Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 138 of 170
Found at i:41828073 original size:48 final size:48
Alignment explanation
Indices: 41828002--41828098 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
41827992 AACTACTATG
41828002 TGCTTCTTGTAAGATCTTCCGAATAAGCTCATCATTCTTTGGTACACA
1 TGCTTCTTGTAAGATCTTCCGAATAAGCTCATCATTCTTTGGTACACA
41828050 TGCTTCTTGTAAGATCTTCCGAATAAGCTCATCATTCTTTGGTACACA
1 TGCTTCTTGTAAGATCTTCCGAATAAGCTCATCATTCTTTGGTACACA
41828098 T
1 T
41828099 TCTCTGTCTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (48 bp):
TGCTTCTTGTAAGATCTTCCGAATAAGCTCATCATTCTTTGGTACACA
Found at i:41831946 original size:24 final size:24
Alignment explanation
Indices: 41831913--41831958 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
41831903 AATCAATTTT
41831913 CTCACAAAGGAATCTAGAAATAGA
1 CTCACAAAGGAATCTAGAAATAGA
*
41831937 CTCACTAAGGAATCTAGAAATA
1 CTCACAAAGGAATCTAGAAATA
41831959 TACATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (24 bp):
CTCACAAAGGAATCTAGAAATAGA
Found at i:41833829 original size:10 final size:9
Alignment explanation
Indices: 41833814--41833870 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 9
41833804 CTATATGTTT
41833814 ATATTTTATA
1 ATATTTT-TA
41833824 ATATTTTTA
1 ATATTTTTA
41833833 ATAATTTTCT-
1 AT-ATTTT-TA
41833843 ATATTTTTA
1 ATATTTTTA
*
41833852 GTAATTTTTA
1 AT-ATTTTTA
41833862 AT-TTTTTA
1 ATATTTTTA
41833870 A
1 A
41833871 ATAAAATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 8 0.20
9 10 0.24
10 22 0.54
11 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
ATATTTTTA
Found at i:41833848 original size:19 final size:19
Alignment explanation
Indices: 41833802--41833867 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
41833792 TTTCAAATAA
*
41833802 TTCTATATGTTT-AT-ATT
1 TTCTATATTTTTAATAATT
*
41833819 TTATAATATTTTTAATAATT
1 TTCT-ATATTTTTAATAATT
*
41833839 TTCTATATTTTTAGTAATT
1 TTCTATATTTTTAATAATT
41833858 TT-TA-ATTTTT
1 TTCTATATTTTT
41833868 TAAATAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.21
18 9 0.21
19 18 0.43
20 6 0.14
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TTCTATATTTTTAATAATT
Found at i:41833868 original size:19 final size:20
Alignment explanation
Indices: 41833816--41833890 Score: 77
Period size: 19 Copynumber: 3.9 Consensus size: 20
41833806 ATATGTTTAT
41833816 ATTTTATAATATTTTTAATA
1 ATTTTATAATATTTTTAATA
* *
41833836 ATTTTCT-ATATTTTTAGTA
1 ATTTTATAATATTTTTAATA
41833855 ATTTT-TAAT-TTTTTAAATAA
1 ATTTTATAATATTTTT-AAT-A
*
41833875 AATTTA-AATATTTTTA
1 ATTTTATAATATTTTTA
41833891 TTGAGTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 6 0.13
19 20 0.43
20 15 0.33
21 5 0.11
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (20 bp):
ATTTTATAATATTTTTAATA
Found at i:41836494 original size:3 final size:3
Alignment explanation
Indices: 41836486--41836523 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
41836476 AAAGAACATA
41836486 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
41836524 AAGGGGAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:41845437 original size:22 final size:22
Alignment explanation
Indices: 41845412--41845453 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
41845402 TGTCTGATTA
41845412 GTCATCTAATCAGTCAAGACTT
1 GTCATCTAATCAGTCAAGACTT
*
41845434 GTCATCTGATCAGTCAAGAC
1 GTCATCTAATCAGTCAAGAC
41845454 ATGATCAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (22 bp):
GTCATCTAATCAGTCAAGACTT
Found at i:41850254 original size:40 final size:40
Alignment explanation
Indices: 41850206--41850788 Score: 337
Period size: 40 Copynumber: 13.9 Consensus size: 40
41850196 GATTTCTTCC
**
41850206 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCG
* ***
41850246 ATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTTGTTTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TTGTTGCG
* * ** * * *
41850289 ATCCGTTCCACTACAACTTCAGAGAGATAGGA-TTGGTTTCCTTTG
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGACTT-G-TTGC---G
* *
41850334 -TCTGCTCTACTACTGCTTAGGGAGATAAGACTTGATGCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCG
41850373 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTG-TG-G
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCG
* * ** * *
41850411 TTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCTCTCG
1 ATCTGCTCCACT--ACTG---CTT-AGGGAGATAAGACTT-G--T-T-GCG
41850461 -TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCG
*
41850500 ATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG-TG-G
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCG
* * ** *
41850538 TTTTAATCCACTCCACTGTAACTTCAGGGAGATAAGA-TTAGTTTCTCTCG
1 ATCTGCTCCACT--ACTG---CTT-AGGGAGATAAGACTT-G--T-T-GCG
41850588 -TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCG
* ***
41850627 ATCTGCTCCACTATTGCTTAGGGAGATAAGACCTGTGGTTTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GTTGCG
* * ** * * *
41850670 ATCCGC-CCACTGCAACTTCATGGAGATAGGA-TTGGTTTCCTTTG
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGACTT-G-TTGC---G
* ** *
41850714 -TCTGCTCCACTACTACTTAGGGAGATAAGACTTGAGGTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCG
41850753 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGT
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGT
41850789 GGTTTTGTCT
Statistics
Matches: 418, Mismatches: 73, Indels: 104
0.70 0.12 0.17
Matches are distributed among these distances:
38 18 0.04
39 10 0.02
40 173 0.41
41 9 0.02
42 13 0.03
43 96 0.23
44 71 0.17
47 8 0.02
48 2 0.00
49 16 0.04
50 2 0.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (40 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCG
Found at i:41850382 original size:127 final size:126
Alignment explanation
Indices: 41850154--41850794 Score: 987
Period size: 127 Copynumber: 5.1 Consensus size: 126
41850144 GGATGAGATT
* * *
41850154 TGGTTTTAATCCGCTCCACTGCAAATTCAGGGAGATAGGATTGATTTCTTCCATCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTT-CGTCTGCTCCACTA
* * *
41850219 CTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
* * * * * *
41850281 TTGTTTTAATCCGTTCCACTACAACTTCAGAGAGATAGGATTGGTTTCCTTTGTCTGCTCTACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT-CTTCGTCTGCTCCACTA
*
41850346 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
*
41850408 TGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTCTCGTCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCT-TCGTCTGCTCCACTA
*
41850473 CTGCTTAGGGAGATAAGACTTGTTGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
* * * *
41850535 TGGTTTTAATCCACTCCACTGTAACTTCAGGGAGATAAGATTAGTTTCTCTCGTCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCT-TCGTCTGCTCCACTA
* *
41850600 CTGCTTAGGGAGATAAGACTTGTTGCGATCTGCTCCACTATTGCTTAGGGAGATAAGACCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
* *
41850662 TGGTTTTAATCCGC-CCACTGCAACTTCATGGAGATAGGATTGGTTTCCTTTGTCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT-CTTCGTCTGCTCCACTA
* * * *
41850726 CTACTTAGGGAGATAAGACTTGAGGTGATCTGCTCCACTACTGCTTAGGGAGATAAGACTTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
41850788 TGGTTTT
1 TGGTTTT
41850795 GTCTACTCCA
Statistics
Matches: 473, Mismatches: 38, Indels: 7
0.91 0.07 0.01
Matches are distributed among these distances:
126 107 0.23
127 363 0.77
128 3 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (126 bp):
TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCGTCTGCTCCACTAC
TGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
Found at i:41850477 original size:87 final size:86
Alignment explanation
Indices: 41850374--41850747 Score: 255
Period size: 83 Copynumber: 4.4 Consensus size: 86
41850364 CTTGATGCGA
41850374 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTTTTAATCCACTCCACTGCAACTTCAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTTTTAATCCACTCCACTGCAACTT-AGG
*
41850439 GAGATAGGA-TTGGTTTCTCTCG
65 GAGATAAGACTTGGTTT-TCTCG
* * **
41850461 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGATCTGCTCCACT--ACTG---CTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTG-TG-GTTTTAATCCACTCCACTGCAACTTAG
*
41850521 GGAGATAAGACCTGTGGTTTTAATC-
64 GGAGATAAGA-CT-TGGTTTT-CTCG
* * * ** ** * **
41850546 -C-ACTCCACT-GTAACTTCAGGGAGATAAGA-TTAGT--TTCTCTCGTCTGCTCCACTACTGCT
1 TCTGCTCCACTACT-GCTT-AGGGAGATAAGACTT-GTGGTT-T-TAATCCACTCCACTGCAACT
*
41850605 TAGGGAGATAAGACTT-G--TT-GCG
61 TAGGGAGATAAGACTTGGTTTTCTCG
* * * *
41850627 ATCTGCTCCACTATTGCTTAGGGAGATAAGACCTGTGGTTTTAATCCGC-CCACTGCAACTTCAT
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTTTTAATCCACTCCACTGCAACTT-AG
* * *
41850691 GGAGATAGGA-TTGGTTTCCTTTG
64 GGAGATAAGACTTGGTTTTC-TCG
*
41850714 TCTGCTCCACTACTACTTAGGGAGATAAGACTTG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTG
41850748 AGGTGATCTG
Statistics
Matches: 222, Mismatches: 35, Indels: 61
0.70 0.11 0.19
Matches are distributed among these distances:
80 2 0.01
82 19 0.09
83 55 0.25
84 33 0.15
85 7 0.03
86 41 0.18
87 54 0.24
88 2 0.01
89 9 0.04
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (86 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTGGTTTTAATCCACTCCACTGCAACTTAGGG
AGATAAGACTTGGTTTTCTCG
Found at i:41863882 original size:16 final size:15
Alignment explanation
Indices: 41863852--41863891 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
41863842 AGGAAAAGGA
41863852 AAATAAAAATAAAAT
1 AAATAAAAATAAAAT
41863867 AAGATAACAAAT-AAAT
1 AA-ATAA-AAATAAAAT
41863883 AAATAAAAA
1 AAATAAAAA
41863892 AGGAAAAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.13
15 6 0.26
16 10 0.43
17 4 0.17
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (15 bp):
AAATAAAAATAAAAT
Found at i:41864566 original size:3 final size:3
Alignment explanation
Indices: 41864558--41864628 Score: 67
Period size: 3 Copynumber: 23.7 Consensus size: 3
41864548 TATAGAAATG
* * *
41864558 ATA ATA ATAA ATA ATA ACA AGA ATG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
41864604 ATA ACT- ATA ATA A-A A-A ATAA ATA AT
1 ATA A-TA ATA ATA ATA ATA AT-A ATA AT
41864629 GGTATAATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
2 5 0.09
3 46 0.79
4 7 0.12
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:41866880 original size:27 final size:27
Alignment explanation
Indices: 41866829--41866881 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
41866819 GTAGAAGGAG
*
41866829 AGAATGAAGTTTTCTAAATTATTTTTC
1 AGAATGAAGATTTCTAAATTATTTTTC
*
41866856 AGAAT-AAGATTTCTATATTATTTTTC
1 AGAATGAAGATTTCTAAATTATTTTTC
41866882 GATGCCTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.49
Consensus pattern (27 bp):
AGAATGAAGATTTCTAAATTATTTTTC
Found at i:41867855 original size:17 final size:17
Alignment explanation
Indices: 41867825--41867879 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 17
41867815 ATTTTTTATG
*
41867825 ATTTTTATAAAAAATTTA
1 ATTTTTA-ATAAAATTTA
41867843 ATTTTTAATAAAATTTTA
1 ATTTTTAATAAAA-TTTA
*
41867861 ATTTTTATTAAAATTTA
1 ATTTTTAATAAAATTTA
41867878 AT
1 AT
41867880 CATTTTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 11 0.32
18 23 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTTAATAAAATTTA
Found at i:41867905 original size:20 final size:21
Alignment explanation
Indices: 41867882--41867930 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
41867872 AATTTAATCA
*
41867882 TTTTTATAATTTTTTT-TATC
1 TTTTTATAATTTTTTTCTAAC
41867902 -TTTTATAATTTTTTTCTAAC
1 TTTTTATAATTTTTTTCTAAC
*
41867922 TTTTAATAA
1 TTTTTATAA
41867931 GAGCAAGGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 15 0.60
20 3 0.12
21 7 0.28
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTATAATTTTTTTCTAAC
Found at i:41867907 original size:19 final size:20
Alignment explanation
Indices: 41867883--41867926 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
41867873 ATTTAATCAT
*
41867883 TTTTATAATTTTTTT-TATC
1 TTTTATAATTTTTTTCTAAC
41867902 TTTTATAATTTTTTTCTAAC
1 TTTTATAATTTTTTTCTAAC
41867922 TTTTA
1 TTTTA
41867927 ATAAGAGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATAATTTTTTTCTAAC
Found at i:41877482 original size:20 final size:20
Alignment explanation
Indices: 41877457--41877503 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
41877447 GATATTTGTC
41877457 TTTATATTGATATT-ACTA-TA
1 TTTATATT-ATATTGA-TATTA
41877477 TTTATATTATATTGATATTA
1 TTTATATTATATTGATATTA
41877497 TTTATAT
1 TTTATAT
41877504 CCTTCTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTATATTATATTGATATTA
Found at i:41877827 original size:16 final size:16
Alignment explanation
Indices: 41877808--41877838 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41877798 ATATACATAC
*
41877808 TTATATTTTTTATATT
1 TTATAATTTTTATATT
41877824 TTATAATTTTTATAT
1 TTATAATTTTTATAT
41877839 ACATATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATAATTTTTATATT
Found at i:41877849 original size:10 final size:10
Alignment explanation
Indices: 41877834--41877859 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
41877824 TTATAATTTT
41877834 TATATACATA
1 TATATACATA
41877844 TATATACATA
1 TATATACATA
41877854 TATATA
1 TATATA
41877860 TCTTTTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (10 bp):
TATATACATA
Found at i:41884488 original size:67 final size:67
Alignment explanation
Indices: 41884346--41884494 Score: 167
Period size: 67 Copynumber: 2.2 Consensus size: 67
41884336 ATTTGAGTCA
** *
41884346 GCTGATTTAAGATCGCAACTCCAAACAGTTCACTGATTTAAGATCGCAACTAATATATTTAAGGT
1 GCTGATTTAAGATCGCAACTCCAAACAACTCACTGATTTAAGATCACAACTAATATATTTAAGGT
41884411 TT
66 TT
* * ** * * *
41884413 GCTAATTTAAGATCGCAAGTCCAAACAACTCGTTGATTTAATATCACGACTGATAT-TGTTAAGG
1 GCTGATTTAAGATCGCAACTCCAAACAACTCACTGATTTAAGATCACAACTAATATAT-TTAAGG
41884477 TTCT
65 TT-T
*
41884481 -CTGATTTAATATCG
1 GCTGATTTAAGATCG
41884495 TAACCTAAGT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
66 1 0.01
67 66 0.97
68 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (67 bp):
GCTGATTTAAGATCGCAACTCCAAACAACTCACTGATTTAAGATCACAACTAATATATTTAAGGT
TT
Found at i:41884558 original size:131 final size:131
Alignment explanation
Indices: 41884417--41884931 Score: 620
Period size: 131 Copynumber: 3.9 Consensus size: 131
41884407 AGGTTTGCTA
* * **
41884417 ATTTAAGATCGCAAGTCCAAACAACTCGTTGATTTAATATCAC-GACTGATATTGTTAAGGTTC-
1 ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAG-CTGATATCATTAAGGTTCG
** *
41884480 TCTGATTTAATATCGTAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGACTTAA
65 T-TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAA
*
41884545 ATG
129 CTG
* ** ** ** * *
41884548 ATTTAAGATCGCAACTCCAAATAGTTCATTGATTTAATATCGTAGTTGATATCATTGAGGTTCGT
1 ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAGCTGATATCATTAAGGTTCGT
* * * * * * *
41884613 TGATTTAAGATCACAACTTAAGTTCATTTGATTTAATACCATGAACAATCTTGTTTGAGTTACCT
66 TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAACT
41884678 G
131 G
* * *
41884679 ATTTAAGATCGCAACTCCAAACAACTAGCTGATTTAATATCGCAGCTGATATCATTAAGGTTCAT
1 ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAGCTGATATCATTAAGGTTCGT
* * * * *
41884744 TGATTTAATATCGCAACGTAAGTTCATTCGATTTAATTTCATGAACAATCCTATTTGAATTAGCT
66 TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAACT
41884809 G
131 G
* * * * * * *
41884810 ATTCAAGATCGCATCTCAAAACAACTCGCTGATTAAAAATCACAGCTAATATCGTTAAGGTTCGT
1 ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAGCTGATATCATTAAGGTTCGT
* * *
41884875 TGATTTAATATCACAATCTAAGTTAATTCGATTTAATATCATGAACAATCTCATTTG
66 TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTG
41884932 TGTTAGCCGA
Statistics
Matches: 324, Mismatches: 58, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
131 322 0.99
132 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (131 bp):
ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAGCTGATATCATTAAGGTTCGT
TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAACT
G
Found at i:41884587 original size:67 final size:66
Alignment explanation
Indices: 41884501--41884699 Score: 176
Period size: 64 Copynumber: 3.0 Consensus size: 66
41884491 ATCGTAACCT
*
41884501 AAGTTCATTCGATTTAATATCATGAACAATCTTATTTGACTTAAATGATTTAAGATCGCAACTCC
1 AAGTTCATT-GATTTAATATCATGAACAATCTTATTTGAGTTAAATGATTTAAGATCGCAACTCC
41884566 AA
65 AA
* *** *** *
41884568 ATAGTTCATTGATTTAATATCGTAGTTGATATC--A-TTGAGGTTCGTTGATTTAAGATCACAAC
1 A-AGTTCATTGATTTAATATCAT-GAACA-ATCTTATTTGA-GTTAAATGATTTAAGATCGCAAC
*
41884630 T---T
62 TCCAA
* * **
41884632 AAGTTCATTTGATTTAATACCATGAACAATCTTGTTTGAGTTACCTGATTTAAGATCGCAACTCC
1 AAGTTCA-TTGATTTAATATCATGAACAATCTTATTTGAGTTAAATGATTTAAGATCGCAACTCC
41884697 AA
65 AA
41884699 A
1 A
41884700 CAACTAGCTG
Statistics
Matches: 100, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
62 3 0.03
63 8 0.08
64 34 0.34
65 4 0.04
66 4 0.04
67 34 0.34
68 10 0.10
69 3 0.03
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (66 bp):
AAGTTCATTGATTTAATATCATGAACAATCTTATTTGAGTTAAATGATTTAAGATCGCAACTCCA
A
Found at i:41900462 original size:23 final size:23
Alignment explanation
Indices: 41900419--41900463 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
41900409 CGTACTTCGG
*
41900419 TGTTGTCCCGTTACACGCTTTGA
1 TGTTGTCCCGTTACACACTTTGA
* *
41900442 TGTTGTCCTGTTACGCACTTTG
1 TGTTGTCCCGTTACACACTTTG
41900464 GTACTGTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.42
Consensus pattern (23 bp):
TGTTGTCCCGTTACACACTTTGA
Found at i:41901649 original size:6 final size:6
Alignment explanation
Indices: 41901638--41901673 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
41901628 ACTTATTCGG
41901638 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
41901674 ATACGAGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TAAGTT
Found at i:41904520 original size:24 final size:23
Alignment explanation
Indices: 41904484--41904538 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
41904474 GTTTTATCTT
41904484 TATTTCTTAATTTT-TATATACATA
1 TATTT-TTAATTTTATA-ATACATA
41904508 TATTTTTACATTTTATAATACATA
1 TATTTTTA-ATTTTATAATACATA
*
41904532 TGTTTTT
1 TATTTTT
41904539 TTTGAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 3 0.11
24 23 0.82
25 2 0.07
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTTTTAATTTTATAATACATA
Found at i:41911259 original size:44 final size:45
Alignment explanation
Indices: 41911090--41911634 Score: 399
Period size: 44 Copynumber: 12.4 Consensus size: 45
41911080 ATCAGTGAAT
* * * *
41911090 ATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAG
* ** * * *
41911134 AT-GCAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATTGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAG
* * * *
41911178 AAAGTAGATCTTGTCTT-C---GTTGGC-GTGAAGTAAATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAG
* * *
41911218 ATAGCAGGTCCTGTCTTCCTATATTGGCAG-GAAGTGGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAG
* * * *
41911262 AT-GCAAATCTTCTCTTCCCATATTGGTGACG-G-AGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGG-CA-GTGAAGTAGATCGAAG
* * * * *
41911306 AAAGCAGATCTTGTCTTCATGTATTGAC-GTGAAATAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAG
* * * * * *
41911350 ATAACAGATCATGTCTTCTTATATTGGTAGCGAAGTGGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAG
* ** * *
41911395 AT-GCAGATCTTGTTTTCCTAT-TCTGGTGGCGAAATAGATCG-AG
1 ATAGCAGATCTTGTCTTCCTATAT-TGGCAGTGAAGTAGATCGAAG
* * * *
41911438 AAAAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAT
1 -ATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAG
* * * **
41911483 ATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGCGGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAG
* * * ** **
41911527 ATA-CAGATCTTATCTTCCCATACTGGTGGCAAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAG
* * * *
41911571 AAAGTAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAG
*
41911615 ATAGCAGATCTTGCCTTCCT
1 ATAGCAGATCTTGTCTTCCT
41911635 GCACCGACAG
Statistics
Matches: 385, Mismatches: 95, Indels: 42
0.74 0.18 0.08
Matches are distributed among these distances:
40 25 0.06
41 5 0.01
42 1 0.00
43 66 0.17
44 200 0.52
45 87 0.23
46 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
ATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAG
Found at i:41911502 original size:89 final size:89
Alignment explanation
Indices: 41911101--41911504 Score: 226
Period size: 89 Copynumber: 4.6 Consensus size: 89
41911091 TAGCAGGTCC
* * * *
41911101 TGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATAT-TGGTGGC
1 TGTCTTCATATATTGGTAGCGAAGTAGATCGAAGATGCAGATCCTGTCTTCCTAT-TCTGGTGGC
* * * ** *
41911164 GGAGTAGATTGAAGAAAGTAGATCT
65 GAAATAGATCGAAGAAAACAGATCA
* * * * * **
41911189 TGTCTTC----GTTGG-CGTGAAGTAAATCGAAGATAGCAGGTCCTGTCTTCCTATAT-TGGCAG
1 TGTCTTCATATATTGGTAGCGAAGTAGATCGAAGAT-GCAGATCCTGTCTTCCTAT-TCTGGTGG
* * ** * *
41911248 -GAAGTGGATCGAAG-ATGCAAATCT
64 CGAAATAGATCGAAGAAAACAGATCA
* ** * * * * * **
41911272 TCTCTTCCCATATTGGT-GACGGAGTAGATCGAAGAAAGCAGATCTTGTCTT-C-ATGTATTGAC
1 TGTCTTCATATATTGGTAG-CGAAGTAGATCGAAG-ATGCAGATCCTGTCTTCCTAT-TCTGGTG
* *
41911334 GTGAAATAGATCGAAGATAACAGATCA
63 GCGAAATAGATCGAAGAAAACAGATCA
* * * *
41911361 TGTCTTCTTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTTTTCCTATTCTGGTGGCG
1 TGTCTTCATATATTGGTAGCGAAGTAGATCGAAGATGCAGATCCTGTCTTCCTATTCTGGTGGCG
*
41911426 AAATAGATCG-AGAAAAGCAGATCT
66 AAATAGATCGAAGAAAA-CAGATCA
* * * * *
41911450 TGTCTTCATGTATTGG-CGTGAAGTAGATCGAATATAGCAGGTCCTGTCTTCCTAT
1 TGTCTTCATATATTGGTAGCGAAGTAGATCGAAGAT-GCAGATCCTGTCTTCCTAT
41911505 ATTGGTAGGA
Statistics
Matches: 242, Mismatches: 57, Indels: 33
0.73 0.17 0.10
Matches are distributed among these distances:
83 14 0.06
84 29 0.12
85 22 0.09
86 3 0.01
87 9 0.04
88 77 0.32
89 85 0.35
90 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (89 bp):
TGTCTTCATATATTGGTAGCGAAGTAGATCGAAGATGCAGATCCTGTCTTCCTATTCTGGTGGCG
AAATAGATCGAAGAAAACAGATCA
Found at i:41911589 original size:265 final size:260
Alignment explanation
Indices: 41911101--41911634 Score: 775
Period size: 265 Copynumber: 2.0 Consensus size: 260
41911091 TAGCAGGTCC
*
41911101 TGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGG
1 TGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGA
* * *
41911166 AGTAGATTGAAGAAAGTAGATCTTGTCTTCGTTGGCGTGAAGTAAATCGAAGATAGCAGGTCCTG
66 AATAGATCGAAGAAAGCAGATCTTGTCTTCGTTGGCGTGAAGTAAATCGAAGATAGCAGGTCCTG
* * * * **
41911231 TCTTCCTATATTGGCAGGAAGTGGATCGAAGATGCAAATCTTCTCTTCCCATATTGGTGACGGAG
131 TCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATCTTATCTTCCCATACTGGTGACAAAG
41911296 TAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAATAGATCGAAGATAACAGATCA
196 TAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAATAGATCGAAGATAACAGATCA
* * *
41911361 TGTCTTCTTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTTTTCCTAT-TCTGGTGGC
1 TGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATAT-TGGTGGC
* *
41911425 GAAATAGATCG-AGAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATATAGCA
64 GAAATAGATCGAAG-AAAGCAGATCTTGTCTTC--G--TTGGCGTGAAGTAAATCGAAGATAGCA
* *
41911489 GGTCCTGTCTTCCTATATTGGTAGGAAGCGGATCGAAGATACAGATCTTATCTTCCCATACTGGT
124 GGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATCTTATCTTCCCATACTGGT
* * * * *
41911554 GGCAAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAG
189 GACAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAATAGATCGAAGATAA
*
41911619 CAGATCT
254 CAGATCA
*
41911626 TGCCTTCCT
1 TGTCTTCCT
41911635 GCACCGACAG
Statistics
Matches: 242, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
260 21 0.09
261 65 0.27
263 1 0.00
265 155 0.64
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (260 bp):
TGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGA
AATAGATCGAAGAAAGCAGATCTTGTCTTCGTTGGCGTGAAGTAAATCGAAGATAGCAGGTCCTG
TCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATCTTATCTTCCCATACTGGTGACAAAG
TAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAATAGATCGAAGATAACAGATCA
Found at i:41911634 original size:132 final size:132
Alignment explanation
Indices: 41911090--41911621 Score: 752
Period size: 132 Copynumber: 4.1 Consensus size: 132
41911080 ATCAGTGAAT
41911090 ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
1 ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
* ** * * *
41911155 ATTGGTGGCGGAGTAGATTGAAGAAAGTAGATCTTGTCTTC--G--TTGGCGTGAAGTAAATCGA
66 ACTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA
41911216 AG
131 AG
* * *
41911218 ATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGTGGATCGAAGATGCAAATCTTCTCTTCCCAT
1 ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
* * ** * *
41911283 ATTGGTGACGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAATAGATCGA
66 ACTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA
41911348 AG
131 AG
* * * * * *
41911350 ATAACAGATCATGTCTTCTTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTTTTCCTA
1 ATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCA
*
41911415 TTCTGGTGGCGAAA-TAGATCG-AGAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
65 TACTGGTGGC-AAAGTAGATCGAAG-AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
*
41911478 CGAAT
128 CGAAG
* * *
41911483 ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGCGGATCGAAGATACAGATCTTATCTTCCCAT
1 ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
*
41911548 ACTGGTGGCAAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA
66 ACTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA
41911613 AG
131 AG
41911615 ATAGCAG
1 ATAGCAG
41911622 ATCTTGCCTT
Statistics
Matches: 357, Mismatches: 38, Indels: 14
0.87 0.09 0.03
Matches are distributed among these distances:
128 100 0.28
130 1 0.00
131 3 0.01
132 139 0.39
133 113 0.32
134 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
ACTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA
AG
Found at i:41911716 original size:44 final size:43
Alignment explanation
Indices: 41911668--41911899 Score: 135
Period size: 44 Copynumber: 5.3 Consensus size: 43
41911658 AGACACCAGC
41911668 CTTGCCTCCCTGGATTACAGCGGAGCAGACTAAAAATAGCAGAT
1 CTTGCCTCCCTGGATTACAGCGGAGCAGA-TAAAAATAGCAGAT
* * * ** * * * * * *
41911712 CTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGA-TTACAGCGGAGCAGAT-AAAAATAGCAGAT
* * * * *
41911756 CTTACCTCCTTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGATTACAGCGGAGCA-GATAAAAATAGCAGAT
* * * * * * * *
41911800 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAAACACCAG-C
1 CTTGCCTCCCTGGA-TTACAGCGGAGCAGAT-AAAAATAGCAGAT
* * *
41911844 CTTGCCTCCCTGGGTTACAGTGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGATTACAGCGGAGCA-GATAAAAATAGCAGAT
*
41911888 CTTGCCTTCCTG
1 CTTGCCTCCCTG
41911900 CACCAACAGC
Statistics
Matches: 130, Mismatches: 50, Indels: 16
0.66 0.26 0.08
Matches are distributed among these distances:
43 34 0.26
44 59 0.45
45 37 0.28
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (43 bp):
CTTGCCTCCCTGGATTACAGCGGAGCAGATAAAAATAGCAGAT
Found at i:41911720 original size:88 final size:88
Alignment explanation
Indices: 41911615--41911932 Score: 519
Period size: 88 Copynumber: 3.6 Consensus size: 88
41911605 TAGATCGAAG
41911615 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* *
41911680 GATTACAGCGGAGCAGACTAAAA
66 GGTTACAGCGGAGCAGGCTAAAA
* * *
41911703 ATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCTTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
41911768 GGTTGCAGCGGAGCAGGCTAAAA
66 GGTTACAGCGGAGCAGGCTAAAA
* *
41911791 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* *
41911856 GGTTACAGTGGAGCAGGTTAAAA
66 GGTTACAGCGGAGCAGGCTAAAA
* * *
41911879 ATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGATGACCCCAGCC
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
41911933 CTATCTACCT
Statistics
Matches: 211, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 211 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GGTTACAGCGGAGCAGGCTAAAA
Found at i:41911745 original size:265 final size:262
Alignment explanation
Indices: 41911211--41911748 Score: 569
Period size: 265 Copynumber: 2.0 Consensus size: 262
41911201 CGTGAAGTAA
* * *
41911211 ATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGTGGATCGAAGATGCAAATCTTCTC
1 ATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATCTTATC
* **
41911276 TTCCCATATTGGTGACGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAAT
66 TTCCCATACTGGTGACAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAAT
* * * ** ** ** ** *
41911341 AGATCGAAGATAACAGATCATGTCTTCTTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTT
131 AGATCGAAGATAACAGATCATGCCTTCCTACACCGACAGCGAAGCAGATCGAAGAACCAGACCTT
** * * * * * * ** * *
41911406 GTTTTCCTATTCTGGTGGCGAAATAGATCGAGAAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
196 GCCTCCCTATTC--G-AGCGAAACAGATCGAAAAAAGCAGATCTTGCCTTCATGCACCGACGCGA
*
41911471 AGTAG
258 AGCAG
* * *
41911476 ATCGAATATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGCGGATCGAAGATACAGATCTTATC
1 ATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATCTTATC
* * * *
41911541 TTCCCATACTGGTGGCAAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGT
66 TTCCCATACTGGTGACAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAAT
* * *
41911606 AGATCGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAG-CCT
131 AGATCGAAGATAACAGATCATGCCTTCCTACACCGACAGCGAAGCAGATCGAAGA-ACCAGACCT
* * * *
41911670 TGCCTCCCTGGATTAC-AGCGGAGCAGA-CTAAAAATAGCAGATCTTGCCTTCTTGCACCGACAG
195 TGCCTCCCT--ATT-CGAGCGAAACAGATCGAAAAA-AGCAGATCTTGCCTTCATGCACCGAC-G
41911733 CGAAGCAG
255 CGAAGCAG
41911741 ATCGAAGA
1 ATCGAAGA
41911749 CACCAGCCTT
Statistics
Matches: 221, Mismatches: 46, Indels: 12
0.79 0.16 0.04
Matches are distributed among these distances:
263 5 0.02
264 27 0.12
265 182 0.82
266 3 0.01
267 3 0.01
268 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (262 bp):
ATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATCTTATC
TTCCCATACTGGTGACAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAAT
AGATCGAAGATAACAGATCATGCCTTCCTACACCGACAGCGAAGCAGATCGAAGAACCAGACCTT
GCCTCCCTATTCGAGCGAAACAGATCGAAAAAAGCAGATCTTGCCTTCATGCACCGACGCGAAGC
AG
Found at i:41911996 original size:44 final size:44
Alignment explanation
Indices: 41911933--41912097 Score: 201
Period size: 44 Copynumber: 3.8 Consensus size: 44
41911923 GACCCCAGCC
*
41911933 CTATCTACCTGGTCAGCAGTGGAATAGGTTAAAGATTGTAAATT
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTAAATT
* *
41911977 CTATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATTG-AGAATT
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTA-AATT
* * * *
41912021 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGAA-T
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTAAATT
* *
41912064 CTTATCTCCCTGAG-CAGTAGTGGATTAGGTTAAA
1 C-TATCTCCCTG-GTCAGCAGTGGAATAGGTTAAA
41912098 AATAGCAGAT
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
43 3 0.03
44 102 0.96
45 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (44 bp):
CTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTAAATT
Found at i:41912227 original size:88 final size:88
Alignment explanation
Indices: 41912063--41912230 Score: 228
Period size: 88 Copynumber: 1.9 Consensus size: 88
41912053 AGATTGTGAA
* * * *
41912063 TCTTATCTCCCTGAGCAGTAGTGGATTAGGTTAAAAATAGCAGATCTTGCATTCCTGTACCGGCA
1 TCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCATTCCTGTACCAGCA
41912128 ACGAAGCAGATCGAAAACTCCAG
66 ACGAAGCAGATCGAAAACTCCAG
* * * * * *
41912151 TCTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGGTCTTTCCTTCCTGTACTAGCA
1 TCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCATTCCTGTACCAGCA
* *
41912216 ATGAAGTAGATCGAA
66 ACGAAGCAGATCGAA
41912231 GACATCAGTT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 68 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (88 bp):
TCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCATTCCTGTACCAGCA
ACGAAGCAGATCGAAAACTCCAG
Found at i:41912847 original size:44 final size:44
Alignment explanation
Indices: 41912750--41913093 Score: 168
Period size: 44 Copynumber: 7.8 Consensus size: 44
41912740 TGTAATGGCG
* **
41912750 AATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAGAT
* **
41912794 AAT-TCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA-AATTT
1 AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAGAT
* * * * **
41912837 GGATCTTATCTCTCTGAAGTTGCAG-GGAGCAGA-T--CGCATCT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAGAT
* * * * * * *
41912878 AGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAGTTGCAGTGAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AG-A-AGA-T
* * * * *
41912927 AAGTCTTATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAGATGACA
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGAAGA-T
* * **
41912973 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCTGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAGAT
* * * * ** *
41913017 AATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTGAAACCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGAAGAT
* * *
41913061 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
41913094 CGCATCTGGT
Statistics
Matches: 228, Mismatches: 53, Indels: 39
0.71 0.17 0.12
Matches are distributed among these distances:
40 20 0.09
41 10 0.04
42 2 0.01
43 15 0.07
44 103 0.45
45 37 0.16
46 9 0.04
47 1 0.00
48 1 0.00
49 4 0.02
50 26 0.11
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAGAT
Found at i:41914862 original size:24 final size:23
Alignment explanation
Indices: 41914826--41914880 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
41914816 GTTTTATCTT
41914826 TATTTCTTAATTTT-TATATACATA
1 TATTT-TTAATTTTATA-ATACATA
41914850 TATTTTTACATTTTATAATACATA
1 TATTTTTA-ATTTTATAATACATA
*
41914874 TGTTTTT
1 TATTTTT
41914881 TTTGAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 3 0.11
24 23 0.82
25 2 0.07
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTTTTAATTTTATAATACATA
Found at i:41930828 original size:15 final size:16
Alignment explanation
Indices: 41930796--41930830 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
41930786 GACGAAAATC
*
41930796 AAAAAGAAAAAAATGG
1 AAAAACAAAAAAATGG
41930812 AAAAACAAAAAAA-GG
1 AAAAACAAAAAAATGG
41930827 AAAA
1 AAAA
41930831 TAAGTAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.03
Consensus pattern (16 bp):
AAAAACAAAAAAATGG
Found at i:41931655 original size:20 final size:20
Alignment explanation
Indices: 41931630--41931669 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41931620 ATTTTCTTTA
41931630 TATATTCTTTAGAATTTTTT
1 TATATTCTTTAGAATTTTTT
* *
41931650 TATATTTTTTATAATTTTTT
1 TATATTCTTTAGAATTTTTT
41931670 AAAAATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (20 bp):
TATATTCTTTAGAATTTTTT
Found at i:41938329 original size:19 final size:18
Alignment explanation
Indices: 41938302--41938338 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
41938292 TCTAATTCAA
*
41938302 TTCATATATATATAATCAT
1 TTCACATATATA-AATCAT
41938321 TTCACATATATAAATCAT
1 TTCACATATATAAATCAT
41938339 GTGTCATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (18 bp):
TTCACATATATAAATCAT
Found at i:41943398 original size:28 final size:28
Alignment explanation
Indices: 41943366--41943435 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
41943356 ATGAGATTAA
* * *
41943366 CACTAAGTATGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGATTAATTATAAAG
* *
41943394 CACTAAGTGTGCGAGATTGATTATTAAG
1 CACTAAGTGTGCGAGATTAATTATAAAG
41943422 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
41943436 ACTTATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGATTAATTATAAAG
Found at i:41944185 original size:23 final size:23
Alignment explanation
Indices: 41944156--41944473 Score: 235
Period size: 23 Copynumber: 13.5 Consensus size: 23
41944146 TGATGCTTAA
41944156 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
41944179 ATACTGCTCAATTTGTTGCATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
41944202 ATGCTGTCCAATTT-TTTTATGCTTAA
1 ATGCTGCCCAATTTGTTGTA----TAT
*
41944228 ATGCTGCCCAATTTGTTGTATTT
1 ATGCTGCCCAATTTGTTGTATAT
** *
41944251 ATGCTGCCCAAAATGTTATATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
41944274 ATGCTGCCCAATTTTTGGTGTAAAA
1 ATGCTGCCCAA--TTTGTTGTATAT
* * * *
41944299 ATGATGCTCAATTTGTTGTTTTT
1 ATGCTGCCCAATTTGTTGTATAT
41944322 ATGCTGCCCAGA-TTGTTGTATAT
1 ATGCTGCCCA-ATTTGTTGTATAT
* * * *
41944345 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGCCCAA-TTTGTTGTATAT
* * * * *
41944369 ATGTTGCTCAATTTGGTATATAA
1 ATGCTGCCCAATTTGTTGTATAT
41944392 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
41944415 ATGCTGTCCAATTTTTGGTGTAAAA
1 ATGCTGCCCAA--TTTGTTGTATAT
* *
41944440 ATGCTACTCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
*
41944463 ATGCTGTCCAA
1 ATGCTGCCCAA
41944474 ATTTTGGTGT
Statistics
Matches: 221, Mismatches: 62, Indels: 24
0.72 0.20 0.08
Matches are distributed among these distances:
22 4 0.02
23 149 0.67
24 17 0.08
25 32 0.14
26 15 0.07
27 4 0.02
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (23 bp):
ATGCTGCCCAATTTGTTGTATAT
Found at i:41944323 original size:71 final size:71
Alignment explanation
Indices: 41944154--41944476 Score: 389
Period size: 71 Copynumber: 4.5 Consensus size: 71
41944144 TTTGATGCTT
* * * * *
41944154 AAATGCTGCCCAATTTGTTGTATATATACTGCTCAATTTGTTGCATATATGCTGTCCAATTTTTT
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAA-TTTTT
** *
41944219 TATGCT-T
65 GGTG-TAA
* * * * *
41944226 AAATGCTGCCCAATTTGTTGTATTTATGCTGCCCAAAATGTTATATATATGCTGCCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTTG
41944291 GTGTAA
66 GTGTAA
* * * *
41944297 AAATGATGCTCAATTTGTTGTTTTTATGCTGCCCAGATTGTTGTATATATGCTGTCCAA-TTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTTG
*
41944361 ATGTAA
66 GTGTAA
* * * * *
41944367 AAATGTTGCTCAATTTGGTATATAAATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTTG
41944432 GTGTAA
66 GTGTAA
* *
41944438 AAATGCTACTCAATTTGTTGTATATATGCTGTCCAAATT
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATT
41944477 TTGGTGTGAA
Statistics
Matches: 214, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
70 62 0.29
71 101 0.47
72 51 0.24
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (71 bp):
AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTTG
GTGTAA
Found at i:41944433 original size:141 final size:142
Alignment explanation
Indices: 41944154--41944473 Score: 403
Period size: 141 Copynumber: 2.3 Consensus size: 142
41944144 TTTGATGCTT
* * *
41944154 AAATGCTGCCCAATTTGTTGTATATATACTGCTCAATTTGTTGCATATATGCTGTCCAATTTTTT
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGCATATATGCTGTCCAA-TTTTT
* * * * **
41944219 TATGCTTAAATGCTGCCCAATTTGTTGTATTTATGCTGCCCAAAATGTTATATATATGCTGCCCA
65 GATGCTAAAATGCTGCCCAATTTGGTATATAAATGCTGCCCAAAATGTTATATATATGCTGCCCA
41944284 ATTTTTGGTGTAA
130 ATTTTTGGTGTAA
* * * *
41944297 AAATGATGCTCAATTTGTTGTTTTTATGCTGCCCAGA-TTGTTGTATATATGCTGTCCAA-TTTT
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCA-ATTTGTTGCATATATGCTGTCCAATTTTT
* * ** * *
41944360 GATG-TAAAAATGTTGCTCAATTTGGTATATAAATGCTGCCCAATTTGTTGTATATATGCTGTCC
65 GATGCT-AAAATGCTGCCCAATTTGGTATATAAATGCTGCCCAAAATGTTATATATATGCTGCCC
41944424 AATTTTTGGTGTAA
129 AATTTTTGGTGTAA
* *
41944438 AAATGCTACTCAATTTGTTGTATATATGCTGTCCAA
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAA
41944474 ATTTTGGTGT
Statistics
Matches: 151, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
140 2 0.01
141 98 0.65
143 50 0.33
144 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (142 bp):
AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTTG
ATGCTAAAATGCTGCCCAATTTGGTATATAAATGCTGCCCAAAATGTTATATATATGCTGCCCAA
TTTTTGGTGTAA
Found at i:41944444 original size:48 final size:47
Alignment explanation
Indices: 41944154--41944490 Score: 227
Period size: 48 Copynumber: 7.1 Consensus size: 47
41944144 TTTGATGCTT
* * * * *
41944154 AAATGCTGCCCAATTTGTTGTATATATACTGCTCAA-TTTGTTGCAT
1 AAATGCTGCCCAATTTGTTGTATATATGCTGCCCAATTTTGGTGTAA
* * * * * *
41944200 ATATGCTGTCCAATTT-TTTTATGCTTAAATGCTGCCCAA-TTTGTTGTAT
1 AAATGCTGCCCAATTTGTTGTA----TATATGCTGCCCAATTTTGGTGTAA
** ** *
41944249 TTATGCTGCCCAAAATGTTATATATATGCTGCCCAATTTTTGGTGTAA
1 AAATGCTGCCCAATTTGTTGTATATATGCTGCCCAA-TTTTGGTGTAA
* * * * * *
41944297 AAATGATGCTCAATTTGTTGTTTTTATGCTGCCCAGA--TTGTTGTAT
1 AAATGCTGCCCAATTTGTTGTATATATGCTGCCCA-ATTTTGGTGTAA
* * * * * * * * *
41944343 ATATGCTGTCCAATTTTGATGTAAAAATGTTGCTCAA-TTTGGTATAT
1 AAATGCTGCCCAA-TTTGTTGTATATATGCTGCCCAATTTTGGTGTAA
*
41944390 AAATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAA
1 AAATGCTGCCCAATTTGTTGTATATATGCTGCCCAA-TTTTGGTGTAA
* * * *
41944438 AAATGCTACTCAATTTGTTGTATATATGCTGTCCAAATTTTGGTGTGA
1 AAATGCTGCCCAATTTGTTGTATATATGCTG-CCCAATTTTGGTGTAA
41944486 AAATG
1 AAATG
41944491 TTGTCTTGTT
Statistics
Matches: 224, Mismatches: 54, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
45 4 0.02
46 61 0.27
47 33 0.15
48 86 0.38
49 36 0.16
50 4 0.02
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.42
Consensus pattern (47 bp):
AAATGCTGCCCAATTTGTTGTATATATGCTGCCCAATTTTGGTGTAA
Found at i:41947420 original size:24 final size:23
Alignment explanation
Indices: 41947393--41947443 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
41947383 CATTGTGGCC
41947393 TCTTAAATTACA-ATCAATTATGAA
1 TCTTAAATTACACA--AATTATGAA
* *
41947417 TCTTTAATTTCACAAATTATGAA
1 TCTTAAATTACACAAATTATGAA
41947440 TCTT
1 TCTT
41947444 CTTGTTGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 13 0.54
24 10 0.42
25 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (23 bp):
TCTTAAATTACACAAATTATGAA
Found at i:41951912 original size:25 final size:25
Alignment explanation
Indices: 41951865--41951912 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
41951855 CTAAACCATT
*
41951865 TTTAAATAAGAGTTTAGGGTTTAGG
1 TTTAAATAAGAGTTTAGGATTTAGG
*
41951890 TTTAATATAAG-GTTTATGATTTA
1 TTTAA-ATAAGAGTTTAGGATTTA
41951913 TAAAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (25 bp):
TTTAAATAAGAGTTTAGGATTTAGG
Found at i:41954059 original size:14 final size:15
Alignment explanation
Indices: 41954040--41954068 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41954030 GGATATAGTA
41954040 AAATATTAA-AATAT
1 AAATATTAACAATAT
41954054 AAATATTAACAATAT
1 AAATATTAACAATAT
41954069 GAAAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATATTAACAATAT
Found at i:41958033 original size:29 final size:29
Alignment explanation
Indices: 41957997--41958052 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
41957987 TGCTATTTTT
* * * *
41957997 TAAAATTACTAGATTAGGCCATTTTTAAA
1 TAAAATTACGAAACTAGGCCAATTTTAAA
41958026 TAAAATTACGAAACTAGGCCAATTTTA
1 TAAAATTACGAAACTAGGCCAATTTTA
41958053 CAAAAACACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (29 bp):
TAAAATTACGAAACTAGGCCAATTTTAAA
Found at i:41963476 original size:31 final size:29
Alignment explanation
Indices: 41963438--41963507 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
41963428 ACTACTAAAA
* *
41963438 TAGTCACTTTTGTTTGACTCAGGTTACATTT
1 TAGTCACTTATGTTTGA--AAGGTTACATTT
* *
41963469 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
41963498 TAGTCACTTA
1 TAGTCACTTA
41963508 CGTTATCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:41967106 original size:129 final size:129
Alignment explanation
Indices: 41966875--41967135 Score: 326
Period size: 129 Copynumber: 2.0 Consensus size: 129
41966865 AGAGAATTTT
* * ** * *
41966875 GTTCTTTGTTTTGAAGGATTTTTTCTTGCGGGGCTTCGGGTTTTTCTTTTAATTCTCTTCATCTT
1 GTTCTTTGTTTCGAAGGAGTTTTTCTTGCGGGGCTTCAAGTTTTTCTTTTAATTCTCTCCATATT
* * *
41966940 CTGTACTCTAATTTATTATAGCAAAATATTATTTTGTCCATAGTTTTTTAATCCTCTCTTGAGGA
66 CTGTACTCTAACTTATTATAGCAAAATATCATTTTGTCCATAGTTTTTT-ATCCTCTCTTGAGAA
* *
41967005 GTTCTTTGTTTCGAAGG-GTTTTTCTTGTGGGGTTTCAAGTTTTTCTTTTAATTCTCTCCATATT
1 GTTCTTTGTTTCGAAGGAGTTTTTCTTGCGGGGCTTCAAGTTTTTCTTTTAATTCTCTCCATATT
* * * * * * ** *
41967069 TTGTTCTCTCACTTATTATAGTAAAATCTCCTTTTGTCTGTAGTTTTTTATCCTCTTTTGAGAA
66 CTGTACTCTAACTTATTATAGCAAAATATCATTTTGTCCATAGTTTTTTATCCTCTCTTGAGAA
41967133 GTT
1 GTT
41967136 TTTCCACATA
Statistics
Matches: 111, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
128 16 0.14
129 79 0.71
130 16 0.14
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.52
Consensus pattern (129 bp):
GTTCTTTGTTTCGAAGGAGTTTTTCTTGCGGGGCTTCAAGTTTTTCTTTTAATTCTCTCCATATT
CTGTACTCTAACTTATTATAGCAAAATATCATTTTGTCCATAGTTTTTTATCCTCTCTTGAGAA
Found at i:41971145 original size:29 final size:26
Alignment explanation
Indices: 41971097--41971150 Score: 63
Period size: 29 Copynumber: 2.0 Consensus size: 26
41971087 AAGCCATTTT
*
41971097 TAAAAAAAATTACTGAAATGGACCCAG
1 TAAAAAAAATTACCGAAAT-GACCCAG
*
41971124 TAAAAAATTAATTACCGGAATGACCCA
1 TAAAAAA--AATTACCGAAATGACCCA
41971151 AATCCCCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 6 0.26
29 10 0.43
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (26 bp):
TAAAAAAAATTACCGAAATGACCCAG
Found at i:41971698 original size:126 final size:126
Alignment explanation
Indices: 41971543--41971965 Score: 659
Period size: 126 Copynumber: 3.4 Consensus size: 126
41971533 AGTGTTAATT
* ** * *
41971543 TAAAA-AAGCTCTCACGTGGACGCTTTTTTGCTACAGTAGCTGCTGAAAAAATAATTTCGAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
* *
41971607 ACGTTTCTAAGCAAATAGAGTCAAGAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
*
41971668 TGAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
*
41971733 ACGTTTCTAAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
* *
41971794 TAAAAGAAGCTCCTACGTGGACGCGCTTTTGCTATAGTAGCTCCTGAAAAAATAATTTCGAGTAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
* * * * * * *
41971859 ACATTTTTGAGCAAATAGTTTCAAAAACACTTTAAGCAAGATGCTTTGTTAGCAAAAGTAC
66 ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
* *
41971920 TAAAAGAAGCTTCCACGTGGACGCGCTTTTGCTACAGTAGTTCCTG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
41971966 TTTGGCCTGA
Statistics
Matches: 273, Mismatches: 24, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
125 4 0.01
126 269 0.99
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
Found at i:41973742 original size:34 final size:35
Alignment explanation
Indices: 41973703--41973770 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
41973693 TGTAAAAGTA
*
41973703 AATTTCTATTTTATTACATGAAATAATA-CAAAAG
1 AATTTCTATTTTATTACATCAAATAATATCAAAAG
41973737 AATTTCTATTTTATTACATCAAATAATATCAAAA
1 AATTTCTATTTTATTACATCAAATAATATCAAAA
41973771 TATTCAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 27 0.84
35 5 0.16
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (35 bp):
AATTTCTATTTTATTACATCAAATAATATCAAAAG
Found at i:41976075 original size:11 final size:11
Alignment explanation
Indices: 41976061--41976152 Score: 100
Period size: 11 Copynumber: 8.4 Consensus size: 11
41976051 GGTTTTTTAA
41976061 AGAGGAAATTG
1 AGAGGAAATTG
*
41976072 AGAGAAAATTG
1 AGAGGAAATTG
*
41976083 AGAGGAATTTG
1 AGAGGAAATTG
41976094 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
41976105 AAAGGAAATTG
1 AGAGGAAATTG
*
41976116 AGAGGAATTTG
1 AGAGGAAATTG
41976127 AGA-GAATATTG
1 AGAGGAA-ATTG
41976138 -GAGAGAAATTG
1 AGAG-GAAATTG
41976149 AGAG
1 AGAG
41976153 AAAGGATTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
10 8 0.12
11 49 0.73
12 10 0.15
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:41976115 original size:33 final size:33
Alignment explanation
Indices: 41976077--41976152 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
41976067 AATTGAGAGA
*
41976077 AAATTGAGAGGAATTTGAGAGAA-ATTTGAAAGG
1 AAATTGAGAGGAATTTGAGAGAATATTGGAAA-G
*
41976110 AAATTGAGAGGAATTTGAGAGAATATTGGAGAG
1 AAATTGAGAGGAATTTGAGAGAATATTGGAAAG
41976143 AAATTGAGAG
1 AAATTGAGAG
41976153 AAAGGATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 34 0.85
34 6 0.15
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.24
Consensus pattern (33 bp):
AAATTGAGAGGAATTTGAGAGAATATTGGAAAG
Found at i:41977008 original size:16 final size:15
Alignment explanation
Indices: 41976964--41977009 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
41976954 ATCTAAATTT
41976964 ATTAATATTATAATAA
1 ATTAA-ATTATAATAA
*
41976980 A-TAAAATAT-ATAA
1 ATTAAATTATAATAA
41976993 ACTTAAATTATAATAA
1 A-TTAAATTATAATAA
41977009 A
1 A
41977010 AATACTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 5 0.20
14 4 0.16
15 10 0.40
16 6 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTAAATTATAATAA
Found at i:41995265 original size:76 final size:76
Alignment explanation
Indices: 41995174--41995420 Score: 476
Period size: 76 Copynumber: 3.2 Consensus size: 76
41995164 AAGTTATACG
41995174 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
*
41995239 TGACATGACTC
66 GGACATGACTC
41995250 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
41995315 GGACATGACTC
66 GGACATGACTC
41995326 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
41995391 GGACATGACTC
66 GGACATGACTC
*
41995402 AGCAGATGGATAGGAATCT
1 AGCAGATAGATAGGAATCT
41995421 TATCTTGATG
Statistics
Matches: 169, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 169 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.21
Consensus pattern (76 bp):
AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
GGACATGACTC
Found at i:42002623 original size:76 final size:76
Alignment explanation
Indices: 42002534--42002780 Score: 476
Period size: 76 Copynumber: 3.2 Consensus size: 76
42002524 AAGTTATACG
* *
42002534 AGCAGATAGATAGGAATCTGCTTTACAAATATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAAGACTTAAAGGAAAGTAAA
42002599 GGACATGACTC
66 GGACATGACTC
42002610 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAAGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAAGACTTAAAGGAAAGTAAA
42002675 GGACATGACTC
66 GGACATGACTC
42002686 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAAGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAAGACTTAAAGGAAAGTAAA
42002751 GGACATGACTC
66 GGACATGACTC
42002762 AGCAGATAGATAGGAATCT
1 AGCAGATAGATAGGAATCT
42002781 TATCCTGATG
Statistics
Matches: 169, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 169 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.21
Consensus pattern (76 bp):
AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAAGACTTAAAGGAAAGTAAA
GGACATGACTC
Found at i:42007714 original size:11 final size:11
Alignment explanation
Indices: 42007698--42007733 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
42007688 AAGAGAGAAT
*
42007698 GATGCTTGATG
1 GATGCTTGAGG
42007709 GATGCTTGAGG
1 GATGCTTGAGG
42007720 GATGCTTGAGG
1 GATGCTTGAGG
42007731 GAT
1 GAT
42007734 CATGAATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.19, C:0.08, G:0.42, T:0.31
Consensus pattern (11 bp):
GATGCTTGAGG
Found at i:42008348 original size:38 final size:38
Alignment explanation
Indices: 42008301--42008376 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
42008291 TTGCATGAAA
*
42008301 ACTATATAATAAAGTATAAAATAACATTTTAATAATTT
1 ACTATATAATAAAGCATAAAATAACATTTTAATAATTT
* *
42008339 ACTATATAATAAAGCATAAAATCACATTTTAGTAATTT
1 ACTATATAATAAAGCATAAAATAACATTTTAATAATTT
42008377 TTATGTCCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (38 bp):
ACTATATAATAAAGCATAAAATAACATTTTAATAATTT
Found at i:42010358 original size:18 final size:18
Alignment explanation
Indices: 42010335--42010377 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
42010325 CTTTAGGGTT
42010335 GGTTTAGGCTTAACTATG
1 GGTTTAGGCTTAACTATG
42010353 GGTTTAGGCTTAACTATG
1 GGTTTAGGCTTAACTATG
*
42010371 AGTTTAG
1 GGTTTAG
42010378 CTATTGTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (18 bp):
GGTTTAGGCTTAACTATG
Found at i:42015413 original size:13 final size:14
Alignment explanation
Indices: 42015379--42015412 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
42015369 GTGCTTCTTG
42015379 AACTTTTAACCCTA
1 AACTTTTAACCCTA
42015393 AACTTTTAA-CCTA
1 AACTTTTAACCCTA
42015406 ACACTTT
1 A-ACTTT
42015413 ATAATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTTTTAACCCTA
Found at i:42015503 original size:16 final size:17
Alignment explanation
Indices: 42015482--42015516 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
42015472 AATTAATTTA
*
42015482 AATTAATTAATTTT-TC
1 AATTAAATAATTTTCTC
42015498 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
42015515 AA
1 AA
42015517 CCCAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:42024299 original size:70 final size:70
Alignment explanation
Indices: 42024172--42024567 Score: 234
Period size: 70 Copynumber: 5.6 Consensus size: 70
42024162 TATGAGCTTC
* * * * * * * * *
42024172 AACTGTTTTGGAGGCTACGATGTTGAATCTACAAGCCTTAA-AGCTACAATTGGGAGCTTTAGCT
1 AACTGTTTTAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATC-ACAACTAGGAGCTTGAGCT
42024236 CGTACT
65 CGTACT
* * * * *
42024242 AACTGTTTTGGAGGCTGCGGTGTTGAACCTATGAGCCTTAAGATCACAACTAAGAGCTTGAGCTC
1 AACTGTTTTAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATCACAACTAGGAGCTTGAGCTC
42024307 -TCACT
66 GT-ACT
* * * * * * ** *
42024312 AACAGTTTTAGAGGCTGTGACATCGATCTTGTGAGCCTTAAGATCACAACTTGGAGCTTGAGCTT
1 AACTGTTTTAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATCACAACTAGGAGCTTGAGC--
42024377 TCG--CT
64 TCGTACT
* * * * * * *
42024382 AACTATTTTAGAGGCAGCGATATTGAACCTGCGAGCCTTAAGATCAGAGCTGGGAGCCTT-AACT
1 AACTGTTTTAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATCACAACTAGGAG-CTTGAGCT
*
42024446 C-TCGCT
65 CGT-ACT
* * * * * *
42024452 AAATATTTTAGAGGATAC-AGTATTGAACCTGCGAGCCTTAAGATCAAAACTAGGAGCCTT-AGC
1 AACTGTTTTAGAGGCTGCGA-TATTGAACCTACGAGCCTTAAGATCACAACTAGGAG-CTTGAGC
*
42024515 TC-TCGCT
64 TCGT-ACT
* * * * * * *
42024522 AACTATTTTTGGGGACTGCGGTATTGAACCTGCTAGCATTAAGATC
1 AACTGTTTTAGAGG-CTGCGATATTGAACCTACGAGCCTTAAGATC
42024568 GTAGTTGAGA
Statistics
Matches: 263, Mismatches: 51, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
68 2 0.01
69 2 0.01
70 227 0.86
71 30 0.11
72 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (70 bp):
AACTGTTTTAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATCACAACTAGGAGCTTGAGCTC
GTACT
Found at i:42024585 original size:71 final size:70
Alignment explanation
Indices: 42024222--42025021 Score: 557
Period size: 70 Copynumber: 11.4 Consensus size: 70
42024212 AAGCTACAAT
* * * * **
42024222 TGGGAGCTTTAGCTCGT-ACTAACTGTTTTGGAGGCTGCGGTGTTGAACCTATGAGCCTTAAGAT
1 TGGGAGCTTTAGCTC-TCGCTAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGAT
* *
42024286 CACAAC
65 CATAGC
** * * * ** * * * *
42024292 TAAGAGCTTGAGCTCTCACTAAC-AGTTTTAGAGGCTGTGACATCGATCTTGTGAGCCTTAAGAT
1 TGGGAGCTTTAGCTCTCGCTAACTA-TTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGAT
* *
42024356 CACAAC
65 CATAGC
* * * * *
42024362 TTGGAGCTTGAGCTTTCGCTAACTATTTTAGAGGCAGCGATATTGAACCTGCGAGCCTTAAGATC
1 TGGGAGCTTTAGCTCTCGCTAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATC
*
42024427 AGAGC
66 ATAGC
* * * * * *
42024432 TGGGAGCCTTAACTCTCGCTAAATATTTTAGAGGATACAGTATTGAACCTGCGAGCCTTAAGATC
1 TGGGAGCTTTAGCTCTCGCTAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATC
* *
42024497 AAAAC
66 ATAGC
* * * * * *
42024502 TAGGAGCCTTAGCTCTCGCTAACTATTTTTGGGGACTGCGGTATTGAACCTGCTAGCATTAAGAT
1 TGGGAGCTTTAGCTCTCGCTAACTATTTTAGAGG-CTGCGGTATTGAACCTGCGAGCCTTAAGAT
* *
42024567 CGTAGT
65 CATAGC
* * * * * * *
42024573 TGAGAGCTTTAGCCCTCGCTAACTATTTTTGGGGGTTGCGATATTGAACCTGCGAGCCCTAAGAT
1 TGGGAGCTTTAGCTCTCGCTAACTA-TTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGAT
* *
42024638 TATAGT
65 CATAGC
* * * * * * * * *
42024644 TGGGAGC-TTAGCTCTCGCTAACTATTTTAAAGGTTGTGGTATTGAACTTACAAACATTAATATC
1 TGGGAGCTTTAGCTCTCGCTAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATC
*
42024708 ATAGA
66 ATAGC
* * * * * * *
42024713 TGGGAGCTTTAGCTTTCGTTAACTATTTTTCG-GGCTACGGTATTGAAACTGCAAGCCCTAAGAT
1 TGGGAGCTTTAGCTCTCGCTAACTA-TTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGAT
*
42024777 CATACC
65 CATAGC
** * ** * * *
42024783 TTAGAGCTTGAGCTCTTACTAACTA-TTTAGAGGTTGTGGTATTGAACCTGTGAGCCTTAAGATC
1 TGGGAGCTTTAGCTCTCGCTAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATC
42024847 ATAGC
66 ATAGC
* * * * * ** * *
42024852 TGGGAGCCTTAGTTCTCCCTATCTATTTTAGATGCTATGGTATTAAACCTGCGAGCCATAAGATC
1 TGGGAGCTTTAGCTCTCGCTAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATC
* **
42024917 ACAAA
66 ATAGC
* * * * * * ** * * *
42024922 TGAGAGCATTAGCTTTTGCTAAATATTTTTGAGGGCTGTAGTATTGAACATGTGAGCCCTAAGAT
1 TGGGAGCTTTAGCTCTCGCTAACTATTTTAGA-GGCTGCGGTATTGAACCTGCGAGCCTTAAGAT
* * *
42024987 TACAAC
65 CATAGC
* *
42024993 TTGGAGCTTTAGCTTTCGCTAACTATTTT
1 TGGGAGCTTTAGCTCTCGCTAACTATTTT
42025022 CTTTTAGAGG
Statistics
Matches: 567, Mismatches: 153, Indels: 19
0.77 0.21 0.03
Matches are distributed among these distances:
68 4 0.01
69 86 0.15
70 328 0.58
71 141 0.25
72 8 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (70 bp):
TGGGAGCTTTAGCTCTCGCTAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATC
ATAGC
Found at i:42024736 original size:140 final size:138
Alignment explanation
Indices: 42024344--42024970 Score: 398
Period size: 139 Copynumber: 4.5 Consensus size: 138
42024334 TCGATCTTGT
* * * ** * *
42024344 GAGCCTTAAGATCACAACTTGGAGCTTGAGCTTTCGCTAACTATTTTAGAGGCAGCGATATTGAA
1 GAGCCCTAAGATCATAA-TTGGAGCTT-AGCTCTCGCTAACTATTTTAGAGGTTGTGGTATTGAA
* * * * * * * * * * * * *
42024409 CCTGCGAGCCTTAAGATCAGAGCTGGGAGCCTTAACTCTCGCTAAATA-TTTTAGAGGATAC-AG
64 CCTACAAACATTAAGATCATAGATGAGAGCTTTAGCCCTCGCTAACTATTTTTCG-GGCTACGA-
42024472 TATTGAACCTGC
127 TATTGAACCTGC
* * * * * * *
42024484 GAGCCTTAAGATCAAAACTAGGAGCCTTAGCTCTCGCTAACTATTTTTGGGGACTGCGGTATTGA
1 GAGCCCTAAGATCATAA-TTGGAG-CTTAGCTCTCGCTAACTATTTTAGAGG-TTGTGGTATTGA
* * * * * * * *
42024549 ACCTGCTAGCATTAAGATCGTAGTTGAGAGCTTTAGCCCTCGCTAACTATTTTTGGGGGTTGCGA
63 ACCTACAAACATTAAGATCATAGATGAGAGCTTTAGCCCTCGCTAACTATTTTT-CGGGCTACGA
42024614 TATTGAACCTGC
127 TATTGAACCTGC
* * *
42024626 GAGCCCTAAGATTATAGTTGGGAGCTTAGCTCTCGCTAACTATTTTAAAGGTTGTGGTATTGAAC
1 GAGCCCTAAGATCATAATT-GGAGCTTAGCTCTCGCTAACTATTTTAGAGGTTGTGGTATTGAAC
* * * ** * *
42024691 TTACAAACATTAATATCATAGATGGGAGCTTTAGCTTTCGTTAACTATTTTTCGGGCTACGGTAT
65 CTACAAACATTAAGATCATAGATGAGAGCTTTAGCCCTCGCTAACTATTTTTCGGGCTACGATAT
*
42024756 TGAAACTGC
130 TGAACCTGC
* * * **
42024765 AAGCCCTAAGATCATACCTTAGAGCTTGAGCTCTTACTAACTA-TTTAGAGGTTGTGGTATTGAA
1 GAGCCCTAAGATCATA-ATTGGAGCTT-AGCTCTCGCTAACTATTTTAGAGGTTGTGGTATTGAA
*** * * * * * ** * * * * * *
42024829 CCTGTGAGCCTTAAGATCATAGCTGGGAGCCTTAGTTCTCCCTATCTA-TTTTAGATGCTATGGT
64 CCTACAAACATTAAGATCATAGATGAGAGCTTTAGCCCTCGCTAACTATTTTTCG-GGCTACGAT
*
42024893 ATTAAACCTGC
128 ATTGAACCTGC
* * * * * * * * *
42024904 GAGCCATAAGATCACAAATGAGAGCATTAGCTTTTGCTAAATATTTTTGAGGGCTGTAGTATTGA
1 GAGCCCTAAGATCATAATTG-GAGC-TTAGCTCTCGCTAACTATTTTAGA-GGTTGTGGTATTGA
42024969 AC
63 AC
42024971 ATGTGAGCCC
Statistics
Matches: 390, Mismatches: 84, Indels: 25
0.78 0.17 0.05
Matches are distributed among these distances:
138 6 0.02
139 136 0.35
140 118 0.30
141 91 0.23
142 37 0.09
143 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (138 bp):
GAGCCCTAAGATCATAATTGGAGCTTAGCTCTCGCTAACTATTTTAGAGGTTGTGGTATTGAACC
TACAAACATTAAGATCATAGATGAGAGCTTTAGCCCTCGCTAACTATTTTTCGGGCTACGATATT
GAACCTGC
Found at i:42026901 original size:20 final size:20
Alignment explanation
Indices: 42026873--42026922 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
42026863 TACATATTAT
* * * *
42026873 CACTGTTCATGATTTGACTC
1 CACTATTCATGACTTAACCC
42026893 CACTATTCATGACTTAACCC
1 CACTATTCATGACTTAACCC
42026913 CACTATTCAT
1 CACTATTCAT
42026923 AGGACTAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.08, T:0.36
Consensus pattern (20 bp):
CACTATTCATGACTTAACCC
Found at i:42029393 original size:167 final size:167
Alignment explanation
Indices: 42029100--42029417 Score: 555
Period size: 167 Copynumber: 1.9 Consensus size: 167
42029090 CTAAAATAGA
* *
42029100 CATATTGTTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTGTACATTACAGATACTGTGGCCA
1 CATACTGTTAGTTCATGCCATTGTTCTAGATGTCAATTTTCTGTACATTACAGATACTGTGGCCA
* * *
42029165 GGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTTTAATCGATCTGCAGCA
66 AGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
*
42029230 TACATTTCATGTCTTTTTTTTTGCAATCGATCTGCAG
131 TACATTTCATGTCTTCTTTTTTGCAATCGATCTGCAG
* *
42029267 CATACTGTTAGTTTATGCCATTGTTCTAGATGTCAATTTTCTGTACATTATAGATACTGTGGCCA
1 CATACTGTTAGTTCATGCCATTGTTCTAGATGTCAATTTTCTGTACATTACAGATACTGTGGCCA
*
42029332 AGGAAACATTAGATCAAGTTATGGTTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
66 AGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
42029397 TACATTTCATGTCTTCTTTTT
131 TACATTTCATGTCTTCTTTTT
42029418 GTAATGGCAT
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
167 142 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (167 bp):
CATACTGTTAGTTCATGCCATTGTTCTAGATGTCAATTTTCTGTACATTACAGATACTGTGGCCA
AGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
TACATTTCATGTCTTCTTTTTTGCAATCGATCTGCAG
Found at i:42030447 original size:16 final size:16
Alignment explanation
Indices: 42030415--42030488 Score: 71
Period size: 16 Copynumber: 4.7 Consensus size: 16
42030405 ACAATTGAAT
*
42030415 TATTT-ATTACAGTTC
1 TATTTCATTACAGCTC
*
42030430 TATTTCATTATAGCTC
1 TATTTCATTACAGCTC
*
42030446 TATTTCATTACAACTC
1 TATTTCATTACAGCTC
* *
42030462 TATTAT-ATTACAGTTT
1 TATT-TCATTACAGCTC
*
42030478 TATTTTATTAC
1 TATTTCATTAC
42030489 GACGAACCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
15 6 0.12
16 42 0.86
17 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (16 bp):
TATTTCATTACAGCTC
Found at i:42042244 original size:13 final size:13
Alignment explanation
Indices: 42042223--42042267 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
42042213 TTCCTTAATC
*
42042223 TTTAATTTATTAT
1 TTTATTTTATTAT
42042236 TTTATTTTAGTTA-
1 TTTATTTTA-TTAT
42042249 TTTATTTTAATTAT
1 TTTATTTT-ATTAT
42042263 TTTAT
1 TTTAT
42042268 CTGACTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 19 0.68
14 9 0.32
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:42043844 original size:21 final size:21
Alignment explanation
Indices: 42043809--42043849 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42043799 CAAACCTTGA
42043809 ACCTTGGATGCTAAACCCTAG
1 ACCTTGGATGCTAAACCCTAG
**
42043830 ACCTTGGATTTTAAACCCTA
1 ACCTTGGATGCTAAACCCTA
42043850 ATCTCAACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (21 bp):
ACCTTGGATGCTAAACCCTAG
Found at i:42045171 original size:43 final size:43
Alignment explanation
Indices: 42045108--42045432 Score: 454
Period size: 43 Copynumber: 7.6 Consensus size: 43
42045098 AGAAATAAAT
* *
42045108 GCCGCTAAAGACCAAT-ACCTTTAGCGGCGCTTTTCCCATAATC
1 GCCGCTAAAGACC-ATGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
42045151 GCCGCTAAATACCATGACCTTTAGCGGCACCTTTCCCCCAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
42045194 GCCGCTAAAGACCATGACCTTTAGAGGCGCTTTTACCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * ** * *
42045237 GCCGCTATAGACCACGATCTTTAGCGATGCTTTTACCACAAAT
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
*
42045280 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
42045323 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
42045366 GCCGTTAAAGACCATGACCTTTAGCTGCACTTTTCCCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
*
42045409 GCCGCTAAAGACCATGACTTTTAG
1 GCCGCTAAAGACCATGACCTTTAG
42045433 TGGCATTTTT
Statistics
Matches: 249, Mismatches: 32, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
42 2 0.01
43 247 0.99
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:42045665 original size:19 final size:19
Alignment explanation
Indices: 42045641--42045678 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
42045631 TACAAAAATG
*
42045641 TTAAAAGTTAAAATGATAA
1 TTAAAAGTCAAAATGATAA
42045660 TTAAAAGTCAAAATGATAA
1 TTAAAAGTCAAAATGATAA
42045679 AAATATTTAC
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:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (19 bp):
TTAAAAGTCAAAATGATAA
Found at i:42051353 original size:9 final size:9
Alignment explanation
Indices: 42051341--42051869 Score: 286
Period size: 9 Copynumber: 61.9 Consensus size: 9
42051331 CTAAGTAAAC
42051341 TATGTAAGT
1 TATGTAAGT
42051350 TATGT-A-T
1 TATGTAAGT
**
42051357 TACATAAGT
1 TATGTAAGT
* *
42051366 TATTTATGTAT
1 TATGTAAG--T
*
42051377 TATGTAAGC
1 TATGTAAGT
42051386 TATGTAAGT
1 TATGTAAGT
42051395 TATGTAAGT
1 TATGTAAGT
**
42051404 GCTGT-A-T
1 TATGTAAGT
42051411 TATGTAAGT
1 TATGTAAGT
*
42051420 TATATAAGT
1 TATGTAAGT
* *
42051429 TATGTAGGC
1 TATGTAAGT
42051438 TATGT-A-T
1 TATGTAAGT
*
42051445 TATGCAAGT
1 TATGTAAGT
*
42051454 TATTTAAGT
1 TATGTAAGT
*
42051463 TGTGTAAGT
1 TATGTAAGT
42051472 GT-TGT-A-T
1 -TATGTAAGT
42051479 TATGTAAGT
1 TATGTAAGT
42051488 TATGT-A-T
1 TATGTAAGT
*
42051495 TATATAAGTTT
1 TATGTAAG--T
**
42051506 TATGTAAAA
1 TATGTAAGT
42051515 TATGTAAG-
1 TATGTAAGT
**
42051523 T-TGTATTT
1 TATGTAAGT
*
42051531 TATGAAAGT
1 TATGTAAGT
*
42051540 TATATAAGT
1 TATGTAAGT
* *
42051549 TATGTAGGC
1 TATGTAAGT
42051558 TATGT-A-T
1 TATGTAAGT
*
42051565 TATGCAAGT
1 TATGTAAGT
*
42051574 TATTTAAGT
1 TATGTAAGT
*
42051583 TGTGTAAGT
1 TATGTAAGT
42051592 GT-TGT-A-T
1 -TATGTAAGT
42051599 TATGTAAGT
1 TATGTAAGT
42051608 TATGT-A-T
1 TATGTAAGT
*
42051615 TATATAAGTTT
1 TATGTAAG--T
**
42051626 TATGTAAAA
1 TATGTAAGT
42051635 TATGTAAG-
1 TATGTAAGT
**
42051643 T-TGTATTT
1 TATGTAAGT
*
42051651 TATGAAAGT
1 TATGTAAGT
*
42051660 TATATAAGT
1 TATGTAAGT
* *
42051669 TATGTAGGC
1 TATGTAAGT
42051678 TATGT-A-T
1 TATGTAAGT
*
42051685 TATGCAAGT
1 TATGTAAGT
*
42051694 TATTTAAGT
1 TATGTAAGT
*
42051703 TGTGTAAGT
1 TATGTAAGT
42051712 GT-TGT-A-T
1 -TATGTAAGT
*
42051719 TATTTAAGT
1 TATGTAAGT
42051728 TATGT-A-T
1 TATGTAAGT
*
42051735 TATGTAAGA
1 TATGTAAGT
42051744 TATGTAAG-
1 TATGTAAGT
**
42051752 T-TGTATTT
1 TATGTAAGT
42051760 TATGTAAGT
1 TATGTAAGT
*
42051769 TCTGT-A-T
1 TATGTAAGT
*
42051776 TATGTATGT
1 TATGTAAGT
42051785 TATGTAAGT
1 TATGTAAGT
*
42051794 TGTGT-AG-
1 TATGTAAGT
* *
42051801 AATGTAAGC
1 TATGTAAGT
42051810 TATGTAAGT
1 TATGTAAGT
42051819 TATGTAAGT
1 TATGTAAGT
42051828 TATGTAAGT
1 TATGTAAGT
**
42051837 GGTGT-A-T
1 TATGTAAGT
42051844 TATGTAAGT
1 TATGTAAGT
42051853 TATGTAAGT
1 TATGTAAGT
42051862 TATGTAAG
1 TATGTAAG
42051870 CACTACACCA
Statistics
Matches: 386, Mismatches: 88, Indels: 92
0.68 0.16 0.16
Matches are distributed among these distances:
6 3 0.01
7 71 0.18
8 32 0.08
9 256 0.66
10 3 0.01
11 21 0.05
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
TATGTAAGT
Found at i:42051415 original size:34 final size:32
Alignment explanation
Indices: 42051372--42051869 Score: 260
Period size: 34 Copynumber: 16.0 Consensus size: 32
42051362 AAGTTATTTA
*
42051372 TGTATTATGTAAGCTATGTAAGTTATGTAAGTG
1 TGTATTATGTAAGTTATGTAAGTTATGTAAG-G
*
42051405 CTGTATTATGTAAGTTATATAAGTTATGT-AGG
1 -TGTATTATGTAAGTTATGTAAGTTATGTAAGG
* * *
42051437 CTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTG
1 ---TGTATTATGTAAGTTATGTAAGTTATGTAAG-G
*
42051473 TTGTATTATGTAAGTTATGT-A-TTATATAA-G
1 -TGTATTATGTAAGTTATGTAAGTTATGTAAGG
**
42051503 T-T-TTATGTAAAATATGTAAG-T-TGT-A--
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGG
* *
42051528 T-T-TTATGAAAGTTATATAAGTTATGT-AGG
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGG
* * *
42051557 CTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTG
1 ---TGTATTATGTAAGTTATGTAAGTTATGTAAG-G
*
42051593 TTGTATTATGTAAGTTATGT-A-TTATATAA-G
1 -TGTATTATGTAAGTTATGTAAGTTATGTAAGG
**
42051623 T-T-TTATGTAAAATATGTAAG-T-TGT-A--
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGG
* *
42051648 T-T-TTATGAAAGTTATATAAGTTATGT-AGG
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGG
* * *
42051677 CTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTG
1 ---TGTATTATGTAAGTTATGTAAGTTATGTAAG-G
*
42051713 TTGTATTATTTAAGTTATGT-A-TTATGTAA--
1 -TGTATTATGTAAGTTATGTAAGTTATGTAAGG
** *
42051742 -G-A-TATGTAAG-T-TGTATTTTATGTAAGTTC
1 TGTATTATGTAAGTTATGTAAGTTATGTAAG--G
* * *
42051771 TGTATTATGTATGTTATGTAAGTTGTGT-AGAA
1 TGTATTATGTAAGTTATGTAAGTTATGTAAG-G
*
42051803 TGTAAGCTATGTAAGTTATGTAAGTTATGTAAGTGG
1 TGT-A-TTATGTAAGTTATGTAAGTTATGTAA--GG
42051839 TGTATTATGTAAGTTATGTAAGTTATGTAAG
1 TGTATTATGTAAGTTATGTAAGTTATGTAAG
42051870 CACTACACCA
Statistics
Matches: 364, Mismatches: 54, Indels: 94
0.71 0.11 0.18
Matches are distributed among these distances:
23 3 0.01
24 1 0.00
25 47 0.13
26 5 0.01
27 39 0.11
28 6 0.02
29 2 0.01
30 3 0.01
31 1 0.00
32 33 0.09
33 11 0.03
34 198 0.54
35 8 0.02
36 6 0.02
37 1 0.00
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (32 bp):
TGTATTATGTAAGTTATGTAAGTTATGTAAGG
Found at i:42051510 original size:68 final size:68
Alignment explanation
Indices: 42051341--42051511 Score: 202
Period size: 68 Copynumber: 2.5 Consensus size: 68
42051331 CTAAGTAAAC
* *
42051341 TATGTAAGTTATGTATTACATAAGTTATTTATGTATTATGTAAGCTATGTAAGTTATGTAAGTGC
1 TATGTAAGTTATGTATTATATAAG-T-TTTATGTATTATGCAAGCTATGTAAGTTATGTAAGTGC
42051406 TGTAT
64 TGTAT
* * ** * * * *
42051411 TATGTAAGTTATATAAGTTATGT-AG-GCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGT
1 TATGTAAGTTATGT-A-TTATATAAGTTTTATGTATTATGCAAGCTATGTAAGTTATGTAAGTGC
42051474 TGTAT
64 TGTAT
42051479 TATGTAAGTTATGTATTATATAAGTTTTATGTA
1 TATGTAAGTTATGTATTATATAAGTTTTATGTA
42051512 AAATATGTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
66 5 0.06
67 3 0.04
68 55 0.66
70 13 0.16
71 3 0.04
72 4 0.05
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (68 bp):
TATGTAAGTTATGTATTATATAAGTTTTATGTATTATGCAAGCTATGTAAGTTATGTAAGTGCTG
TAT
Found at i:42051774 original size:25 final size:26
Alignment explanation
Indices: 42051376--42051869 Score: 126
Period size: 25 Copynumber: 19.3 Consensus size: 26
42051366 TATTTATGTA
* *
42051376 TTATGTAAGCTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAG-TATGTATG
** * *
42051403 TGCTGT-A-TTATGTAAGTTATATAAG
1 TTATGTAAGTTATGTAAG-TATGTATG
* * * * *
42051428 TTATGTAGGCTATGT-ATTATGCAAG
1 TTATGTAAGTTATGTAAGTATGTATG
* * *
42051453 TTATTTAAGTTGTGTAAGTGTTGTA--
1 TTATGTAAGTTATGTAAGT-ATGTATG
* * *
42051478 TTATGTAAGTTATGT-ATTATATAAGTT
1 TTATGTAAGTTATGTAAGTATGT-A-TG
** *
42051505 TTATGTAAAATATGTAAGT-TGTATT
1 TTATGTAAGTTATGTAAGTATGTATG
* * *
42051530 TTATGAAAGTTATATAAGTTATGTAGG
1 TTATGTAAGTTATGTAAG-TATGTATG
* * * *
42051557 CTATGT-A-TTATGCAAGTTATTTAAG
1 TTATGTAAGTTATGTAAG-TATGTATG
* * *
42051582 TTGTGTAAGTGT-TGT-ATTATGTAAG
1 TTATGTAAGT-TATGTAAGTATGTATG
* *
42051607 TTATGT-A-TTATATAAGT-TTTATG
1 TTATGTAAGTTATGTAAGTATGTATG
** * *
42051630 TAAAATATGTAAG-T-TGTATTTTATGAAAG
1 T----TATGTAAGTTATGTA-AGTATGTATG
* *
42051659 TTATATAAGTTATGTAGGCTATGTA--
1 TTATGTAAGTTATGTAAG-TATGTATG
* * * *
42051684 TTATGCAAGTTATTTAAGTTGTGTAAG
1 TTATGTAAGTTATGTAAG-TATGTATG
*
42051711 TGT-TGT-A-TTATTTAAGTTATGTA--
1 T-TATGTAAGTTATGTAAG-TATGTATG
* *
42051734 TTATGTAAGATATGTAAGT-TGTATT
1 TTATGTAAGTTATGTAAGTATGTATG
* *
42051759 TTATGTAAGTTCTGT-ATTATGTATG
1 TTATGTAAGTTATGTAAGTATGTATG
* * *
42051784 TTATGTAAGTTGTGT-AGAATGTAAG
1 TTATGTAAGTTATGTAAGTATGTATG
* *
42051809 CTATGTAAGTTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAG-TATGTATG
** *
42051836 TGGTGT-A-TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAG-TATGTATG
42051861 TTATGTAAG
1 TTATGTAAG
42051870 CACTACACCA
Statistics
Matches: 342, Mismatches: 85, Indels: 80
0.67 0.17 0.16
Matches are distributed among these distances:
22 2 0.01
23 18 0.05
24 10 0.03
25 218 0.64
26 15 0.04
27 68 0.20
28 7 0.02
29 4 0.01
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (26 bp):
TTATGTAAGTTATGTAAGTATGTATG
Found at i:42051790 original size:16 final size:16
Alignment explanation
Indices: 42051341--42051869 Score: 236
Period size: 16 Copynumber: 31.5 Consensus size: 16
42051331 CTAAGTAAAC
42051341 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
* *
42051357 TACATAAGTTATTTATGTAT
1 T--AT--GTAAGTTATGTAT
*
42051377 TATGTAAGCTATGTAAGT
1 TATGTAAGTTATGT-A-T
**
42051395 TATGTAAGTGCTGTAT
1 TATGTAAGTTATGTAT
*
42051411 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
42051429 TATGTAGGCTATGTAT
1 TATGTAAGTTATGTAT
* *
42051445 TATGCAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
42051463 TGTGTAAGTGT-TGTAT
1 TATGTAAGT-TATGTAT
42051479 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
* *
42051495 TATATAAGTTTTATGTAAAA
1 TATGTAAG--TTATGT--AT
* * *
42051515 TATGTAAGTTGTATTT
1 TATGTAAGTTATGTAT
* *
42051531 TATGAAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
42051549 TATGTAGGCTATGTAT
1 TATGTAAGTTATGTAT
* *
42051565 TATGCAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
42051583 TGTGTAAGTGT-TGTAT
1 TATGTAAGT-TATGTAT
42051599 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
* *
42051615 TATATAAGTTTTATGTAAAA
1 TATGTAAG--TTATGT--AT
* * *
42051635 TATGTAAGTTGTATTT
1 TATGTAAGTTATGTAT
* *
42051651 TATGAAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
42051669 TATGTAGGCTATGTAT
1 TATGTAAGTTATGTAT
* *
42051685 TATGCAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
42051703 TGTGTAAGTGT-TGTAT
1 TATGTAAGT-TATGTAT
*
42051719 TATTTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
42051735 TATGTAAGATATGTA-
1 TATGTAAGTTATGTAT
*
42051750 -A-GT-TG-TAT-T-T
1 TATGTAAGTTATGTAT
*
42051760 TATGTAAGTTCTGTAT
1 TATGTAAGTTATGTAT
*
42051776 TATGTATGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* * *
42051794 TGTGT-AG-AATGTAAGC
1 TATGTAAGTTATGT-A-T
42051810 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
**
42051828 TATGTAAGTGGTGTAT
1 TATGTAAGTTATGTAT
42051844 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
42051862 TATGTAAG
1 TATGTAAG
42051870 CACTACACCA
Statistics
Matches: 383, Mismatches: 85, Indels: 88
0.69 0.15 0.16
Matches are distributed among these distances:
10 1 0.00
11 4 0.01
12 3 0.01
13 3 0.01
14 3 0.01
15 4 0.01
16 183 0.48
17 18 0.05
18 133 0.35
19 3 0.01
20 28 0.07
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:42052013 original size:40 final size:40
Alignment explanation
Indices: 42051960--42052035 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 40
42051950 CGCTTTATGG
* * *
42051960 AAATCGCCACTAAAGATTAAGCATTAGTGGCGTTTTTCAAA
1 AAATCGCCACTAAA-AATAAGCATTAGCGGCATTTTTCAAA
*
42052001 AAAT-GCCGCTAAAAATAAGCATTAGCGGCATTTTT
1 AAATCGCCACTAAAAATAAGCATTAGCGGCATTTTT
42052036 TTTAAAAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 19 0.61
40 8 0.26
41 4 0.13
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (40 bp):
AAATCGCCACTAAAAATAAGCATTAGCGGCATTTTTCAAA
Found at i:42052055 original size:40 final size:39
Alignment explanation
Indices: 42051917--42052035 Score: 105
Period size: 40 Copynumber: 3.0 Consensus size: 39
42051907 GGCGTTTGGA
* * *
42051917 CAAAAAACGCCGGTAAAAATCAAGTATTAGCGGCGCTTTAT
1 CAAAAAACGCCGCTAAAAAT-AAGCATTAGCGGCG-TTTTT
** * * * *
42051958 -GGAAATCGCCACTAAAGATTAAGCATTAGTGGCGTTTTT
1 CAAAAAACGCCGCTAAA-AATAAGCATTAGCGGCGTTTTT
* *
42051997 CAAAAAATGCCGCTAAAAATAAGCATTAGCGGCATTTTT
1 CAAAAAACGCCGCTAAAAATAAGCATTAGCGGCGTTTTT
42052036 TTTAAAAACG
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
39 23 0.39
40 34 0.58
41 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (39 bp):
CAAAAAACGCCGCTAAAAATAAGCATTAGCGGCGTTTTT
Found at i:42052627 original size:21 final size:22
Alignment explanation
Indices: 42052597--42052637 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
42052587 AGGGGTTATC
42052597 GTTTAAGGGTT-GGGATTTAAG
1 GTTTAAGGGTTAGGGATTTAAG
* *
42052618 GTTTAGGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGATTTA
42052638 TGGGTTAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAG
Found at i:42056534 original size:43 final size:43
Alignment explanation
Indices: 42056461--42056751 Score: 248
Period size: 43 Copynumber: 6.7 Consensus size: 43
42056451 TAAAAATGCT
* ***
42056461 TTTAGTGGCGTTTTCT-ATAAAAGTATCGCTAAAGGTCATGCTT-
1 TTTAGCGGCGTTTT-TGATAAAAGCGCCGCTAAAGGTCATG-TTC
* * * *
42056504 TTTAGCTGCGTTTGTGATAAAAGCGCCGCTAAAGATAATGTTTC
1 TTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGGTCATG-TTC
* * *
42056548 TTTAGCGGCGTTTATGGGT-AAAGCGCTGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTT-TTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * * *
42056591 TTTAGTGGTGTTTTTTATGAAAGCGCCGCTAAAGGTCCTGTTC
1 TTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * *
42056634 TTTAGCGACG-TTTTAATAAAAGCGCCGCTAAATGTCTTGTTC
1 TTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGGTCATGTTC
** * * **
42056676 TTTAGCGGCGTTTTTTTTCAAAGCGGCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGGTCATGTTC
** *
42056719 TTTAGCGGCGTTTATTTCTAAAAACGCCGCTAA
1 TTTAGCGGCGTTT-TTGATAAAAGCGCCGCTAA
42056752 TGTTAGCGAC
Statistics
Matches: 199, Mismatches: 43, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
42 40 0.20
43 112 0.56
44 45 0.23
45 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:42056677 original size:85 final size:86
Alignment explanation
Indices: 42056487--42056733 Score: 266
Period size: 85 Copynumber: 2.9 Consensus size: 86
42056477 ATAAAAGTAT
* * * * * *
42056487 CGCTAAAGGTCATGCTT-TTTAGCTGCGTTTGTGATAAAAGCGCCGCTAAAGATAATGTTTCTTT
1 CGCTAAAGGTCATG-TTCTTTAGCGGCGTTTTTTATCAAAGCGCCGCTAAAGGTCATG-TTCTTT
**
42056551 AGCGGCGTTTATGGGTAAAGCGC
64 AGCGGCGTTTATGAATAAAGCGC
* * * * *
42056574 TGCTAAAGGTCATGTTCTTTAGTGGTGTTTTTTATGAAAGCGCCGCTAAAGGTCCTGTTCTTTAG
1 CGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTTATCAAAGCGCCGCTAAAGGTCATGTTCTTTAG
*
42056639 CGACGTTT-T-AATAAAAGCGC
66 CGGCGTTTATGAAT-AAAGCGC
* * * * **
42056659 CGCTAAATGTCTTGTTCTTTAGCGGCGTTTTTTTTCAAAGCGGCGCTAAAGGTCATGACCTTTAG
1 CGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTTATCAAAGCGCCGCTAAAGGTCATGTTCTTTAG
42056724 CGGCGTTTAT
66 CGGCGTTTAT
42056734 TTCTAAAAAC
Statistics
Matches: 132, Mismatches: 25, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
84 1 0.01
85 69 0.52
86 18 0.14
87 44 0.33
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (86 bp):
CGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTTATCAAAGCGCCGCTAAAGGTCATGTTCTTTAG
CGGCGTTTATGAATAAAGCGC
Found at i:42056925 original size:8 final size:8
Alignment explanation
Indices: 42056912--42056981 Score: 55
Period size: 8 Copynumber: 9.5 Consensus size: 8
42056902 AAGTTATGTG
42056912 TTATGTTA
1 TTATGTTA
42056920 TTATG-TA
1 TTATGTTA
42056927 TTATG-TA
1 TTATGTTA
42056934 --AT-TTA
1 TTATGTTA
42056939 TTATGTTA
1 TTATGTTA
*
42056947 TTAT-ATA
1 TTATGTTA
*
42056954 -TAAGTTA
1 TTATGTTA
*
42056961 TGTAAGTTA
1 T-TATGTTA
42056970 TTATGTTA
1 TTATGTTA
42056978 TTAT
1 TTAT
42056982 ATATAAGTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
5 4 0.08
6 2 0.04
7 15 0.29
8 22 0.43
9 8 0.16
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (8 bp):
TTATGTTA
Found at i:42056961 original size:19 final size:19
Alignment explanation
Indices: 42056939--42056994 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
42056929 ATGTAATTTA
42056939 TTATGTTATTATATATAAG
1 TTATGTTATTATATATAAG
*
42056958 TTATG-TA--A-GT-T-A-
1 TTATGTTATTATATATAAG
42056970 TTATGTTATTATATATAAG
1 TTATGTTATTATATATAAG
42056989 TTATGT
1 TTATGT
42056995 AAGTGGTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
12 5 0.18
13 3 0.11
14 1 0.04
15 2 0.07
16 2 0.07
17 1 0.04
18 3 0.11
19 11 0.39
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (19 bp):
TTATGTTATTATATATAAG
Found at i:42056965 original size:31 final size:31
Alignment explanation
Indices: 42056927--42056998 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
42056917 TTATTATGTA
*
42056927 TTATGTAATTTATTATGTTATTATATATAAG
1 TTATGTAAGTTATTATGTTATTATATATAAG
42056958 TTATGTAAGTTATTATGTTATTATATATAAG
1 TTATGTAAGTTATTATGTTATTATATATAAG
42056989 TTATGTAAGT
1 TTATGTAAGT
42056999 GGTGTATTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (31 bp):
TTATGTAAGTTATTATGTTATTATATATAAG
Found at i:42056975 original size:12 final size:12
Alignment explanation
Indices: 42056925--42057038 Score: 70
Period size: 12 Copynumber: 10.2 Consensus size: 12
42056915 TGTTATTATG
*
42056925 TATTATGTAATT
1 TATTATGTAAGT
*
42056937 TATTATGTTA-T
1 TATTATGTAAGT
*
42056948 TA-TATATAAG-
1 TATTATGTAAGT
42056958 --TTATGTAAGT
1 TATTATGTAAGT
*
42056968 TATTATGTTA-T
1 TATTATGTAAGT
*
42056979 TA-TATATAAGT
1 TATTATGTAAGT
* *
42056990 TATGTAAGT-GGT
1 TAT-TATGTAAGT
42057002 GTATTATGTAAG-
1 -TATTATGTAAGT
42057014 --TTATGTAAGT
1 TATTATGTAAGT
42057024 TATTATGTAAGT
1 TATTATGTAAGT
42057036 TAT
1 TAT
42057039 GCAAGCTTAT
Statistics
Matches: 77, Mismatches: 12, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
9 16 0.21
10 10 0.13
11 9 0.12
12 35 0.45
13 7 0.09
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (12 bp):
TATTATGTAAGT
Found at i:42057039 original size:9 final size:9
Alignment explanation
Indices: 42056954--42057026 Score: 61
Period size: 9 Copynumber: 8.9 Consensus size: 9
42056944 TTATTATATA
42056954 TAAGTTATG
1 TAAGTTATG
42056963 TAAGTTAT-
1 TAAGTTATG
*
42056971 TATGTTAT-
1 TAAGTTATG
*
42056979 T-A--TATA
1 TAAGTTATG
42056985 TAAGTTATG
1 TAAGTTATG
**
42056994 TAAGTGGTG
1 TAAGTTATG
42057003 T-A-TTATG
1 TAAGTTATG
42057010 TAAGTTATG
1 TAAGTTATG
42057019 TAAGTTAT
1 TAAGTTAT
42057027 TATGTAAGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
7 5 0.10
8 10 0.20
9 32 0.63
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:42057055 original size:21 final size:21
Alignment explanation
Indices: 42056958--42057060 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 21
42056948 TATATATAAG
* *
42056958 TTATGTAAGTTAT-TATGTTA
1 TTATATAAGTTATGTAAGTTA
42056978 TTATATATAAGTTATGTAAGTGGTGTA
1 -T-TATATAAGTTATGTAA---GT-TA
*
42057005 TTATGTAAGTTATGTAAGTTA
1 TTATATAAGTTATGTAAGTTA
* *
42057026 TTATGTAAGTTATGCAAGCTTA
1 TTATATAAGTTATGTAAG-TTA
42057048 -TATATAAGCTTAT
1 TTATATAAG-TTAT
42057061 ATATAATTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
21 27 0.39
22 20 0.29
23 2 0.03
25 15 0.22
26 3 0.04
27 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (21 bp):
TTATATAAGTTATGTAAGTTA
Found at i:42057056 original size:12 final size:12
Alignment explanation
Indices: 42057041--42057066 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42057031 TAAGTTATGC
42057041 AAGCTTATATAT
1 AAGCTTATATAT
42057053 AAGCTTATATAT
1 AAGCTTATATAT
42057065 AA
1 AA
42057067 TTATTTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (12 bp):
AAGCTTATATAT
Found at i:42057166 original size:45 final size:45
Alignment explanation
Indices: 42057097--42057196 Score: 173
Period size: 45 Copynumber: 2.2 Consensus size: 45
42057087 ATTAATACTA
* *
42057097 ATAAATTTTATTACTAATAAATTTAGAACACTTATTTAGAAAACTT
1 ATAAA-TTTAATACTAATAAATTTAGAAAACTTATTTAGAAAACTT
42057143 ATAAATTTAATACTAATAAATTTAGAAAACTTATTTAGAAAACTT
1 ATAAATTTAATACTAATAAATTTAGAAAACTTATTTAGAAAACTT
42057188 ATAAATTTA
1 ATAAATTTA
42057197 GAAAACTTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
45 47 0.90
46 5 0.10
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (45 bp):
ATAAATTTAATACTAATAAATTTAGAAAACTTATTTAGAAAACTT
Found at i:42057180 original size:13 final size:13
Alignment explanation
Indices: 42057162--42057189 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
42057152 ATACTAATAA
42057162 ATTTAGAAAACTT
1 ATTTAGAAAACTT
42057175 ATTTAGAAAACTT
1 ATTTAGAAAACTT
42057188 AT
1 AT
42057190 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:42057516 original size:21 final size:21
Alignment explanation
Indices: 42057486--42057525 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
42057476 TCCAAAATTT
*
42057486 ATTGCGTTTTTGGCACGAATG
1 ATTGCCTTTTTGGCACGAATG
*
42057507 ATTGCCTTTTTTGCACGAA
1 ATTGCCTTTTTGGCACGAA
42057526 CGTAGCAAAC
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:0.17, G:0.23, T:0.40
Consensus pattern (21 bp):
ATTGCCTTTTTGGCACGAATG
Found at i:42059902 original size:7 final size:7
Alignment explanation
Indices: 42059890--42059942 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
42059880 GTAAGTATAT
42059890 CCCTAAC
1 CCCTAAC
42059897 CCCTAAC
1 CCCTAAC
42059904 CCCTAAC
1 CCCTAAC
*
42059911 CCCTAAT
1 CCCTAAC
*
42059918 CCGTAAC
1 CCCTAAC
*
42059925 CTCTAAC
1 CCCTAAC
42059932 CCCTAAC
1 CCCTAAC
42059939 CCCT
1 CCCT
42059943 CTTTTACAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.26, C:0.53, G:0.02, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:42059930 original size:28 final size:28
Alignment explanation
Indices: 42059888--42059942 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
42059878 AAGTAAGTAT
42059888 ATCCCTAACCCCTAACCCCTAACCCCTA
1 ATCCCTAACCCCTAACCCCTAACCCCTA
* *
42059916 ATCCGTAACCTCTAACCCCTAACCCCT
1 ATCCCTAACCCCTAACCCCTAACCCCT
42059943 CTTTTACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.20
Consensus pattern (28 bp):
ATCCCTAACCCCTAACCCCTAACCCCTA
Found at i:42060073 original size:14 final size:14
Alignment explanation
Indices: 42060030--42060103 Score: 53
Period size: 14 Copynumber: 5.1 Consensus size: 14
42060020 AACCCCGAGT
*
42060030 CTCTAAACCCTAAAT
1 CTCT-AACCCTAAAC
* * *
42060045 CACTAACTCTTAAC
1 CTCTAACCCTAAAC
42060059 CTCTAACCCTAAAC
1 CTCTAACCCTAAAC
*
42060073 CCCTAACCTCT-AA-
1 CTCTAACC-CTAAAC
42060086 CTGCTAACCCCTAAAC
1 CT-CTAA-CCCTAAAC
42060102 CT
1 CT
42060104 TATTTAATAT
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
13 1 0.02
14 33 0.73
15 9 0.20
16 2 0.04
ACGTcount: A:0.34, C:0.41, G:0.01, T:0.24
Consensus pattern (14 bp):
CTCTAACCCTAAAC
Found at i:42060079 original size:21 final size:21
Alignment explanation
Indices: 42060055--42060099 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
42060045 CACTAACTCT
42060055 TAACCTCTAAC-CCTAAACCCC
1 TAACCTCTAACTCCT-AACCCC
*
42060076 TAACCTCTAACTGCTAACCCC
1 TAACCTCTAACTCCTAACCCC
42060097 TAA
1 TAA
42060100 ACCTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.22
Consensus pattern (21 bp):
TAACCTCTAACTCCTAACCCC
Found at i:42060758 original size:40 final size:41
Alignment explanation
Indices: 42060706--42060806 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 41
42060696 GCACTTTTTC
*
42060706 AAAAACGCCGCTAAAAGCCCGATC-TTAATGGCGCTATTTA
1 AAAAACGCCGCTAAAAGCCCGATCTTTAACGGCGCTATTTA
* * *
42060746 AAAAACGCCGCTAAAAGCCCGATCTTTAGCGGCGCTTTTTC
1 AAAAACGCCGCTAAAAGCCCGATCTTTAACGGCGCTATTTA
* *
42060787 AAAAACACTGCTAAAAGCCC
1 AAAAACGCCGCTAAAAGCCC
42060807 CGAAAGGTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
40 24 0.44
41 30 0.56
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.21
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAGCCCGATCTTTAACGGCGCTATTTA
Found at i:42060792 original size:41 final size:40
Alignment explanation
Indices: 42060690--42060806 Score: 162
Period size: 40 Copynumber: 2.9 Consensus size: 40
42060680 GCTCTTAGCA
*
42060690 TTAGTGGCACTTTTTCAAAAACGCCGCTAAAAGCCCGATC
1 TTAGTGGCGCTTTTTCAAAAACGCCGCTAAAAGCCCGATC
* * *
42060730 TTAATGGCGCTATTTAAAAAACGCCGCTAAAAGCCCGATC
1 TTAGTGGCGCTTTTTCAAAAACGCCGCTAAAAGCCCGATC
* * *
42060770 TTTAGCGGCGCTTTTTCAAAAACACTGCTAAAAGCCC
1 -TTAGTGGCGCTTTTTCAAAAACGCCGCTAAAAGCCC
42060807 CGAAAGGTCA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 36 0.55
41 30 0.45
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (40 bp):
TTAGTGGCGCTTTTTCAAAAACGCCGCTAAAAGCCCGATC
Found at i:42060897 original size:41 final size:41
Alignment explanation
Indices: 42060849--42060938 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 41
42060839 GGTTTTTTGC
*
42060849 GGCGTTTTTCA-GAAAATCGCCGCTAATGCTCGATCTTTAGT
1 GGCGTTTTT-ATGAAAAGCGCCGCTAATGCTCGATCTTTAGT
* *
42060890 GGCG-TTTTATGTAAAGCGCCGCTAATGCTCGATTTTTAGT
1 GGCGTTTTTATGAAAAGCGCCGCTAATGCTCGATCTTTAGT
*
42060930 GGCTTTTTT
1 GGCGTTTTT
42060939 TGTCAAAACA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 1 0.02
40 34 0.79
41 8 0.19
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (41 bp):
GGCGTTTTTATGAAAAGCGCCGCTAATGCTCGATCTTTAGT
Found at i:42061129 original size:43 final size:43
Alignment explanation
Indices: 42061062--42061246 Score: 248
Period size: 43 Copynumber: 4.3 Consensus size: 43
42061052 TTTTAGAAAT
* *
42061062 AAACGCAGCTAAA-AGTCATGACCTTTAGCGGGGCTTTTCCCAC
1 AAACGCCGCTAAAGAG-CATGACCTTTAGCGGCGCTTTTCCCAC
* *
42061105 AAACGCCGCTAAAGAGCATAACCTTTAGCGACGCTTTT-CCAC
1 AAACGCCGCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCAC
* *
42061147 AAACGTCGCTAAAGAGCATGACCTTTAGCAGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
42061190 AAATGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTCCAA
1 AAACGCCGCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCAC
42061233 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
42061247 GTCATGAAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 38 0.31
43 84 0.68
44 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:42061214 original size:85 final size:87
Alignment explanation
Indices: 42061062--42061253 Score: 266
Period size: 85 Copynumber: 2.3 Consensus size: 87
42061052 TTTTAGAAAT
* * * *
42061062 AAACGCAGCTAAA-AGTCATGACCTTTAGCGGGGCTTTTCCCACAAACGCCGCTAAAGAGCATAA
1 AAACGCCGCTAAAGAGTCATGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGAACATAA
*
42061126 CCTTTAGCGACG-CTTTTCCAC
66 CCTTTAGCGACGTCTTTTCCAA
* * *
42061147 AAACGTCGCTAAAGAG-CATGACCTTTAGCAGCGCTTTTCCCACAAATGCCGCTAAAGAACATGA
1 AAACGCCGCTAAAGAGTCATGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGAACATAA
* *
42061211 CCTTTAGCGGCGTTTTTTCCAA
66 CCTTTAGCGACGTCTTTTCCAA
42061233 AAACGCCGCTAAAG-GTCATGA
1 AAACGCCGCTAAAGAGTCATGA
42061254 AAAATAAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
85 66 0.71
86 27 0.29
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (87 bp):
AAACGCCGCTAAAGAGTCATGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGAACATAA
CCTTTAGCGACGTCTTTTCCAA
Found at i:42064040 original size:24 final size:23
Alignment explanation
Indices: 42064009--42064054 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
42063999 TATTCACACG
42064009 TATTCTTA-CTTAATTTCAAATGC
1 TATTCTTACCTTAATTT-AAATGC
*
42064032 TATTACTTACCTTACTTTAAATG
1 TATT-CTTACCTTAATTTAAATG
42064055 TCCCATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.48
Consensus pattern (23 bp):
TATTCTTACCTTAATTTAAATGC
Found at i:42064761 original size:3 final size:3
Alignment explanation
Indices: 42064753--42064805 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
42064743 TTTTTACTTT
* *
42064753 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A AAA AAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
42064800 ATA ATA
1 ATA ATA
42064806 TAAATATCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:42070048 original size:27 final size:27
Alignment explanation
Indices: 42070018--42070141 Score: 149
Period size: 27 Copynumber: 4.6 Consensus size: 27
42070008 TCATCTCCTA
** *
42070018 GGGGTATAACAGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
42070045 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
42070072 GAGGTATTTCAGTCATTCTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
42070099 GTGGTATTTCGGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
42070126 GAGGTATTTCGGTCAT
1 GGGGTATTTCAGTCAT
42070142 AACAATGTAA
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.40
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:42070133 original size:54 final size:54
Alignment explanation
Indices: 42070027--42070141 Score: 185
Period size: 54 Copynumber: 2.1 Consensus size: 54
42070017 AGGGGTATAA
* * *
42070027 CAGTCATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTATGGAGGTATTT
1 CAGTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGAGGTATTT
*
42070081 CAGTCATTCTACCCTATGGTGGTATTTCGGTCATTTTACCCTATAGAGGTATTT
1 CAGTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGAGGTATTT
*
42070135 CGGTCAT
1 CAGTCAT
42070142 AACAATGTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (54 bp):
CAGTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGAGGTATTT
Found at i:42071071 original size:14 final size:15
Alignment explanation
Indices: 42071052--42071091 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
42071042 TCGACGTGAT
42071052 TTTTAGTTTTA-GAC
1 TTTTAGTTTTAGGAC
*
42071066 TTTTAGTTTTAGGAT
1 TTTTAGTTTTAGGAC
*
42071081 TTTTATTTTTA
1 TTTTAGTTTTA
42071092 TTTATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.20, C:0.03, G:0.12, T:0.65
Consensus pattern (15 bp):
TTTTAGTTTTAGGAC
Found at i:42071343 original size:28 final size:28
Alignment explanation
Indices: 42071309--42071373 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
42071299 CCAGAAAATT
42071309 ATTAACTGACCCCAACTGAATTAATTCG
1 ATTAACTGACCCCAACTGAATTAATTCG
* *
42071337 GTTAACTGACCCCAACTGATTTAATTCG
1 ATTAACTGACCCCAACTGAATTAATTCG
42071365 ATTAACTGA
1 ATTAACTGA
42071374 TTAATCTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (28 bp):
ATTAACTGACCCCAACTGAATTAATTCG
Found at i:42078618 original size:43 final size:43
Alignment explanation
Indices: 42078551--42078633 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
42078541 TGGCTAGAGA
* *
42078551 GAAAACGTTTCCTGCAAGAGGCGTTTTCATCTAACATGTTAGT
1 GAAAACGCTTCCTGCAAGACGCGTTTTCATCTAACATGTTAGT
* * * *
42078594 GAAAACGCTTCCTGTAGGACGCGTTTTCCTCTAAGATGTT
1 GAAAACGCTTCCTGCAAGACGCGTTTTCATCTAACATGTT
42078634 GGTGGAAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (43 bp):
GAAAACGCTTCCTGCAAGACGCGTTTTCATCTAACATGTTAGT
Found at i:42081340 original size:20 final size:20
Alignment explanation
Indices: 42081315--42081354 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
42081305 TATTTTGCAT
42081315 GCATAGCAAAATTATGACAA
1 GCATAGCAAAATTATGACAA
*
42081335 GCATAGCAAAATTGTGACAA
1 GCATAGCAAAATTATGACAA
42081355 ACAAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (20 bp):
GCATAGCAAAATTATGACAA
Found at i:42083598 original size:19 final size:19
Alignment explanation
Indices: 42083574--42083611 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
42083564 TTTTTCTAAC
42083574 ACGTTGTGCATAGAATTGG
1 ACGTTGTGCATAGAATTGG
42083593 ACGTTGTGCATAGAATTGG
1 ACGTTGTGCATAGAATTGG
42083612 TTTCCTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
ACGTTGTGCATAGAATTGG
Found at i:42092284 original size:43 final size:45
Alignment explanation
Indices: 42092234--42092321 Score: 153
Period size: 43 Copynumber: 2.0 Consensus size: 45
42092224 ATTTATACCT
*
42092234 GAATACATAGCTAATACCTACATTCG-A-ATATATATACATATTC
1 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
42092277 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
1 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
42092322 TTCATATACA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 25 0.60
44 1 0.02
45 16 0.38
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (45 bp):
GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
Found at i:42092304 original size:25 final size:25
Alignment explanation
Indices: 42092234--42092306 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
42092224 ATTTATACCT
*
42092234 GAATACATAGCTAATACCTACATTC
1 GAATACATAGCTAATACATACATTC
42092259 GAAT--ATA--T-ATACAT--ATTC
1 GAATACATAGCTAATACATACATTC
42092277 GAATACATAGCTAATACATACATTC
1 GAATACATAGCTAATACATACATTC
42092302 GAATA
1 GAATA
42092307 TATATATACA
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
18 8 0.20
20 8 0.20
21 1 0.03
22 1 0.03
23 9 0.22
25 13 0.32
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (25 bp):
GAATACATAGCTAATACATACATTC
Found at i:42092317 original size:18 final size:18
Alignment explanation
Indices: 42092252--42092317 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 18
42092242 AGCTAATACC
42092252 TACATTCGAATATATATA
1 TACATTCGAATATATATA
* *
42092270 CATATTCGAATACATAGCTAATACA
1 TACATTCGAAT--ATA--T-AT--A
42092295 TACATTCGAATATATATA
1 TACATTCGAATATATATA
42092313 TACAT
1 TACAT
42092318 ATTCTTCATA
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
18 15 0.41
20 5 0.14
21 1 0.03
22 1 0.03
23 5 0.14
25 10 0.27
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (18 bp):
TACATTCGAATATATATA
Found at i:42092715 original size:41 final size:41
Alignment explanation
Indices: 42092659--42092771 Score: 127
Period size: 41 Copynumber: 2.8 Consensus size: 41
42092649 TGATTCAGTA
* * * *
42092659 CACCGGCTTTTAGCCTGCTAGACCTATAGTCCGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
* * * *
42092700 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
* * *
42092741 CACCGGCATCAAGCCTACTAGACGTAAAGTC
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTC
42092772 TGTATTACAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
Found at i:42092772 original size:41 final size:41
Alignment explanation
Indices: 42092699--42092778 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
42092689 CCGAAATGTA
* *
42092699 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTACTAGACGTAAAGTCTGAATTATT
*
42092740 TCACCGGCATCAAGCCTACTAGACGTAAAGTCTGTATTA
1 TCACCGGCATCAAGCCTACTAGACGTAAAGTCTGAATTA
42092779 CATTCGCTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (41 bp):
TCACCGGCATCAAGCCTACTAGACGTAAAGTCTGAATTATT
Found at i:42096402 original size:22 final size:22
Alignment explanation
Indices: 42096337--42096394 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
42096327 TAAGCTTGCT
*
42096337 AGGCACAAAGCCTGAATAACAC
1 AGGCACAAAGCCTAAATAACAC
* *
42096359 AGGTACAAAGACTAAATAACAC
1 AGGCACAAAGCCTAAATAACAC
*
42096381 CGGCACAAAGCCTA
1 AGGCACAAAGCCTA
42096395 CTAGACACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.47, C:0.26, G:0.17, T:0.10
Consensus pattern (22 bp):
AGGCACAAAGCCTAAATAACAC
Found at i:42096415 original size:38 final size:38
Alignment explanation
Indices: 42096363--42096493 Score: 181
Period size: 38 Copynumber: 3.4 Consensus size: 38
42096353 TAACACAGGT
* * * *
42096363 ACAAAGACTAAATAACACCGGCACAAAGCCTACTAGAC
1 ACAAAGCCTGAATAACACCGGCACAAAGCCTGCTAGGC
* * *
42096401 ACAAAGCCTGAATAACACTGCCACAAAGCCTGTTAGGC
1 ACAAAGCCTGAATAACACCGGCACAAAGCCTGCTAGGC
*
42096439 ACAAAGCCTGAATAACACCGGCACGAAGCCTGCTAGGC
1 ACAAAGCCTGAATAACACCGGCACAAAGCCTGCTAGGC
*
42096477 ATAAAGCCTGAATAACA
1 ACAAAGCCTGAATAACA
42096494 ATATAATTCA
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 81 1.00
ACGTcount: A:0.41, C:0.28, G:0.18, T:0.13
Consensus pattern (38 bp):
ACAAAGCCTGAATAACACCGGCACAAAGCCTGCTAGGC
Found at i:42109883 original size:28 final size:28
Alignment explanation
Indices: 42109824--42109887 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
42109814 TTAGAAAAAT
* **
42109824 TAAAAAATTCTAAATAAATAAATATTGT
1 TAAAAAATTCTAAATAAATAAATAATAC
*
42109852 TAAAAAATTCT-AATATATAAATAAATAC
1 TAAAAAATTCTAAATAAATAAAT-AATAC
42109880 TAAAAAAT
1 TAAAAAAT
42109888 ATTATTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (28 bp):
TAAAAAATTCTAAATAAATAAATAATAC
Found at i:42113143 original size:29 final size:29
Alignment explanation
Indices: 42113097--42113167 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
42113087 TGTTGACGCT
* **
42113097 ACACGGCCATGTATTGGACCGTGTGAGAC
1 ACACGGCCGTGTGCTGGACCGTGTGAGAC
42113126 ACACGGCCGTGTGCTGGACCGTGTGAGAC
1 ACACGGCCGTGTGCTGGACCGTGTGAGAC
*
42113155 ACACGGGCGTGTG
1 ACACGGCCGTGTG
42113168 AGCCCAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.20, C:0.25, G:0.37, T:0.18
Consensus pattern (29 bp):
ACACGGCCGTGTGCTGGACCGTGTGAGAC
Done.