Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 2 of 39
Found at i:140945 original size:22 final size:23
Alignment explanation
Indices: 140932--140979 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
140922 TTCACAATTA
140932 AAATAAA-AAAAATTAAAATAAT
1 AAATAAATAAAAATTAAAATAAT
*
140954 AAATAAATAAAAATAAAAATTAAT
1 AAATAAATAAAAATTAAAA-TAAT
140978 AA
1 AA
140980 TTATAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.30
23 10 0.43
24 6 0.26
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (23 bp):
AAATAAATAAAAATTAAAATAAT
Found at i:140947 original size:15 final size:16
Alignment explanation
Indices: 140927--140973 Score: 69
Period size: 15 Copynumber: 2.9 Consensus size: 16
140917 AAAAATTCAC
140927 AATTAAAATAAAAA-A
1 AATTAAAATAAAAATA
140942 AATTAAAATAATAAATA
1 AATTAAAATAA-AAATA
*
140959 AATAAAAATAAAAAT
1 AATTAAAATAAAAAT
140974 TAATAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 11 0.38
16 7 0.24
17 11 0.38
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AATTAAAATAAAAATA
Found at i:140973 original size:16 final size:16
Alignment explanation
Indices: 140931--140979 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
140921 ATTCACAATT
*
140931 AAAATAAAAA-AAATT
1 AAAATAAAAATAAATA
140946 AAAATAATAAATAAATA
1 AAAATAA-AAATAAATA
*
140963 AAAATAAAAATTAATA
1 AAAATAAAAATAAATA
140979 A
1 A
140980 TTATAAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 7 0.23
16 12 0.40
17 11 0.37
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAATAAAAATAAATA
Found at i:143526 original size:33 final size:32
Alignment explanation
Indices: 143489--143556 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
143479 CGTTACAAGC
*
143489 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATATTATG-TGTATCGATA
*
143522 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTATGTGTATCGATA
143554 CAA
1 CAA
143557 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATATTATGTGTATCGATA
Found at i:143529 original size:13 final size:13
Alignment explanation
Indices: 143511--143536 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
143501 ACATTTTATG
143511 ATGTATCGATACA
1 ATGTATCGATACA
143524 ATGTATCGATACA
1 ATGTATCGATACA
143537 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:143636 original size:20 final size:21
Alignment explanation
Indices: 143589--143641 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
143579 GCCAATGACT
**
143589 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
143610 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
143630 TGTATCGATACA
1 TGTATCGATACA
143642 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:143647 original size:13 final size:13
Alignment explanation
Indices: 143629--143653 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
143619 ACATTTGGTC
143629 ATGTATCGATACA
1 ATGTATCGATACA
143642 ATGTATCGATAC
1 ATGTATCGATAC
143654 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:144735 original size:13 final size:13
Alignment explanation
Indices: 144717--144742 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
144707 CAATTTTTTG
144717 TGTATCGATACAT
1 TGTATCGATACAT
144730 TGTATCGATACAT
1 TGTATCGATACAT
144743 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:145488 original size:70 final size:70
Alignment explanation
Indices: 145398--145561 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 70
145388 AAGTTCGTAC
*
145398 ATTCTCCCCCTTAATAAAGTAATTGTAGCAATTTACGCATTCTCCCCTTTATCTCCCCCGTTTAT
1 ATTCTCCCCCTTAATCAAGTAATTGTAGCAATTTACGCATTCTCCCCTTTATCTCCCCCGTTTAT
145463 TAATA
66 TAATA
145468 ATTCTCCCCCTTAATCAAGTAATTGTAGCAATTTACGCATTCTCCCCTTTATCTCCCCCGTTTAT
1 ATTCTCCCCCTTAATCAAGTAATTGTAGCAATTTACGCATTCTCCCCTTTATCTCCCCCGTTTAT
145533 TAATA
66 TAATA
*
145538 AATCTCCCCCTTAATCAAGTAATT
1 ATTCTCCCCCTTAATCAAGTAATT
145562 CATATCAAAA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 92 1.00
ACGTcount: A:0.26, C:0.29, G:0.07, T:0.38
Consensus pattern (70 bp):
ATTCTCCCCCTTAATCAAGTAATTGTAGCAATTTACGCATTCTCCCCTTTATCTCCCCCGTTTAT
TAATA
Found at i:145490 original size:21 final size:21
Alignment explanation
Indices: 145449--145491 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
145439 CTCCCCTTTA
* *
145449 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
145470 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
145491 T
1 T
145492 GTAGCAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.26, C:0.30, G:0.05, T:0.40
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:147387 original size:13 final size:13
Alignment explanation
Indices: 147369--147394 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
147359 ATAATCACCC
147369 TGTATCGATACAA
1 TGTATCGATACAA
147382 TGTATCGATACAA
1 TGTATCGATACAA
147395 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:149492 original size:15 final size:15
Alignment explanation
Indices: 149472--149502 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
149462 ATTTCGTTTG
*
149472 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
149487 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
149502 G
1 G
149503 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:152597 original size:52 final size:50
Alignment explanation
Indices: 152532--152646 Score: 176
Period size: 52 Copynumber: 2.2 Consensus size: 50
152522 AAAATAACAG
*
152532 GGTTGGAGTATCCCGAATTGTGGAAAATCGATGTTTTGGAAATAAAATCGA
1 GGTTGGAGTATCCCG-ATGGTGGAAAATCGATGTTTTGGAAATAAAATCGA
* *
152583 GGTTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAATCGA
1 GG-TTGGAGTAT-CCCGATGGTGGAAAATCGATGTTTTGGAAATAAAATCGA
152635 GGTTGGAGTATC
1 GGTTGGAGTATC
152647 ATTTCGAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
50 1 0.02
51 11 0.19
52 43 0.73
53 4 0.07
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (50 bp):
GGTTGGAGTATCCCGATGGTGGAAAATCGATGTTTTGGAAATAAAATCGA
Found at i:152611 original size:131 final size:131
Alignment explanation
Indices: 152458--152717 Score: 328
Period size: 131 Copynumber: 2.0 Consensus size: 131
152448 AACGGGGCTA
* *
152458 GAGTATCCCCGATTGTGAAAAATCGGTGTCCAAAAAATAAAATCGAGATTAAAGTATCCCCTT-G
1 GAGTATCCCCGATGGTGAAAAATCGGTGTCCAAAAAATAAAATCGAGATTAAAGTAT-CACTTCG
*
152522 AAAATAACAGGGTTGGAGTAT-CCCGAATTGTGGAAAATCGATGTTTTGGAAATAAAA-TCGAGG
65 AAAATAACAGGGTTGGAGTATGCCCG-ATTGTGGAAAATCGATGTTTTGAAAATAAAACT-GAGG
152585 TTTG
128 TTTG
* * ***** * ** *
152589 GAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAATCGAGGTTGGAGTATCATTTCGA
1 GAGTATCCCCGATGGTGAAAAATCGGTGTCCAAAAAATAAAATCGAGATTAAAGTATCACTTCGA
* *
152654 AAATAATAGGGTTGGAGTATGCTCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGAGGTT
66 AAATAACAGGGTTGGAGTATGCCCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGAGGTT
152718 AAAGTATCCA
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
130 3 0.03
131 103 0.94
132 4 0.04
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (131 bp):
GAGTATCCCCGATGGTGAAAAATCGGTGTCCAAAAAATAAAATCGAGATTAAAGTATCACTTCGA
AAATAACAGGGTTGGAGTATGCCCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGAGGTTT
G
Found at i:152686 original size:79 final size:78
Alignment explanation
Indices: 152586--152804 Score: 228
Period size: 79 Copynumber: 2.8 Consensus size: 78
152576 AAATCGAGGT
* *
152586 TTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAATCGAGGTTGGAGTATCATTT
1 TTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGAGGTTGGAGTATCA-CT
152651 C-GAAAATAATAGGG-
65 CAG-AAATAA-AGGGA
* * * * * **
152665 TTGGAGTATGCTCGATTGTGGAAAATCGATGTTTTGAAAATAAAA-CTGAGGTTAAAGTATCCAC
1 TTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATC-GAGGTTGGAGTAT-CAC
*
152729 TCAGAAATAACGGGA
64 TCAGAAATAAAGGGA
* * * ** *
152744 TTGGAGTATTCCCGATTATGAAAAATTGGTGTTTAAGAAATAAAATCGGGGTTGGAGTATC
1 TTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGAGGTTGGAGTATC
152805 CCTGATTGTG
Statistics
Matches: 113, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
78 5 0.04
79 104 0.92
80 4 0.04
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (78 bp):
TTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGAGGTTGGAGTATCACTC
AGAAATAAAGGGA
Found at i:152824 original size:130 final size:130
Alignment explanation
Indices: 152662--152985 Score: 435
Period size: 130 Copynumber: 2.5 Consensus size: 130
152652 GAAAATAATA
* *
152662 GGGTTGGAGTAT-GCTCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGAGGTTAAAGTATC
1 GGGTTGGAGTATCCCT-GATTGTGGAAAATCGATGTTTTGAAAATAAAACTGAGGTTAGAGTATC
* *
152726 C-ACTCAGAAAT-AACGGGATT-GGAGTATTCC-CGATTATGAAAAATTGGTGTTTAAGAAATAA
65 CTACTC-GAAATAAAAGGG-TTACG-GTA-TCCTCGATTATGAAAAATTGGTGTTTAAGAAATAA
152787 AATCG
126 AATCG
* *
152792 GGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGGGGTTAGAGCATCC
1 GGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGAGGTTAGAGTATCC
* * *
152857 TATTCGAAATAAAAGTGTTACGGTATCCTCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCG
66 TACTCGAAATAAAAGGGTTACGGTATCCTCGATTATGAAAAATTGGTGTTTAAGAAATAAAATCG
* * * *
152922 GGGTTGGAGTATCCCTGATTATGGAAAATTGGTGTTTTGGAAATAAAACT-AGGGTTAGAGTATC
1 GGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGA-GGTTAGAGTATC
152986 TCCTCGGAAG
Statistics
Matches: 173, Mismatches: 15, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
129 3 0.02
130 160 0.92
131 10 0.06
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (130 bp):
GGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGAGGTTAGAGTATCC
TACTCGAAATAAAAGGGTTACGGTATCCTCGATTATGAAAAATTGGTGTTTAAGAAATAAAATCG
Found at i:152935 original size:209 final size:210
Alignment explanation
Indices: 152458--152918 Score: 481
Period size: 209 Copynumber: 2.2 Consensus size: 210
152448 AACGGGGCTA
* * * **** * * *
152458 GAGTATCCCCGATTGTGAAAAATCGGTGTCCAAAAAATAAAA-TCGAGATTAAAGTATCCCCT-T
1 GAGTATCCTCGATTATGAAAAATCGATGTTTTGAAAATAAAACT-GAGGTTAAAGTATCCACTCA
* * ** *
152521 GAAAATAACAGGGTTGGAGTATCCCGAATTGTGGAAAATCGATGTTTTGGAAATAAAATCGAGGT
65 G-AAATAACAGGGTTGGAGTATCCCGAATTATGAAAAATCGATGTTTAAGAAATAAAATCGAGGG
* * * * *
152586 TTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAATCGAGGTTGGAGTATCATTT
129 TTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTGAAAATAAAATCGAGGTTAGAGCATCATTT
* *
152651 CGAAAATAATAGGGTTG
194 CGAAAATAAAAGGGTTC
* * *
152668 GAGTATGCTCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGAGGTTAAAGTATCCACTCAG
1 GAGTATCCTCGATTATGAAAAATCGATGTTTTGAAAATAAAACTGAGGTTAAAGTATCCACTCAG
* *
152733 AAATAAC-GGGATTGGAGTATTCCCG-ATTATGAAAAATTGGTGTTTAAGAAATAAAATCG-GGG
66 AAATAACAGGG-TTGGAGTA-TCCCGAATTATGAAAAATCGATGTTTAAGAAATAAAATCGAGGG
* * * *
152795 TTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGAAAATAAAA-CTGGGGTTAGAGCATCCTA
129 TTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTGAAAATAAAATC-GAGGTTAGAGCATCAT-
*
152859 TTCG-AAATAAAAGTGTTAC
192 TTCGAAAATAAAAGGGTT-C
* *
152878 G-GTATCCTCGATTATGAAAAATTGGTGTTTT-AGAAATAAAA
1 GAGTATCCTCGATTATGAAAAATCGATGTTTTGA-AAATAAAA
152919 TCGGGGTTGG
Statistics
Matches: 208, Mismatches: 35, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
208 2 0.01
209 101 0.49
210 98 0.47
211 7 0.03
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (210 bp):
GAGTATCCTCGATTATGAAAAATCGATGTTTTGAAAATAAAACTGAGGTTAAAGTATCCACTCAG
AAATAACAGGGTTGGAGTATCCCGAATTATGAAAAATCGATGTTTAAGAAATAAAATCGAGGGTT
GGAGTATCCCCGATGGTGGAAAATCGATGTTTTGAAAATAAAATCGAGGTTAGAGCATCATTTCG
AAAATAAAAGGGTTC
Found at i:152977 original size:51 final size:52
Alignment explanation
Indices: 152879--152991 Score: 151
Period size: 51 Copynumber: 2.2 Consensus size: 52
152869 AAGTGTTACG
* *
152879 GTAT-CCTCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGA
1 GTATCCCTCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCAGGGTTAGA
* *
152930 GTATCCCT-GATTATGGAAAATTGGTGTTTTGGAAATAAAA-CTAGGGTTAGA
1 GTATCCCTCGATTATGAAAAATTGGTGTTTTAGAAATAAAATC-AGGGTTAGA
152981 GTATCTCCTCG
1 GTATC-CCTCG
152992 GAAGTAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
50 1 0.02
51 46 0.85
52 6 0.11
53 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.34
Consensus pattern (52 bp):
GTATCCCTCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCAGGGTTAGA
Found at i:155399 original size:20 final size:20
Alignment explanation
Indices: 155374--155429 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
155364 GATAAAACCC
155374 AAAATGTATCGATACAATGA
1 AAAATGTATCGATACAATGA
*
155394 ATAATGTATCGATACAATGA
1 AAAATGTATCGATACAATGA
155414 AAAATGTATCGATACA
1 AAAATGTATCGATACA
155430 TCTGGGTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (20 bp):
AAAATGTATCGATACAATGA
Found at i:155408 original size:70 final size:70
Alignment explanation
Indices: 155326--155480 Score: 238
Period size: 70 Copynumber: 2.2 Consensus size: 70
155316 AAAATGCCTG
* * *
155326 AATGTATTGATACATTGAAAAATGTATCGATACATCTAGATAAAACCCAAAATGTATCGATACAA
1 AATGTATCGATACAATGAAAAATGTATCGATACATCTAGATAAAACCCAAAATATATCGATACAA
*
155391 TGAAT
66 TGAAC
* * * *
155396 AATGTATCGATACAATGAAAAATGTATCGATACATCTGGGTAAAACCTAGAATATATCGATACAA
1 AATGTATCGATACAATGAAAAATGTATCGATACATCTAGATAAAACCCAAAATATATCGATACAA
155461 TGAAC
66 TGAAC
155466 AATGTATCGATACAA
1 AATGTATCGATACAA
155481 ATTATAGAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 77 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (70 bp):
AATGTATCGATACAATGAAAAATGTATCGATACATCTAGATAAAACCCAAAATATATCGATACAA
TGAAC
Found at i:160307 original size:20 final size:20
Alignment explanation
Indices: 160282--160371 Score: 82
Period size: 20 Copynumber: 4.5 Consensus size: 20
160272 ACCCTAAAAA
160282 GTATCGATACATATCT-AGAT
1 GTATCGATACATATCTCA-AT
*
160302 GTATCGATACATTATGCT--TT
1 GTATCGATACA-TAT-CTCAAT
* *
160322 GTATCGATACATGT-TCATT
1 GTATCGATACATATCTCAAT
160341 GTATCGATACATA-CTCAATT
1 GTATCGATACATATCTCAA-T
160361 GTATCGATACA
1 GTATCGATACA
160372 GGAAACTGGC
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
17 1 0.02
19 19 0.32
20 35 0.58
21 3 0.05
22 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (20 bp):
GTATCGATACATATCTCAAT
Found at i:160446 original size:20 final size:20
Alignment explanation
Indices: 160404--160454 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
160394 AACTAAGAAT
**
160404 TATCGATACATGGGACATTG
1 TATCGATACATGGGACAAAG
160424 TATCGATACATGGTGA-AAAG
1 TATCGATACATGG-GACAAAG
*
160444 TATTGATACAT
1 TATCGATACAT
160455 TATGCCTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
TATCGATACATGGGACAAAG
Found at i:162736 original size:16 final size:17
Alignment explanation
Indices: 162715--162748 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
162705 TTTCTTTCGG
162715 TTGTTG-CTGCTAGAGT
1 TTGTTGTCTGCTAGAGT
*
162731 TTGTTGTTTGCTAGAGT
1 TTGTTGTCTGCTAGAGT
162748 T
1 T
162749 ACTGCTGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.12, C:0.09, G:0.29, T:0.50
Consensus pattern (17 bp):
TTGTTGTCTGCTAGAGT
Found at i:164445 original size:51 final size:51
Alignment explanation
Indices: 164366--164464 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
164356 CGAGAATATC
** *
164366 GGGGTTGGAATATCCCTGATTGTAGAAAATCGATGTTTTAGAAATAAAGCT
1 GGGGTTGGAATATCCCCAATTATAGAAAATCGATGTTTTAGAAATAAAGCT
* * * * *
164417 GGGGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTTTGGAAATAAA
1 GGGGTTGGAATATCCCCAATTATAGAAAATCGATGTTTTAGAAATAAA
164465 AATCGGGTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.31
Consensus pattern (51 bp):
GGGGTTGGAATATCCCCAATTATAGAAAATCGATGTTTTAGAAATAAAGCT
Found at i:164473 original size:51 final size:51
Alignment explanation
Indices: 164367--164481 Score: 122
Period size: 51 Copynumber: 2.3 Consensus size: 51
164357 GAGAATATCG
* ** * ** *
164367 GGGTTGGAATATCCCTGATTGTAGAAAATCGATGTTTTAGAAATAAAGCTG
1 GGGTTGGAGTATCCCCAATTATAGAAAATCGATGTTTTAGAAATAAAAATC
* * * *
164418 GGGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTTTGGAAATAAAAATC
1 GGGTTGGAGTATCCCCAATTATAGAAAATCGATGTTTTAGAAATAAAAATC
*
164469 GGGTTAGAGTATC
1 GGGTTGGAGTATC
164482 GCATCGAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCAATTATAGAAAATCGATGTTTTAGAAATAAAAATC
Found at i:164499 original size:79 final size:78
Alignment explanation
Indices: 164417--164862 Score: 417
Period size: 79 Copynumber: 5.6 Consensus size: 78
164407 AAATAAAGCT
* * * *
164417 GGGGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTTTGGAAATAAAAATCGGGTTAGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAAATAGGGTTGGAGTATC
* * *
164482 GCATCGAAAATAAT
66 CCCTC-AAAATAAC
* * ** * *
164496 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGACGTTTTAGTAATAAAACTAGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAAATAGGGTTGGAGTATC
* *
164561 TCCTCAGAAATAAT
66 CCCTCA-AAATAAC
* * * ** * ** *
164575 AGGGTTAGAGTATCCCCAATGGTGGAAAATTGGTGTTTTAAAAATAAAACCAGGGTCGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAAATAGGGTTGGAGTATC
164640 CCCTCAAAAATAAC
66 CCCTC-AAAATAAC
* * ** * *
164654 GGGATTGGAGTATCCCCGATTATGGAAGATCAGTGTTTTGGAAATAAAATTAGGGTTGGAGTATG
1 GGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAAATAGGGTTGGAGTAT-
* *
164719 CCCTTAAAAATAAC
65 CCCCTCAAAATAAC
** * * * *
164733 GACGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTCTAGAAATAAAACT-GAGGTTAGAGTAT
1 GGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAAATAG-GGTTGGAGTAT
164797 CCCCTCAGAAATAAC
65 CCCCTCA-AAATAAC
* ** * * * *
164812 GGGATTGGTAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAATAAAAA
1 GGGGTTGG-AGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAAA
164863 CATGAATGAA
Statistics
Matches: 297, Mismatches: 64, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
78 7 0.02
79 250 0.84
80 40 0.13
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAAATAGGGTTGGAGTATC
CCCTCAAAATAAC
Found at i:164623 original size:158 final size:156
Alignment explanation
Indices: 164418--164861 Score: 491
Period size: 158 Copynumber: 2.8 Consensus size: 156
164408 AATAAAGCTG
* *
164418 GGGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTTTGGAAATAAAAATCGGGTTAGAGTATCG
1 GGGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTTTAGAAATAAAAATCGGGTTAGAGTATCC
* * * * *
164483 CATCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTGACGTTTTAGTAATAAAACTA
66 CCTC-AAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTA
*
164548 GGGTTGGAGTAT-CTCCTCAGAAATAATA
130 GGGTTGGAGTATGC-CCTCAAAAATAA-A
* ** * * **
164576 GGGTTAGAGTATCCCCAATGGTGGAAAATTGGTGTTTTAAAAAT-AAAACCAGGGTCGGAGTATC
1 GGGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTTTAGAAATAAAAATC-GGGTTAGAGTATC
* * * * * *
164640 CCCTCAAAAATAACGGGATTGGAGTATCCCCGATTATGGAAGA-TCAGTGTTTTGGAAATAAAAT
65 CCCTC-AAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTGA-TGTTTTAGAAATAAAAC
* *
164704 TAGGGTTGGAGTATGCCCTTAAAAATAAC
128 TAGGGTTGGAGTATGCCCTCAAAAATAAA
* * * * *
164733 GACGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTCTAGAAATAAAACT-GAGGTTAGAGTAT
1 G-GGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTTTAGAAATAAAAATCG-GGTTAGAGTAT
* * *
164797 CCCCTCAGAAATAACGGGATTGGTAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAATAAAA
64 CCCCTCA-AAATAACGGGATTGG-AGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAA
164862 ACATGAATGA
Statistics
Matches: 233, Mismatches: 44, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
157 10 0.04
158 187 0.80
159 35 0.15
160 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (156 bp):
GGGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTTTAGAAATAAAAATCGGGTTAGAGTATCC
CCTCAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTAG
GGTTGGAGTATGCCCTCAAAAATAAA
Found at i:164761 original size:237 final size:238
Alignment explanation
Indices: 164421--164861 Score: 575
Period size: 237 Copynumber: 1.9 Consensus size: 238
164411 AAAGCTGGGG
** *
164421 TTGGAGTATCCCCAATTATGGAAAATTGGTGTTTTGGAAATAAAAATCGGGTTAGAGTATCGCAT
1 TTGGAGTATCCCCAATTATGGAAAATCAGTGTTTTGGAAATAAAAATAGGGTTAGAGTATCGCAT
* * ** * * *
164486 CGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTGACGTTTTAGTAATAAAACT-AGG
66 CAAAAATAACGACGTTGGAGTATCCCCGATTATGAAAAATTGACGTTCTAGAAATAAAACTGA-G
* * * * * *
164550 GTTGGAGTATCTCCTCAGAAATAATAGGG-TTAG-AGTATCCCCAATGGTGGAAAATTGGTGTTT
130 GTTAGAGTATCCCCTCAGAAATAA-AGGGATTAGTAGTATCCCCAATGGTGAAAAATCGATATTT
164613 TAAAAATAAAACCAGGGTCGGAGTATCCCCTCAAAAATAACGGGA
194 TAAAAATAAAACCAGGGTCGGAGTATCCCCTCAAAAATAACGGGA
* * * * *
164658 TTGGAGTATCCCCGATTATGGAAGATCAGTGTTTTGGAAATAAAATTAGGGTTGGAGTAT-GCCC
1 TTGGAGTATCCCCAATTATGGAAAATCAGTGTTTTGGAAATAAAAATAGGGTTAGAGTATCG-CA
* **
164722 TTAAAAATAACGACGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTCTAGAAATAAAACTGAG
65 TCAAAAATAACGACGTTGGAGTATCCCCGATTATGAAAAATTGACGTTCTAGAAATAAAACTGAG
* * *
164787 GTTAGAGTATCCCCTCAGAAATAACGGGATTGGTAGTATCCCCGATGGTGAAAAATCGATATTTT
130 GTTAGAGTATCCCCTCAGAAATAAAGGGATTAGTAGTATCCCCAATGGTGAAAAATCGATATTTT
*
164852 AGAAATAAAA
195 AAAAATAAAA
164862 ACATGAATGA
Statistics
Matches: 172, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
236 4 0.02
237 132 0.77
238 36 0.21
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (238 bp):
TTGGAGTATCCCCAATTATGGAAAATCAGTGTTTTGGAAATAAAAATAGGGTTAGAGTATCGCAT
CAAAAATAACGACGTTGGAGTATCCCCGATTATGAAAAATTGACGTTCTAGAAATAAAACTGAGG
TTAGAGTATCCCCTCAGAAATAAAGGGATTAGTAGTATCCCCAATGGTGAAAAATCGATATTTTA
AAAATAAAACCAGGGTCGGAGTATCCCCTCAAAAATAACGGGA
Found at i:167735 original size:75 final size:74
Alignment explanation
Indices: 167567--167736 Score: 180
Period size: 75 Copynumber: 2.3 Consensus size: 74
167557 CGGACTTTAG
* * *
167567 AAGAGGAAAAAAAGGAAAATGCATCATGCTCTTTAAGGACAAAGGAAAAGGAATACGTCCTGCTC
1 AAGA-GAAAAAAAGG-AAATGCATCATGCCCCTTAAGGACAAAGGAAAAGGAATACATCCTGCTC
167632 TTCGAGGACAA
64 TTCGAGGACAA
* * ** * * ** *
167643 AGGA-AAAGAAAATGAAATGGGTCCTGCCCCTTAAGGACAAAGGAAAAAGGAGTACATTTTGCTT
1 AAGAGAAA-AAAAGGAAATGCATCATGCCCCTTAAGGACAAAGG-AAAAGGAATACATCCTGCTC
*
167707 TTTGAGGACAA
64 TTCGAGGACAA
167718 AAGAGAAAAAAAGGAAATG
1 AAGAGAAAAAAAGGAAATG
167737 AAGTGCATCC
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
74 27 0.36
75 43 0.57
76 6 0.08
ACGTcount: A:0.45, C:0.13, G:0.25, T:0.18
Consensus pattern (74 bp):
AAGAGAAAAAAAGGAAATGCATCATGCCCCTTAAGGACAAAGGAAAAGGAATACATCCTGCTCTT
CGAGGACAA
Found at i:167779 original size:45 final size:42
Alignment explanation
Indices: 167717--168243 Score: 237
Period size: 44 Copynumber: 12.4 Consensus size: 42
167707 TTTGAGGACA
*
167717 AAAGAGAAAAAAAGGAAATGAAGTGCATCCTGCTCTTTGAAAAT
1 AAAGAG-AAAAAAGGAAAT-AAGTGCATCCTGCTCTTTGAAGAT
* * * *
167761 AAAGGGAAAATAGGGGAAA-AAGGTGCA-CTCTACTCTTTGAATAT
1 AAAGAGAAAA-A-AGGAAATAA-GTGCATC-CTGCTCTTTGAAGAT
** * *
167805 AAA-AG-AAAAAGGAAATAAGTGTGTCTTGCTCTTTGAGGAT
1 AAAGAGAAAAAAGGAAATAAGTGCATCCTGCTCTTTGAAGAT
* *
167845 AAAAGAGAAAAAAAGGAAATGAAGTGCATCCTGCTATTTGAGGAT
1 -AAAGAG-AAAAAAGGAAAT-AAGTGCATCCTGCTCTTTGAAGAT
* * * * * *
167890 AAAGGGAAAATAAGGAAAAAAGTGCGTCCTACTCTTTGAGGAA
1 AAAGAGAAAA-AAGGAAATAAGTGCATCCTGCTCTTTGAAGAT
* ** * * *
167933 AAAG-GAAAAAAAGGAAATGAAATGTGTTCTGCTCTTTGAGGAC
1 AAAGAG-AAAAAAGGAAAT-AAGTGCATCCTGCTCTTTGAAGAT
* * * *
167976 AAA-AGAGAAAAGGAAA-AGGTG--TCCTACTCTTTGAGGACT
1 AAAGAGAAAAAAGGAAATAAGTGCATCCTGCTCTTTGAAGA-T
* * ** * * *
168015 -AAGGGAAAAGAAGGAAATGAAATGTGTCCTGGTCTTTGAGGAC
1 AAAGAGAAAA-AAGGAAAT-AAGTGCATCCTGCTCTTTGAAGAT
* * *
168058 AAAG-GAGAAAAGG-AA-AAG-GCATCCTACTCTTTGAGGACT
1 AAAGAGAAAAAAGGAAATAAGTGCATCCTGCTCTTTGAAGA-T
* ** *
168097 -AAGGGAAAAGAAGGAAATGAAGTGCGA-CCTGCTCTTTGGGGAC
1 AAAGAGAAAA-AAGGAAAT-AAGTGC-ATCCTGCTCTTTGAAGAT
** * * * *
168140 AAAG-G-AAAAAGGAAATAAAGTGTGTCCTACTCGTTGAGGACA
1 AAAGAGAAAAAAGGAAAT-AAGTGCATCCTGCTCTTTGAAGA-T
* * * * *
168182 AAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGAC
1 AAAGAGAAAA-AAGGAAAT-AAGTGCATCCTGCTCTTTGAAGAT
168226 AAAG-GAAGAAAAGGAAAT
1 AAAGAGAA-AAAAGGAAAT
168244 GATGAAAGTG
Statistics
Matches: 380, Mismatches: 65, Indels: 77
0.73 0.12 0.15
Matches are distributed among these distances:
38 34 0.09
39 10 0.03
40 33 0.09
41 36 0.09
42 37 0.10
43 83 0.22
44 94 0.25
45 53 0.14
ACGTcount: A:0.42, C:0.11, G:0.27, T:0.20
Consensus pattern (42 bp):
AAAGAGAAAAAAGGAAATAAGTGCATCCTGCTCTTTGAAGAT
Found at i:167856 original size:129 final size:129
Alignment explanation
Indices: 167700--168245 Score: 393
Period size: 129 Copynumber: 4.3 Consensus size: 129
167690 AGGAGTACAT
* *
167700 TTTGCTTTTTGAGGACAAAAGAGAAAAAAAGGAAATGAAGTGCATCCTGCTCTTTGAAAATAAAG
1 TTTGCTCTTTGAGGACAAAAGAGAAAAAAAGGAAATGAAGTGCATCCTGCTATTTGAAAATAAAG
* * * *
167765 GGAAAATAGGGGAAAAAGGTGCACT-CTACTCTTTGAATATAAAA-G-AAAAAGGAAAT-AAGTG
66 GGAAAATA-AGGAAAAAAGTGC-CTCCTACTCTTTGAAGA-AAAAGGAAAAAAGGAAATGAAATG
167826 TG
128 TG
* **
167828 TCTTGCTCTTTGAGGATAAAAGAGAAAAAAAGGAAATGAAGTGCATCCTGCTATTTGAGGATAAA
1 T-TTGCTCTTTGAGGACAAAAGAGAAAAAAAGGAAATGAAGTGCATCCTGCTATTTGAAAATAAA
* *
167893 GGGAAAATAAGGAAAAAAGTGCGTCCTACTCTTTGAGGAAAAAGGAAAAAAAGGAAATGAAATGT
65 GGGAAAATAAGGAAAAAAGTGCCTCCTACTCTTTGAAGAAAAAGG-AAAAAAGGAAATGAAATGT
167958 G
129 G
* * * * *
167959 TTCTGCTCTTTGAGGACAAAAGAG---AAAAGGAAA--AGGTG--TCCTACTCTTTGAGGACT-A
1 TT-TGCTCTTTGAGGACAAAAGAGAAAAAAAGGAAATGAAGTGCATCCTGCTATTTGA-AAATAA
* ** * * * * **
168016 AGGGAAAAGAAGGAAATGAAATGTG--TCCTGGTCTTTGAGGACAAAGGAGAAAAGGAAAAGGCA
64 AGGGAAAATAAGGAAA--AAA-GTGCCTCCTACTCTTTGAAGAAAAAGGAAAAAAGGAAATGAAA
168079 --T-
126 TGTG
** * * * * * *** *
168080 CCTACTCTTTGAGGAC-TAAGGGAAAAGAAGGAAATGAAGTGCGA-CCTGCTCTTTGGGGACAAA
1 TTTGCTCTTTGAGGACAAAAGAGAAAAAAAGGAAATGAAGTGC-ATCCTGCTATTTGAAAATAAA
** * *
168143 -GG-AAA-AAGGAAATAAAGTGTGTCCTACTCGTTGAGGACAAAAGGGAAAAGAAGGAAATGAAA
65 GGGAAAATAAGGAAA-AAAGTGCCTCCTACTCTTTGAAGA-AAAA-GGAAAA-AAGGAAATGAAA
*
168205 TGCG
126 TGTG
* *
168209 TCCTGCTCTTTGAGGAC-AAAG-GAAGAAAAGGAAATGA
1 T-TTGCTCTTTGAGGACAAAAGAGAAAAAAAGGAAATGA
168246 TGAAAGTGTC
Statistics
Matches: 337, Mismatches: 52, Indels: 57
0.76 0.12 0.13
Matches are distributed among these distances:
119 4 0.01
120 13 0.04
121 3 0.01
122 12 0.04
123 20 0.06
124 49 0.15
125 29 0.09
126 28 0.08
127 8 0.02
128 34 0.10
129 81 0.24
130 29 0.09
131 27 0.08
ACGTcount: A:0.42, C:0.11, G:0.27, T:0.21
Consensus pattern (129 bp):
TTTGCTCTTTGAGGACAAAAGAGAAAAAAAGGAAATGAAGTGCATCCTGCTATTTGAAAATAAAG
GGAAAATAAGGAAAAAAGTGCCTCCTACTCTTTGAAGAAAAAGGAAAAAAGGAAATGAAATGTG
Found at i:168010 original size:38 final size:39
Alignment explanation
Indices: 167775--168242 Score: 208
Period size: 43 Copynumber: 11.1 Consensus size: 39
167765 GGAAAATAGG
* ** * *
167775 GGAAAAAGGTGCACTCTACTCTTTGAATATAAAAGA-AAAA
1 GGAAAAAGGTG-TC-CTACTCTTTGAGGACAAAGGAGAAAA
* * * *
167815 GGAAATAAGTGTGTCTTGCTCTTTGAGGATAAAAGAGAAAAAAA
1 GGAAA-AAG-GTGTCCTACTCTTTGAGGA-CAAAG-G-AGAAAA
* * * *
167859 GGAAATGAA-GTGCATCCTGCTATTTGAGGATAAAGGGAAAATAA
1 GGAAA--AAGGTG--TCCTACTCTTTGAGGACAAA-GGAGAA-AA
* * *
167903 GGAAAAAAGTGCGTCCTACTCTTTGAGGAAAAAGGAAAAAAA
1 GG-AAAAAG-GTGTCCTACTCTTTGAGGACAAAGG-AGAAAA
* * * *
167945 GGAAATGAAATGTGTTCTGCTCTTTGAGGACAAAAGAGAAAA
1 GG-AA--AAAGGTGTCCTACTCTTTGAGGACAAAGGAGAAAA
* *
167987 GG-AAAAGGTGTCCTACTCTTTGAGGACTAAGGGAAAAGAA
1 GGAAAAAGGTGTCCTACTCTTTGAGGAC-AAAGGAGAA-AA
* **
168027 GGAAATGAAATGTGTCCTGGTCTTTGAGGACAAAGGAGAAAA
1 GG-AA--AAAGGTGTCCTACTCTTTGAGGACAAAGGAGAAAA
** * *
168069 GG-AAAAGGCATCCTACTCTTTGAGGACTAAGGGAAAAGAA
1 GGAAAAAGGTGTCCTACTCTTTGAGGAC-AAAGGAGAA-AA
* * * *
168109 GGAAATGAAGTGCGACCTGCTCTTTGGGGACAAAGGA-AAAA
1 GGAAA--AAG-GTGTCCTACTCTTTGAGGACAAAGGAGAAAA
* *
168150 GGAAATAAAGTGTGTCCTACTCGTTGAGGACAAAAGGGAAAAGAA
1 GG-AA-AAAG-GTGTCCTACTCTTTGAGGAC-AAA-GGAGAA-AA
* * *
168195 GGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAAGAAAA
1 GG-AA--AAAGGTGTCCTACTCTTTGAGGACAAAGG-AGAAAA
168238 GGAAA
1 GGAAA
168243 TGATGAAAGT
Statistics
Matches: 335, Mismatches: 56, Indels: 74
0.72 0.12 0.16
Matches are distributed among these distances:
38 40 0.12
39 13 0.04
40 26 0.08
41 32 0.10
42 34 0.10
43 76 0.23
44 65 0.19
45 46 0.14
46 3 0.01
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.20
Consensus pattern (39 bp):
GGAAAAAGGTGTCCTACTCTTTGAGGACAAAGGAGAAAA
Found at i:168039 original size:82 final size:82
Alignment explanation
Indices: 167833--168242 Score: 482
Period size: 82 Copynumber: 4.9 Consensus size: 82
167823 GTGTGTCTTG
* * * * * * * *
167833 CTCTTTGAGGATAAAAGAGAAAAAAAGGAAATGAAGTGCATCCTGCTATTTGAGGATAAAGGGAA
1 CTCTTTGAGGA-CAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAA-GGAG
*
167898 AATAAGGAAAAAAGTGCGTCCTA
64 AA-AAGG--AAAAG-GTGTCCTA
* * * * *
167921 CTCTTTGAGGA-AAAAGGAAAAAAAGGAAATGAAATGTGTTCTGCTCTTTGAGGACAAAAGAGAA
1 CTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAGAA
167985 AAGGAAAAGGTGTCCTA
66 AAGGAAAAGGTGTCCTA
* * *
168002 CTCTTTGAGGACTAAGGGAAAAGAAGGAAATGAAATGTGTCCTGGTCTTTGAGGACAAAGGAGAA
1 CTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAGAA
**
168067 AAGGAAAAGGCATCCTA
66 AAGGAAAAGGTGTCCTA
* * * *
168084 CTCTTTGAGGACTAAGGGAAAAGAAGGAAATGAAGTGCGACCTGCTCTTTGGGGACAAAGGA-AA
1 CTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAGAA
168148 AAGGAAATAAAGTGTGTCCTA
66 AAGG--A-AAAG-GTGTCCTA
*
168169 CTCGTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAAG
1 CTCTTTGAGGAC-AAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGG-AG
168234 AAAAGGAAA
64 AAAAGGAAA
168243 TGATGAAAGT
Statistics
Matches: 283, Mismatches: 31, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
81 24 0.08
82 124 0.44
83 1 0.00
84 8 0.03
85 23 0.08
86 85 0.30
87 1 0.00
88 17 0.06
ACGTcount: A:0.41, C:0.11, G:0.28, T:0.19
Consensus pattern (82 bp):
CTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAGAA
AAGGAAAAGGTGTCCTA
Found at i:168055 original size:168 final size:167
Alignment explanation
Indices: 167805--168242 Score: 528
Period size: 168 Copynumber: 2.6 Consensus size: 167
167795 CTTTGAATAT
* * * * *
167805 AAAAGAAAAAGGAAATAAGTGTGTCTTGCTCTTTGAGGA-TAAAAGAGAAAAAAAGGAAATGAAG
1 AAAAGAAAAAGGAAA-AAGTGTGTCCTACTCTTTGAGGACT--AAGGGAAAAGAAGGAAATGAAA
* * * *
167869 TGCATCCTGCTATTTGAGGATAAAGGGAAAATAAGGAAAAAAGTGCGTCCTACTCTTTGAGGA-A
63 TGCGTCCTGCTCTTTGAGGACAAA-GGAAAA-AAGGAAAAAAG-GCATCCTACTCTTTGAGGACA
* **
167933 AAAGGAAAAAAAGGAAATGAAATGTGTTCTGCTCTTTGAGGAC
125 AAAGGAAAAAAAGGAAATGAAATGCGACCTGCTCTTTGAGGAC
167976 AAAAGAGAAAAGG-AAAAG-GTGTCCTACTCTTTGAGGACTAAGGGAAAAGAAGGAAATGAAATG
1 AAAAGA-AAAAGGAAAAAGTGTGTCCTACTCTTTGAGGACTAAGGGAAAAGAAGGAAATGAAATG
* * * * *
168039 TGTCCTGGTCTTTGAGGACAAAGGAGAAAAGG--AAAAGGCATCCTACTCTTTGAGGACTAAGGG
65 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAAAAGGCATCCTACTCTTTGAGGACAAAAGG
* * *
168102 AAAAGAAGGAAATGAAGTGCGACCTGCTCTTTGGGGAC
130 AAAAAAAGGAAATGAAATGCGACCTGCTCTTTGAGGAC
* * *
168140 AAAGGAAAAAGGAAATAAAGTGTGTCCTACTCGTTGAGGACAAAAGGGAAAAGAAGGAAATGAAA
1 AAAAGAAAAAGG-AA-AAAGTGTGTCCTACTCTTTGAGGAC-TAAGGGAAAAGAAGGAAATGAAA
168205 TGCGTCCTGCTCTTTGAGGACAAAGGAAGAAAAGGAAA
63 TGCGTCCTGCTCTTTGAGGACAAAGGAA-AAAAGGAAA
168243 TGATGAAAGT
Statistics
Matches: 230, Mismatches: 26, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
163 24 0.10
164 46 0.20
165 1 0.00
166 8 0.03
167 24 0.10
168 85 0.37
169 23 0.10
170 4 0.02
171 9 0.04
172 6 0.03
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.19
Consensus pattern (167 bp):
AAAAGAAAAAGGAAAAAGTGTGTCCTACTCTTTGAGGACTAAGGGAAAAGAAGGAAATGAAATGC
GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAAAAGGCATCCTACTCTTTGAGGACAAAAGGA
AAAAAAGGAAATGAAATGCGACCTGCTCTTTGAGGAC
Found at i:168257 original size:45 final size:42
Alignment explanation
Indices: 167994--168270 Score: 251
Period size: 45 Copynumber: 6.5 Consensus size: 42
167984 AAAGGAAAAG
*
167994 GTGTCCTACTCTTTGAGGACTAAGGGAAAAGAAGGAAATGAAAT
1 GTGTCCTACTCTTTGAGGAC-AAAGGAAAA-AAGGAAATGAAAT
** * *
168038 GTGTCCTGGTCTTTGAGGACAAAGGAGAAAAGG--A--AAAG
1 GTGTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATGAAAT
** * *
168076 GCATCCTACTCTTTGAGGACTAAGGGAAAAGAAGGAAATGAAGT
1 GTGTCCTACTCTTTGAGGAC-AAAGGAAAA-AAGGAAATGAAAT
* * * *
168120 GCGACCTGCTCTTTGGGGACAAAGG-AAAAAGGAAAT-AAAGT
1 GTGTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATGAAA-T
*
168161 GTGTCCTACTCGTTGAGGACAAAAGGGAAAAGAAGGAAATGAAAT
1 GTGTCCTACTCTTTGAGGAC-AAA-GGAAAA-AAGGAAATGAAAT
* * *
168206 GCGTCCTGCTCTTTGAGGACAAAGGAAGAAAAGGAAATGATGAAA
1 GTGTCCTACTCTTTGAGGACAAAGGAA-AAAAGGAAATGA--AAT
*
168251 GTGTCCTACTCTTTCAGGAC
1 GTGTCCTACTCTTTGAGGAC
168271 TAAAAGGTGC
Statistics
Matches: 187, Mismatches: 31, Indels: 29
0.76 0.13 0.12
Matches are distributed among these distances:
38 19 0.10
39 7 0.04
40 7 0.04
41 24 0.13
42 11 0.06
43 27 0.14
44 44 0.24
45 45 0.24
46 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.29, T:0.20
Consensus pattern (42 bp):
GTGTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATGAAAT
Found at i:168449 original size:152 final size:152
Alignment explanation
Indices: 168167--168488 Score: 434
Period size: 152 Copynumber: 2.1 Consensus size: 152
168157 AAGTGTGTCC
* * * *
168167 TACTCGTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGA
1 TACTCTTTGAGGACTAAAGGGAAAAGAAGGAAATGAAATGCGTCCTACTCTTTGACGACAAAGGA
* * * *
168232 AGAAAAGGAAATGATGAAAGTGTCCTACTCTTTCAGGACTAAAAGGTGCCACCAACTCGTGTGGG
66 AGAAAAGGAAATGAGGAAAGTGTCCTACTCTCTCACGACTAAAAGGTGCCACCAACTCATGTGGG
*
168297 CTTTAAAAAGAAAAATACGTCT
131 CTTTAAAAAGAAAAAGACGTCT
* *
168319 TGCTCTTTGAGGACTAAAGGGAAAAGAAGGAAAT-AAAGTGCGTCCTACTTTTTGACGACAAAGG
1 TACTCTTTGAGGACTAAAGGGAAAAGAAGGAAATGAAA-TGCGTCCTACTCTTTGACGACAAAGG
* * * * *
168383 AA-AAAAGGGATATGAGGAAAGTGTCCTATTC-CTCGACGACTAAAAGGTGCTACCATCTTATGT
65 AAGAAAA-GGAAATGAGGAAAGTGTCCTACTCTCTC-ACGACTAAAAGGTGCCACCAACTCATGT
* *
168446 GGGCTTTGAAAAGAAAAAGGCGTCT
128 GGGCTTTAAAAAGAAAAAGACGTCT
168471 TACTCTTTGAGGACTAAA
1 TACTCTTTGAGGACTAAA
168489 AGGTGCCACC
Statistics
Matches: 148, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
151 9 0.06
152 139 0.94
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (152 bp):
TACTCTTTGAGGACTAAAGGGAAAAGAAGGAAATGAAATGCGTCCTACTCTTTGACGACAAAGGA
AGAAAAGGAAATGAGGAAAGTGTCCTACTCTCTCACGACTAAAAGGTGCCACCAACTCATGTGGG
CTTTAAAAAGAAAAAGACGTCT
Found at i:168517 original size:62 final size:62
Alignment explanation
Indices: 168420--168912 Score: 579
Period size: 62 Copynumber: 8.0 Consensus size: 62
168410 ATTCCTCGAC
* * * * *
168420 GACTAAAAGGTGCTACCATCTTATGTGGGCTTTGAAAAGAAAAAGGCGTCTTACTCTTTGAG
1 GACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAG
168482 GACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAG
1 GACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAG
* * * *
168544 GA-TAAAAAGGTGCCACCAACTCGTGTGAGCCTTGAAAAGAAAAAGGCATCCTGCTCTTTGAG
1 GACT-AAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAG
* ** *
168606 GACTAAAGGGTGCCACCAACTCGA-GTGGGCTTTGAAAAGAAAAAGATGTCTTGCTCTTTGAG
1 GACTAAAAGGTGCCACCAACTC-ATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAG
* * ** * *
168668 GACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATCCTATTTTTTAAG
1 GACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAG
* * * * *
168730 GACT-AAAGGT-CCACCAACTCAAGTAGGCTTTGAAAAGAAAAAGGCAT-CTGCTTTTTAAG
1 GACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAG
* * * * *
168789 GACTAAAAGGTGCCACTAACTCGTGTGGGCTTTGACAA-AAAAAGGTGTCTTGCTCTTTGAG
1 GACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAG
* * * * * * *
168850 GACT-AAAGGTGCCACAAACTCGTGCGTGC-TTGAAAAAGGAAAAGACGTCCTACTCTTTGAG
1 GACTAAAAGGTGCCACCAACTCATGTGGGCTTTG-AAAAGAAAAAGGCGTCCTGCTCTTTGAG
168911 GA
1 GA
168913 ACAAAGGGCT
Statistics
Matches: 373, Mismatches: 49, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
59 17 0.05
60 74 0.20
61 61 0.16
62 220 0.59
63 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (62 bp):
GACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAG
Found at i:169464 original size:19 final size:18
Alignment explanation
Indices: 169440--169503 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
169430 TAGCCAAACT
169440 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
169459 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
169472 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
169491 TTGTATCGATACA
1 -TGTATCGATACA
169504 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:169476 original size:13 final size:13
Alignment explanation
Indices: 169458--169483 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
169448 TACACAAAAT
169458 ATGTATCGATACA
1 ATGTATCGATACA
169471 ATGTATCGATACA
1 ATGTATCGATACA
169484 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:169481 original size:32 final size:33
Alignment explanation
Indices: 169440--169503 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
169430 TAGCCAAACT
*
169440 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
169472 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
169504 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:172958 original size:15 final size:15
Alignment explanation
Indices: 172938--172968 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
172928 TAAAAATGTC
*
172938 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
172953 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
172968 C
1 C
172969 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:175128 original size:12 final size:12
Alignment explanation
Indices: 175113--175138 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
175103 ATTTGATCTT
175113 AAAACATGTTTA
1 AAAACATGTTTA
175125 AAAACATGTTTA
1 AAAACATGTTTA
175137 AA
1 AA
175139 TTCCATTCCG
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:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (12 bp):
AAAACATGTTTA
Found at i:175296 original size:20 final size:20
Alignment explanation
Indices: 175271--175324 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
175261 AAAATGCCTG
* *
175271 AATGTATCGATATAATG-AGC
1 AATGTATCGATACAATGCA-A
175291 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGCAA
175311 AATGTATCGATACA
1 AATGTATCGATACA
175325 TCTGGGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Found at i:176067 original size:43 final size:44
Alignment explanation
Indices: 175995--176189 Score: 166
Period size: 43 Copynumber: 4.4 Consensus size: 44
175985 AAAAGAGTAC
* * * *
175995 GTCCTGCTTTTTGAGGAC-AAAGGAAAAAAGGAAAACGAAATGC
1 GTCCTGCTCTTTGAGGACAAAAGGAGAAAAGGAAAATGAAATGT
*
176038 GTCCTGCTCTTTGAGGACAAAAGG-GAAAA-GAAGGGAATGAAGTGT
1 GTCCTGCTCTTTGAGGACAAAAGGAGAAAAGGAA---AATGAAATGT
* * * * * * *
176083 TTCCTACTCTTTGGGGAAAAAAGGACAAAAGAAGGAAATGGAATGT
1 GTCCTGCTCTTTGAGGACAAAAGGAGAAAAG--GAAAATGAAATGT
* *
176129 GTCTTGCTCTTTGAGGACAAAA-GAGAAAAGGAAAAT-AAGGTGT
1 GTCCTGCTCTTTGAGGACAAAAGGAGAAAAGGAAAATGAA-ATGT
*
176172 GTCCTACTCTTTGAGGAC
1 GTCCTGCTCTTTGAGGAC
176190 TATGAGGTGC
Statistics
Matches: 119, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
42 4 0.03
43 45 0.38
44 5 0.04
45 34 0.29
46 29 0.24
49 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (44 bp):
GTCCTGCTCTTTGAGGACAAAAGGAGAAAAGGAAAATGAAATGT
Found at i:176067 original size:78 final size:78
Alignment explanation
Indices: 175878--176068 Score: 203
Period size: 78 Copynumber: 2.4 Consensus size: 78
175868 TTTGAAAGGT
*
175878 GTCCTGCTCTTTGAGGACTAAAGGGTGAAATGAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGGA
1 GTCCTGCTCTTTGAGGAC-AAAAGG-GAAA--AGAGAGCGTCCTGCTCTTTGAGGACTAGAAGGA
* * *
175943 AGAAAGAAAAGGAAAGT
62 AAAAAGAAAACGAAAGC
* * *
175960 GTCTTGCT-TCTTGAGGAC-AAAGTGAAAA-AGAGTACGTCCTGCTTTTTGAGGAC-A-AAGGAA
1 GTCCTGCTCT-TTGAGGACAAAAGGGAAAAGAGAG--CGTCCTGCTCTTTGAGGACTAGAAGGAA
176020 AAAAGGAAAACGAAATGC
63 AAAA-GAAAACGAAA-GC
176038 GTCCTGCTCTTTGAGGACAAAAGGGAAAAGA
1 GTCCTGCTCTTTGAGGACAAAAGGGAAAAGA
176069 AGGGAATGAA
Statistics
Matches: 92, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
76 13 0.14
77 11 0.12
78 34 0.37
79 14 0.15
80 4 0.04
81 1 0.01
82 15 0.16
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (78 bp):
GTCCTGCTCTTTGAGGACAAAAGGGAAAAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGGAAAAA
AGAAAACGAAAGC
Found at i:176338 original size:62 final size:61
Alignment explanation
Indices: 176172--176374 Score: 252
Period size: 62 Copynumber: 3.3 Consensus size: 61
176162 AATAAGGTGT
* * *
176172 GTCCTACTCTTTGAGGACTATG--AGGTGCCACCAACTTGTGTGGGCTTTG-AAGAAGAAGGC
1 GTCCTGCTCCTTGAGGACTA-GAAAGGTGCCACCAACTTGTGTGGGC-TTGAAAGAAAAAGGC
* * *
176232 GCCCTGCTCCCTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTGAAAAGAAAAAGGT
1 GTCCTGCTCCTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTG-AAAGAAAAAGGC
* * *
176293 GTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCGACTTGTGTGGGCTTCGAAAGGAAAAGGC
1 GTCCTGCTCCTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTT-GAAAGAAAAAGGC
*
176355 ATCCTGCTCCTTGAGGACTA
1 GTCCTGCTCCTTGAGGACTA
176375 AAGGGCAAAA
Statistics
Matches: 123, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
59 3 0.02
60 39 0.32
61 26 0.21
62 54 0.44
63 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (61 bp):
GTCCTGCTCCTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTGAAAGAAAAAGGC
Found at i:176454 original size:100 final size:101
Alignment explanation
Indices: 176287--176479 Score: 264
Period size: 100 Copynumber: 1.9 Consensus size: 101
176277 TTGAAAAGAA
* * *
176287 AAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCGACTTGTGTGGGCTTCGAAAGGAAAA
1 AAAGGTGTCCTGCTCTTTGAGGAATAGAAAGGTGCCACCAACTTGTGTGGGCTTCAAAAGGAAAA
176352 GGCATCCTGCTCCTTGAGGACTA-AAGGGCAAAAGG
66 GGCATCCTGCTCCTTGAGGACTAGAAGGGCAAAAGG
* * * * * *
176387 AAAGAGTGTCTTGCTCTTTGATGAATGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGA
1 AAAG-GTGTCCTGCTCTTTGAGGAATAGAAAGGTGCCACCAACTTGTGTGGGCTTCAAAAGGAAA
* *
176451 AGGCGTCCTGCTCTTTGAGGACTAGAAGG
65 AGGCATCCTGCTCCTTGAGGACTAGAAGG
176480 TACCACCAAC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
100 55 0.69
101 25 0.31
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (101 bp):
AAAGGTGTCCTGCTCTTTGAGGAATAGAAAGGTGCCACCAACTTGTGTGGGCTTCAAAAGGAAAA
GGCATCCTGCTCCTTGAGGACTAGAAGGGCAAAAGG
Found at i:176486 original size:61 final size:61
Alignment explanation
Indices: 176418--177083 Score: 803
Period size: 61 Copynumber: 10.9 Consensus size: 61
176408 TGAATGGGAA
*
176418 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAG
* * * * *
176479 GTACCACCAACTTGTGTAGGCTTTAAAAGGAAAAGACGTTCTGCTCTTTGAGGACTAGATG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAG
** * * *
176540 GTGCCACCAACTTGTGTGGGCTTTAGGAGGAAAATGCGTCCTGCTCTTTGAGGACTGGAGG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAG
* * *
176601 GTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAG
** *
176662 GTGCCACCAACTCATGTGGGCTTT-----G-AAAGGCGTCCTACTCTTTGAGGACTA-AAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAG
* * * * *
176716 GTGCCACCAACTTGTCTGGGCTTTAAAAGGAAAAAAAGGCATCCTGCTTTTTGAAGACTAGAGG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGG---AAAAGGCGTCCTGCTCTTTGAGGACTAGAAG
* * *
176780 GTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCGTCTTGCCCTTTGAGGACTA-AAG
1 GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAG
* * *
176841 GTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTTTTTGAGGACTAGAGG
1 GTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGCGTCCTGCTCTTTGAGGACTAGAAG
* * *
176904 GTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA-AAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAG
* * * *
176964 GTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGTGTCCTGCTTTTTAAGGACTAG-AG
1 GTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGCGTCCTGCTCTTTGAGGACTAGAAG
* * * * * *
177026 AGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTATTTGAGGACT
1 -GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT
177084 GGGCTACCGA
Statistics
Matches: 520, Mismatches: 68, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
54 24 0.05
55 26 0.05
56 1 0.00
59 1 0.00
60 25 0.05
61 242 0.47
62 97 0.19
63 74 0.14
64 24 0.05
65 6 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (61 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAG
Found at i:176960 original size:303 final size:297
Alignment explanation
Indices: 176418--176987 Score: 829
Period size: 303 Copynumber: 1.9 Consensus size: 297
176408 TGAATGGGAA
* * * *
176418 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTAC
1 GTGCCACCAACTTGTCTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAAGACTAGAAGGTAC
* * *
176483 CACCAACTTGTGTAGGCTTTAAAAGGAAAAGACGTTCTGCTCTTTGAGGACTAGATGGTGCCACC
66 CACCAACTCGTGTAGGCTTTAAAAGGAAAAGACGTTCTGCCCTTTGAGGACTAGAAGGTGCCACC
** * * *
176548 AACTTGTGTGGGCTTTAGGAGGAAAATGCGTCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACT
131 AACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACT
* *
176613 TATGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCATG
196 CATGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACT-AAAGGTGCCACCAACTCATG
176678 TGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAAG
260 TGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAAG
* *
176716 GTGCCACCAACTTGTCTGGGCTTTAAAAGGAAAAAAAGGCATCCTGCTTTTTGAAGACTAGAGGG
1 GTGCCACCAACTTGTCTGGGCTTTAAAAGG---AAAAGGCATCCTGCTCTTTGAAGACTAGAAGG
* * *
176781 TGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCG-TCTTGCCCTTTGAGGACTA-AAGGTG
63 TACCACCAACTCGTGTAGGCTTT-AAAAGGAAAAGACGTTC-TGCCCTTTGAGGACTAGAAGGTG
*
176844 CCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTTTTTGAGGACTAGAGGGTGCC
126 CCACCAACTTGTGTGGGCTTT-AAAAG-AAAAAGGCGTCCTGCTCTTTGAGGACTAGAGGGTGCC
* * *
176909 ACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAA
189 ACCAACTCATGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAGGTGCCACCAA
**
176974 CTTGTGTGGGCTTT
254 CTCATGTGGGCTTT
176988 AAAAAGAAAA
Statistics
Matches: 240, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
298 29 0.12
301 75 0.31
302 57 0.24
303 79 0.33
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (297 bp):
GTGCCACCAACTTGTCTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAAGACTAGAAGGTAC
CACCAACTCGTGTAGGCTTTAAAAGGAAAAGACGTTCTGCCCTTTGAGGACTAGAAGGTGCCACC
AACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACT
CATGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAGGTGCCACCAACTCATGT
GGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAAG
Found at i:177082 original size:62 final size:62
Alignment explanation
Indices: 176687--177083 Score: 480
Period size: 62 Copynumber: 6.4 Consensus size: 62
176677 GTGGGCTTTG
* * *
176687 AAAGGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTCTGGGCTTT-AAAAGGAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-G-AAA
* * * * *
176750 AAAGGCATCCTGCTTTTTGAAGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-GA
1 AAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * *
176812 AAAGGCGTCTTGCCCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * *
176874 AAAGGCGTCCTGCTTTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTG-AAAG-GA
1 AAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * *
176935 AAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * *
176997 AAAGGTGTCCTGCTTTTTAAGGACTAGAGAGTGCCACTAACTCGTGTGGGCTTTGAAAAG-AA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAG-GTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * *
177059 AAAGGCATCCTACTATTTGAGGACT
1 AAAGGCGTCCTGCTCTTTGAGGACT
177084 GGGCTACCGA
Statistics
Matches: 284, Mismatches: 43, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
60 25 0.09
61 59 0.21
62 97 0.34
63 74 0.26
64 25 0.09
65 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (62 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
Found at i:180260 original size:52 final size:52
Alignment explanation
Indices: 180175--180303 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
180165 TGAAATATGA
*
180175 AAATTTGCCTGCATGTATCGATACCTTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
180227 AAATTTGCCTGTATGTGTCGATACATTTTATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
180279 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
180304 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:180314 original size:52 final size:51
Alignment explanation
Indices: 180175--180323 Score: 199
Period size: 52 Copynumber: 2.9 Consensus size: 51
180165 TGAAATATGA
*
180175 AAATTTGCCTGCATGTATCGATACCTTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATA-CATTCATAGTGTATCGATACATCTGGGC
* * * *
180227 AAATTTGCCTGTATGTGTCGATACATTTTATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACA-TTCATAGTGTATCGATACATCTGGGC
***
180279 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTCAT-AGTGTATCGATACA
180324 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 3 0.04
52 82 0.96
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTCATAGTGTATCGATACATCTGGGC
Found at i:180330 original size:13 final size:13
Alignment explanation
Indices: 180312--180336 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
180302 CAAAGATCAG
180312 TGTATCGATACAA
1 TGTATCGATACAA
180325 TGTATCGATACA
1 TGTATCGATACA
180337 TTTGGGTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:180415 original size:32 final size:32
Alignment explanation
Indices: 180374--180538 Score: 285
Period size: 32 Copynumber: 5.1 Consensus size: 32
180364 GGCAGTAGCT
* *
180374 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTAATGTATCGA
180406 TACATTGTATCGATACAACACTAATGTATCGA
1 TACATTGTATCGATACAACACTAATGTATCGA
180438 TACATTGTATCGATACAACACTAATGTATCGA
1 TACATTGTATCGATACAACACTAATGTATCGA
180470 TACATTGTATCGATACAACACTAATGTATCGA
1 TACATTGTATCGATACAACACTAATGTATCGA
* *
180502 TACATTGTATCGATACAACACTTTATGTATCAA
1 TACATTGTATCGATACAACAC-TAATGTATCGA
180535 TACA
1 TACA
180539 AATCGTTGAA
Statistics
Matches: 128, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 115 0.90
33 13 0.10
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTAATGTATCGA
Found at i:180416 original size:13 final size:13
Alignment explanation
Indices: 180398--180518 Score: 80
Period size: 13 Copynumber: 7.9 Consensus size: 13
180388 ACAAAACTTA
180398 TGTATCGATACAT
1 TGTATCGATACAT
180411 TGTATCGATACAACACT
1 TGTATCGAT---ACA-T
180428 AATGTATCGATACAT
1 --TGTATCGATACAT
180443 TGTATCGATACAACACT
1 TGTATCGAT---ACA-T
180460 AATGTATCGATACAT
1 --TGTATCGATACAT
180475 TGTATCGATACAACACT
1 TGTATCGAT---ACA-T
180492 AATGTATCGATACAT
1 --TGTATCGATACAT
180507 TGTATCGATACA
1 TGTATCGATACA
180519 ACACTTTATG
Statistics
Matches: 90, Mismatches: 0, Indels: 36
0.71 0.00 0.29
Matches are distributed among these distances:
13 39 0.43
15 3 0.03
16 18 0.20
17 3 0.03
19 27 0.30
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:181550 original size:49 final size:49
Alignment explanation
Indices: 181493--181664 Score: 248
Period size: 49 Copynumber: 3.6 Consensus size: 49
181483 AGGAACAAGT
181493 TGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
181542 TGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGCCAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* * *
181585 TGATTCAAGGCCAGCTACATTAGACTTAAAGAAGTAGGTGCTAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
181634 TGATTCAAGGCCAGCTATATTGGACTTAAAG
1 TGATTCAAGGCCAGCTACATTGGACTTAAAG
181665 GTGAAGATGA
Statistics
Matches: 108, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
43 39 0.36
44 1 0.01
48 1 0.01
49 67 0.62
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (49 bp):
TGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
Found at i:181650 original size:92 final size:92
Alignment explanation
Indices: 181493--181667 Score: 323
Period size: 92 Copynumber: 1.9 Consensus size: 92
181483 AGGAACAAGT
*
181493 TGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
1 TGATTCAAGGCCAGCTACATTAGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
181558 ATATTGGACTTAAAGGTGCCAATGTGC
66 ATATTGGACTTAAAGGTGCCAATGTGC
* *
181585 TGATTCAAGGCCAGCTACATTAGACTTAAAGAAGTAGGTGCTAATATGCTGATTCAAGGCCAGCT
1 TGATTCAAGGCCAGCTACATTAGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
181650 ATATTGGACTTAAAGGTG
66 ATATTGGACTTAAAGGTG
181668 AAGATGAGAA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (92 bp):
TGATTCAAGGCCAGCTACATTAGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
ATATTGGACTTAAAGGTGCCAATGTGC
Found at i:181865 original size:49 final size:49
Alignment explanation
Indices: 181748--182028 Score: 376
Period size: 49 Copynumber: 5.8 Consensus size: 49
181738 AAAAAGATGT
* *
181748 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
181800 CAATATGCTGATTCAAGGCCAGTTATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
181849 CAATGTGCCGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
181898 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
181941 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
181990 CAATATGCTGATTCAAGACCAGCGATATTGGACTTAAAG
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
182029 GTGCCAATGT
Statistics
Matches: 203, Mismatches: 20, Indels: 15
0.85 0.08 0.06
Matches are distributed among these distances:
43 39 0.19
45 1 0.00
47 1 0.00
49 124 0.61
51 1 0.00
52 37 0.18
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:181979 original size:92 final size:92
Alignment explanation
Indices: 181748--182041 Score: 453
Period size: 92 Copynumber: 3.1 Consensus size: 92
181738 AAAAAGATGT
*
181748 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
**
181813 CAAGGCCAGTTATATTGGACTTAAAGATGAAGGTGC
63 CAAGGCCAGCGATATTGGACTT----A--AAGGTGC
*
181849 CAATGTGCCGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
181914 GGCCAGCGATATTGGACTTAAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGGTGC
*
181941 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
182006 GACCAGCGATATTGGACTTAAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGGTGC
182033 CAATGTGCT
1 CAATGTGCT
182042 TGTCGCGACG
Statistics
Matches: 186, Mismatches: 7, Indels: 9
0.92 0.03 0.04
Matches are distributed among these distances:
92 105 0.56
94 1 0.01
98 41 0.22
101 39 0.21
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAAGGTGC
Found at i:183089 original size:28 final size:28
Alignment explanation
Indices: 183008--183089 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
182998 TTTTGGAGAT
*
183008 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
183036 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
183064 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
183090 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:183232 original size:51 final size:51
Alignment explanation
Indices: 183072--183242 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
183062 GAAATAACGA
* * * *
183072 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAAGAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
183124 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
183177 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
183228 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
183243 TCAGAAATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 39 0.41
52 16 0.17
53 31 0.32
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:183288 original size:27 final size:28
Alignment explanation
Indices: 183225--183300 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
183215 AAAATAAAGT
*
183225 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
183253 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
183280 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
183301 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:185784 original size:13 final size:13
Alignment explanation
Indices: 185766--185791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
185756 ACAAAGATCC
185766 ATGTATCGATACA
1 ATGTATCGATACA
185779 ATGTATCGATACA
1 ATGTATCGATACA
185792 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:185787 original size:33 final size:33
Alignment explanation
Indices: 185745--185811 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
185735 AAAATTTCCA
***
185745 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
185778 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
185811 A
1 A
185812 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:185855 original size:19 final size:18
Alignment explanation
Indices: 185831--185898 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
185821 CAGTAGCTAA
185831 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
185850 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
185865 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
185882 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
185899 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:185871 original size:13 final size:13
Alignment explanation
Indices: 185853--185877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
185843 ACAATACTTA
185853 TGTATCGATACAT
1 TGTATCGATACAT
185866 TGTATCGATACA
1 TGTATCGATACA
185878 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:185875 original size:32 final size:32
Alignment explanation
Indices: 185834--185896 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
185824 TAGCTAATTA
*
185834 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
185866 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
185897 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:185978 original size:21 final size:21
Alignment explanation
Indices: 185954--186010 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
185944 CATTTGTAGG
185954 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
185975 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
185996 ATGTATCGATACATT
1 ATGTATCGATACATT
186011 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:186676 original size:55 final size:54
Alignment explanation
Indices: 186592--187401 Score: 1173
Period size: 55 Copynumber: 14.7 Consensus size: 54
186582 ATAAATTGTA
* * * ** *
186592 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCATGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
186647 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
186702 TCCTGCTCTTTGGGGAATGAAAGGTGCCACTAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
186757 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
186812 TCCTGTTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
186867 TCCTACTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
186922 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
186977 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
187032 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
187087 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
187142 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
187197 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
187252 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
187307 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
187362 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGT
187402 TGGCGCCCAG
Statistics
Matches: 710, Mismatches: 31, Indels: 28
0.92 0.04 0.04
Matches are distributed among these distances:
54 19 0.03
55 671 0.95
56 20 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:186891 original size:26 final size:26
Alignment explanation
Indices: 186862--186947 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 26
186852 GGGCTTTAAG
186862 AGGTGTCCTACTCTTTGGGGACTGAA
1 AGGTGTCCTACTCTTTGGGGACTGAA
* *
186888 AGGTG-CC-ACCAACTTGTGTGGG-CTTTAA
1 AGGTGTCCTA-C-TCTT-TG-GGGAC-TGAA
*
186916 GAGGTGTCCTGCTCTTTGGGGACTGAA
1 -AGGTGTCCTACTCTTTGGGGACTGAA
186943 AGGTG
1 AGGTG
186948 CCACCAACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 18
0.67 0.07 0.26
Matches are distributed among these distances:
24 1 0.02
25 3 0.07
26 13 0.28
27 9 0.20
28 9 0.20
29 8 0.17
30 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.29
Consensus pattern (26 bp):
AGGTGTCCTACTCTTTGGGGACTGAA
Found at i:187052 original size:26 final size:26
Alignment explanation
Indices: 187023--187167 Score: 87
Period size: 26 Copynumber: 5.3 Consensus size: 26
187013 GTGTGGGCTT
187023 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
187049 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
*
187076 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
** * * *
187104 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
* *
187131 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
187159 TGAAAGGTG
1 TGAAAGGTG
187168 CCACCAACTT
Statistics
Matches: 85, Mismatches: 24, Indels: 20
0.66 0.19 0.16
Matches are distributed among these distances:
25 6 0.07
26 25 0.29
27 16 0.19
28 16 0.19
29 16 0.19
30 6 0.07
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:187988 original size:55 final size:55
Alignment explanation
Indices: 187904--188548 Score: 907
Period size: 55 Copynumber: 11.7 Consensus size: 55
187894 ATAAATTGTA
* * * ** *
187904 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCATGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
187959 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCGACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * * * *
188014 TCCTCCTCTTTGGGGAAT-GAAAGGTGCCACTAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
188069 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
188124 TCCTGTTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
188179 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
188234 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
188289 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
188344 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
188399 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
188454 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
188509 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGT
188549 TGGCGCCCAG
Statistics
Matches: 551, Mismatches: 29, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
54 10 0.02
55 527 0.96
56 14 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:188203 original size:26 final size:26
Alignment explanation
Indices: 188174--188314 Score: 92
Period size: 26 Copynumber: 5.2 Consensus size: 26
188164 GGGCTTTAAG
188174 AGGTGTCCTGCTCTTTGGGGACTGAA
1 AGGTGTCCTGCTCTTTGGGGACTGAA
** * *
188200 AGGTG-CCACCAACTTGTGTGGG-CTTTAA
1 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA
188228 GAGGTGTCCTGCTCTTTGGGGACTGAA
1 -AGGTGTCCTGCTCTTTGGGGACTGAA
** * *
188255 AGGTG-CCACCAACTTGTGTGGG-CTTTAA
1 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA
188283 GAGGTGTCCTGCTCTTTGGGGACTGAA
1 -AGGTGTCCTGCTCTTTGGGGACTGAA
188310 AGGTG
1 AGGTG
188315 CCACCAACTT
Statistics
Matches: 85, Mismatches: 16, Indels: 28
0.66 0.12 0.22
Matches are distributed among these distances:
25 6 0.07
26 21 0.25
27 18 0.21
28 18 0.21
29 16 0.19
30 6 0.07
ACGTcount: A:0.18, C:0.19, G:0.34, T:0.29
Consensus pattern (26 bp):
AGGTGTCCTGCTCTTTGGGGACTGAA
Found at i:188421 original size:27 final size:27
Alignment explanation
Indices: 188391--188531 Score: 65
Period size: 27 Copynumber: 5.1 Consensus size: 27
188381 TGTGGGCTTT
188391 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
188418 GAAA-ATG-CCACCAACTTGTGTGGGCTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGACTG
*
188445 TAAGAGGTGTCCTGCTCTTTGAGGACTG
1 GAA-AGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
188473 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
188501 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
188528 GAAA
1 GAAA
188532 ATGCCACCAA
Statistics
Matches: 74, Mismatches: 30, Indels: 20
0.60 0.24 0.16
Matches are distributed among these distances:
25 6 0.08
26 10 0.14
27 23 0.31
28 19 0.26
29 10 0.14
30 6 0.08
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:189135 original size:55 final size:54
Alignment explanation
Indices: 189051--189860 Score: 1155
Period size: 55 Copynumber: 14.7 Consensus size: 54
189041 ATAAATTGTA
* * * ** *
189051 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCATGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
189106 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCGACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
189161 TCCTGCTCTTTGGGGAATGAAAGGTGCCACTAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
189216 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
189271 TCCTGTTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
189326 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
189381 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
189436 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
189491 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
189546 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
189601 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * *
189656 TCCTGCTCGTTGAGGACTAGAAAATGCCACCAACTTTTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
189711 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
189766 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
189821 TCCTGCTCTTTGAGGCCTGGAAAATGCCACCAACTTGTGT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGT
189861 TGGCGCCCAG
Statistics
Matches: 705, Mismatches: 36, Indels: 28
0.92 0.05 0.04
Matches are distributed among these distances:
54 19 0.03
55 666 0.94
56 20 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:190459 original size:55 final size:55
Alignment explanation
Indices: 190363--191211 Score: 1247
Period size: 55 Copynumber: 15.4 Consensus size: 55
190353 ATAAATTGTA
* * * * * ** *
190363 TCCTACTCATTGAGGAGTAAAAAGTGCCACCAACTCATGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
190418 TCCCGCTCTTTGAGGACTGAAAGGTGCCACCGACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
190473 TCCTGCTCTTTGGGGAATGAAAGGTGCCACTAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
190528 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
190583 TCCTGTTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
190638 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
190693 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
190748 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
190803 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
190858 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
190913 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
190968 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
191023 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
191078 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
191133 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
191188 TCCTGCTCTTTGGGGACTGAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
191212 CGGAAGGAGA
Statistics
Matches: 744, Mismatches: 35, Indels: 30
0.92 0.04 0.04
Matches are distributed among these distances:
54 22 0.03
55 702 0.94
56 20 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:192212 original size:13 final size:13
Alignment explanation
Indices: 192189--192242 Score: 56
Period size: 15 Copynumber: 4.0 Consensus size: 13
192179 TTTTCTCTCT
192189 TTTTCTTTGTTTTG
1 TTTT-TTTGTTTTG
192203 TTTTTTTGTTTT-
1 TTTTTTTGTTTTG
*
192215 TTTTTTTTTTTTG
1 TTTTTTTGTTTTG
*
192228 CTCTTTTTTTTTTTG
1 -T-TTTTTTGTTTTG
192243 AAGAGAAGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
12 11 0.31
13 8 0.22
14 5 0.14
15 12 0.33
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.85
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:192225 original size:17 final size:17
Alignment explanation
Indices: 192188--192241 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
192178 CTTTTCTCTC
* * *
192188 TTTTTCTTTGTTTTGTT
1 TTTTTGTTTTTTTTTTT
192205 TTTTTGTTTTTTTTTTT
1 TTTTTGTTTTTTTTTTT
192222 TTTTTGCTCTTTTTTTTTT
1 TTTTTG-T-TTTTTTTTTT
192241 T
1 T
192242 GAAGAGAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 20 0.62
18 1 0.03
19 11 0.34
ACGTcount: A:0.00, C:0.06, G:0.07, T:0.87
Consensus pattern (17 bp):
TTTTTGTTTTTTTTTTT
Found at i:204715 original size:28 final size:28
Alignment explanation
Indices: 204634--204715 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
204624 TTTTGGAGAT
*
204634 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
204662 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
204690 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
204716 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:204858 original size:51 final size:51
Alignment explanation
Indices: 204698--204868 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
204688 GAAATAACGA
* * *
204698 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
204750 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
204803 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
204854 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
204869 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:204914 original size:27 final size:28
Alignment explanation
Indices: 204851--204926 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
204841 AAAATAAAGT
*
204851 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
204879 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
204906 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
204927 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:207410 original size:13 final size:13
Alignment explanation
Indices: 207392--207417 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
207382 ACAAAGATCC
207392 ATGTATCGATACA
1 ATGTATCGATACA
207405 ATGTATCGATACA
1 ATGTATCGATACA
207418 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:207413 original size:33 final size:33
Alignment explanation
Indices: 207371--207437 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
207361 AAAATTTCCA
***
207371 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
207404 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
207437 A
1 A
207438 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:207481 original size:19 final size:18
Alignment explanation
Indices: 207457--207524 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
207447 CAGTAGCTAA
207457 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
207476 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
207491 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
207508 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
207525 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:207497 original size:13 final size:13
Alignment explanation
Indices: 207479--207503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
207469 ACAATACTTA
207479 TGTATCGATACAT
1 TGTATCGATACAT
207492 TGTATCGATACA
1 TGTATCGATACA
207504 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:207501 original size:32 final size:32
Alignment explanation
Indices: 207460--207522 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
207450 TAGCTAATTA
*
207460 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
207492 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
207523 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:208209 original size:55 final size:54
Alignment explanation
Indices: 208125--208933 Score: 1162
Period size: 55 Copynumber: 14.7 Consensus size: 54
208115 ATAAATTGTA
* * * ** *
208125 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCATGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
208180 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
208235 TCCTGCTCTTTGGGGAATGAAAGGTGCCACTAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
208290 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
208345 TCCTGTTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
208400 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
208455 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * *
208510 TCCTGCTCGTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
208565 TCCTGCTCTTTAAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
208619 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
208674 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
208729 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
208784 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
208839 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
208894 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGT
208934 TGGCGCCCAG
Statistics
Matches: 704, Mismatches: 36, Indels: 28
0.92 0.05 0.04
Matches are distributed among these distances:
53 2 0.00
54 65 0.09
55 617 0.88
56 20 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:208424 original size:26 final size:26
Alignment explanation
Indices: 208395--208480 Score: 77
Period size: 26 Copynumber: 3.2 Consensus size: 26
208385 GGGCTTTAAG
208395 AGGTGTCCTGCTCTTTGGGGACTGAA
1 AGGTGTCCTGCTCTTTGGGGACTGAA
** * *
208421 AGGTG-CCACCAACTTGTGTGGG-CTTTAA
1 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA
208449 GAGGTGTCCTGCTCTTTGGGGACTGAA
1 -AGGTGTCCTGCTCTTTGGGGACTGAA
208476 AGGTG
1 AGGTG
208481 CCACCAACTT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 3 0.07
26 13 0.29
27 9 0.20
28 9 0.20
29 8 0.18
30 3 0.07
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (26 bp):
AGGTGTCCTGCTCTTTGGGGACTGAA
Found at i:208698 original size:26 final size:26
Alignment explanation
Indices: 208614--208699 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
208604 GGGCTTTAAG
*
208614 AGGTGTCCTGCTCTTTGAGGACTGAA
1 AGGTGTCCTGCTCTTTGGGGACTGAA
** * *
208640 AGGTG-CCACCAACTTGTGTGGG-CTTTAA
1 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA
208668 GAGGTGTCCTGCTCTTTGGGGACTGAA
1 -AGGTGTCCTGCTCTTTGGGGACTGAA
208695 AGGTG
1 AGGTG
208700 CCACCAACTT
Statistics
Matches: 44, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
25 3 0.07
26 13 0.30
27 9 0.20
28 8 0.18
29 8 0.18
30 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.29
Consensus pattern (26 bp):
AGGTGTCCTGCTCTTTGGGGACTGAA
Found at i:208806 original size:27 final size:27
Alignment explanation
Indices: 208776--208916 Score: 65
Period size: 27 Copynumber: 5.1 Consensus size: 27
208766 TGTGGGCTTT
208776 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
208803 GAAA-ATG-CCACCAACTTGTGTGGGCTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGACTG
*
208830 TAAGAGGTGTCCTGCTCTTTGAGGACTG
1 GAA-AGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
208858 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
208886 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
208913 GAAA
1 GAAA
208917 ATGCCACCAA
Statistics
Matches: 74, Mismatches: 30, Indels: 20
0.60 0.24 0.16
Matches are distributed among these distances:
25 6 0.08
26 10 0.14
27 23 0.31
28 19 0.26
29 10 0.14
30 6 0.08
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:209096 original size:49 final size:48
Alignment explanation
Indices: 209035--209193 Score: 229
Period size: 49 Copynumber: 3.4 Consensus size: 48
209025 GTGTCTACAG
209035 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGCCAATA
* * * *
209084 TGCTGATTCAAGGCCAACGATATTGGACTT----A-AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGCCAATA
209127 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGCCAATA
209176 TGCTGATTCAAGGCCAGC
1 TGCTGATTCAAGGCCAGC
209194 GATATTAGGC
Statistics
Matches: 96, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
43 38 0.40
45 1 0.01
47 1 0.01
49 56 0.58
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (48 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGCCAATA
Found at i:209248 original size:33 final size:33
Alignment explanation
Indices: 209206--209598 Score: 565
Period size: 33 Copynumber: 11.9 Consensus size: 33
209196 TATTAGGCTT
209206 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
209239 AGAATGGTTGCCAACGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
209271 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
209304 AGAAAGGTTGCCACCGACTTGTATGGGCTGTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * * * *
209337 AAAAAGGTTGCCATCGACTTGTGTGGCCTTTAA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
209370 AGAAGGGTTGCCGCCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
209403 AAAAAGGTTGCCACCGAATTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
209436 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
209469 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
209502 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTTG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* **
209535 AAAAATGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
209568 AAGAA-GGTTGCCACCGACGTGCGTGGGCTTT
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
209599 TGAAAAGGAG
Statistics
Matches: 319, Mismatches: 39, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
32 30 0.09
33 286 0.90
34 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:209728 original size:30 final size:30
Alignment explanation
Indices: 209669--210041 Score: 135
Period size: 30 Copynumber: 12.5 Consensus size: 30
209659 TTAAAAGGGA
* * **
209669 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGATTTTGAG
209700 ACAAA-ATGCCACTGAGTCGTGGATTTTGAAG
1 A-AAAGATGCCACTGAGTCGTGGATTTTG-AG
*
209731 AAAAGGATGCCACTGAGTCATGGACTTTT--G
1 AAAA-GATGCCACTGAGTCGTGGA-TTTTGAG
* * * *
209761 AAAAGATACCACTGACTTGTGGGCTTTTG-G
1 AAAAGATGCCACTGAGTCGT-GGATTTTGAG
* * * * *
209791 AAAAGGGTGCCACTAACTTGTTGG-CTTTG-G
1 AAAA-GATGCCACTGAGTCG-TGGATTTTGAG
* * **
209821 AAAAGATGCCACTGACTTGTGGGCTTTG-G
1 AAAAGATGCCACTGAGTCGTGGATTTTGAG
* * **
209850 AAAAGATGCCACTGACTTGTGGGCTTTG-G
1 AAAAGATGCCACTGAGTCGTGGATTTTGAG
* * * **
209879 AAAAGGGTGCCACTGACTTGTGGGCTTTG-G
1 AAAA-GATGCCACTGAGTCGTGGATTTTGAG
* * * **
209909 AAAAGGGTGCCACTGACTTGTGGGCTTTG-G
1 AAAA-GATGCCACTGAGTCGTGGATTTTGAG
* * * **
209939 AAAAGGGTGCCACTGACTTGTGGGCTTTG-G
1 AAAA-GATGCCACTGAGTCGTGGATTTTGAG
* * *
209969 AAAAGATGCCACTGACTTGT-GAGCTTTG-G
1 AAAAGATGCCACTGAGTCGTGGA-TTTTGAG
* * **
209998 AAAAGATGCCACTGACTTGTGGGCTTTGA-
1 AAAAGATGCCACTGAGTCGTGGATTTTGAG
*
210027 AAATGATGCCACTGA
1 AAAAGATGCCACTGA
210042 CTTGTGGGCT
Statistics
Matches: 307, Mismatches: 21, Indels: 30
0.86 0.06 0.08
Matches are distributed among these distances:
28 4 0.01
29 128 0.42
30 131 0.43
31 19 0.06
32 21 0.07
33 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.27
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGATTTTGAG
Found at i:209912 original size:148 final size:147
Alignment explanation
Indices: 209669--210061 Score: 547
Period size: 148 Copynumber: 2.6 Consensus size: 147
209659 TTAAAAGGGA
* * * * **
209669 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAGACAAA-ATGCCACTGAGTCGTGGATTTTGAAGAA
1 AAAAGA-TGCCACTGACTTGTGGGCTTTG-GA-AAAGATGCCACTGACTTGTGGGCTTTG--GAA
* ** *
209733 AAGGATGCCACTGAGTCATGGACTTTTGAAAAGATACCACTGACTTGTGGGCTTTTGGAAAAGGG
61 AAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGC-TTTGGAAAAGGG
*
209798 TGCCACTAACTTGTTGGCTTTGG
125 TGCCACTAACTTGTGGGCTTTGG
*
209821 AAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGA
* * *
209886 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCA
66 TGCCACTGACTTGTGGGCTTTTGAAAA-GATACCACTGACTTGTGGGCTTTGGAAAAGGGTGCCA
*
209951 CTGACTTGTGGGCTTTGG
130 CTAACTTGTGGGCTTTGG
* *
209969 AAAAGATGCCACTGACTTGTGAGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTT-GAAAATGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGA
210033 TGCCACTGACTTGTGGGCTTTTGAAAAGA
66 TGCCACTGACTTGTGGGCTTTTGAAAAGA
210062 AAAAGGTGCC
Statistics
Matches: 218, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
146 1 0.00
147 32 0.15
148 117 0.54
149 21 0.10
150 21 0.10
151 20 0.09
152 6 0.03
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (147 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGA
TGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGGTGCCAC
TAACTTGTGGGCTTTGG
Found at i:210058 original size:30 final size:29
Alignment explanation
Indices: 209669--210061 Score: 484
Period size: 29 Copynumber: 13.2 Consensus size: 29
209659 TTAAAAGGGA
* *
209669 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTG-G
* * **
209700 ACAAA-ATGCCACTGAGTCGTGGATTTTGAAG
1 A-AAAGATGCCACTGACTTGTGGGCTTTG--G
* ** * *
209731 AAAAGGATGCCACTGAGTCATGGACTTTTG
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
*
209761 AAAAGATACCACTGACTTGTGGGCTTTTGG
1 AAAAGATGCCACTGACTTGTGGGC-TTTGG
* * *
209791 AAAAGGGTGCCACTAACTTGTTGGCTTTGG
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
209821 AAAAGATGCCACTGACTTGTGGGCTTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
209850 AAAAGATGCCACTGACTTGTGGGCTTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
209879 AAAAGGGTGCCACTGACTTGTGGGCTTTGG
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
*
209909 AAAAGGGTGCCACTGACTTGTGGGCTTTGG
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
*
209939 AAAAGGGTGCCACTGACTTGTGGGCTTTGG
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
*
209969 AAAAGATGCCACTGACTTGTGAGCTTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
209998 AAAAGATGCCACTGACTTGTGGGCTTT-G
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
210026 AAAATGATGCCACTGACTTGTGGGCTTTTG
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
210056 AAAAGA
1 AAAAGA
210062 AAAAGGTGCC
Statistics
Matches: 329, Mismatches: 24, Indels: 20
0.88 0.06 0.05
Matches are distributed among these distances:
28 5 0.02
29 144 0.44
30 136 0.41
31 21 0.06
32 23 0.07
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:210107 original size:31 final size:33
Alignment explanation
Indices: 210033--210194 Score: 125
Period size: 35 Copynumber: 4.8 Consensus size: 33
210023 TTGAAAATGA
* * *
210033 TGCCACTGACTTGTGGGCTTTTGAAAA-GAAAAAGG
1 TGCCACGGAGTTGTGGGC-TTT-AAAAGGAAAGA-G
**
210068 TGCCACGGAGTTGTGGGCTTTAAAAGG-GTGAG
1 TGCCACGGAGTTGTGGGCTTTAAAAGGAAAGAG
*
210100 -GCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTAAAAGG--AAAGAG
* *
210133 TGCCACGGAGTTGTGGGATTTAAAAAGGAAAAAG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGGAAAGAG
** *
210167 ATGCCACAAAGTTGTGGGCATTGAAAAG
1 -TGCCACGGAGTTGTGGGC-TTTAAAAG
210195 ATGGTGCCAT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
30 8 0.08
31 16 0.16
32 1 0.01
33 8 0.08
34 24 0.23
35 38 0.37
36 8 0.08
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGGCTTTAAAAGGAAAGAG
Found at i:210222 original size:31 final size:32
Alignment explanation
Indices: 210187--210255 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
210177 GTTGTGGGCA
* *
210187 TTGAAAAG-ATGGTGCCATAGAGTCATGGACT
1 TTGAAAAGAAAGGTGCCACAGAGTCATGGACT
*
210218 TTGAAAAGAAAAAGGTGCCACGGAGTCATGGACT
1 TTGAAAAG--AAAGGTGCCACAGAGTCATGGACT
210252 TTGA
1 TTGA
210256 TGCCACTGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 8 0.25
34 24 0.75
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (32 bp):
TTGAAAAGAAAGGTGCCACAGAGTCATGGACT
Found at i:210266 original size:23 final size:23
Alignment explanation
Indices: 210233--210278 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
210223 AAGAAAAAGG
210233 TGCCACGGAGTCATGGACTTTGA
1 TGCCACGGAGTCATGGACTTTGA
* *
210256 TGCCACTGAGTCGTGGACTTTGA
1 TGCCACGGAGTCATGGACTTTGA
210279 GACAAGATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (23 bp):
TGCCACGGAGTCATGGACTTTGA
Found at i:211341 original size:13 final size:13
Alignment explanation
Indices: 211325--211349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
211315 TTTTCCTCTC
211325 TTTTTTTTTGTGT
1 TTTTTTTTTGTGT
211338 TTTTTTTTTGTG
1 TTTTTTTTTGTG
211350 AAGATTAGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTGTGT
Found at i:218060 original size:52 final size:52
Alignment explanation
Indices: 217912--218040 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
217902 CGAAGTATGA
*
217912 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* *
217964 AAATTTGCCTGCATGTGTCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
218016 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
218041 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:218153 original size:13 final size:13
Alignment explanation
Indices: 218135--218223 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
218125 ACAAAACTTA
218135 TGTATCGATACAT
1 TGTATCGATACAT
218148 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
218166 ATGTATCGATACAT
1 -TGTATCGATACAT
218180 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
218198 ATGTATCGATACAT
1 -TGTATCGATACAT
218212 TGTATCGATACA
1 TGTATCGATACA
218224 ACACTTTATG
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 30 0.47
14 2 0.03
16 12 0.19
18 2 0.03
19 18 0.28
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:218154 original size:32 final size:32
Alignment explanation
Indices: 218111--218242 Score: 237
Period size: 32 Copynumber: 4.1 Consensus size: 32
218101 GGCAGTAGCT
* *
218111 TACATTATATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
218143 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
218175 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
218207 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
218240 TAC
1 TAC
218243 TGTTAGGATC
Statistics
Matches: 97, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
32 83 0.86
33 14 0.14
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:218557 original size:20 final size:20
Alignment explanation
Indices: 218534--218606 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
218524 ACAATTCAAA
218534 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
218554 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
218575 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
218595 GTATCGATACAT
1 GTATCGATACAT
218607 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:218578 original size:21 final size:21
Alignment explanation
Indices: 218552--218627 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
218542 ACATGTTGCA
218552 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
218573 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
218593 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
218614 TTGTATCGATACAT
1 ATGTATCGATACAT
218628 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:218585 original size:41 final size:41
Alignment explanation
Indices: 218534--218627 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
218524 ACAATTCAAA
*
218534 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
218575 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
218616 GTATCGATACAT
1 GTATCGATACAT
218628 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:218684 original size:13 final size:13
Alignment explanation
Indices: 218666--218691 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
218656 TACAGCAAGT
218666 ATGTATCGATACA
1 ATGTATCGATACA
218679 ATGTATCGATACA
1 ATGTATCGATACA
218692 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:222726 original size:15 final size:15
Alignment explanation
Indices: 222706--222736 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
222696 TAAAAATGTC
*
222706 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
222721 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
222736 C
1 C
222737 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:224829 original size:20 final size:21
Alignment explanation
Indices: 224750--224828 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
224740 AATGTCCAAA
*
224750 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
224770 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
224795 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
224815 TTGTATCGATACAT
1 ATGTATCGATACAT
224829 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:224833 original size:13 final size:13
Alignment explanation
Indices: 224815--224853 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
224805 ACATTTTTCT
224815 TTGTATCGATACA
1 TTGTATCGATACA
224828 TTGTATCGATACA
1 TTGTATCGATACA
*
224841 CTGTATCGATACA
1 TTGTATCGATACA
224854 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:226668 original size:23 final size:23
Alignment explanation
Indices: 226638--226684 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
226628 GTGCAAATAA
226638 ATTTTGATATGAATTACTTGATT
1 ATTTTGATATGAATTACTTGATT
226661 ATTTTGATATGAATTACTTGATT
1 ATTTTGATATGAATTACTTGATT
226684 A
1 A
226685 AGGGGGAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (23 bp):
ATTTTGATATGAATTACTTGATT
Found at i:227344 original size:20 final size:20
Alignment explanation
Indices: 227321--227393 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
227311 ACAATTCAAA
227321 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
227341 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
227362 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
227382 GTATCGATACAT
1 GTATCGATACAT
227394 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:227365 original size:21 final size:21
Alignment explanation
Indices: 227339--227414 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
227329 ACATGTTGCA
227339 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
227360 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
227380 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
227401 TTGTATCGATACAT
1 ATGTATCGATACAT
227415 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:227372 original size:41 final size:41
Alignment explanation
Indices: 227321--227414 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
227311 ACAATTCAAA
*
227321 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
227362 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
227403 GTATCGATACAT
1 GTATCGATACAT
227415 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:227471 original size:13 final size:13
Alignment explanation
Indices: 227453--227478 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
227443 TACAGCAAGT
227453 ATGTATCGATACA
1 ATGTATCGATACA
227466 ATGTATCGATACA
1 ATGTATCGATACA
227479 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:229240 original size:49 final size:49
Alignment explanation
Indices: 229183--229356 Score: 243
Period size: 49 Copynumber: 3.7 Consensus size: 49
229173 TCAGGAACAA
229183 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATAT
* *
229232 GCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATAT
* *
229275 GCTGATTCAAGGCCAGCTACATTGGACTTAAAAAAGTAGGTGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATAT
* * *
229324 GCTGATTAAAGGCCAGCTATATTGGACATAAAG
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAG
229357 GTGAAGATGA
Statistics
Matches: 110, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
43 40 0.36
44 1 0.01
48 1 0.01
49 68 0.62
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (49 bp):
GCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATAT
Found at i:229340 original size:92 final size:92
Alignment explanation
Indices: 229183--229359 Score: 318
Period size: 92 Copynumber: 1.9 Consensus size: 92
229173 TCAGGAACAA
* *
229183 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAG
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAAAAGAAGGTGCCAATATGCTGATTAAAGGCCAG
*
229248 CTATATTGGACTTAAAGGTGCCAATGT
66 CTATATTGGACATAAAGGTGCCAATGT
*
229275 GCTGATTCAAGGCCAGCTACATTGGACTTAAAAAAGTAGGTGCCAATATGCTGATTAAAGGCCAG
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAAAAGAAGGTGCCAATATGCTGATTAAAGGCCAG
229340 CTATATTGGACATAAAGGTG
66 CTATATTGGACATAAAGGTG
229360 AAGATGAGAA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 81 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GCTGATTCAAGGCCAGCTACATTGGACTTAAAAAAGAAGGTGCCAATATGCTGATTAAAGGCCAG
CTATATTGGACATAAAGGTGCCAATGT
Found at i:229601 original size:49 final size:49
Alignment explanation
Indices: 229447--230130 Score: 745
Period size: 49 Copynumber: 14.3 Consensus size: 49
229437 TGTCAATGTA
* *
229447 CTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAATATG
* * *
229499 CTAATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
*
229542 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGGAGGTGCCAATATG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
* * ** *
229591 CTGATTCAAGGTCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
* * * *
229640 TTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGA--A-GAAGGTGCCAATATG
* * * * * *
229692 CTGATTTAAGGCCAGCGATATTGGACTTAACGATGAAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
*
229741 CTGATTCAAGGCCAGCTACATTGGACTTAAA-AATGAAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAA-GAAGGTGCCAATATG
* *
229790 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAGGTGCCAATATG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
* * *
229839 CTGATTCAAGGCCAGCGATATTGGACTT-----A-AAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
*
229882 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
* * *
229931 CTGATTCAAGGCCAGCGATATTGGACTT-----A-AAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
* * *
229974 CTGATTCAAGGCTAGCTACTTTGGACTTAAAGATGAAGGTGCCAATATG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
* * * *
230023 CTGATTCAAGGCTAGCGATATTGGACTT-----A-AAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
* * *
230066 CTGATTCAAGGCCAACTACATTGGACTTAATGATA-AAAGTGCCAATATG
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAAGGTGCCAATATG
230115 CTGATTCAAGGCCAGC
1 CTGATTCAAGGCCAGC
230131 GATATTAGGC
Statistics
Matches: 533, Mismatches: 70, Indels: 61
0.80 0.11 0.09
Matches are distributed among these distances:
43 151 0.28
44 1 0.00
48 2 0.00
49 312 0.59
50 1 0.00
52 66 0.12
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
Found at i:229617 original size:92 final size:91
Alignment explanation
Indices: 229440--230132 Score: 663
Period size: 92 Copynumber: 7.3 Consensus size: 91
229430 AAAAAGATGT
* * * * *
229440 CAATGTACTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTAATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT--A-A---AAAAGGTGCCAATGTGCTGATT
229505 CAAGGCCAGCTATATTGGACTT-A-AAGGTGC
60 CAAGGCCAGCTATATTGGACTTAAGAAGGTGC
* *
229535 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGGAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA-AA--AGGTGCCAATGTGCTGATTCAA
*
229600 GGTCAGCTATATTGGACTTAAAGGTGAAGGTGC
63 GGCCAGCTATATTGGACTT-AA---GAAGGTGC
* * *
229633 CAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT--A-A--A-AAAGGTGCCAATGTGCTGATT
* *
229698 TAAGGCCAGCGATATTGGACTTAACGATGAAGGTGC
60 CAAGGCCAGCTATATTGGACTT-A--A-GAAGGTGC
*
229734 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAATGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAA--AAGGTGCCAATGTGCTGATTCAA
*
229799 GGCCAGCTACATTGGACTTAAAGATGGAGGTGC
63 GGCCAGCTATATTGGACTT-AAGA---AGGTGC
* *
229832 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT---AAAGGTGCCAATGTGCTGATTCAAGGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAAGGTGCCAATGTGCTGATTCAAGGC
*
229894 CAGCTACATTGGACTTAAAGATGAAGGTGC
66 CAGCTATATTGGACTT--A-A-GAAGGTGC
* *
229924 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT---AAAGGTGCCAATGTGCTGATTCAAGGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAAGGTGCCAATGTGCTGATTCAAGGC
*
229986 TAGCTACT-TTGGACTTAAAGATGAAGGTGC
66 CAGCTA-TATTGGACTT--A-A-GAAGGTGC
* * *
230016 CAATATGCTGATTCAAGGCTAGCGATATTGGACTT---AAAGGTGCCAATGTGCTGATTCAAGGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAAGGTGCCAATGTGCTGATTCAAGGC
* * *
230078 CAACTACATTGGACTTAATGATAAAAGTGC
66 CAGCTATATTGGACTTAA-G---AAGGTGC
*
230108 CAATATGCTGATTCAAGGCCAGCGA
1 CAATGTGCTGATTCAAGGCCAGCGA
230133 TATTAGGCTT
Statistics
Matches: 540, Mismatches: 29, Indels: 61
0.86 0.05 0.10
Matches are distributed among these distances:
89 4 0.01
90 3 0.01
92 280 0.52
93 3 0.01
94 3 0.01
95 37 0.07
96 2 0.00
97 1 0.00
98 117 0.22
99 1 0.00
100 3 0.01
101 82 0.15
103 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (91 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAAGGTGCCAATGTGCTGATTCAAGGC
CAGCTATATTGGACTTAAGAAGGTGC
Found at i:229943 original size:141 final size:141
Alignment explanation
Indices: 229440--230148 Score: 781
Period size: 141 Copynumber: 5.0 Consensus size: 141
229430 AAAAAGATGT
* * * *
229440 CAATGTACTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTAATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGATT
* * * *
229505 CAAGGCCAGCTATATTGGACTT--A-A-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGG
63 CAAGGCCAGCTACATTGGACTTAAAGATAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
229566 ACTTAAAGAAGGAGGTGC
128 ACTT-AAG-A--AGGTGC
* * * * *
229584 CAATATGCTGATTCAAGGTCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
229649 GGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTTAAGGCCAGCGATATT
66 GGCCAGCTACATTGGACTTAAAGAT-----AGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
229714 GGACTTAACGATGAAGGTGC
126 GGACTT-A--A-GAAGGTGC
*
229734 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAATGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
229799 GGCCAGCTACATTGGACTTAAAGATGGAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
66 GGCCAGCTACATTGGACTTAAAGAT--AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
229864 CTT-A-AAGGTGC
129 CTTAAGAAGGTGC
*
229875 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * * * *
229940 GGCCAGCGATATTGGACTT--A-A-AGGTGCCAATGTGCTGATTCAAGGCTAGCTACT-TTGGAC
66 GGCCAGCTACATTGGACTTAAAGATAGGTGCCAATATGCTGATTCAAGGCCAGCGA-TATTGGAC
230000 TTAAAGATGAAGGTGC
130 TT--A-A-GAAGGTGC
* * * *
230016 CAATATGCTGATTCAAGGCTAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
230075 GGCCAACTACATTGGACTTAATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGG
66 GGCCAGCTACATTGGACTTAAAGAT--AGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GG
230140 -CTT-AGAAGG
128 ACTTAAGAAGG
230149 GTTGCCATCG
Statistics
Matches: 491, Mismatches: 47, Indels: 62
0.82 0.08 0.10
Matches are distributed among these distances:
135 74 0.15
136 6 0.01
137 2 0.00
138 2 0.00
139 2 0.00
140 1 0.00
141 194 0.40
142 2 0.00
143 3 0.01
144 36 0.07
147 39 0.08
150 127 0.26
152 2 0.00
153 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (141 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
GGCCAGCTACATTGGACTTAAAGATAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
TAAGAAGGTGC
Found at i:230076 original size:21 final size:20
Alignment explanation
Indices: 230009--230076 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
229999 CTTAAAGATG
230009 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
* *
230030 AAGGCTAGCGATATTG--GACTTA
1 AAGG-T-GCCA-ATTGCTGA-TTC
230052 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
230073 AAGG
1 AAGG
230077 CCAACTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (20 bp):
AAGGTGCCAATTGCTGATTC
Done.