTT
*
2880029 GCAACTCAACTTTTAATTTCGCAACAC
1 GCAACTCAACTTTCAATTTCGCAACAC
2880056 AAATGTTTTG
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
39 2 0.04
40 49 0.92
41 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (40 bp):
GCAACTCAACTTTCAATTTCGCAACACGAATTTAAATTTT
Found at i:2880032 original size:20 final size:20
Alignment explanation
Indices: 2879949--2880033 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
2879939 TTTCTAATTC
2879949 GCAACGC-AAGTTTCAATTTT
1 GCAACGCGAA-TTTCAATTTT
* **
2879969 GCAACACGAATTTCGTTTTT
1 GCAACGCGAATTTCAATTTT
* * *
2879989 GCAACTCGATTTTCGAA-TTC
1 GCAACGCGAATTTC-AATTTT
*
2880009 GCAACGCGAATTTAAATTTT
1 GCAACGCGAATTTCAATTTT
2880029 GCAAC
1 GCAAC
2880034 TCAACTTTTA
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
19 2 0.04
20 46 0.92
21 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.34
Consensus pattern (20 bp):
GCAACGCGAATTTCAATTTT
Found at i:2880053 original size:60 final size:60
Alignment explanation
Indices: 2879925--2880053 Score: 163
Period size: 60 Copynumber: 2.1 Consensus size: 60
2879915 CGAGTTACGT
* * **
2879925 TTTCGCAACTCGATTTTCTAATTCGCAACGCAAGTTTCAATTTTGCAACACGAATTTCGT
1 TTTCGCAACTCGATTTTCGAATTCGCAACGCAAGTTTAAATTTTGCAACACGAATTTCAA
* * *
2879985 TTTTGCAACTCGATTTTCGAATTCGCAACGCGAA-TTTAAATTTTGCAACTC-AACTTTTAA
1 TTTCGCAACTCGATTTTCGAATTCGCAACGC-AAGTTTAAATTTTGCAACACGAA-TTTCAA
2880045 TTTCGCAAC
1 TTTCGCAAC
2880054 ACAAATGTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 2 0.03
60 55 0.93
61 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (60 bp):
TTTCGCAACTCGATTTTCGAATTCGCAACGCAAGTTTAAATTTTGCAACACGAATTTCAA
Found at i:2880455 original size:18 final size:18
Alignment explanation
Indices: 2880429--2880469 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2880419 AGGTGAAGAC
* *
2880429 GATTGTGATTGGGATTTT
1 GATTTTGATTGCGATTTT
2880447 GATTTTGATTGCGATTTT
1 GATTTTGATTGCGATTTT
2880465 GATTT
1 GATTT
2880470 CCCTTTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.02, G:0.27, T:0.54
Consensus pattern (18 bp):
GATTTTGATTGCGATTTT
Found at i:2881895 original size:16 final size:16
Alignment explanation
Indices: 2881862--2881895 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2881852 TTTACCAGAT
**
2881862 AAAAAACCGGTTTGAA
1 AAAAAACCGGTTAAAA
2881878 AAAAAACCGGTTAAAA
1 AAAAAACCGGTTAAAA
2881894 AA
1 AA
2881896 CCGGTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (16 bp):
AAAAAACCGGTTAAAA
Found at i:2884219 original size:21 final size:21
Alignment explanation
Indices: 2884195--2884234 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2884185 TTTATTTTAT
2884195 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
2884216 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
2884235 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:2884282 original size:33 final size:33
Alignment explanation
Indices: 2884229--2884327 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
2884219 TTTGTTTCAA
2884229 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
2884261 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
2884294 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
2884327 T
1 T
2884328 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:2884356 original size:13 final size:13
Alignment explanation
Indices: 2884313--2884367 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
2884303 TTGGAAGTAT
2884313 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
2884326 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
2884340 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
2884353 TTAAGTATTTGAA
1 TTAAGTATTTCAA
2884366 TT
1 TT
2884368 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:2884722 original size:15 final size:15
Alignment explanation
Indices: 2884697--2884752 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
2884687 ATCTGGAATA
*
2884697 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
2884712 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
2884727 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
2884744 TTAAAACCG
1 TTAAAACCG
2884753 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:2884761 original size:21 final size:18
Alignment explanation
Indices: 2884716--2884749 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2884706 GTTTTTTTAT
2884716 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
2884733 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
2884750 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:2888292 original size:15 final size:15
Alignment explanation
Indices: 2888272--2888302 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2888262 CTAAGAATTG
2888272 ATATTTAGAAAATAA
1 ATATTTAGAAAATAA
*
2888287 ATATTTATAAAATAA
1 ATATTTAGAAAATAA
2888302 A
1 A
2888303 ATCTAAATTT
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:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
ATATTTAGAAAATAA
Found at i:2889150 original size:61 final size:60
Alignment explanation
Indices: 2889048--2889195 Score: 165
Period size: 61 Copynumber: 2.5 Consensus size: 60
2889038 AATATGTAAA
*
2889048 TCGCAACACAGAA-ATCAAATTCGCAACGCGATTTCCAAATTCGCAACGT-GATTTACAAAT
1 TCGCAACAC-GAATTTCAAATTCGCAACGCGATTTCCAAATTCGCAAC-TCGATTTACAAAT
* * ** * *
2889108 TCGCAACAATGAATTTCAAATTCGCAACTCGATTTCTGAATTCGCAACTCGATTTTCGAAT
1 TCGCAAC-ACGAATTTCAAATTCGCAACGCGATTTCCAAATTCGCAACTCGATTTACAAAT
* * *
2889169 TCGTAACACGAATTTTAATTTCGCAAC
1 TCGCAACACGAATTTCAAATTCGCAAC
2889196 AGGTTTTATT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
60 28 0.38
61 46 0.62
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (60 bp):
TCGCAACACGAATTTCAAATTCGCAACGCGATTTCCAAATTCGCAACTCGATTTACAAAT
Found at i:2889168 original size:20 final size:20
Alignment explanation
Indices: 2889062--2889195 Score: 114
Period size: 20 Copynumber: 6.7 Consensus size: 20
2889052 AACACAGAAA
*
2889062 TCAAATTCGCAACGCGATTT
1 TCAAATTCGCAACTCGATTT
*
2889082 CCAAATTCGCAACGT-GATTT
1 TCAAATTCGCAAC-TCGATTT
* *
2889102 ACAAATTCGCAACAAT-GAATT
1 TCAAATTCGCAAC--TCGATTT
2889123 TCAAATTCGCAACTCGA-TT
1 TCAAATTCGCAACTCGATTT
*
2889142 TCTGAATTCGCAACTCGATTT
1 TC-AAATTCGCAACTCGATTT
* * *
2889163 TCGAATTCGTAACACGAATTT
1 TCAAATTCGCAACTCG-ATTT
*
2889184 T-AATTTCGCAAC
1 TCAAATTCGCAAC
2889196 AGGTTTTATT
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.05
20 65 0.68
21 26 0.27
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (20 bp):
TCAAATTCGCAACTCGATTT
Found at i:2890168 original size:24 final size:24
Alignment explanation
Indices: 2890141--2890194 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2890131 GTATTCGAAA
2890141 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
2890165 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
2890189 TTTGAT
1 TTTGAT
2890195 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:2893257 original size:18 final size:18
Alignment explanation
Indices: 2893236--2893272 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2893226 GTAATTGGAG
2893236 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
2893254 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
2893272 T
1 T
2893273 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:2893279 original size:24 final size:24
Alignment explanation
Indices: 2893228--2893280 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2893218 TTTCATATGT
* * *
2893228 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
2893252 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
2893276 AATTT
1 AATTT
2893281 CGGATCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:2894464 original size:18 final size:18
Alignment explanation
Indices: 2894441--2894476 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2894431 CAATCAAAAG
2894441 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
*
2894459 AAATCAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
2894477 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:2894893 original size:64 final size:64
Alignment explanation
Indices: 2894792--2894940 Score: 217
Period size: 64 Copynumber: 2.3 Consensus size: 64
2894782 AATTTAAAAC
*
2894792 AACAAATCAAATTTTACAAATCAATTAAACAAACAAAAAATAAGAATTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAACAAAAAATAAGAATTATTTACACATCAATTA
* ** *** * *
2894856 AACAAATCAACTTTTACAAATCAGTTAAACATGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAACAAAAAATAAGAATTATTTACACATCAATTA
2894920 AACAAATCAACTTTTACAAAT
1 AACAAATCAACTTTTACAAAT
2894941 ACATCAATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 76 1.00
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAACAAAAAATAAGAATTATTTACACATCAATTA
Found at i:2895631 original size:22 final size:22
Alignment explanation
Indices: 2895604--2895677 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
2895594 AGATGGAGAT
*
2895604 AGACGGATTTCGTCGGAGATTG
1 AGACGGATTTCGTCGGAGATGG
* ** *
2895626 AGACGGTTTTCACCGGATATGG
1 AGACGGATTTCGTCGGAGATGG
* **
2895648 GGACGGATTTCGTTAGAGATGG
1 AGACGGATTTCGTCGGAGATGG
*
2895670 GGACGGAT
1 AGACGGAT
2895678 GTCGCCGTAG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.23, C:0.14, G:0.38, T:0.26
Consensus pattern (22 bp):
AGACGGATTTCGTCGGAGATGG
Found at i:2895810 original size:19 final size:20
Alignment explanation
Indices: 2895788--2895825 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2895778 ACTATTGTGT
2895788 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
*
2895807 TTCGAGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
2895826 CGCGCTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:2895860 original size:20 final size:20
Alignment explanation
Indices: 2895835--2895880 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
2895825 ACGCGCTTTG
*
2895835 CGAATTTGACTTCTGTGTTA
1 CGAATTTGACTTATGTGTTA
*
2895855 CGAATTTGACTTATGTGTTG
1 CGAATTTGACTTATGTGTTA
2895875 CGAATT
1 CGAATT
2895881 ACAGATTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (20 bp):
CGAATTTGACTTATGTGTTA
Found at i:2895895 original size:20 final size:20
Alignment explanation
Indices: 2895872--2895920 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
2895862 GACTTATGTG
2895872 TTGCGAATTACAGATTCACA
1 TTGCGAATTACAGATTCACA
* * * *
2895892 TTGCGATTTACATATTCGCG
1 TTGCGAATTACAGATTCACA
2895912 TTGCGAATT
1 TTGCGAATT
2895921 TAGAAACTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (20 bp):
TTGCGAATTACAGATTCACA
Found at i:2896106 original size:18 final size:19
Alignment explanation
Indices: 2896064--2896110 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
2896054 TTTCTCAAAA
*
2896064 TTATAATTTTAAAAAATATC
1 TTATAATTTT-AAAAATAAC
*
2896084 TTATAATTTT-AAGATAAC
1 TTATAATTTTAAAAATAAC
2896102 TTAT-ATTTT
1 TTATAATTTT
2896111 TTTTTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
20 10 0.40
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (19 bp):
TTATAATTTTAAAAATAAC
Found at i:2896130 original size:21 final size:21
Alignment explanation
Indices: 2896106--2896145 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2896096 GATAACTTAT
* *
2896106 ATTTTTTTTTTATATTTTTTA
1 ATTTTTTCTTTAAATTTTTTA
2896127 ATTTTTTCTTTAAATTTTT
1 ATTTTTTCTTTAAATTTTT
2896146 AGCATTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (21 bp):
ATTTTTTCTTTAAATTTTTTA
Found at i:2899335 original size:15 final size:15
Alignment explanation
Indices: 2899315--2899434 Score: 213
Period size: 15 Copynumber: 8.0 Consensus size: 15
2899305 TAATAAGGTT
2899315 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2899330 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
2899345 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
2899360 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2899375 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
2899390 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
2899405 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
2899420 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
2899435 TAGATTGATT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 100 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:2899351 original size:30 final size:30
Alignment explanation
Indices: 2899315--2899489 Score: 215
Period size: 30 Copynumber: 5.5 Consensus size: 30
2899305 TAATAAGGTT
*
2899315 ATTTATTTTAAAATAATTTATTTTAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
* *
2899345 ATTTATTATAAAATAATTTATTTTAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
2899375 ATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
2899405 ATTTATTTTAAAATAATTTATTATAAAATATAGA
1 ATTTATTTTAAAATAATTTATTAT-AAA-AT--A
* *
2899439 TTGATTTATTTTAAAATAATTTATTAGTATAGATTG
1 ---ATTTATTTTAAAATAATTTATTA-TA-A-AATA
2899475 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2899490 TGAATTGATT
Statistics
Matches: 130, Mismatches: 5, Indels: 17
0.86 0.03 0.11
Matches are distributed among these distances:
30 81 0.62
31 3 0.02
32 2 0.02
33 15 0.12
34 1 0.01
37 24 0.18
38 3 0.02
39 1 0.01
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (30 bp):
ATTTATTTTAAAATAATTTATTATAAAATA
Found at i:2899496 original size:22 final size:22
Alignment explanation
Indices: 2899471--2899601 Score: 127
Period size: 22 Copynumber: 5.5 Consensus size: 22
2899461 ATTAGTATAG
2899471 ATTGATTTATTTTAAAATATGA
1 ATTGATTTATTTTAAAATATGA
*
2899493 ATTGATTTATTTTAAATAATTTATTA
1 ATTGATTTATTTT-AA-AA--TATGA
* *
2899519 GTATGATTTGATTTATTTTAAAATATGG
1 AT-TGA--T---TTATTTTAAAATATGA
* *
2899547 ATCGATTTATTTTAAAATATGG
1 ATTGATTTATTTTAAAATATGA
2899569 ATTGATTTATTTTAAAATATGA
1 ATTGATTTATTTTAAAATATGA
2899591 ATTGATTTATT
1 ATTGATTTATT
2899602 ATTGTAGTTG
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
22 60 0.66
23 2 0.02
24 2 0.02
25 1 0.01
26 5 0.05
27 5 0.05
28 4 0.04
29 1 0.01
30 2 0.02
31 2 0.02
32 7 0.08
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.52
Consensus pattern (22 bp):
ATTGATTTATTTTAAAATATGA
Found at i:2899652 original size:32 final size:31
Alignment explanation
Indices: 2899609--2899810 Score: 137
Period size: 32 Copynumber: 6.8 Consensus size: 31
2899599 ATTATTGTAG
2899609 TTGTATAGATTGATTTATTTTAAATAATTTA
1 TTGTATAGATTGATTTATTTTAAATAATTTA
* ** * *
2899640 TTAGTATAGATTGATTT-TATGGATTGATTTA
1 TT-GTATAGATTGATTTATTTTAAATAATTTA
* * * *
2899671 TTTTA-AAATATGGATTGA-TTT--ATTATTGTA
1 TTGTATAGAT-T-GATTTATTTTAAATAATT-TA
2899701 GTTGTATAGATTGATTTATTTTAAATAATTTA
1 -TTGTATAGATTGATTTATTTTAAATAATTTA
*
2899733 TTAGTATTGATTGATTTA-TTT-AA-AA--TA
1 TT-GTATAGATTGATTTATTTTAAATAATTTA
2899760 -TG---A-ATTGATTTATTTTAAATAATTTA
1 TTGTATAGATTGATTTATTTTAAATAATTTA
*
2899786 TTAGTATATATTGATTTATTTTAAA
1 TT-GTATAGATTGATTTATTTTAAA
2899811 ATATGGATTG
Statistics
Matches: 131, Mismatches: 18, Indels: 43
0.68 0.09 0.22
Matches are distributed among these distances:
21 9 0.07
22 3 0.02
23 2 0.02
24 2 0.02
25 1 0.01
26 3 0.02
27 3 0.02
28 1 0.01
29 9 0.07
30 12 0.09
31 32 0.24
32 49 0.37
33 5 0.04
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (31 bp):
TTGTATAGATTGATTTATTTTAAATAATTTA
Found at i:2899697 original size:93 final size:93
Alignment explanation
Indices: 2899564--2899749 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
2899554 TATTTTAAAA
2899564 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATAGATTGATTTATTT
1 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATAGATTGATTTATTT
2899629 TAAATAATTTATTAGTATAGATTGATTT
66 TAAATAATTTATTAGTATAGATTGATTT
*
2899657 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATAGATTGATTTATTT
1 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATAGATTGATTTATTT
*
2899722 TAAATAATTTATTAGTATTGATTGATTT
66 TAAATAATTTATTAGTATAGATTGATTT
2899750 ATTTAAAATA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (93 bp):
TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATAGATTGATTTATTT
TAAATAATTTATTAGTATAGATTGATTT
Found at i:2899774 original size:53 final size:54
Alignment explanation
Indices: 2899710--2900092 Score: 219
Period size: 54 Copynumber: 7.2 Consensus size: 54
2899700 AGTTGTATAG
2899710 ATTGATTTATTTTAAATAATTTATTAGTAT-TGATTGATTTA-TTTAAAATATGA
1 ATTGATTTATTTTAAATAATTTATTAGTATAT-ATTGATTTATTTTAAAATATGA
*
2899763 ATTGATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAAATATGG
1 ATTGATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAAATATGA
* * * * * * ** * * * *
2899817 ATTGATTTATTATT--GTAGTTGTATGGATTTTAT-TTTAAATAATTTATTAGTATGG
1 ATTGATTTATT-TTAAATAATT-TAT-TAGTATATATTGATTTATTTTA-AAATATGA
* * * * * * **
2899872 ATTGATTTGTTTTAAAATATGGATTGATTTATTTTA-AATAATTTA--TTAGTATA-G-
1 ATTGATTTATTTT-AAATA---ATTTA-TTAGTATATATTGATTTATTTTAAAATATGA
* * ***
2899926 ATTGATTTATTTT-AA-AA--TA-TAG-AT-TAATTTA-TTATTGTAGTTGTATGA
1 ATTGATTTATTTTAAATAATTTATTAGTATAT-ATTGATTTATTTTA-AAATATGA
* * * *
2899974 ATTTATTTATTTTAAATAATTTATTAGTATAGATTGATTTGTTTTAAAATATGG
1 ATTGATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAAATATGA
* *
2900028 ATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTCTTTTAAAATAT-A
1 ATTGATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAAATATGA
*
2900081 GATTAATTTATT
1 -ATTGATTTATT
2900093 ATTGTAGTTG
Statistics
Matches: 254, Mismatches: 46, Indels: 59
0.71 0.13 0.16
Matches are distributed among these distances:
43 4 0.02
44 5 0.02
45 2 0.01
46 4 0.02
47 1 0.00
48 13 0.05
49 2 0.01
50 2 0.01
51 1 0.00
52 4 0.02
53 46 0.18
54 119 0.47
55 30 0.12
56 2 0.01
57 5 0.02
59 11 0.04
60 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.53
Consensus pattern (54 bp):
ATTGATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAAATATGA
Found at i:2899892 original size:22 final size:22
Alignment explanation
Indices: 2899867--2899909 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2899857 AATTTATTAG
*
2899867 TATGGATTGATTTGTTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2899889 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2899910 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2899995 original size:80 final size:80
Alignment explanation
Indices: 2899889--2900038 Score: 255
Period size: 80 Copynumber: 1.9 Consensus size: 80
2899879 TGTTTTAAAA
*
2899889 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATAGATTAAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATAGATTAAT
2899954 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* * * *
2899969 TATGAATTTATTTATTTTAAATAATTTATTAGTATAGATTGATTTGTTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATAGATTAAT
2900034 TTATT
66 TTATT
2900039 TTAAATAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (80 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATAGATTAAT
TTATTATTGTAGTTG
Found at i:2900019 original size:32 final size:32
Alignment explanation
Indices: 2899978--2900075 Score: 108
Period size: 32 Copynumber: 3.4 Consensus size: 32
2899968 GTATGAATTT
2899978 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
*
2900010 ATTTGTTTT-AA-AA--TA-T-G----GATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
2900032 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
*
2900064 ATTTCTTTTAAA
1 ATTTATTTTAAA
2900076 ATATAGATTA
Statistics
Matches: 53, Mismatches: 3, Indels: 20
0.70 0.04 0.26
Matches are distributed among these distances:
22 13 0.25
23 2 0.04
24 2 0.04
26 3 0.06
27 2 0.04
28 3 0.06
30 2 0.04
31 2 0.04
32 24 0.45
ACGTcount: A:0.36, C:0.01, G:0.10, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATAGATTG
Found at i:2900036 original size:40 final size:40
Alignment explanation
Indices: 2899910--2900038 Score: 111
Period size: 40 Copynumber: 3.2 Consensus size: 40
2899900 TTATTTTAAA
*
2899910 TAATTTATTAGTATAGATTGATTTATTTTAAAATATAGAT
1 TAATTTATTAGTATAGATTGATTTGTTTTAAAATATAGAT
* * * ** * * *
2899950 TAATTTATTATTGTAG-TTG-TATGAATTTATTTATTTTA-AA
1 TAATTTATTAGTATAGATTGATTTG--TTT-TAAAATATAGAT
*
2899990 TAATTTATTAGTATAGATTGATTTGTTTTAAAATATGGAT
1 TAATTTATTAGTATAGATTGATTTGTTTTAAAATATAGAT
*
2900030 TGATTTATT
1 TAATTTATT
2900039 TTAAATAATT
Statistics
Matches: 64, Mismatches: 19, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
38 2 0.03
39 7 0.11
40 44 0.69
41 8 0.12
42 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (40 bp):
TAATTTATTAGTATAGATTGATTTGTTTTAAAATATAGAT
Found at i:2900046 original size:134 final size:134
Alignment explanation
Indices: 2899437--2900155 Score: 898
Period size: 134 Copynumber: 5.4 Consensus size: 134
2899427 ATAAAATATA
* * *
2899437 GATTGATTTATTTTAAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGATTTA
1 GATTTATTTATTTT-AAATAATTTATTAGTATAGATTGATTTGTTTTAAAATATGGATTGATTTA
* *
2899502 TTTTAAATAATTTATTAGTAT-GATTTGATTTATTTTAAAATATGGATCGATTTA-T-TT-TA-A
65 TTTTAAATAATTTATTAGTATAGA-TTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGT
**
2899562 AATATG
129 TGTATG
* ** ** *
2899568 GATTGATTTATTTTAAA-ATATGAATT-G-ATTTATT-ATTGTAGTTGT---ATA--GATTGATT
1 GATTTATTTATTTTAAATA-ATTTATTAGTATAGATTGATT-T-GTTTTAAAATATGGATTGATT
2899624 TATTTTAAATAATTTATTAGTATAGATTGATTTTATGGATTGATTTATTTTAAAATATGGATTGA
63 TATTTTAAATAA--T-TTA-T-TAG--T-A---TA--GATTGATTTATTTTAAAATATGGATTGA
*
2899689 TTTATTATTGTAGTTGTATA
115 TTTATTATTGTAGTTGTATG
* * * *
2899709 GATTGATTTATTTTAAATAATTTATTAGTATTGATTGATTT-ATTTAAAATATGAATTGATTTAT
1 GATTTATTTATTTTAAATAATTTATTAGTATAGATTGATTTGTTTTAAAATATGGATTGATTTAT
*
2899773 TTTAAATAATTTATTAGTATATATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
66 TTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
2899838 TATG
131 TATG
*
2899842 GA--T-TTTATTTTAAATAATTTATTAGTATGGATTGATTTGTTTTAAAATATGGATTGATTTAT
1 GATTTATTTATTTTAAATAATTTATTAGTATAGATTGATTTGTTTTAAAATATGGATTGATTTAT
* *
2899904 TTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATAGATTAATTTATTATTGTAGTTG
66 TTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
2899969 TATG
131 TATG
*
2899973 AATTTATTTATTTTAAATAATTTATTAGTATAGATTGATTTGTTTTAAAATATGGATTGATTTAT
1 GATTTATTTATTTTAAATAATTTATTAGTATAGATTGATTTGTTTTAAAATATGGATTGATTTAT
* * *
2900038 TTTAAATAATTTATTAGTATAGATTGATTTCTTTTAAAATATAGATTAATTTATTATTGTAGTTG
66 TTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
2900103 TATG
131 TATG
* *
2900107 GATTTATTTATTTTAAATAATTTATTATTATAGATTGATTTATTTTAAA
1 GATTTATTTATTTTAAATAATTTATTAGTATAGATTGATTTGTTTTAAA
2900156 TAATTTATTA
Statistics
Matches: 521, Mismatches: 33, Indels: 65
0.84 0.05 0.11
Matches are distributed among these distances:
124 19 0.04
126 4 0.01
127 6 0.01
128 7 0.01
129 8 0.02
130 42 0.08
131 103 0.20
132 1 0.00
133 49 0.09
134 172 0.33
135 3 0.01
137 29 0.06
138 4 0.01
139 3 0.01
140 2 0.00
141 30 0.06
142 3 0.01
143 10 0.02
144 7 0.01
146 19 0.04
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (134 bp):
GATTTATTTATTTTAAATAATTTATTAGTATAGATTGATTTGTTTTAAAATATGGATTGATTTAT
TTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
TATG
Found at i:2900116 original size:80 final size:72
Alignment explanation
Indices: 2900023--2900187 Score: 224
Period size: 80 Copynumber: 2.2 Consensus size: 72
2900013 TGTTTTAAAA
* *
2900023 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTCTTTTAAAATATAGATTAAT
1 TATGGATTTATTTATTTTAAATAATTTATTAGTATAGATTGATTT-ATTT----TA-A-A-TAAT
2900088 TTATTATTGTAGTTG
58 TTATTATTGTAGTTG
*
2900103 TATGGATTTATTTATTTTAAATAATTTATTATTATAGATTGATTTATTTTAAATAATTTATTATT
1 TATGGATTTATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTATT
2900168 GTAGTTG
66 GTAGTTG
2900175 TATGGA-TTATTTA
1 TATGGATTTATTTA
2900188 AATTTCAGTA
Statistics
Matches: 82, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
71 7 0.09
72 25 0.30
73 1 0.01
74 1 0.01
75 2 0.02
79 3 0.04
80 43 0.52
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.55
Consensus pattern (72 bp):
TATGGATTTATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTATT
GTAGTTG
Found at i:2900128 original size:40 final size:40
Alignment explanation
Indices: 2900084--2900187 Score: 136
Period size: 32 Copynumber: 2.8 Consensus size: 40
2900074 AAATATAGAT
2900084 TAATTTATTATTGTAGTTGTATGGATTTATTTATTTTAAA
1 TAATTTATTATTGTAGTTGTATGGATTTATTTATTTTAAA
*
2900124 TAATTTATTA-T-TA----TA--GATTGATTTATTTTAAA
1 TAATTTATTATTGTAGTTGTATGGATTTATTTATTTTAAA
2900156 TAATTTATTATTGTAGTTGTATGGA-TTATTTA
1 TAATTTATTATTGTAGTTGTATGGATTTATTTA
2900188 AATTTCAGTA
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
32 26 0.48
33 1 0.02
34 4 0.07
38 4 0.07
39 7 0.13
40 12 0.22
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.57
Consensus pattern (40 bp):
TAATTTATTATTGTAGTTGTATGGATTTATTTATTTTAAA
Found at i:2900131 original size:14 final size:14
Alignment explanation
Indices: 2900112--2900164 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 14
2900102 GTATGGATTT
2900112 ATTTATTTTAAATA
1 ATTTATTTTAAATA
*
2900126 ATTTATTATTATAGATTG
1 ATTTATT-TTA-A-A-TA
2900144 ATTTATTTTAAATA
1 ATTTATTTTAAATA
2900158 ATTTATT
1 ATTTATT
2900165 ATTGTAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 15 0.45
15 4 0.12
16 2 0.06
17 4 0.12
18 8 0.24
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:2900131 original size:18 final size:18
Alignment explanation
Indices: 2900108--2900164 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
2900098 AGTTGTATGG
2900108 ATTTATTTATTTTAAATA
1 ATTTATTTATTTTAAATA
2900126 ATTTA-TTA--TT--ATA
1 ATTTATTTATTTTAAATA
*
2900139 GATTGATTTATTTTAAATA
1 -ATTTATTTATTTTAAATA
2900158 ATTTATT
1 ATTTATT
2900165 ATTGTAGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
13 3 0.10
14 4 0.13
15 5 0.16
17 5 0.16
18 11 0.35
19 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
ATTTATTTATTTTAAATA
Found at i:2900215 original size:31 final size:31
Alignment explanation
Indices: 2900180--2900238 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2900170 AGTTGTATGG
* *
2900180 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
2900211 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
2900239 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:2902467 original size:21 final size:21
Alignment explanation
Indices: 2902350--2902467 Score: 80
Period size: 21 Copynumber: 5.7 Consensus size: 21
2902340 ACGCGAAATA
**
2902350 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
2902370 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
2902390 AAAATCGCAACGCGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* ** *
2902411 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* **
2902432 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
2902453 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
2902468 ACACATAAAT
Statistics
Matches: 72, Mismatches: 22, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 24 0.33
21 45 0.62
22 2 0.03
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:2902479 original size:20 final size:20
Alignment explanation
Indices: 2902454--2902627 Score: 208
Period size: 20 Copynumber: 8.7 Consensus size: 20
2902444 CGATTTTCCA
* *
2902454 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
2902474 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2902494 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
2902514 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
* *
2902534 AAATCGCAATGCGTATCTGT
1 AAATCGCAACGCGTATCCGT
*
2902554 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
2902574 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
2902594 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
2902615 AAATCGCAACGCG
1 AAATCGCAACGCG
2902628 ATATTTAAAG
Statistics
Matches: 131, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.01
20 112 0.85
21 17 0.13
22 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:2903049 original size:33 final size:33
Alignment explanation
Indices: 2903010--2903080 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
2903000 TTCACTTAGA
* *
2903010 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCACGTTACGATTCTCTCGTTGCGAT
* *
2903043 TTTCATTTCACGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCACGTTACGATTCTCTCGTTGCGAT
2903076 TTTCA
1 TTTCA
2903081 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCACGTTACGATTCTCTCGTTGCGAT
Found at i:2903204 original size:20 final size:20
Alignment explanation
Indices: 2903160--2903269 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
2903150 TGCAGAAGAG
*
2903160 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
2903181 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
2903201 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
2903222 TCGCAACGAGAGAAT-----
1 TCGCAACGAGAGAATGAAAA
*
2903237 T-GCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
2903255 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
2903270 CGCAACGCGA
Statistics
Matches: 72, Mismatches: 9, Indels: 17
0.73 0.09 0.17
Matches are distributed among these distances:
13 3 0.04
14 8 0.11
15 1 0.01
18 1 0.01
19 8 0.11
20 23 0.32
21 28 0.39
ACGTcount: A:0.45, C:0.17, G:0.25, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:2903217 original size:41 final size:39
Alignment explanation
Indices: 2903159--2903269 Score: 144
Period size: 41 Copynumber: 2.9 Consensus size: 39
2903149 TTGCAGAAGA
*
2903159 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT-A-T
2903200 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAG-A-AT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATAT
*
2903237 -T-GCAAC--GCGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
2903270 CGCAACGCGA
Statistics
Matches: 66, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
33 23 0.35
34 1 0.02
35 5 0.08
36 1 0.02
37 1 0.02
38 1 0.02
40 1 0.02
41 33 0.50
ACGTcount: A:0.45, C:0.17, G:0.25, T:0.13
Consensus pattern (39 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATAT
Found at i:2903233 original size:21 final size:21
Alignment explanation
Indices: 2903160--2903235 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2903150 TGCAGAAGAG
*
2903160 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
2903181 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
2903201 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
2903222 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
2903236 TTGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:2903250 original size:33 final size:33
Alignment explanation
Indices: 2903212--2903292 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
2903202 CGCAACGAGA
*
2903212 GAAATGAAAATCGCAACGAGAGAATTGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2903245 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
2903278 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
2903293 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.21, G:0.22, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2903272 original size:14 final size:14
Alignment explanation
Indices: 2903220--2903276 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2903210 GAGAAATGAA
2903220 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
2903234 AATTGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2903253 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2903267 AATCGCAACG
1 AATCGCAACG
2903277 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2903310 original size:19 final size:19
Alignment explanation
Indices: 2903288--2903415 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
2903278 GAAACCAAAA
*
2903288 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2903307 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2903321 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2903340 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2903354 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
2903374 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
2903394 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
2903414 TC
1 TC
2903416 AACCAAAAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.23
16 6 0.07
17 6 0.07
19 22 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2903329 original size:14 final size:14
Alignment explanation
Indices: 2903310--2903366 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2903300 TTTCATTTCG
2903310 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2903324 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2903343 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2903357 CGTTGCGATT
1 CGTTGCGATT
2903367 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2903335 original size:33 final size:33
Alignment explanation
Indices: 2903293--2903415 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
2903283 CAAAATCGCA
2903293 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2903326 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
2903359 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
2903400 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2903416 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2903377 original size:21 final size:21
Alignment explanation
Indices: 2903351--2903415 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
2903341 CGCGTTGCGA
2903351 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
2903372 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
2903392 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
2903413 TTC
1 TTC
2903416 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:2905272 original size:93 final size:93
Alignment explanation
Indices: 2905113--2905674 Score: 1108
Period size: 93 Copynumber: 6.1 Consensus size: 93
2905103 TAGATTGCTT
*
2905113 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2905178 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2905206 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2905271 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2905299 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2905364 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2905392 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2905457 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2905485 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2905550 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2905578 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2905643 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2905670 AGTAA
1 AGTAA
2905675 TGCAATCCAT
Statistics
Matches: 468, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
92 6 0.01
93 462 0.99
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2905746 original size:19 final size:19
Alignment explanation
Indices: 2905722--2905855 Score: 87
Period size: 19 Copynumber: 7.6 Consensus size: 19
2905712 TAGTTTACTT
* *
2905722 TCGCAACACGAACTTAAAA
1 TCGCAACGCGAACTCAAAA
2905741 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCG-AACTCAAAA
* *
2905760 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAACTCAAAA
*
2905779 TCGCAA--CG-A--CAGAA
1 TCGCAACGCGAACTCAAAA
2905793 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCG-AACTCAAAA
*
2905812 TCGCAA--CG-A--CAAGA
1 TCGCAACGCGAACTCAAAA
2905826 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCG-AACTCAAAA
*
2905845 TCGCAATGCGA
1 TCGCAACGCGA
2905856 TTTTGGTTTC
Statistics
Matches: 93, Mismatches: 10, Indels: 25
0.73 0.08 0.20
Matches are distributed among these distances:
14 19 0.20
15 1 0.01
16 5 0.05
17 4 0.04
18 5 0.05
19 56 0.60
20 3 0.03
ACGTcount: A:0.45, C:0.28, G:0.18, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAACTCAAAA
Found at i:2905800 original size:33 final size:32
Alignment explanation
Indices: 2905757--2905850 Score: 152
Period size: 33 Copynumber: 2.9 Consensus size: 32
2905747 CGCGAAACCA
**
2905757 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
2905789 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
2905822 AAGATCGCAACGCGAAACCAAAATCGCAA
1 AA-ATCGCAACGCGAAACCAAAATCGCAA
2905851 TGCGATTTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.03
33 56 0.97
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:2905847 original size:52 final size:51
Alignment explanation
Indices: 2905737--2905855 Score: 134
Period size: 52 Copynumber: 2.3 Consensus size: 51
2905727 ACACGAACTT
* *
2905737 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAAGCGAAAC-AC
* * *
2905789 AGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGATCGCAACGCGAAAC-C
1 AAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-AT-GAAAAGCGAAACAC
*
2905841 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
2905856 TTTTGGTTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
52 46 0.81
53 3 0.05
54 8 0.14
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (51 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAAGCGAAACAC
Found at i:2905867 original size:19 final size:19
Alignment explanation
Indices: 2905851--2906017 Score: 165
Period size: 19 Copynumber: 9.3 Consensus size: 19
2905841 AAAATCGCAA
2905851 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2905870 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2905884 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2905903 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2905917 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2905936 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2905955 TGCGATTTTGGTTTCTCGT
1 TGCGATTTTGGTTTCGCGT
* **
2905974 TGCGATTATCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2905993 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2906013 TGCGA
1 TGCGA
2906018 AAGTAAACTA
Statistics
Matches: 121, Mismatches: 16, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 22 0.18
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 80 0.66
20 12 0.10
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:2905937 original size:52 final size:54
Alignment explanation
Indices: 2905881--2906017 Score: 188
Period size: 57 Copynumber: 2.5 Consensus size: 54
2905871 GCGATCTTGT
*
2905881 CGTTGCGATTTTGGTTTCGCGTTGCGATTCT-G-TCGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTGGTTTCGCGTTGCGATTCTGGTTCGTTGCGATTATCATTTCG
*
2905933 CGTTGCGATTTTGGTTTCGCGTTGCGATTTTGGTTTCTCGTTGCGATTATCATTTCG
1 CGTTGCGATTTTGGTTTCGCGTTGCGATTCTGG--T-TCGTTGCGATTATCATTTCG
* *
2905990 CGTTGCGATTTTAAGTTTCGTGTTGCGA
1 CGTTGCGATTTT-GGTTTCGCGTTGCGA
2906018 AAGTAAACTA
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
52 30 0.40
53 1 0.01
57 31 0.41
58 13 0.17
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (54 bp):
CGTTGCGATTTTGGTTTCGCGTTGCGATTCTGGTTCGTTGCGATTATCATTTCG
Found at i:2905975 original size:38 final size:33
Alignment explanation
Indices: 2905851--2905980 Score: 170
Period size: 33 Copynumber: 3.8 Consensus size: 33
2905841 AAAATCGCAA
*
2905851 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
*
2905884 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
**
2905917 TGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTT-G--T--CGT
*
2905955 TGCGATTTTGGTTTCTCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2905981 ATCATTTCGC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
33 56 0.67
34 1 0.01
36 1 0.01
38 26 0.31
ACGTcount: A:0.07, C:0.18, G:0.28, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
Found at i:2905989 original size:38 final size:35
Alignment explanation
Indices: 2905851--2906017 Score: 155
Period size: 33 Copynumber: 4.7 Consensus size: 35
2905841 AAAATCGCAA
2905851 TGCGATTTTGGTTTCGCGTTGCG--ATC-TTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATATCTTTG-CGT
*
2905884 TGCGATTTTGGTTTCGCGTTGCGAT-TCTGT-CGT
1 TGCGATTTTGGTTTCGCGTTGCGATATCTTTGCGT
** * *
2905917 TGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGTTGCGA-TAT-CTTT-GCGT
*
2905955 TGCGATTTTGGTTTCTCGTTGCGATTATCATTTCGCGT
1 TGCGATTTTGGTTTCGCGTTGCGA-TATC-TTT-GCGT
* *
2905993 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
2906018 AAGTAAACTA
Statistics
Matches: 111, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
33 48 0.43
34 3 0.03
35 2 0.02
36 2 0.02
38 44 0.40
39 12 0.11
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (35 bp):
TGCGATTTTGGTTTCGCGTTGCGATATCTTTGCGT
Found at i:2907961 original size:14 final size:14
Alignment explanation
Indices: 2907942--2907977 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2907932 ATTGTTTAAT
2907942 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2907956 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2907970 TGATTTGT
1 TGATTTGT
2907978 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2908152 original size:20 final size:19
Alignment explanation
Indices: 2908084--2908162 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
2908074 AAAAATGACT
2908084 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2908103 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2908117 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2908136 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
2908156 ATCGCAA
1 ATCGCAA
2908163 CGAGAGAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 20 0.38
20 16 0.31
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2908199 original size:19 final size:19
Alignment explanation
Indices: 2908171--2908373 Score: 203
Period size: 19 Copynumber: 11.7 Consensus size: 19
2908161 AACGAGAGAA
* *
2908171 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
2908190 TCGCATTGCGA--TTC---
1 TCGCATTGCGATTTTCATT
*
2908204 TCTCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2908223 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2908242 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
2908258 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2908275 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2908294 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
2908310 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2908327 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
2908345 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
2908361 TCGCATTGCGATT
1 TCGCATTGCGATT
2908374 CTCTCGTTGC
Statistics
Matches: 153, Mismatches: 10, Indels: 42
0.75 0.05 0.20
Matches are distributed among these distances:
14 33 0.22
16 19 0.12
17 15 0.10
18 3 0.02
19 71 0.46
20 12 0.08
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2908234 original size:52 final size:52
Alignment explanation
Indices: 2908171--2908345 Score: 314
Period size: 52 Copynumber: 3.3 Consensus size: 52
2908161 AACGAGAGAA
* * *
2908171 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
2908223 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
2908275 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
2908327 TCCGCATTGCGATTTTCAT
1 T-CGCATTGCGATTTTCAT
2908346 GTTGGGATTT
Statistics
Matches: 119, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 102 0.86
53 17 0.14
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:2908395 original size:33 final size:33
Alignment explanation
Indices: 2908177--2908387 Score: 214
Period size: 33 Copynumber: 6.2 Consensus size: 33
2908167 AGAATCGCAA
* *
2908177 TGCGATTTTAATTTCGCATTGCGATTCTCTCAT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
2908210 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
2908248 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
2908281 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
2908314 TGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
2908348 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
2908381 TGCGATT
1 TGCGATT
2908388 GTAATTTCCG
Statistics
Matches: 146, Mismatches: 18, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
31 9 0.06
32 6 0.04
33 71 0.49
34 29 0.20
35 6 0.04
36 3 0.02
37 2 0.01
38 8 0.05
39 3 0.02
40 9 0.06
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:2910900 original size:24 final size:24
Alignment explanation
Indices: 2910866--2910912 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2910856 CTGAAATATC
2910866 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2910890 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2910913 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2911625 original size:20 final size:20
Alignment explanation
Indices: 2911600--2911844 Score: 253
Period size: 20 Copynumber: 12.2 Consensus size: 20
2911590 TCAGTGTTTT
* * *
2911600 GATTTACAGATTCTCGTTGC
1 GATTTACGGATACGCGTTGC
*
2911620 GATTTACGGATTA-TCGTTGC
1 GATTTACGGA-TACGCGTTGC
* * *
2911640 GATTTACAGATTCTCGTTGC
1 GATTTACGGATACGCGTTGC
*
2911660 GATTTACGGATTA-TCGTTGC
1 GATTTACGGA-TACGCGTTGC
2911680 GATTTACGGATACGCGTTGC
1 GATTTACGGATACGCGTTGC
* *
2911700 GATATACGGATACGCATTGC
1 GATTTACGGATACGCGTTGC
* *
2911720 GATATACGGATACGCATTGC
1 GATTTACGGATACGCGTTGC
**
2911740 GATTTACCCATACGCGTTGC
1 GATTTACGGATACGCGTTGC
*
2911760 GATTTACGGATACACGTTGC
1 GATTTACGGATACGCGTTGC
2911780 GATTTACGGATACGCGTTGC
1 GATTTACGGATACGCGTTGC
* *
2911800 GATTTATGTG-TTCGCGTTGC
1 GATTTACG-GATACGCGTTGC
* ** *
2911820 GATTTTCATATTCGCGTTGC
1 GATTTACGGATACGCGTTGC
2911840 GATTT
1 GATTT
2911845 TGGAAAATCG
Statistics
Matches: 196, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
19 3 0.02
20 190 0.97
21 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (20 bp):
GATTTACGGATACGCGTTGC
Found at i:2911861 original size:21 final size:21
Alignment explanation
Indices: 2911831--2911913 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
2911821 ATTTTCATAT
*
2911831 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
2911852 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
2911873 TCGCATTGCGATTTT-TAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
2911894 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
2911914 CTGATTTGCG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:2911904 original size:42 final size:43
Alignment explanation
Indices: 2911811--2911909 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
2911801 ATTTATGTGT
*
2911811 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGGAAAA
** *
2911852 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-TAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGGAA-AA
*
2911894 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
2911910 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGGAAAA
Found at i:2913430 original size:26 final size:26
Alignment explanation
Indices: 2913372--2913439 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
2913362 GGGCGTAAAC
* *
2913372 TTATAAAATTTTAAGGTGAAACATAT
1 TTATAAAATTTTAAGATGAAACATAA
* * *
2913398 TTGTAAAATTTTAAGATGAGACGTAA
1 TTATAAAATTTTAAGATGAAACATAA
*
2913424 TTATAAAATTTCAAGA
1 TTATAAAATTTTAAGA
2913440 GGATAAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.46, C:0.04, G:0.13, T:0.37
Consensus pattern (26 bp):
TTATAAAATTTTAAGATGAAACATAA
Found at i:2917514 original size:32 final size:31
Alignment explanation
Indices: 2917477--2917539 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
2917467 AAAAAATCTT
2917477 TATATA-ATTTCTAAATTTGACACCTTAAAATA
1 TATATACATTT-TAAATTTGACACC-TAAAATA
2917509 TATATACATTTTAAATTTGACACCTAAAATA
1 TATATACATTTTAAATTTGACACCTAAAATA
2917540 AATTTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 7 0.23
32 19 0.63
33 4 0.13
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.40
Consensus pattern (31 bp):
TATATACATTTTAAATTTGACACCTAAAATA
Found at i:2921881 original size:11 final size:11
Alignment explanation
Indices: 2921865--2921889 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2921855 AATGTAAACA
2921865 TTAATATATTT
1 TTAATATATTT
2921876 TTAATATATTT
1 TTAATATATTT
2921887 TTA
1 TTA
2921890 TCATAAATTA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTAATATATTT
Found at i:2921995 original size:15 final size:15
Alignment explanation
Indices: 2921977--2922009 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2921967 ATCAACATAT
2921977 ATAATTTTTATATAA
1 ATAATTTTTATATAA
*
2921992 ATAATTTTTATTTAA
1 ATAATTTTTATATAA
2922007 ATA
1 ATA
2922010 TTTAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAATTTTTATATAA
Found at i:2933719 original size:21 final size:21
Alignment explanation
Indices: 2933693--2933737 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2933683 GATTTCTGGG
* *
2933693 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2933714 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2933735 CAA
1 CAA
2933738 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2935153 original size:32 final size:31
Alignment explanation
Indices: 2935111--2935238 Score: 152
Period size: 31 Copynumber: 4.1 Consensus size: 31
2935101 AGAGTCGAGG
2935111 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
*
2935142 GTTTTACCTATG-TCTTTC-GAGACATATGGACA
1 G-TTTACCTATGTTC-TACGGA-ACATATGGACA
* *
2935174 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
2935205 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
2935236 GTT
1 GTT
2935239 ACCGAGGATC
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
31 54 0.66
32 28 0.34
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:2935258 original size:30 final size:30
Alignment explanation
Indices: 2935197--2935293 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 30
2935187 CTAAGGAACA
* * ***
2935197 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAG-TTACCGAGGATCTTTATGACC
2935228 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
* *
2935258 TCTGGATAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
*
2935288 TCTGGA
1 TATGGA
2935294 TAGGTCCTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
30 50 0.85
31 9 0.15
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTTATGACC
Found at i:2935294 original size:30 final size:30
Alignment explanation
Indices: 2935224--2935296 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
2935214 GGTTCTTCGG
* *
2935224 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
2935254 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
2935284 GACCTCTGGATAG
1 GACCTCTGGATAG
2935297 GTCCTTCGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:2938862 original size:945 final size:940
Alignment explanation
Indices: 2937036--2938923 Score: 3390
Period size: 945 Copynumber: 2.0 Consensus size: 940
2937026 GACAACAAGG
2937036 ACAATGTCTATAAAAAGGGAGGTGAATCATGGCTGGCAAGATAGAAACTAGGGTTAGGGTTAGGG
1 ACAATGTCTATAAAAAGGGAGGTGAATCATGGCTGGCAAGATAGAAACTAGGGTTAGGGTTAGGG
2937101 ATGAACATGGGTCAGGTTGGGTCGGATTTTTGGTCCACCCGACTCGAGAAGAAGGGGACCTCCAC
66 ATGAACATGGGTCAGGTTGGGTCGGATTTTTGGTCCACCCGACTCGAGAAGAAGGGGACCTCCAC
2937166 CCGTGACCCGATCCGATTAAAATTTTTATTTATTAAAACCCAATATTTTTTTATTTAAAATATAA
131 CCGTGACCCGATCCGATTAAAATTTTTATTTATTAAAACCCAATATTTTTTTATTTAAAATATAA
2937231 AAAATAATTAAAATAATTGTTGGAACCAACGCGGCGTGAAAAGTCAAACTGTCCATTAGTGCTTT
196 AAAATAATTAAAATAATTGTTGGAACCAACGCGGCGTGAAAAGTCAAACTGTCCATTAGTGCTTT
2937296 TCTGAGCTTTCTCGCTTTACTTGTTTACAGGAAGCCAAACTGAGGAATAAATTTTATTATTTTTG
261 TCTGAGCTTTCTCGCTTTACTTGTTTACAGGAAGCCAAACTGAGGAATAAATTTTATTATTTTTG
2937361 TCTCTTTCTTTTGTCCTTATATAGTATATAATTAGCTGTAATATTATTATTATTATTATTATTCA
326 TCTCTTTCTTTTGTCCTTATATAGTATATAATTAGCTGTAATA-TATTATTATTATTATTATTCA
*
2937426 AACACCATTATGGTATAGCTGTGAAAAAAAGGAAGGAAAAAGCCGTGAAAAATGTGTTAAAACAA
390 AACACCATTATAGTATAGCTGTGAAAAAAAGGAAGGAAAAAGCCGTGAAAAATGTGTTAAAACAA
2937491 TAGCTAAAATAATTGTTGGAAGTCACGACCTCTGGAACCAAAAATTACCGGAATAGGAAAGTAAA
455 TAGCTAAAATAATTGTTGGAAGTCACGACCTCTGGAACCAAAAATTACCGGAATAGGAAAGTAAA
2937556 AAAAATTAAAAAAATAATTATTCATTAACTATGCGGGTCGGGTAGGATTATTTTAGCCCCCAACC
520 AAAAATTAAAAAAATAATTATTCATTAACTATGCGGGTCGGGTAGGATTATTTTAGCCCCCAACC
*
2937621 TGACTCTGACCCTACTCTGAAAATTTTAATATAAAACCCGACCCGACCTGAACCCGAACCCGATT
585 TGACTCTGACCCTACTCTGAAAATTTTAATATAAAACCCGACCCGACCTGAACCCGAACCCAATT
* * * *
2937686 TTTTTATAAAAAAAATCGACCTGATCGGGTCGAGTCGGAACTCGTCGGATTCGGGTTCCATGCCT
650 TTTTTATAAAAAAAATCGACCTGATCGAGTCGAGTCGGAACTCATCAGATTCGGGTTCCATGCCC
* *
2937751 ATTTCTAGTTAGAGTGAGGGATTTGGGGTTTATAGGGACTTTTATGAATTTGGGGTTTTTTTATA
715 ATCTCTAATTAGAGTGAGGGATTTGGGGTTTATAGGGACTTTTATGAATTTGGGGTTTTTTTATA
2937816 ATAATTTTAGAAAAATTAGAGTTTTAAATATAATAATATCTTTACTTTTTTAAAAATAAAATTTT
780 ATAATTTTAGAAAAATTAGAGTTTTAAATATAATAATATCTTTACTTTTTTAAAAATAAAATTTT
* *
2937881 TAAAATTATATAAATGCGACGCAAGTCACTTAACAGAATTTATTAATAATTGTTACGATCGAAGC
845 CAAAATTATATAAATGCGACGCAAGTCACTTAACAGAATTTATTAACAATTGTTACGATCGAAGC
2937946 ACCTAAAGTGATGATGTTTGTAACATTAGAC
910 ACCTAAAGTGATGATGTTTGTAACATTAGAC
2937977 ACAATGTCTATAAAAAGGGAGGTGAATCATGGCTGGCAAGATAGAAACTAGGGTTAGGGTTAGGG
1 ACAATGTCTATAAAAAGGGAGGTGAATCATGGCTGGCAAGATAGAAACTAGGGTTAGGGTTAGGG
*
2938042 ATGGACATGGGTCAGGTTGGGTCGGATTTTTGGTCCACCCGACTCGAGAAGAAGGGGACCTCCAC
66 ATGAACATGGGTCAGGTTGGGTCGGATTTTTGGTCCACCCGACTCGAGAAGAAGGGGACCTCCAC
*
2938107 CTGTGACCCGATCCGATTAAAATTTTTATTTATTAAAACCCAATA-TTTTTTATTTAAAATATAA
131 CCGTGACCCGATCCGATTAAAATTTTTATTTATTAAAACCCAATATTTTTTTATTTAAAATATAA
2938171 AAAATAATTAAAATAATTGTTGGAACCAACGCGGCGTGAAAAGTCAAACTGTCCATTAGTGCTTT
196 AAAATAATTAAAATAATTGTTGGAACCAACGCGGCGTGAAAAGTCAAACTGTCCATTAGTGCTTT
* *
2938236 TCTGAGCTTTCTCGCTTTACTTGTTTACATGAAGCCAAATTGAGGAATAAATTTTATTATTTTTG
261 TCTGAGCTTTCTCGCTTTACTTGTTTACAGGAAGCCAAACTGAGGAATAAATTTTATTATTTTTG
* *
2938301 TCTCTTTCTTTTGTCCTTATATAGTATATAATTAGTTGTCATA-A-TATTATTATTATTATTCAA
326 TCTCTTTCTTTTGTCCTTATATAGTATATAATTAGCTGTAATATATTATTATTATTATTATTCAA
* * * *
2938364 ACACCATTATAGTATAGTTGTGAAAAAAAGGAGGGGAATAGCCGTGAAAAAGCATTAAAATGTGT
391 ACACCATTATAGTATAGCTGTGAAAAAAAGGAAGGAAAAAGCCGT------G-A--AAAATGTGT
* *
2938429 TAAAATAATAGCTAAAATAATTGTTGGAAGTCACGACCTCTGGAACCAAAAATTATCGGAATAGG
447 TAAAACAATAGCTAAAATAATTGTTGGAAGTCACGACCTCTGGAACCAAAAATTACCGGAATAGG
*
2938494 AAAGT-AAAAAAATTTAAAAAATAATTATTCATTAACTATGCGGGTCGGGTAGGATTATTTTAGC
512 AAAGTAAAAAAAATTAAAAAAATAATTATTCATTAACTATGCGGGTCGGGTAGGATTATTTTAGC
2938558 CCCCAACCTGACTCTGACCCTACTCTGAAAATTTTAATATAAAACCCGACCCGACCTGAACCCGA
577 CCCCAACCTGACTCTGACCCTACTCTGAAAATTTTAATATAAAACCCGACCCGACCTGAACCCGA
* *
2938623 A-CCAATTTTTTTATTAAAATAATCCGACCTGATCGAGTCGAGTCGGAACTCATCAGATTCGGGT
642 ACCCAATTTTTTTATAAAAAAAAT-CGACCTGATCGAGTCGAGTCGGAACTCATCAGATTCGGGT
* *
2938687 TCCATGCCCATCTCTAATTAGAGTGAGGGATTTGGGGTTTATAGGGATTTTTATGGATTTGGGGT
706 TCCATGCCCATCTCTAATTAGAGTGAGGGATTTGGGGTTTATAGGGACTTTTATGAATTTGGGGT
*
2938752 TTTTTTATAATAATTTTAGAAAAATTAGGGTTTTAAATATAATAATATCTTTACTTTTTTAAAAA
771 TTTTTTATAATAATTTTAGAAAAATTAGAGTTTTAAATATAATAATATCTTTACTTTTTTAAAAA
2938817 TAAAATTTTCAAAATTATATAAATGCGACGCAAGTCACTTAACAGAATTTATTAACAATTGTTAC
836 TAAAATTTTCAAAATTATATAAATGCGACGCAAGTCACTTAACAGAATTTATTAACAATTGTTAC
2938882 GATCGAAGCACCTAAAGTGATGATGTTTGTAACATTAGAC
901 GATCGAAGCACCTAAAGTGATGATGTTTGTAACATTAGAC
2938922 AC
1 AC
2938924 TTAGATTGAC
Statistics
Matches: 909, Mismatches: 28, Indels: 16
0.95 0.03 0.02
Matches are distributed among these distances:
937 59 0.06
938 1 0.00
940 188 0.21
941 173 0.19
943 1 0.00
944 20 0.02
945 390 0.43
946 77 0.08
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (940 bp):
ACAATGTCTATAAAAAGGGAGGTGAATCATGGCTGGCAAGATAGAAACTAGGGTTAGGGTTAGGG
ATGAACATGGGTCAGGTTGGGTCGGATTTTTGGTCCACCCGACTCGAGAAGAAGGGGACCTCCAC
CCGTGACCCGATCCGATTAAAATTTTTATTTATTAAAACCCAATATTTTTTTATTTAAAATATAA
AAAATAATTAAAATAATTGTTGGAACCAACGCGGCGTGAAAAGTCAAACTGTCCATTAGTGCTTT
TCTGAGCTTTCTCGCTTTACTTGTTTACAGGAAGCCAAACTGAGGAATAAATTTTATTATTTTTG
TCTCTTTCTTTTGTCCTTATATAGTATATAATTAGCTGTAATATATTATTATTATTATTATTCAA
ACACCATTATAGTATAGCTGTGAAAAAAAGGAAGGAAAAAGCCGTGAAAAATGTGTTAAAACAAT
AGCTAAAATAATTGTTGGAAGTCACGACCTCTGGAACCAAAAATTACCGGAATAGGAAAGTAAAA
AAAATTAAAAAAATAATTATTCATTAACTATGCGGGTCGGGTAGGATTATTTTAGCCCCCAACCT
GACTCTGACCCTACTCTGAAAATTTTAATATAAAACCCGACCCGACCTGAACCCGAACCCAATTT
TTTTATAAAAAAAATCGACCTGATCGAGTCGAGTCGGAACTCATCAGATTCGGGTTCCATGCCCA
TCTCTAATTAGAGTGAGGGATTTGGGGTTTATAGGGACTTTTATGAATTTGGGGTTTTTTTATAA
TAATTTTAGAAAAATTAGAGTTTTAAATATAATAATATCTTTACTTTTTTAAAAATAAAATTTTC
AAAATTATATAAATGCGACGCAAGTCACTTAACAGAATTTATTAACAATTGTTACGATCGAAGCA
CCTAAAGTGATGATGTTTGTAACATTAGAC
Found at i:2940062 original size:21 final size:21
Alignment explanation
Indices: 2940038--2940084 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2940028 ATCAGAAACA
2940038 TTATTATTTATATCGATTTTG
1 TTATTATTTATATCGATTTTG
* * *
2940059 TTATTTTTTCTATTGATTTTG
1 TTATTATTTATATCGATTTTG
2940080 TTATT
1 TTATT
2940085 GTTAGACACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (21 bp):
TTATTATTTATATCGATTTTG
Found at i:2940135 original size:21 final size:21
Alignment explanation
Indices: 2940110--2940149 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2940100 GAAAATATTA
* *
2940110 AAAAACATTGATATTTTAAAT
1 AAAAACAATAATATTTTAAAT
*
2940131 AAAAATAATAATATTTTAA
1 AAAAACAATAATATTTTAA
2940150 GTAATTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
AAAAACAATAATATTTTAAAT
Found at i:2941139 original size:14 final size:14
Alignment explanation
Indices: 2941120--2941147 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2941110 AAGTGAAAGA
2941120 ATAGTTATATAATT
1 ATAGTTATATAATT
2941134 ATAGTTATATAATT
1 ATAGTTATATAATT
2941148 TTGTTATGAT
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:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:2941383 original size:22 final size:22
Alignment explanation
Indices: 2941340--2941380 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2941330 AAAAAATTAT
2941340 TTTTTATTAAATATTTTTAATA
1 TTTTTATTAAATATTTTTAATA
*
2941362 TTTTTATTTAAT-TTTTTAA
1 TTTTTATTAAATATTTTTAA
2941381 ATAATTATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTATTAAATATTTTTAATA
Found at i:2941604 original size:10 final size:11
Alignment explanation
Indices: 2941588--2941620 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
2941578 CAACAGATCC
2941588 CCTTTTCTTTT
1 CCTTTTCTTTT
2941599 -CTTTTCTTTT
1 CCTTTTCTTTT
2941609 CCTTTTCATTTT
1 CCTTTTC-TTTT
2941621 TGGATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 6 0.30
12 4 0.20
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (11 bp):
CCTTTTCTTTT
Found at i:2942373 original size:3 final size:3
Alignment explanation
Indices: 2942365--2942411 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
2942355 CCAATAGTTA
* *
2942365 TAT TAT TAT AAT TAT TACT T-T TGT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
2942410 TA
1 TA
2942412 AATAATTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2942577 original size:19 final size:19
Alignment explanation
Indices: 2942550--2942593 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
2942540 CAGTTACAAG
*
2942550 ACCCAAAACCCAGGATCCA
1 ACCCGAAACCCAGGATCCA
*
2942569 ACCCGAAACCCAGGATCCG
1 ACCCGAAACCCAGGATCCA
2942588 ACCCGA
1 ACCCGA
2942594 TCCAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.43, G:0.16, T:0.05
Consensus pattern (19 bp):
ACCCGAAACCCAGGATCCA
Found at i:2945116 original size:19 final size:19
Alignment explanation
Indices: 2945092--2945146 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
2945082 TATAAGACTT
2945092 AGTGCATCGTTACACTAGG
1 AGTGCATCGTTACACTAGG
2945111 AGTGCATCGTTACACTAGG
1 AGTGCATCGTTACACTAGG
* *
2945130 GGTGCATCGGTACACTA
1 AGTGCATCGTTACACTA
2945147 ATTACATTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (19 bp):
AGTGCATCGTTACACTAGG
Found at i:2945219 original size:64 final size:65
Alignment explanation
Indices: 2945132--2945286 Score: 179
Period size: 65 Copynumber: 2.4 Consensus size: 65
2945122 ACACTAGGGG
* * * * *
2945132 TGCATCGGTACACTAATTACATTCGATGTTTC-AAAGAGCCAGGAGTGCATCGATGCAT-GTTCT
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATAGCT-T
*
2945195 G
65 A
* * * ** *
2945196 TGTATTGGTACACAAAATGCATTCGATGTTTCAAAATATTCAAGAGTGCATTGATGCATAGCTTA
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATAGCTTA
2945261 TGCATCGGTACACAAAATGCATTCGA
1 TGCATCGGTACACAAAATGCATTCGA
2945287 AATAGGTGTG
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
64 27 0.36
65 46 0.61
66 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (65 bp):
TGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATAGCTTA
Found at i:2946785 original size:33 final size:33
Alignment explanation
Indices: 2946736--2946806 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
2946726 ATGTCTCTTT
*
2946736 CATTATCAATACCGTCATTGTCTAAACTAAAGG
1 CATTATCAATACCGTCATTGTCTAAACCAAAGG
* * * *
2946769 TATTATCTATATCGTCATTTTCTAAACCAAAGG
1 CATTATCAATACCGTCATTGTCTAAACCAAAGG
2946802 CATTA
1 CATTA
2946807 GTTATTGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (33 bp):
CATTATCAATACCGTCATTGTCTAAACCAAAGG
Found at i:2947923 original size:23 final size:21
Alignment explanation
Indices: 2947871--2947955 Score: 84
Period size: 23 Copynumber: 4.0 Consensus size: 21
2947861 AAACCCGATG
* *
2947871 GGTGTATCGATGCACA-GC-A
1 GGTGCATCGATGCACATTCAA
2947890 GAGTGCATCGATGCACATTCAA
1 G-GTGCATCGATGCACATTCAA
* *
2947912 GGAATGCATCGATGCACCTTCAT
1 GG--TGCATCGATGCACATTCAA
*
2947935 GGTGTATCGATGCACATTCAA
1 GGTGCATCGATGCACATTCAA
2947956 TGATACATCG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.02
20 14 0.26
21 18 0.33
22 2 0.04
23 19 0.35
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (21 bp):
GGTGCATCGATGCACATTCAA
Found at i:2949013 original size:23 final size:23
Alignment explanation
Indices: 2948950--2949013 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 23
2948940 CACCACAGCT
* * **
2948950 CGTATAAATGCATCGAAATGCCA
1 CGTAGAAATGCACCGAAGCGCCA
* * * *
2948973 CGTAGAATTACACAGAAGCGCCG
1 CGTAGAAATGCACCGAAGCGCCA
2948996 CGTAGAAATGCACCGAAG
1 CGTAGAAATGCACCGAAG
2949014 TGTCATATAA
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGCGCCA
Found at i:2950355 original size:64 final size:63
Alignment explanation
Indices: 2950230--2950366 Score: 195
Period size: 64 Copynumber: 2.2 Consensus size: 63
2950220 AATTTCAAGG
* * ** *
2950230 GGGTGTATCGATGCACTAATTGTGCATCGGTACACTCCTGGCATTCGATGTTTTTATTTTAAA
1 GGGTGCATCGATGCACTAACTGTGCATCGGTACACTCAAGGCATTCGATGTTTTTACTTTAAA
2950293 TGGGTGCATCGATGCACTAACTGTGCATCGGTACACTCAAGGCATTCGATGTTTCTT-CTTTAAA
1 -GGGTGCATCGATGCACTAACTGTGCATCGGTACACTCAAGGCATTCGATGTTT-TTACTTTAAA
*
2950357 GAGTGCATCG
1 GGGTGCATCG
2950367 GTACACTTTG
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
63 9 0.14
64 55 0.83
65 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (63 bp):
GGGTGCATCGATGCACTAACTGTGCATCGGTACACTCAAGGCATTCGATGTTTTTACTTTAAA
Found at i:2951953 original size:4 final size:4
Alignment explanation
Indices: 2951944--2952037 Score: 60
Period size: 4 Copynumber: 25.5 Consensus size: 4
2951934 TAAAAATAAT
* * *
2951944 TATA TATA TATA TATA TATA TATA -ATA T-TA -ATA AATT TA-A TTTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * *
2951988 AAT- TA-A TATA TATA TATA TA-A TATT TATA TATT TA-A TTTA AATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
2952032 TATA TA
1 TATA TA
2952038 CACGGCCCGA
Statistics
Matches: 67, Mismatches: 15, Indels: 16
0.68 0.15 0.16
Matches are distributed among these distances:
3 15 0.22
4 52 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:2951955 original size:6 final size:6
Alignment explanation
Indices: 2951944--2952037 Score: 60
Period size: 6 Copynumber: 17.0 Consensus size: 6
2951934 TAAAAATAAT
* * *
2951944 TATATA TATATA TATATA TATATA -ATAT- TA-ATA AATTTA -ATTTA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * *
2951988 AAT-TA -ATATA TATATA TATA-A TATTTA TATATT TA-ATT TAAATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
2952032 TATATA
1 TATATA
2952038 CACGGCCCGA
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
4 4 0.05
5 24 0.33
6 45 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TATATA
Found at i:2952008 original size:40 final size:38
Alignment explanation
Indices: 2951951--2952037 Score: 138
Period size: 40 Copynumber: 2.2 Consensus size: 38
2951941 AATTATATAT
2951951 ATATATATATATATATAATATTAATAAATTTAATTTAA
1 ATATATATATATATATAATATTAATAAATTTAATTTAA
* *
2951989 ATTAATATATATATATATAATATTTATATATTTAATTTAA
1 A-T-ATATATATATATATAATATTAATAAATTTAATTTAA
2952029 ATATATATA
1 ATATATATA
2952038 CACGGCCCGA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
38 8 0.18
39 2 0.04
40 35 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (38 bp):
ATATATATATATATATAATATTAATAAATTTAATTTAA
Found at i:2957416 original size:64 final size:65
Alignment explanation
Indices: 2957348--2957471 Score: 187
Period size: 64 Copynumber: 1.9 Consensus size: 65
2957338 TACACTAGGG
* * *
2957348 GTGCATCGATACACTAATTACATTCGATGTTTC-AAAGAGCCAAGAGTGCATCGATGCATGTTCT
1 GTGCATCGATACACAAAATACATTCGATGTTTCAAAAGAACCAAGAGTGCATCGATGCATGTTCT
* * *
2957412 GTGCATCGATACACAAAATGCATTCGATGTTTCAAAATAATCAAGAGTGCATCGATGCAT
1 GTGCATCGATACACAAAATACATTCGATGTTTCAAAAGAACCAAGAGTGCATCGATGCAT
2957472 AGCTAGTGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
64 30 0.57
65 23 0.43
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (65 bp):
GTGCATCGATACACAAAATACATTCGATGTTTCAAAAGAACCAAGAGTGCATCGATGCATGTTCT
Found at i:2957503 original size:19 final size:19
Alignment explanation
Indices: 2957457--2957494 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2957447 AATAATCAAG
*
2957457 AGTGCATCGATGCATAGCT
1 AGTGCATCGATGCATAACT
2957476 AGTGCATCGATGCATAACT
1 AGTGCATCGATGCATAACT
2957495 TGTGTATCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (19 bp):
AGTGCATCGATGCATAACT
Found at i:2967823 original size:17 final size:17
Alignment explanation
Indices: 2967803--2967835 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2967793 TTAAGCGTTT
2967803 CTATAAAGAA-GAAAATC
1 CTATAAA-AAGGAAAATC
2967820 CTATAAAAAGGAAAAT
1 CTATAAAAAGGAAAAT
2967836 ATCAAATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (17 bp):
CTATAAAAAGGAAAATC
Found at i:2973685 original size:11 final size:10
Alignment explanation
Indices: 2973668--2973705 Score: 58
Period size: 11 Copynumber: 3.6 Consensus size: 10
2973658 GGGCTTCGGG
2973668 TTGTTGGGCC
1 TTGTTGGGCC
2973678 TCTGTTGGGCC
1 T-TGTTGGGCC
2973689 TTGGTTGGGCC
1 TT-GTTGGGCC
2973700 TTGTTG
1 TTGTTG
2973706 TATTGGGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.23
11 20 0.77
ACGTcount: A:0.00, C:0.18, G:0.39, T:0.42
Consensus pattern (10 bp):
TTGTTGGGCC
Found at i:2973753 original size:3 final size:3
Alignment explanation
Indices: 2973739--2973795 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
2973729 ATGTAAAATG
* * **
2973739 TAA TAT TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA AAA TAA CGA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2973785 TAA TAA TAA TA
1 TAA TAA TAA TA
2973796 TACAAAAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2974048 original size:40 final size:41
Alignment explanation
Indices: 2973945--2974191 Score: 179
Period size: 40 Copynumber: 5.9 Consensus size: 41
2973935 GTTGATTGTT
* * *
2973945 GGGGATGCCACTGCTCATACGTGATGAAGAG-TTTGGTTATCTA
1 GGGGATGACACGGCTCATACGTGATGAAGAGATCTGG--ATC-A
* * *
2973988 -TGGTTGACACGGCTCCTACGTGATGAAGAGATCTGG-TC-
1 GGGGATGACACGGCTCATACGTGATGAAGAGATCTGGATCA
*
2974026 GGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAA
1 GGGG-ATGACACGGCTCATACGTGATGAAGAGATCTGG--ATC---A
* * * * * *
2974073 GGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTA
1 GGGGATGACACGGCTCATACGTGATGAAGA-GATCTGG--ATC-A
2974117 -GGG-TGACACGGCTCATACGTGATGAAGAGATCTGG-TC-
1 GGGGATGACACGGCTCATACGTGATGAAGAGATCTGGATCA
*
2974154 GGGGTATGACACGGCTCATACGTGATGAAGAGTTCTGG
1 GGGG-ATGACACGGCTCATACGTGATGAAGAGATCTGG
2974192 CCATCTAAAG
Statistics
Matches: 163, Mismatches: 26, Indels: 33
0.73 0.12 0.15
Matches are distributed among these distances:
38 3 0.02
39 4 0.02
40 63 0.39
41 1 0.01
42 50 0.31
43 8 0.05
44 1 0.01
46 29 0.18
47 4 0.02
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.25
Consensus pattern (41 bp):
GGGGATGACACGGCTCATACGTGATGAAGAGATCTGGATCA
Done.