Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005506.1 Hibiscus syriacus cultivar Beakdansim tig00012696_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 200244
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:753 original size:11 final size:10
Alignment explanation
Indices: 735--771 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
725 AACGCTTGAA
735 AAATAATAAT
1 AAATAATAAT
745 AATATAATAAT
1 AA-ATAATAAT
*
756 AAATAATAAA
1 AAATAATAAT
766 AAATAA
1 AAATAA
772 CAATTCTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAATAATAAT
Found at i:13043 original size:15 final size:14
Alignment explanation
Indices: 13020--13049 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
13010 TTTGTTTCCT
13020 TTTTCTCTTCTTTC
1 TTTTCTCTTCTTTC
13034 TTTTCTTCTTCTTTC
1 TTTTC-TCTTCTTTC
13049 T
1 T
13050 CATCCTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTCTCTTCTTTC
Found at i:14323 original size:21 final size:21
Alignment explanation
Indices: 14274--14331 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
14264 CGATTCCAGA
*
14274 AAGGGATCGATCCTTTAGAGG
1 AAGGGATCGATCCTTTAGACG
**
14295 AAATGATCGATCCTTTCA-ACG
1 AAGGGATCGATCCTTT-AGACG
*
14316 AAGGGATCGATTCTTT
1 AAGGGATCGATCCTTT
14332 TCCTCGAGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (21 bp):
AAGGGATCGATCCTTTAGACG
Found at i:15586 original size:60 final size:59
Alignment explanation
Indices: 15511--15634 Score: 151
Period size: 60 Copynumber: 2.1 Consensus size: 59
15501 ATAAAGTACA
* *
15511 CAAATGATCCTCGACTATATG-ATATTACTTTATTAAGTTCATTAACTATTAAAAATTAC
1 CAAATGATCCTCGACTATA-GAATATTACTTTATTAAGTCCACTAACTATTAAAAATTAC
* * * * *
15570 CAAATGATCCTTCGACTATAGAATGTTTCTTTGTTAAGTCCCCTAACTATTAAAAGTTAC
1 CAAATGATCC-TCGACTATAGAATATTACTTTATTAAGTCCACTAACTATTAAAAATTAC
*
15630 AAAAT
1 CAAAT
15635 AGTCATCTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 11 0.20
60 44 0.80
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (59 bp):
CAAATGATCCTCGACTATAGAATATTACTTTATTAAGTCCACTAACTATTAAAAATTAC
Found at i:16944 original size:32 final size:32
Alignment explanation
Indices: 16890--16951 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
16880 ATGAAAGATA
* *
16890 TTAAAATAATATATAATTAATTCATTTAAATG
1 TTAAAATAATATATAATAAATTCAATTAAATG
* *
16922 TTAAAATGATATCTAATAAATTCAATTAAA
1 TTAAAATAATATATAATAAATTCAATTAAA
16952 GCGTCCTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (32 bp):
TTAAAATAATATATAATAAATTCAATTAAATG
Found at i:17780 original size:23 final size:23
Alignment explanation
Indices: 17754--17802 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
17744 ACAACATCTA
* * *
17754 TTAAAAAAACATTCAAGATATTT
1 TTAAAAAAACACTCAACAAATTT
*
17777 TTAAAACAACACTCAACAAATTT
1 TTAAAAAAACACTCAACAAATTT
17800 TTA
1 TTA
17803 TGGATAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (23 bp):
TTAAAAAAACACTCAACAAATTT
Found at i:19465 original size:2 final size:2
Alignment explanation
Indices: 19460--19492 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19450 AAAAAAGGGA
19460 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19493 AAAAGGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19525 original size:16 final size:16
Alignment explanation
Indices: 19506--19536 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19496 AGGTTATTTT
19506 AAAAAAGAAATAAAAC
1 AAAAAAGAAATAAAAC
*
19522 AAAAAGGAAATAAAA
1 AAAAAAGAAATAAAA
19537 ATGAAAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.03, G:0.10, T:0.06
Consensus pattern (16 bp):
AAAAAAGAAATAAAAC
Found at i:21453 original size:84 final size:84
Alignment explanation
Indices: 21199--22089 Score: 1038
Period size: 84 Copynumber: 10.7 Consensus size: 84
21189 TTGAATGTAA
* * * *
21199 TCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* * *
21263 GCCTTGGAGCTGAGTGTAA
66 GCCTTGGAGTTGAGCGTAG
* * * *
21282 TCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* * *
21346 GCCTTGGAGATGAGTGTAA
66 GCCTTGGAGTTGAGCGTAG
* * * *
21365 TCGAACTCGAAGGTCTTTTATTGGCAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATAATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
*
21430 GCCTTTGAGTTGAGCGTAG
66 GCCTTGGAGTTGAGCGTAG
* * **
21449 TCGAACTTGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
*
21514 GCCTTGGAGTTGAGCATAG
66 GCCTTGGAGTTGAGCGTAG
* * * * * * *
21533 TCGAACTCGAAGGTCTTTTGTTAGCAAATAACCCTTCTTGACATGAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* *
21598 GCCTTAGAGCTGAGCGTAG
66 GCCTTGGAGTTGAGCGTAG
* * * * * ** *
21617 TCAAACTCAAAGGTCTTTGGTTTGTAGATAATTCTTCTAGCCTTGAGTTATACTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
21682 GCCTTGGAGTTGAGC---G
66 GCCTTGGAGTTGAGCGTAG
* * * * ** * * * *
21698 TCGAACTCGAAGTTCTTTTGTTCGCAAATAGCGTTTCTTGCCTTGAGCTATGTTGCAAATAATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* *
21763 GTCTTGGAGCTGAGCGTAG
66 GCCTTGGAGTTGAGCGTAG
* * *
21782 TCGAACTCGAAGGT-TTTTGGTTAGTAGATAAGCCTTCTAGCCTTGAGTTATGCTGCAAATGATG
1 TCGAACTCGAAGGTCTTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATG
21846 TGCCTTGGAGTTGAGCGTAG
65 TGCCTTGGAGTTGAGCGTAG
* * * * * * * * * *
21866 TCGAACTCGAAGGTCTTTTGGTGACAAATAGCGCTTCTTGCCTTGAGCTATGTTGCAAACGATAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* *
21931 GCCTTGGAGCTGAGCATAG
66 GCCTTGGAGTTGAGCGTAG
* * * * * *
21950 TCGAACTTGAAGGTCTTTTGTTGGCAAATATCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
22015 GCCTTGGAGTTGAGCGTAG
66 GCCTTGGAGTTGAGCGTAG
** *
22034 TTAAACTCGAAGGTCTTTTATTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGC
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGC
22090 CAATAGTTTC
Statistics
Matches: 688, Mismatches: 114, Indels: 11
0.85 0.14 0.01
Matches are distributed among these distances:
81 63 0.09
83 101 0.15
84 520 0.76
85 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
GCCTTGGAGTTGAGCGTAG
Found at i:21803 original size:333 final size:333
Alignment explanation
Indices: 21199--22094 Score: 1118
Period size: 333 Copynumber: 2.7 Consensus size: 333
21189 TTGAATGTAA
* * * * * *
21199 TCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGACAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGT
* * * *
21263 GCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTC-TTGG-TTGACAGATAACCCTTCTCGCCTTG
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTTG-CAGATAATCCTTCTAGCCTTG
* * * *
21326 AGTTATGCTGTAAATGATGTGCCTTGGAGATGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCA
130 AGTTATGCTGCAAATGATGTGCCTTGGAGTTGAGCG---TCGAACTCGAAGGTCTTTTATTCGCA
* * * * *
21391 GATAACCCTTCTAGCCTTGAGTTATGATGTAAATAATGTGCCTTTGAGTTGAGCGTAGTCGAACT
192 AATAACCCTTCTAGCCTTGAGCTATGATGCAAATAATGTGCCTTGGAGCTGAGCGTAGTCGAACT
* * *
21456 TGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCTTGG
257 CGAAGGTCTTTGGTTAGCAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTGG
21521 AGTTGAGCATAG
322 AGTTGAGCATAG
* *
21533 TCGAACTCGAAGGTCTTTTGTT-AGCAAATAACCCTTCTTGACATGAGCTATGTTGCAAATGATG
1 TCGAACTCGAAGGTCTTTTGTTGA-CAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATG
* * * * *
21597 TGCCTTAGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGGTTTGTAGATAATTCTTCTAGCCTTG
65 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTTGCAGATAATCCTTCTAGCCTTG
* * *
21662 AGTTATACTGCAAATGATGTGCCTTGGAGTTGAGCGTCGAACTCGAAGTTCTTTTGTTCGCAAAT
130 AGTTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTCGAACTCGAAGGTCTTTTATTCGCAAAT
* ** * * *
21727 AGCGTTTCTTGCCTTGAGCTATGTTGCAAATAATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGA
195 AACCCTTCTAGCCTTGAGCTATGATGCAAATAATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGA
* * * *
21792 AGGTTTTTGGTTAGTAGATAAGCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGT
260 AGGTCTTTGGTTAGCAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTGGAGT
*
21857 TGAGCGTAG
325 TGAGCATAG
* * * * *
21866 TCGAACTCGAAGGTCTTTTGGTGACAAATAGCGCTTCTTGCCTTGAGCTATGTTGCAAACGATAT
1 TCGAACTCGAAGGTCTTTTGTTGACAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGT
* * * * * *
21931 GCCTTGGAGCTGAGCATAGTCGAACTTGAAGGTCTTTTGTTGGCAAAT-ATCCCTTCTTGCCTTG
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTTGCAGATAAT-CCTTCTAGCCTTG
* * * *
21995 AGCTATGTTGCAAATGATGTGCCTTGGAGTTGAGCGTAGTTAAACTCGAAGGTCTTTTATTGGCA
130 AGTTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTCG---AACTCGAAGGTCTTTTATTCGCA
* * * *
22060 GATAACCCTTCTAGCCTTGAGTTATGCTGCCAATA
192 AATAACCCTTCTAGCCTTGAGCTATGATGCAAATA
22095 GTTTCTTTAA
Statistics
Matches: 477, Mismatches: 76, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
332 2 0.00
333 287 0.60
334 17 0.04
335 68 0.14
336 100 0.21
337 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (333 bp):
TCGAACTCGAAGGTCTTTTGTTGACAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGT
GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTTGCAGATAATCCTTCTAGCCTTGA
GTTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTCGAACTCGAAGGTCTTTTATTCGCAAATA
ACCCTTCTAGCCTTGAGCTATGATGCAAATAATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAA
GGTCTTTGGTTAGCAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTGGAGTT
GAGCATAG
Found at i:21865 original size:417 final size:417
Alignment explanation
Indices: 21202--22089 Score: 1156
Period size: 417 Copynumber: 2.1 Consensus size: 417
21192 AATGTAATCG
* * * * *
21202 AACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATGATGTGCC
1 AACTCAAAGGTCTTTGATTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCC
* * *
21266 TTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTA
66 TTGGAGCTGAGCG--ATCGAACTCGAAGGTCTTGGTTGACAAATAACCCTTCTCGCCTTGAGCTA
* * * *
21331 TGCTGTAAATGATGTGCCTTGGAGATGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAA
129 TGCTGCAAATAATGTGCCTTGGAGATGAGCGTAATCGAACTCGAAGGTCTTTTATTAGCAGATAA
* * *
21396 CCCTTCTAGCCTTGAGTTATGATGTAAATAATGTGCCTTTGAGTTGAGCGTAGTCGAACTTGAAG
194 CCCTTCTAGCCTTGAGTTATGATGCAAATAATGTGCCTTGGAGTTGAGCGTAGTCGAACTCGAAG
* * * * * * *
21461 GTC-TTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCTTGGAGTT
259 GTCTTTTGG-TGACAAATAACCCTTCTAGCCTTGAGCTATGCTACAAACGATATGCCTTGGAGCT
21525 GAGCATAGTCGAACTCGAAGGTCTTTTGTTAGCAAATAACCCTTCTTGACATGAGCTATGTTGCA
323 GAGCATAGTCGAACTCGAAGGTCTTTTGTTAGCAAATAACCCTTCTTGACATGAGCTATGTTGCA
21590 AATGATGTGCCTTAGAGCTGAGCGTAGTCA
388 AATGATGTGCCTTAGAGCTGAGCGTAGTCA
* * * ** *
21620 AACTCAAAGGTCTTTGGTTTGTAGATAATTCTTCTAGCCTTGAGTTATACTGCAAATGATGTGCC
1 AACTCAAAGGTCTTTGATTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCC
* * * * ** *
21685 TTGGAGTTGAGCG-TCGAACTCGAAGTTCTTTTGTTCG-CAAATAGCGTTTCTTGCCTTGAGCTA
66 TTGGAGCTGAGCGATCGAACTCGAAGGTC-TTGGTT-GACAAATAACCCTTCTCGCCTTGAGCTA
* * * * * *
21748 TGTTGCAAATAATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTTTGGTTAGTAGATA
129 TGCTGCAAATAATGTGCCTTGGAGATGAGCGTAATCGAACTCGAAGGTCTTTT-ATTAGCAGATA
* * *
21812 AGCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTAGTCGAACTCGAA
193 ACCCTTCTAGCCTTGAGTTATGATGCAAATAATGTGCCTTGGAGTTGAGCGTAGTCGAACTCGAA
* * * * *
21877 GGTCTTTTGGTGACAAATAGCGCTTCTTGCCTTGAGCTATGTTGCAAACGATATGCCTTGGAGCT
258 GGTCTTTTGGTGACAAATAACCCTTCTAGCCTTGAGCTATGCTACAAACGATATGCCTTGGAGCT
* * * * *
21942 GAGCATAGTCGAACTTGAAGGTCTTTTGTTGGCAAATATCCCTTCTTGCCTTGAGCTATGTTGCA
323 GAGCATAGTCGAACTCGAAGGTCTTTTGTTAGCAAATAACCCTTCTTGACATGAGCTATGTTGCA
* * *
22007 AATGATGTGCCTTGGAGTTGAGCGTAGTTA
388 AATGATGTGCCTTAGAGCTGAGCGTAGTCA
* *
22037 AACTCGAAGGTCTTTTATTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGC
1 AACTCAAAGGTCTTTGATTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGC
22090 CAATAGTTTC
Statistics
Matches: 402, Mismatches: 63, Indels: 11
0.84 0.13 0.02
Matches are distributed among these distances:
416 18 0.04
417 312 0.78
418 17 0.04
419 55 0.14
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (417 bp):
AACTCAAAGGTCTTTGATTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCC
TTGGAGCTGAGCGATCGAACTCGAAGGTCTTGGTTGACAAATAACCCTTCTCGCCTTGAGCTATG
CTGCAAATAATGTGCCTTGGAGATGAGCGTAATCGAACTCGAAGGTCTTTTATTAGCAGATAACC
CTTCTAGCCTTGAGTTATGATGCAAATAATGTGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGT
CTTTTGGTGACAAATAACCCTTCTAGCCTTGAGCTATGCTACAAACGATATGCCTTGGAGCTGAG
CATAGTCGAACTCGAAGGTCTTTTGTTAGCAAATAACCCTTCTTGACATGAGCTATGTTGCAAAT
GATGTGCCTTAGAGCTGAGCGTAGTCA
Found at i:26944 original size:3 final size:3
Alignment explanation
Indices: 26936--26969 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
26926 AAAATAGTAA
*
26936 AAT AAT AAT AA- AAA AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26970 ATAAGAAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:26951 original size:14 final size:14
Alignment explanation
Indices: 26915--26960 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
26905 AAAAGTTAGT
*
26915 TAAAAAAATAGAAAA
1 TAAAAAAATA-ATAA
**
26930 TAGTAAAATAATAA
1 TAAAAAAATAATAA
26944 TAAAAAAATAATAA
1 TAAAAAAATAATAA
26958 TAA
1 TAA
26961 TAATAATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
TAAAAAAATAATAA
Found at i:27026 original size:15 final size:15
Alignment explanation
Indices: 26987--27038 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
26977 GGTTATTTTA
26987 AAAAAGAAAAAG-AAT
1 AAAAA-AAAAAGAAAT
27002 AAATAAAAAAAGAAAT
1 AAA-AAAAAAAGAAAT
*
27018 AAAACAAAAAGGAAAT
1 AAAA-AAAAAAGAAAT
27034 AAAAA
1 AAAAA
27039 TGAAAAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 11 0.33
16 22 0.67
ACGTcount: A:0.81, C:0.02, G:0.10, T:0.08
Consensus pattern (15 bp):
AAAAAAAAAAGAAAT
Found at i:27308 original size:26 final size:26
Alignment explanation
Indices: 27272--27325 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
27262 TCTCATTTTC
27272 CCCAGTGACTGATCAAAGCCCAACCA
1 CCCAGTGACTGATCAAAGCCCAACCA
27298 CCCAGTGACTGATCAAAGCCCAACCA
1 CCCAGTGACTGATCAAAGCCCAACCA
27324 CC
1 CC
27326 ACCCTGGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.41, G:0.15, T:0.11
Consensus pattern (26 bp):
CCCAGTGACTGATCAAAGCCCAACCA
Found at i:31548 original size:21 final size:21
Alignment explanation
Indices: 31522--31566 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
31512 AATTCTACCC
* * *
31522 TAAACTGTCACGTTAATATCA
1 TAAACTATCACATCAATATCA
*
31543 TAAACTATTACATCAATATCA
1 TAAACTATCACATCAATATCA
31564 TAA
1 TAA
31567 TTATTAGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.33
Consensus pattern (21 bp):
TAAACTATCACATCAATATCA
Found at i:32452 original size:20 final size:20
Alignment explanation
Indices: 32423--32490 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
32413 ATAATGTAAA
*
32423 ATTACTAGTGGGAATATAAG
1 ATTACCAGTGGGAATATAAG
*
32443 ATTACCAGTGAGAATATAAG
1 ATTACCAGTGGGAATATAAG
* * *
32463 ATTAACAGTGGGAATGTAAA
1 ATTACCAGTGGGAATATAAG
32483 ATTACCAG
1 ATTACCAG
32491 GGAATAGGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (20 bp):
ATTACCAGTGGGAATATAAG
Found at i:34919 original size:2 final size:2
Alignment explanation
Indices: 34912--34984 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
34902 AAAAGAAAAT
34912 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34954 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34985 CATGGGTCTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35452 original size:23 final size:23
Alignment explanation
Indices: 35421--35480 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
35411 TATGTTCGCA
*
35421 AACACTAAATGAACAAATTCACG
1 AACATTAAATGAACAAATTCACG
* * *
35444 AACATTAAATAAACATATTCGCG
1 AACATTAAATGAACAAATTCACG
*
35467 AATATTAAATGAAC
1 AACATTAAATGAAC
35481 GAACATGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.52, C:0.17, G:0.08, T:0.23
Consensus pattern (23 bp):
AACATTAAATGAACAAATTCACG
Found at i:35560 original size:41 final size:37
Alignment explanation
Indices: 35515--35725 Score: 117
Period size: 41 Copynumber: 5.8 Consensus size: 37
35505 ATAAATAAAA
35515 ATGAACACAATATTAAAAATTTAAACAAATACGAATCGAAC
1 ATGAACAC-AT-TTAAAAA-TTAAACAAATAC-AATCGAAC
* *
35556 ATGAACACCTTCAAAAA-T----AAATA-AAT-GAAC
1 ATGAACACATTTAAAAATTAAACAAATACAATCGAAC
*
35586 ATGAACACAATATTAAAAATTTAAACAAATACAAATCAAAC
1 ATGAACAC-AT-TTAAAAA-TTAAACAAATAC-AATCGAAC
* * *
35627 ATAAACACCTTCAAAAA-T----AAATA-AAT-GAAC
1 ATGAACACATTTAAAAATTAAACAAATACAATCGAAC
* * *
35657 ATGAACAAAATATTAAAAATTTAAACGAATACGAGTCGAAC
1 ATGAAC-ACAT-TTAAAAA-TTAAACAAATAC-AATCGAAC
* *
35698 ATGAACACCTTTAAAAAATAAACAAATA
1 ATGAACACATTTAAAAATTAAACAAATA
35726 AACACGAATA
Statistics
Matches: 129, Mismatches: 19, Indels: 47
0.66 0.10 0.24
Matches are distributed among these distances:
30 20 0.16
31 9 0.07
32 12 0.09
33 10 0.08
34 2 0.02
37 2 0.02
38 18 0.14
39 19 0.15
40 9 0.07
41 28 0.22
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (37 bp):
ATGAACACATTTAAAAATTAAACAAATACAATCGAAC
Found at i:35566 original size:71 final size:71
Alignment explanation
Indices: 35480--35739 Score: 385
Period size: 71 Copynumber: 3.6 Consensus size: 71
35470 ATTAAATGAA
* *
35480 CGAACATGAATACCTTCAAAAATAAATAAATAAAAATGAACACAATATTAAAAATTTAAACAAAT
1 CGAACATGAACACCTTCAAAAATAAATAAATAAACATGAACACAATATTAAAAATTTAAACAAAT
35545 ACGAAT
66 ACGAAT
*
35551 CGAACATGAACACCTTCAAAAATAAATAAATGAACATGAACACAATATTAAAAATTTAAACAAAT
1 CGAACATGAACACCTTCAAAAATAAATAAATAAACATGAACACAATATTAAAAATTTAAACAAAT
*
35616 ACAAAT
66 ACGAAT
* * * * *
35622 CAAACATAAACACCTTCAAAAATAAATAAATGAACATGAACAAAATATTAAAAATTTAAACGAAT
1 CGAACATGAACACCTTCAAAAATAAATAAATAAACATGAACACAATATTAAAAATTTAAACAAAT
*
35687 ACGAGT
66 ACGAAT
* * * *
35693 CGAACATGAACACCTTTAAAAAATAAACAAATAAACACGAATACAAT
1 CGAACATGAACACC-TTCAAAAATAAATAAATAAACATGAACACAAT
35740 CTTATTTATT
Statistics
Matches: 170, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
71 144 0.85
72 26 0.15
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (71 bp):
CGAACATGAACACCTTCAAAAATAAATAAATAAACATGAACACAATATTAAAAATTTAAACAAAT
ACGAAT
Found at i:35586 original size:30 final size:30
Alignment explanation
Indices: 35552--35663 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 30
35542 AATACGAATC
35552 GAACATGAACACCTTCAAAAATAAATAAAT
1 GAACATGAACACCTTCAAAAATAAATAAAT
* *
35582 GAACATGAACACAATATTAAAAATTTAAACAAATACAAAT
1 GAACATGAACAC-CT-TCAAAAA--T----AAAT--AAAT
* *
35622 CAAACATAAACACCTTCAAAAATAAATAAAT
1 -GAACATGAACACCTTCAAAAATAAATAAAT
35653 GAACATGAACA
1 GAACATGAACA
35664 AAATATTAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 22
0.68 0.09 0.24
Matches are distributed among these distances:
30 21 0.33
31 5 0.08
32 6 0.10
33 4 0.06
34 1 0.02
37 1 0.02
38 4 0.06
39 6 0.10
40 5 0.08
41 10 0.16
ACGTcount: A:0.59, C:0.16, G:0.05, T:0.20
Consensus pattern (30 bp):
GAACATGAACACCTTCAAAAATAAATAAAT
Found at i:38479 original size:3 final size:3
Alignment explanation
Indices: 38461--38511 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
38451 TTGTAATATT
* * *
38461 TAA TAAA TAA TAAA TAA TAT TAC TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38508 TAA T
1 TAA T
38512 TTTAATGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 36 0.86
4 6 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:38796 original size:76 final size:76
Alignment explanation
Indices: 38670--39074 Score: 686
Period size: 76 Copynumber: 5.3 Consensus size: 76
38660 GGTCTTATGA
* *
38670 ATGACCCTG-AGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 ATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTG
* *
38734 CAGGACTTACAG
65 AAGGGCTTACAG
*
38746 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGA
*
38811 AGGACTTACAG
66 AGGGCTTACAG
38822 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGA
38887 AGGGCTTACAG
66 AGGGCTTACAG
* * *
38898 ATGACCCGAAGGTTTTGAAAACATCAAAAAGCCCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGA
38963 AGGGCTTACAG
66 AGGGCTTACAG
* *
38974 ATGACCCGAAGGCTTTGAAAACATCAAAAAACTCCCAAAGGTTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGA
39039 AGGGCTTACAG
66 AGGGCTTACAG
*
39050 ATGACCCGAAGGTTTTGAAAACATC
1 ATGACCCGAAGGCTTTGAAAACATC
39075 TTGCACTAAA
Statistics
Matches: 313, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
76 313 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (76 bp):
ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGA
AGGGCTTACAG
Found at i:39080 original size:45 final size:45
Alignment explanation
Indices: 39017--39120 Score: 172
Period size: 45 Copynumber: 2.3 Consensus size: 45
39007 CCCAAAGGTT
* *
39017 TTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGG
*
39062 TTTTGAAAACATCTTGCACTAAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGG
*
39107 CTTTGAAAACATCA
1 TTTTGAAAACATCA
39121 AAAAGCTCCC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGG
Found at i:39089 original size:121 final size:121
Alignment explanation
Indices: 38931--39195 Score: 433
Period size: 121 Copynumber: 2.2 Consensus size: 121
38921 TCAAAAAGCC
* *
38931 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
* *
38996 ATCAAAAAACTCCCAAAGGTTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGA
64 ATCAAAAAACTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
*
39054 CCCGAAGGTTTTGAAAACATCTTGCACTAAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
* *
39119 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
66 CAAAAAACTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
*
39175 CCCGAA-GCTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
39196 AAAAGCTCCC
Statistics
Matches: 133, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
120 13 0.10
121 112 0.84
123 8 0.06
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (121 bp):
CCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
CAAAAAACTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:39099 original size:197 final size:196
Alignment explanation
Indices: 38865--39271 Score: 715
Period size: 197 Copynumber: 2.1 Consensus size: 196
38855 CCCAAAGGCT
* * *
38865 TTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGC
1 TTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
*
38930 CCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
66 CCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA-GCTTTGAAAA
*
38995 CATCAAAAAACTCCCAAAGGTTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
130 CATCAAAAAACTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
39060 GG
195 GG
*
39062 TTTTGAAAACATCTTGCACTAAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
*
39127 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGCTTTGAAAAC
66 CCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGCTTTGAAAAC
* * *
39192 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAATATCATGCACTGAAGGGCTTACAGATGACCCGAAG
131 ATCAAAAAACTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAG
39257 G
196 G
39258 TTTTGAAAACATCA
1 TTTTGAAAACATCA
39272 AAAAACTCCC
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
196 86 0.43
197 113 0.57
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (196 bp):
TTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
CCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGCTTTGAAAAC
ATCAAAAAACTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAG
G
Found at i:39294 original size:273 final size:273
Alignment explanation
Indices: 38789--39601 Score: 1362
Period size: 273 Copynumber: 3.0 Consensus size: 273
38779 CCCAAAGGCT
* *
38789 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
*
38854 TCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
66 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
38919 CATCAAAAAGCCCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
131 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
*
38984 GGCTTTGAAAACATCAAAAAACTCCCAAAGGTTTTTTGGAAACATCATGCACTGAAGGGCTTACA
196 GGCTTTGAAAACATCAAAAAACTCCCGAAGGTTTTTTGGAAACATCATGCACTGAAGGGCTTACA
39049 GATGACCCGAAGG
261 GATGACCCGAAGG
* *
39062 TTTTGAAAACATCTTGCACTAAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
* *
39127 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA-GCTTTGAAAA
66 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
39191 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAATATCATGCACTGAAGGGCTTACAGATGACCCGAA
131 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
*
39256 GGTTTTGAAAACATCAAAAAACTCCCGAAGGTTTTTTTGGAAACATCATGCACTGAAGGGCTTAC
196 GGCTTTGAAAACATCAAAAAACTCCCGAAGG-TTTTTTGGAAACATCATGCACTGAAGGGCTTAC
39321 AGATGACCCGAAGG
260 AGATGACCCGAAGG
39335 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TATTGAAAACATCAAAAAG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCT-TTGAAAACATCAAAAAG
* * *
39399 CTCCCGAAGGTTTTTTTTTGAAAACATCATGCACTGAAGGGCTTACATATGACCCGAAGGTTTTG
65 CTCCCGAAGG---CTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTG
* * *
39464 AAAACATCAAAAAACTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
127 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACC
* * * *
39529 CTAAGGCTTTGAAAACATCAAAAAGA-TCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGAC
192 CGAAGGCTTTGAAAACATCAAAAA-ACTCCCGAAGGTTTTTTGGAAACATCATGCACTGAAGGGC
39593 TTACAGATG
256 TTACAGATG
39602 TGGGAAATAG
Statistics
Matches: 506, Mismatches: 27, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
272 102 0.20
273 230 0.45
276 76 0.15
277 97 0.19
278 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (273 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
GGCTTTGAAAACATCAAAAAACTCCCGAAGGTTTTTTGGAAACATCATGCACTGAAGGGCTTACA
GATGACCCGAAGG
Found at i:39316 original size:77 final size:76
Alignment explanation
Indices: 39054--39348 Score: 479
Period size: 75 Copynumber: 3.9 Consensus size: 76
39044 TTACAGATGA
* * *
39054 CCCGAAGG--TTTTGAAAACATCTTGCACTAAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
39117 ATCAAAAAGCT
66 ATCAAAAAGCT
*
39128 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA-GCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
39192 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
39203 CCCGAAGGCTTTTTGGAAATATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
*
39268 ATCAAAAAACT
66 ATCAAAAAGCT
* *
39279 CCCGAAGGTTTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CCCGAAGG-CTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
39344 CATCA
65 CATCA
39349 TGCACTGAAG
Statistics
Matches: 207, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
74 8 0.04
75 73 0.35
76 67 0.32
77 59 0.29
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAGCT
Found at i:39347 original size:45 final size:45
Alignment explanation
Indices: 39290--39393 Score: 190
Period size: 45 Copynumber: 2.3 Consensus size: 45
39280 CCGAAGGTTT
*
39290 TTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
39335 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
39380 TATTGAAAACATCA
1 TTTTGAAAACATCA
39394 AAAAGCTCCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
Found at i:39355 original size:122 final size:123
Alignment explanation
Indices: 39203--39472 Score: 452
Period size: 122 Copynumber: 2.2 Consensus size: 123
39193 TCAAAAAGCT
* * *
39203 CCCGAAGGCTTTTTGGAAATATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTATTGAAAAC
*
39268 ATCAAAAAACTCCCGAAGG-TTTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGA
64 ATCAAAAAACTCCCGAAGGTTTTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
39327 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTATTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTATTGAAAACAT
* *
39392 CAAAAAGCTCCCGAAGGTTTTTTTTTGAAAACATCATGCACTGAAGGGCTTACATATGA
66 CAAAAAACTCCCGAAGG-TTTTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
39451 CCCGAAGGTTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
39473 AAAAACTCCC
Statistics
Matches: 138, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
122 70 0.51
124 68 0.49
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (123 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTATTGAAAACAT
CAAAAAACTCCCGAAGGTTTTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:39425 original size:79 final size:75
Alignment explanation
Indices: 39327--39601 Score: 401
Period size: 76 Copynumber: 3.6 Consensus size: 75
39317 TTACAGATGA
*
39327 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTATTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT-TTGAAAAC
39390 ATCAAAAAGCT
65 ATCAAAAAGCT
* * *
39401 CCCGAAGGTTTTTTTTTGAAAACATCATGCACTGAAGGGCTTACATATGACCCGAAGGTTTTGAA
1 CCCGAAGG---CTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAA
*
39466 AACATCAAAAAACT
62 AACATCAAAAAGCT
* * *
39480 CCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAAC
*
39545 ATCAAAAAGAT
65 ATCAAAAAGCT
39556 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATG
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATG
39602 TGGGAAATAG
Statistics
Matches: 182, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
74 8 0.04
76 104 0.57
79 69 0.38
80 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (75 bp):
CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACA
TCAAAAAGCT
Found at i:40475 original size:22 final size:22
Alignment explanation
Indices: 40450--40529 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
40440 CATAAAGCTT
*
40450 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
* * *
40472 TCATCTTTAAAAAGAAAATTTG
1 TCATCTTTAAAAAGAGAATCTA
* * **
40494 TCATCTCTGAAGTGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
*
40516 TTATCTTTAAAAAG
1 TCATCTTTAAAAAG
40530 TGCAGATGTA
Statistics
Matches: 42, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:40963 original size:54 final size:54
Alignment explanation
Indices: 40881--40992 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 54
40871 CGAATAGCAG
***
40881 GTTCGTAAAACATTTAACAGTGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTAACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* **
40935 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTAACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
40989 GTTC
1 GTTC
40993 TCAATCATTG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAACATTTAACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Found at i:43432 original size:114 final size:115
Alignment explanation
Indices: 43138--43455 Score: 523
Period size: 115 Copynumber: 2.8 Consensus size: 115
43128 GATCATGCAG
* * * * * * *
43138 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
* * *
43203 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAAA
66 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAAA
43253 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
43318 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGC-AAA
66 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAAA
*
43367 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAATTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
43432 ACACTTCCAGAAGATGCTA-TGAGC
66 ACACTTCCAGAAGATGCTATTGAGC
43456 ACATTCATCT
Statistics
Matches: 192, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
113 5 0.03
114 86 0.45
115 101 0.53
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAAA
Found at i:43527 original size:93 final size:92
Alignment explanation
Indices: 43358--43549 Score: 296
Period size: 93 Copynumber: 2.1 Consensus size: 92
43348 TATTTCTACC
* *
43358 ATGAGCAAATTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATA
1 ATGAGCAAATTCATCTTCCAAATCCAATGATTGATTTTGGAGTTCATACCAAACCAGATCAGATA
*
43423 ATTCAAAGAACACTTCCAGAAGATGCT
66 ACTCAAAGAACACTTCCAGAAGATGCT
* * *
43450 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGG-TTTCATACCAAACCAGATCAGA
1 ATGAGCAAATTCATCTTCCAAATCCAATGATTGATT-T-TGGAGTTCATACCAAACCAGATCAGA
43514 TAACTCAAAGAACACTTCCAGAAGATGCT
64 TAACTCAAAGAACACTTCCAGAAGATGCT
43543 ATTGAGC
1 A-TGAGC
43550 CTCCTTATTT
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
92 33 0.36
93 50 0.55
94 8 0.09
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (92 bp):
ATGAGCAAATTCATCTTCCAAATCCAATGATTGATTTTGGAGTTCATACCAAACCAGATCAGATA
ACTCAAAGAACACTTCCAGAAGATGCT
Found at i:43596 original size:207 final size:207
Alignment explanation
Indices: 43241--43756 Score: 921
Period size: 207 Copynumber: 2.5 Consensus size: 207
43231 CTTATTTCTA
* * * * *
43241 CTATGAGCAAAATTCATCTTTCAAATCCAATGATTGATT-T-TGGAGTTCATACCAAATCAGATC
1 CTATGAGC-ACATTCATCTTCCAAATTCAATGATTGATTCTGTGG-TTTCATACCAAACCAGATC
43304 AGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAATT
64 AGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAATT
43369 CATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAATTCAAAGAAC
129 CATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAATTCAAAGAAC
43434 ACTTCCAGAAGATG
194 ACTTCCAGAAGATG
43448 CTATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAG
43513 ATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAATTCA
66 ATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAATTCA
43578 TCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAATTCAAAGAACAC
131 TCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAATTCAAAGAACAC
43643 TTCCAGAAGATG
196 TTCCAGAAGATG
*
43655 CTATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACTAGATCAG
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAG
*
43720 ATAACTCAAAGAACACTTCCCAAAAGATGCTA-TGAGC
66 ATAACTCAAAGAACACTT-CCAGAAGATGCTATTGAGC
43757 ACATTCATCT
Statistics
Matches: 299, Mismatches: 7, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
206 27 0.09
207 257 0.86
208 15 0.05
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (207 bp):
CTATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAATTCA
TCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAATTCAAAGAACAC
TTCCAGAAGATG
Found at i:43651 original size:114 final size:114
Alignment explanation
Indices: 43450--43662 Score: 340
Period size: 114 Copynumber: 1.9 Consensus size: 114
43440 AGAAGATGCT
* * *
43450 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
1 ATGAGCAAATTCATCTTCCAAATCCAATGATTGATTCTGTGGGTTCATACCAAACCAGATCAGAT
43515 AACTCAAAGAACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACC
66 AACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCCTCCTTATTTCTACC
* *
43565 ATGAGCAAATTCATCTTTCAAATCCAATGATTGATT-T-TGGAGTTCATACCAAATCAGATCAGA
1 ATGAGCAAATTCATCTTCCAAATCCAATGATTGATTCTGTGG-GTTCATACCAAACCAGATCAGA
*
43628 TAATTCAAAGAACACTTCCAGAAGATGCTATGAGC
65 TAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
43663 ACATTCATCT
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
113 8 0.09
114 50 0.55
115 33 0.36
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (114 bp):
ATGAGCAAATTCATCTTCCAAATCCAATGATTGATTCTGTGGGTTCATACCAAACCAGATCAGAT
AACTCAAAGAACACTTCCAGAAGATGCTATGAGCCTCCTTATTTCTACC
Found at i:43735 original size:93 final size:93
Alignment explanation
Indices: 43565--43845 Score: 424
Period size: 94 Copynumber: 3.0 Consensus size: 93
43555 TATTTCTACC
* * * *
43565 ATGAGCAAATTCATCTTTCAAATCCAATGATTGATT-T-TGGAGTTCATACCAAA-TCAGATCAG
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGG-TTTCATACCAAACT-AGATCAG
*
43627 ATAATTCAAAGAACACTTCCAGAAGATGCT
64 ATAACTCAAAGAACACTTCCAGAAGATGCT
43657 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACTAGATCAGAT
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACTAGATCAGAT
*
43722 AACTCAAAGAACACTTCCCAAAAGATGCT
66 AACTCAAAGAACACTT-CCAGAAGATGCT
* *
43751 ATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGAT
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACTAGATCAGAT
* *
43816 AACTCAAAGAACACTTCTAGAAGATACT
66 AACTCAAAGAACACTTCCAGAAGATGCT
43844 AT
1 AT
43846 TGGGTCTTCT
Statistics
Matches: 174, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
92 33 0.19
93 47 0.27
94 94 0.54
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.29
Consensus pattern (93 bp):
ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACTAGATCAGAT
AACTCAAAGAACACTTCCAGAAGATGCT
Found at i:44055 original size:23 final size:23
Alignment explanation
Indices: 44025--44070 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44015 TTTTCTCTTA
44025 TTCTGCTTCCTCCATGTGCCGAT
1 TTCTGCTTCCTCCATGTGCCGAT
44048 TTCTGCTTCCTCCATGTGCCGAT
1 TTCTGCTTCCTCCATGTGCCGAT
44071 GCTTTTCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.35, G:0.17, T:0.39
Consensus pattern (23 bp):
TTCTGCTTCCTCCATGTGCCGAT
Found at i:52947 original size:3 final size:3
Alignment explanation
Indices: 52929--52988 Score: 75
Period size: 3 Copynumber: 19.3 Consensus size: 3
52919 TTGTAATATT
* * *
52929 TAA TAAA TAA TAAA TAA TAT TAC TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
52976 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
52989 TTTAATGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 45 0.88
4 6 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:56938 original size:90 final size:91
Alignment explanation
Indices: 56684--56978 Score: 531
Period size: 90 Copynumber: 3.3 Consensus size: 91
56674 ATGGTTTCCT
56684 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCC
1 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCC
*
56749 TGCACTGAAGGTATTACGGATGGCCC
66 TGCACTGAAGGTCTTACGGATGGCCC
*
56775 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCC
1 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCC
56840 TGCACTGAAGGTCTTACGGATGGCCC
66 TGCACTGAAGGTCTTACGGATGGCCC
*
56866 GAAGGACTT-AAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGATCTCATTTGAAAACATCC
1 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCC
*
56930 TGCACTGAAGGTCTTATGGATGGCCC
66 TGCACTGAAGGTCTTACGGATGGCCC
*
56956 GAAGGA-TTTAAAAATCAAGAAAC
1 GAAGGACTTAAAAAATCAAGAAAC
56979 TCTTGAAAAT
Statistics
Matches: 198, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
89 2 0.01
90 98 0.49
91 98 0.49
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (91 bp):
GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCC
TGCACTGAAGGTCTTACGGATGGCCC
Found at i:57128 original size:43 final size:43
Alignment explanation
Indices: 57066--57403 Score: 255
Period size: 43 Copynumber: 7.3 Consensus size: 43
57056 AAATTTATCT
* *
57066 TCAAGGAACCCCTATATATCACGATGGTCCCTCAAGCTTTTCA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
**
57109 TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAATTTATCA
1 TCAAGAAACCCCTACATATCACGATGG--TC-C---C---TCA--AGCTTT-TCA
* *
57164 TCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTTA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
** * *
57207 TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCC
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
* * *
57250 TCAA-AGAACCCTTACATATCATGATGGTCCTTCAAGCTTGTCATCAAATTTGTCA
1 TCAAGA-AACCCCTACATATCACGATGGTCCCTCAA----G----C---TTT-TCA
* *
57305 TCAAGGAACCCCTACATATCACGACGGTCCCTCAAGCTTTTCA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
* * ** *
57348 TTAAGAAACCCCTACATATCACAATGGTTTCTCAAGCTTTTCT
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
*
57391 TCATGAAACCCCT
1 TCAAGAAACCCCT
57404 GAAAATCAGG
Statistics
Matches: 234, Mismatches: 35, Indels: 52
0.73 0.11 0.16
Matches are distributed among these distances:
42 1 0.00
43 142 0.61
44 7 0.03
45 2 0.01
46 4 0.02
47 2 0.01
49 2 0.01
51 2 0.01
52 4 0.02
53 2 0.01
54 6 0.03
55 60 0.26
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (43 bp):
TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
Found at i:57186 original size:98 final size:98
Alignment explanation
Indices: 57013--57254 Score: 380
Period size: 98 Copynumber: 2.5 Consensus size: 98
57003 AAATTGTCAC
* ** ** *
57013 CAAGGAACCCCTACATATCACTTTGGTCCCTCAAG--TGTTCATCAAATTTATCTTCAAGGAACC
1 CAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTG-TCATCAAATTTATCATCAAGGAACC
*
57076 CCTATATATCACGATGGTCCCTCAAGCTTTTCAT
65 CCTACATATCACGATGGTCCCTCAAGCTTTTCAT
57110 CAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAATTTATCATCAAGGAACCC
1 CAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAATTTATCATCAAGGAACCC
*
57175 CTACATATCACGATGGTCCCTCAAGCTTTTTAT
66 CTACATATCACGATGGTCCCTCAAGCTTTTCAT
*
57208 CAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCCTCAAA
1 CAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAA
57255 GAACCCTTAC
Statistics
Matches: 134, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
97 30 0.22
98 102 0.76
99 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (98 bp):
CAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAATTTATCATCAAGGAACCC
CTACATATCACGATGGTCCCTCAAGCTTTTCAT
Found at i:57241 original size:141 final size:141
Alignment explanation
Indices: 57066--57403 Score: 500
Period size: 141 Copynumber: 2.4 Consensus size: 141
57056 AAATTTATCT
* * **
57066 TCAAGGAACCCCTATATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATATCAC
1 TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTTTCATCAAGAAACCCCTACATATCAC
* *
57131 GATGGT-TTCTCAAGCTTGTCATCAAATTTATCATCAAGGAACCCCTACATATCACGATGGTCCC
66 GATGGTCCT-TCAAGCTTGTCATCAAATTTATCATCAAGGAACCCCTACATATCACGACGGTCCC
*
57195 TCAAGCTTTTTA
130 TCAAGCTTTTCA
* * *
57207 TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCCTCAA-AGAACCCTTACATATCA
1 TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTTTCATCAAGA-AACCCCTACATATCA
* *
57271 TGATGGTCCTTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGACGGTCCC
65 CGATGGTCCTTCAAGCTTGTCATCAAATTTATCATCAAGGAACCCCTACATATCACGACGGTCCC
57336 TCAAGCTTTTCA
130 TCAAGCTTTTCA
* * * *
57348 TTAAGAAACCCCTACATATCACAATGGTTTCTCAAGCTTTTCTTCATGAAACCCCT
1 TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTTTCATCAAGAAACCCCT
57404 GAAAATCAGG
Statistics
Matches: 176, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
140 1 0.01
141 173 0.98
142 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (141 bp):
TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTTTCATCAAGAAACCCCTACATATCAC
GATGGTCCTTCAAGCTTGTCATCAAATTTATCATCAAGGAACCCCTACATATCACGACGGTCCCT
CAAGCTTTTCA
Found at i:57534 original size:36 final size:36
Alignment explanation
Indices: 57434--57645 Score: 280
Period size: 36 Copynumber: 5.8 Consensus size: 36
57424 AAAAATATTA
* * * * *
57434 TGTTTCGAGCGAAACTATCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA---TT
* *
57473 TGTTTCAAGTGAAATTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* * *
57509 TATTTCAAGGGAAACCGTCTTAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
57545 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* *
57581 TGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
*
57617 TGTTTCAAGGAAAACTGTCTCAAGGGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGA
57646 TTGTCTCAAG
Statistics
Matches: 154, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
36 126 0.82
39 28 0.18
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
Found at i:57556 original size:21 final size:21
Alignment explanation
Indices: 57530--57626 Score: 65
Period size: 21 Copynumber: 5.2 Consensus size: 21
57520 AAACCGTCTT
57530 AAGGGAGACAAAATTTGTTTC
1 AAGGGAGACAAAATTTGTTTC
* *
57551 AA-GG-G---AAA-CTGTCTC
1 AAGGGAGACAAAATTTGTTTC
57566 AAGGGAGACAAAATTTGTTTC
1 AAGGGAGACAAAATTTGTTTC
* * *
57587 ----GAGA-GAAA-CTGTCTC
1 AAGGGAGACAAAATTTGTTTC
57602 AAGGGAGACAAAATTTGTTTC
1 AAGGGAGACAAAATTTGTTTC
57623 AAGG
1 AAGG
57627 AAAACTGTCT
Statistics
Matches: 54, Mismatches: 10, Indels: 24
0.61 0.11 0.27
Matches are distributed among these distances:
15 12 0.22
16 8 0.15
17 5 0.09
19 5 0.09
20 8 0.15
21 16 0.30
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (21 bp):
AAGGGAGACAAAATTTGTTTC
Found at i:57653 original size:51 final size:51
Alignment explanation
Indices: 57596--57696 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
57586 CGAGAGAAAC
* *
57596 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACTGTCTCAAGGGAGAT
1 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACTATCTAAAGGGAGAT
*
57647 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTAAAGGGAGA
1 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACTATCTAAAGGGAGA
57697 CAAAAATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.25
Consensus pattern (51 bp):
TGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACTATCTAAAGGGAGAT
Found at i:57657 original size:15 final size:15
Alignment explanation
Indices: 57632--57660 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57622 CAAGGAAAAC
57632 TGTCTCAAGGGAGAT
1 TGTCTCAAGGGAGAT
57647 TGTCTCAAGGGAGA
1 TGTCTCAAGGGAGA
57661 CAAAATTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (15 bp):
TGTCTCAAGGGAGAT
Found at i:57676 original size:36 final size:36
Alignment explanation
Indices: 57636--58387 Score: 746
Period size: 36 Copynumber: 20.7 Consensus size: 36
57626 GAAAACTGTC
* *
57636 TCAAGGGAGATTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
* *
57672 TCAAGGGAAACTATCTAAAGGGAGACAAAAATTTTCTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGAC-AAAA--TT-TGTT
* * * *
57712 TCGAGGGAAACTATATTAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
57748 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
* *
57784 TCGAGGGAAACCGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
** * *
57820 TTGAGAGAAATTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
*
57856 TCAAGGGAAACTGTCTCAAGGGAGACAACATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
* *
57892 TCAAGGGAAACCGTCTCAATGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
*
57928 TCAAGGGAAACTGTCTCAAGGGAGAC------TGTC
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
* * * * * ** * * *
57958 TCAATGGAGACAAAATTTTTC-TGTTTCGAGGGAAACTAT-CT
1 TCAA-GG-G--AAACTGTCTCAAG---GGAGACAAAATTTGTT
* * * *
57999 T-AAGGGAGACAAAATTTGTTTCAA-GG-G---AAA-CTGTC
1 TCAA-GG-G---AAA-CTGTCTCAAGGGAGACAAAATTTGTT
*
58034 TCAAGGGACACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
* * * * *
58070 TCGAGAGAAACTGTCTCAATGGAGAGAAATTTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
58106 TCAAGGGAAA-TCGTCTCAAGGGAGACAAAAATTT-TT
1 TCAAGGGAAACT-GTCTCAAGGGAGAC-AAAATTTGTT
* *
58142 TCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
58178 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
58214 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
* *
58250 TCAAGGGAAACCGTCTCAAGGGAGACAAAATCTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
*
58286 GCAAGGGAAACTGTCTCAAGGGAGACAAAATTTTTCTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAA---TT-TGTT
* * * *
58326 TCGAGGGAAACTATCTTAAGGGAGACAAAATATGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
*
58362 TCAAGGGAAACTGTCTCAAAGGAGAC
1 TCAAGGGAAACTGTCTCAAGGGAGAC
58388 TGTCTCAAGG
Statistics
Matches: 598, Mismatches: 82, Indels: 72
0.80 0.11 0.10
Matches are distributed among these distances:
30 14 0.02
31 6 0.01
32 2 0.00
33 1 0.00
34 9 0.02
35 16 0.03
36 454 0.76
37 14 0.02
38 1 0.00
39 8 0.01
40 63 0.11
41 4 0.01
42 6 0.01
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.26
Consensus pattern (36 bp):
TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
Found at i:57844 original size:19 final size:21
Alignment explanation
Indices: 57830--57899 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
57820 TTGAGAGAAA
57830 TTGTCTCAAGGGAGACAAAAT
1 TTGTCTCAAGGGAGACAAAAT
*
57851 TTGTTTCAA-GG-G---AAA-
1 TTGTCTCAAGGGAGACAAAAT
* *
57866 CTGTCTCAAGGGAGACAACAT
1 TTGTCTCAAGGGAGACAAAAT
*
57887 TTGTTTCAAGGGA
1 TTGTCTCAAGGGA
57900 AACCGTCTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
15 7 0.19
16 5 0.14
17 1 0.03
19 1 0.03
20 4 0.11
21 19 0.51
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (21 bp):
TTGTCTCAAGGGAGACAAAAT
Found at i:57966 original size:15 final size:15
Alignment explanation
Indices: 57928--57968 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
57918 AAAATTTGTT
*
57928 TCAAGGGAAACTGTC
1 TCAAGGGAGACTGTC
57943 TCAAGGGAGACTGTC
1 TCAAGGGAGACTGTC
*
57958 TCAATGGAGAC
1 TCAAGGGAGAC
57969 AAAATTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.20
Consensus pattern (15 bp):
TCAAGGGAGACTGTC
Found at i:57968 original size:51 final size:53
Alignment explanation
Indices: 57892--58008 Score: 157
Period size: 51 Copynumber: 2.2 Consensus size: 53
57882 AACATTTGTT
* *
57892 TCAAGGGAAACCGTCTCAATGGAGACAAAA-TT-TGTTTCAAGGGAAACTGTC
1 TCAAGGGAGACCGTCTCAATGGAGACAAAATTTCTGTTTCAAGGGAAACTATC
* *
57943 TCAAGGGAGACTGTCTCAATGGAGACAAAATTTTTCTGTTTCGAGGGAAACTATC
1 TCAAGGGAGACCGTCTCAATGGAGACAAAA--TTTCTGTTTCAAGGGAAACTATC
*
57998 TTAAGGGAGAC
1 TCAAGGGAGAC
58009 AAAATTTGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
51 28 0.49
54 2 0.04
55 27 0.47
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (53 bp):
TCAAGGGAGACCGTCTCAATGGAGACAAAATTTCTGTTTCAAGGGAAACTATC
Found at i:57969 original size:271 final size:270
Alignment explanation
Indices: 57424--58239 Score: 1023
Period size: 271 Copynumber: 2.9 Consensus size: 270
57414 CTTAGTTTCT
* * * * * * * *
57424 AAAAATATTATGTTTCGAGCGAAACTATCTCAAGCGAGATAAAATCTTTTGTTTCAAGTGAAATT
1 AAAAATTTTCTGTTTCGAGGGAAACTATCTTAAGGGAGACAAAA---TTTGTTTCAAGGGAAACT
* * *
57489 GTCTCAAGGGAGACAAAATTTATTTCAAGGGAAACCGTCTTAAGGGAGACAAAATTTGTTTCAAG
63 GTCTCAAGGGAGACAAAATTTGTTTCGAGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAG
*
57554 GGAAACTGTCTCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTG
128 GGAAATTGTCTCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTG
* * * * *
57619 TTTCAAGGAAAACTGTCTCAAGG-G---AGA-TTGTCTCAAGGGAGACAAAATTTGTTTCAAGGG
193 TTTCAAGGGAAACTGTCTCAAGGAGACAAAATTTGTTTCAA-GG-G---AAA-CTGTCTCAAGGG
*
57679 AAACTATCTAAAGGGAGAC
252 AGACTATCTAAAGGGAGAC
*
57698 AAAAATTTTCTGTTTCGAGGGAAACTATATTAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
1 AAAAATTTTCTGTTTCGAGGGAAACTATCTTAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
** *
57763 TCAAGGGAGACAAAATTTGTTTCGAGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTTGAGAGA
66 TCAAGGGAGACAAAATTTGTTTCGAGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGA
* * *
57828 AATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAACATTTGTTT
131 AATTGTCTCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTT
* *
57893 CAAGGGAAACCGTCTCAATGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACTGTC
196 CAAGGGAAACTGTCTCAA-GGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACTATC
* *
57958 TCAATGGAGAC
260 TAAAGGGAGAC
*
57969 AAAATTTTTCTGTTTCGAGGGAAACTATCTTAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
1 AAAAATTTTCTGTTTCGAGGGAAACTATCTTAAGGGAGACAAAATTTGTTTCAA-GG-----G--
* * * *
58034 TCAAGGGACACTGTCTCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCAATGGAGAGAAA
58 ---A---A-ACTGTCTCAAGGGAGACAAAATTTGTTTCGAGGGAAACCGTCTCAAGGGAGACAAA
* *
58099 TTTTGTTTCAAGGGAAATCGTCTCAAGGGAGACAAAAATTT-TTTCGAGAGAAACTGTCTCAAGG
116 ATTTGTTTCAAGGGAAATTGTCTCAAGGGAGAC-AAAATTTGTTTCGAGAGAAACTGTCTCAAGG
58163 GAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGT
180 GAGACAAAATTTGTTTCAAGGGAAACTGTCTCAA-GGAGACAAAATTTGTTTCAAGGGAAACTGT
58228 CTCAAGGGAGAC
244 CTCAAGGGAGAC
58240 AAAATTTGTT
Statistics
Matches: 475, Mismatches: 45, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
271 232 0.49
272 7 0.01
273 1 0.00
274 37 0.08
275 1 0.00
276 4 0.01
277 9 0.02
282 1 0.00
285 1 0.00
286 175 0.37
287 7 0.01
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (270 bp):
AAAAATTTTCTGTTTCGAGGGAAACTATCTTAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
TCAAGGGAGACAAAATTTGTTTCGAGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGA
AATTGTCTCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTT
CAAGGGAAACTGTCTCAAGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACTATCT
AAAGGGAGAC
Found at i:58039 original size:15 final size:15
Alignment explanation
Indices: 58019--58056 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
58009 AAAATTTGTT
58019 TCAAGGGAAACTGTC
1 TCAAGGGAAACTGTC
*
58034 TCAAGGGACACTGTC
1 TCAAGGGAAACTGTC
58049 TCAAGGGA
1 TCAAGGGA
58057 GACAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (15 bp):
TCAAGGGAAACTGTC
Found at i:58055 original size:51 final size:51
Alignment explanation
Indices: 57986--58088 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 51
57976 TTCTGTTTCG
* *
57986 AGGGAAACTATCTTAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCA
1 AGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCA
* * *
58037 AGGGACACTGTCTCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCA
1 AGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCA
58088 A
1 A
58089 TGGAGAGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (51 bp):
AGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCA
Found at i:58181 original size:21 final size:21
Alignment explanation
Indices: 58157--58257 Score: 82
Period size: 21 Copynumber: 5.4 Consensus size: 21
58147 AGAAACTGTC
58157 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* *
58178 TCAA-GG-G---AAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
58193 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* *
58214 TCAA-GG-G---AAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
58229 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
58250 TCAAGGGA
1 TCAAGGGA
58258 AACCGTCTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 24
0.65 0.09 0.26
Matches are distributed among these distances:
15 14 0.23
16 10 0.17
17 2 0.03
19 2 0.03
20 10 0.17
21 22 0.37
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.25
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:58389 original size:15 final size:15
Alignment explanation
Indices: 58371--58402 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
58361 TTCAAGGGAA
58371 ACTGTCTCAAAGGAG
1 ACTGTCTCAAAGGAG
*
58386 ACTGTCTCAAGGGAG
1 ACTGTCTCAAAGGAG
58401 AC
1 AC
58403 AAAATTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (15 bp):
ACTGTCTCAAAGGAG
Found at i:58416 original size:21 final size:21
Alignment explanation
Indices: 58392--58456 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
58382 GGAGACTGTC
58392 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
** *
58413 TCAA-GG-G---AAA-CCGTC
1 TCAAGGGAGACAAAATTTGTT
58428 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
58449 TCAAGGGA
1 TCAAGGGA
58457 AACTGTCTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 6 0.19
16 5 0.16
17 1 0.03
19 1 0.03
20 5 0.16
21 14 0.44
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:58436 original size:36 final size:36
Alignment explanation
Indices: 58389--58471 Score: 157
Period size: 36 Copynumber: 2.3 Consensus size: 36
58379 AAAGGAGACT
58389 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACC
1 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACC
*
58425 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACT
1 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACC
58461 GTCTCAAGGGA
1 GTCTCAAGGGA
58472 AACTGTCTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.23
Consensus pattern (36 bp):
GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACC
Found at i:58469 original size:15 final size:15
Alignment explanation
Indices: 58449--58486 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
58439 AAAATTTGTT
58449 TCAAGGGAAACTGTC
1 TCAAGGGAAACTGTC
58464 TCAAGGGAAACTGTC
1 TCAAGGGAAACTGTC
58479 TCAAGGGA
1 TCAAGGGA
58487 GACAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.18
Consensus pattern (15 bp):
TCAAGGGAAACTGTC
Found at i:58864 original size:34 final size:34
Alignment explanation
Indices: 58820--58918 Score: 144
Period size: 34 Copynumber: 2.9 Consensus size: 34
58810 TCTCAGATAA
* **
58820 AAATTATCTCAAGCGAGACGGAATTTATTTTGAG
1 AAATTATCTCAAGTGAGACAAAATTTATTTTGAG
* *
58854 AAATTGTCTCAAGTGAGACAAAATTTGTTTTGAG
1 AAATTATCTCAAGTGAGACAAAATTTATTTTGAG
*
58888 AAATTATCTCAAGTGAGACAAAATTTTTTTT
1 AAATTATCTCAAGTGAGACAAAATTTATTTT
58919 TAAGAAAAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (34 bp):
AAATTATCTCAAGTGAGACAAAATTTATTTTGAG
Found at i:59101 original size:32 final size:32
Alignment explanation
Indices: 59016--59246 Score: 318
Period size: 32 Copynumber: 7.2 Consensus size: 32
59006 AGGATATTGA
* * * *
59016 ATGCCCCAATATTCGATATTGAATCTCCATAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
*
59048 ATGCCCCAACATTTTGATGTTGAATATCCAAAG
1 ATGCCCCAACA-TTTGATGTTGAATCTCCAAAG
59081 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
*
59113 ATGCCCCAATATTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
* * *
59145 ATGCCCTAATATTTGATGTTAAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
* *
59177 ATACTCCAACATTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
* * * *
59209 ATACCCCAACATATGATGTTGAATATTCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
59241 ATGCCC
1 ATGCCC
59247 TCTATTGCTT
Statistics
Matches: 179, Mismatches: 19, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
32 151 0.84
33 28 0.16
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTCCAAAG
Found at i:60627 original size:21 final size:21
Alignment explanation
Indices: 60585--60627 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
60575 TTTCTAGGCT
* * *
60585 AGGGGAATTGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
60606 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
60627 A
1 A
60628 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:60690 original size:20 final size:20
Alignment explanation
Indices: 60652--60692 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
60642 CCAGAATGCT
* *
60652 AGAGGGGAATCGATACCCCC
1 AGAGGGGAACCAATACCCCC
*
60672 AGAGGGGAACCAATTCCCCC
1 AGAGGGGAACCAATACCCCC
60692 A
1 A
60693 TAATGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.27, T:0.10
Consensus pattern (20 bp):
AGAGGGGAACCAATACCCCC
Found at i:61399 original size:103 final size:103
Alignment explanation
Indices: 61174--61391 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
61164 GTAGAGGGTC
*
61174 TATGTGGTCATTCGGGACATATATGTATTCTTTGAAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAGGTCTGGTGAGACACATAC
*
61239 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
61277 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAGGTCTGGTGAGACACATAC
61342 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
61380 TATGTGGTCCTT
1 TATGTGGTCCTT
61392 ATGGACATTA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAGGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:61459 original size:23 final size:23
Alignment explanation
Indices: 61407--61459 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
61397 CATTATTATA
* *
61407 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGAAATTCTAAG
* * *
61430 CGACACTCCGGTGAAATTCTAAG
1 TGGCACTACGGTGAAATTCTAAG
61453 TGGCACT
1 TGGCACT
61460 TAGGTGCAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (23 bp):
TGGCACTACGGTGAAATTCTAAG
Found at i:67053 original size:10 final size:10
Alignment explanation
Indices: 67038--67065 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
67028 CAGAGTCCTC
67038 TTCTTCTTTA
1 TTCTTCTTTA
67048 TTCTTCTTTA
1 TTCTTCTTTA
67058 TTCTTCTT
1 TTCTTCTT
67066 CATACGTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.71
Consensus pattern (10 bp):
TTCTTCTTTA
Found at i:68331 original size:103 final size:103
Alignment explanation
Indices: 68106--68322 Score: 398
Period size: 103 Copynumber: 2.1 Consensus size: 103
68096 GTAGAGGGTC
*
68106 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAGGTCTGATGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGATGAGACACATAC
*
68171 TTGATCCTTGGTATATGCATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGCATATGATTCTTAAGGAATGA
*
68209 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGATGAGACACATAC
*
68274 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGCATATGATTCTTAAGGAATGA
68312 TATGTGGTCCT
1 TATGTGGTCCT
68323 AATGGACATT
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGATGAGACACATAC
TTGATCCTTGGCATATGCATATGATTCTTAAGGAATGA
Found at i:68389 original size:23 final size:23
Alignment explanation
Indices: 68339--68391 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
68329 CATTATTATA
* *
68339 TGGCACTACGGTGCAATTCTACC
1 TGGCACTACGGTGAAATTCTAAC
* * *
68362 CGGCACTCCGGTGAAATTCTAAG
1 TGGCACTACGGTGAAATTCTAAC
68385 TGGCACT
1 TGGCACT
68392 TAGGTGCAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (23 bp):
TGGCACTACGGTGAAATTCTAAC
Found at i:69353 original size:21 final size:22
Alignment explanation
Indices: 69319--69391 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 22
69309 TTCTTGTCCC
* *
69319 TTTTTCTTTATTTTCTTTCTTT
1 TTTTTCCTTATTTTCTTTATTT
69341 TTTTTCCTT-TTTTCTTTATTT
1 TTTTTCCTTATTTTCTTTATTT
** *
69362 TTTCTTTATTATCCTTACTTTATTT
1 TTT-TTCCTTAT--TTTCTTTATTT
69387 TTTTT
1 TTTTT
69392 TATTTTTTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
21 14 0.33
22 12 0.29
23 1 0.02
24 2 0.05
25 13 0.31
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTCCTTATTTTCTTTATTT
Found at i:69356 original size:17 final size:18
Alignment explanation
Indices: 69334--69368 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
69324 CTTTATTTTC
69334 TTTCTTT-TTTTTCCTTT
1 TTTCTTTATTTTTCCTTT
*
69351 TTTCTTTATTTTTTCTTT
1 TTTCTTTATTTTTCCTTT
69369 ATTATCCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTCTTTATTTTTCCTTT
Found at i:69400 original size:11 final size:11
Alignment explanation
Indices: 69319--69399 Score: 71
Period size: 11 Copynumber: 7.5 Consensus size: 11
69309 TTCTTGTCCC
69319 TTTTTCTTTA-
1 TTTTTCTTTAT
*
69329 -TTTTCTTTCT
1 TTTTTCTTTAT
**
69339 TTTTT-TTCCT
1 TTTTTCTTTAT
69349 TTTTTCTTTAT
1 TTTTTCTTTAT
69360 TTTTTCTTTAT
1 TTTTTCTTTAT
*
69371 TATCCTTACTTTAT
1 T-T--TTTCTTTAT
69385 TTTTT-TTTAT
1 TTTTTCTTTAT
69395 TTTTT
1 TTTTT
69400 TCCTCTTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
9 8 0.14
10 19 0.32
11 21 0.36
12 1 0.02
13 1 0.02
14 9 0.15
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTTTAT
Found at i:70610 original size:19 final size:19
Alignment explanation
Indices: 70583--70619 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
70573 AATGAATGTT
*
70583 ATGCAAAATGTAAATGCAG
1 ATGCAAAATGCAAATGCAG
*
70602 ATGCCAAATGCAAATGCA
1 ATGCAAAATGCAAATGCA
70620 AAAGGTGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (19 bp):
ATGCAAAATGCAAATGCAG
Found at i:76338 original size:26 final size:25
Alignment explanation
Indices: 76275--76338 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
76265 GCAAATATTG
76275 TAAA-ATAATAT-TAATAATAATAA
1 TAAATATAATATATAATAATAATAA
*
76298 T-AATA-ATATACTATAGTATATAATAA
1 TAAATATA-ATA-TATAATA-ATAATAA
76324 TAAATATAATATATA
1 TAAATATAATATATA
76339 TTTTAATCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
22 3 0.09
23 5 0.15
24 1 0.03
25 4 0.12
26 12 0.36
27 7 0.21
28 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
TAAATATAATATATAATAATAATAA
Found at i:77051 original size:28 final size:30
Alignment explanation
Indices: 76994--77052 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
76984 AATTATTAAA
*
76994 AAAAACAAAAAATAAAAAAAATAAGCATAT
1 AAAAACAAAAAATAAAAAAAATAAGAATAT
* *
77024 AAAAA-AATAAATAAAAAACA-AAGAATAT
1 AAAAACAAAAAATAAAAAAAATAAGAATAT
77052 A
1 A
77053 GACGACCGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 13 0.50
30 5 0.19
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (30 bp):
AAAAACAAAAAATAAAAAAAATAAGAATAT
Found at i:95220 original size:30 final size:29
Alignment explanation
Indices: 95173--95248 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 29
95163 AGATATATTA
*
95173 CTATTAC-TTACTCCCCTAGTCTTTCAAG
1 CTATTACTTTACTTCCCTAGTCTTTCAAG
95201 CTATTACTTTTACTTCCCTAGTCTTTCAAG
1 CTATTAC-TTTACTTCCCTAGTCTTTCAAG
95231 CTATTACTCTTACTTCCC
1 CTATTACT-TTACTTCCC
95249 CTATTACTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
28 7 0.16
29 1 0.02
30 36 0.82
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.43
Consensus pattern (29 bp):
CTATTACTTTACTTCCCTAGTCTTTCAAG
Found at i:96050 original size:68 final size:67
Alignment explanation
Indices: 95969--96278 Score: 221
Period size: 70 Copynumber: 4.5 Consensus size: 67
95959 GATCCTGAAA
* * * ** *
95969 GATTAGACTGACTCATACGGGAACACCTAATCATATTATTCCATGTGACTCGTACGGAAGCCCCG
1 GATTAGAGTGACTCACACGGGAACACCTAATCATATTATTCCAGGTGACTCACATGG-AGCCCCG
96034 AAG
65 AAG
* * * * *
96037 GATTAGAGTGACTCGCACGAGAGA-ACCTAATCATATCACATTCTAGGTGATTCACATGGGAGCC
1 GATTAGAGTGACTCACACGGGA-ACACCTAATCATAT--TATTCCAGGTGACTCACAT-GGAGCC
**
96101 TTGAAG
62 CCGAAG
* * * * *
96107 GATCAGAGTGACTCGCATGGGAGCACCTAAT-AGTATTATTTCAGGTGACTCACATGGAGCCCCG
1 GATTAGAGTGACTCACACGGGAACACCTAATCA-TATTATTCCAGGTGACTCACATGGAGCCCCG
96171 AAG
65 AAG
* * * * * *** * *
96174 GATTAAAATGACTCACACGTGAGCACCTAATCATACCTCATTATGGGTGACTCTCACGGGAG-CC
1 GATTAGAGTGACTCACACGGGAACACCTAATCATA--TTATTCCAGGTGACTCACA-TGGAGCCC
*
96238 CTAAGG
63 CGAA-G
* * *
96244 GATTATAGTGACTCGCACGGGGACACCTAATCATA
1 GATTAGAGTGACTCACACGGGAACACCTAATCATA
96279 CCTCATTTCA
Statistics
Matches: 189, Mismatches: 42, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
67 37 0.20
68 46 0.24
69 21 0.11
70 83 0.44
71 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (67 bp):
GATTAGAGTGACTCACACGGGAACACCTAATCATATTATTCCAGGTGACTCACATGGAGCCCCGA
AG
Found at i:96118 original size:70 final size:69
Alignment explanation
Indices: 96027--96278 Score: 226
Period size: 70 Copynumber: 3.6 Consensus size: 69
96017 CTCGTACGGA
* *
96027 AGCCCCGAAGGATTAGAGTGACTCGCACGAGAGAACCTAATCATATCACATTCTAGGTGATTCAC
1 AGCCCTGAAGGATTAGAGTGACTCGCACG-GAGAACCTAATCATATCACATTCTAGGTGACTCAC
96092 ATGGG
65 ATGGG
* * * * * *
96097 AGCCTTGAAGGATCAGAGTGACTCGCATGGGAGCACCTAAT-AGTATTA-TTTC-AGGTGACTCA
1 AGCCCTGAAGGATTAGAGTGACTCGCA-CGGAGAACCTAATCA-TATCACATTCTAGGTGACTCA
96159 CAT-GG
64 CATGGG
* * * * * * * * * *
96164 AGCCCCGAAGGATTAAAATGACTCACACGTGAGCACCTAATCATACCTCATTATGGGTGACTCTC
1 AGCCCTGAAGGATTAGAGTGACTCGCACG-GAGAACCTAATCATATCACATTCTAGGTGACTCAC
*
96229 ACGGG
65 ATGGG
* *
96234 AGCCCT-AAGGGATTATAGTGACTCGCACGGGGACACCTAATCATA
1 AGCCCTGAA-GGATTAGAGTGACTCGCACGGAGA-ACCTAATCATA
96279 CCTCATTTCA
Statistics
Matches: 144, Mismatches: 29, Indels: 18
0.75 0.15 0.09
Matches are distributed among these distances:
66 1 0.01
67 36 0.25
68 15 0.10
69 18 0.12
70 73 0.51
71 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (69 bp):
AGCCCTGAAGGATTAGAGTGACTCGCACGGAGAACCTAATCATATCACATTCTAGGTGACTCACA
TGGG
Found at i:96235 original size:137 final size:138
Alignment explanation
Indices: 95985--96278 Score: 335
Period size: 137 Copynumber: 2.1 Consensus size: 138
95975 ACTGACTCAT
* * ** * *
95985 ACGGGAACACCTAATCATATTATTCCATGTGACTCGTACGGAAGCCCCGAAGGATTAGAGTGACT
1 ACGGGAGCACCTAATCATATTATTCCAGGTGACTCACACGGAAGCCCCGAAGGATTAAAATGACT
* * * * * *
96050 CGCACGAGAGAACCTAATCATATCACATTCTAGGTGATTCACATGGGAGCCTTGAA-GGATCAGA
66 CACACGAGAGAACCTAATCATACCACATTATAGGTGACTCACACGGGAGCCCT-AAGGGATCAGA
96114 GTGACTCGC
130 GTGACTCGC
* * *
96123 ATGGGAGCACCTAAT-AGTATTATTTCAGGTGACTCACATGG-AGCCCCGAAGGATTAAAATGAC
1 ACGGGAGCACCTAATCA-TATTATTCCAGGTGACTCACACGGAAGCCCCGAAGGATTAAAATGAC
* * * * * * *
96186 TCACACGTGAGCACCTAATCATACCTCATTATGGGTGACTCTCACGGGAGCCCTAAGGGATTATA
65 TCACACGAGAGAACCTAATCATACCACATTATAGGTGACTCACACGGGAGCCCTAAGGGATCAGA
96251 GTGACTCGC
130 GTGACTCGC
96260 ACGGG-GACACCTAATCATA
1 ACGGGAG-CACCTAATCATA
96279 CCTCATTTCA
Statistics
Matches: 129, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
136 3 0.02
137 93 0.72
138 33 0.26
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (138 bp):
ACGGGAGCACCTAATCATATTATTCCAGGTGACTCACACGGAAGCCCCGAAGGATTAAAATGACT
CACACGAGAGAACCTAATCATACCACATTATAGGTGACTCACACGGGAGCCCTAAGGGATCAGAG
TGACTCGC
Found at i:102830 original size:14 final size:15
Alignment explanation
Indices: 102819--102847 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
102809 TTAAATTACT
102819 AATA-AAAGATTAAA
1 AATAGAAAGATTAAA
102833 AATAGAAAGATTAAA
1 AATAGAAAGATTAAA
102848 TTATGATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (15 bp):
AATAGAAAGATTAAA
Found at i:104980 original size:21 final size:21
Alignment explanation
Indices: 104934--104981 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
104924 GATTTTGACT
*
104934 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTACAAA
* * *
104955 TTCGCGTTGCGATTTTATAAA
1 ATCGCATTGCGATTTTACAAA
104976 ATCGCA
1 ATCGCA
104982 ATACGAATAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (21 bp):
ATCGCATTGCGATTTTACAAA
Found at i:105019 original size:20 final size:20
Alignment explanation
Indices: 104996--105037 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
104986 GAATATGTAA
*
104996 ATCGCAACACGATTCTTACT
1 ATCGCAACACGATTCTGACT
*
105016 ATCGCAACGCGATTCTGACT
1 ATCGCAACACGATTCTGACT
105036 AT
1 AT
105038 TGTGTTGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (20 bp):
ATCGCAACACGATTCTGACT
Found at i:105240 original size:22 final size:22
Alignment explanation
Indices: 105207--105264 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
105197 TCACTCTCTA
*
105207 CGGCGACATCCGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
* **
105229 TGTTGAAATCCGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
105251 CGGCGAAATCCGTC
1 CGGCGAAATCCGTC
105265 TATCTTCATC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.17, C:0.41, G:0.19, T:0.22
Consensus pattern (22 bp):
CGGCGAAATCCGTCCCCATCTC
Found at i:105647 original size:14 final size:14
Alignment explanation
Indices: 105613--105639 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
105603 GATCGCAACG
105613 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
105627 CGTTGCGATTTTC
1 CGTTGCGATTTTC
105640 ATTTTGCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.22, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTCT
Found at i:105651 original size:19 final size:20
Alignment explanation
Indices: 105620--105697 Score: 104
Period size: 20 Copynumber: 4.0 Consensus size: 20
105610 ACGCGTTGCG
*
105620 ATTTTCTCGTTGCGATTTTC
1 ATTTTCGCGTTGCGATTTTC
**
105640 ATTTT-GCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATTTTC
*
105659 ATTTTCGTGTTGCGATTTTC
1 ATTTTCGCGTTGCGATTTTC
*
105679 ATTTTCGTGTTGCGATTTT
1 ATTTTCGCGTTGCGATTTT
105698 AAGTTTCAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.31
20 35 0.69
ACGTcount: A:0.12, C:0.15, G:0.21, T:0.53
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATTTTC
Found at i:105672 original size:20 final size:20
Alignment explanation
Indices: 105628--105697 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
105618 CGATTTTCTC
*
105628 GTTGCGATTTTCATTTT-GC
1 GTTGCGATTTTCATTTTCGT
**
105647 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
105667 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
105687 GTTGCGATTTT
1 GTTGCGATTTT
105698 AAGTTTCAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 15 0.33
20 30 0.67
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:105704 original size:20 final size:20
Alignment explanation
Indices: 105661--105704 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
105651 CGATAGTCAT
* *
105661 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
105681 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
105701 TTTC
1 TTTC
105705 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:107638 original size:20 final size:20
Alignment explanation
Indices: 107613--107661 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
107603 TGAAACTAAA
107613 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
107633 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
107653 ATCGCAACG
1 ATCGCAACG
107662 GGATAATCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:107771 original size:20 final size:20
Alignment explanation
Indices: 107743--107790 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
107733 CGATTATCTT
* *
107743 GTTGTGATAGTCATTTTTGC
1 GTTGCGATAGTCATTTTCGC
107763 GTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCATTTTCGC
107783 GTTGCGAT
1 GTTGCGAT
107791 TTTAAGTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.27, T:0.44
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGC
Found at i:107800 original size:20 final size:20
Alignment explanation
Indices: 107777--107820 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
107767 CGATAGTCAT
107777 TTTCGCGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
*
107797 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
107817 TTTC
1 TTTC
107821 AGAAACTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAG
Found at i:108391 original size:21 final size:21
Alignment explanation
Indices: 108300--108403 Score: 102
Period size: 21 Copynumber: 5.0 Consensus size: 21
108290 GACTCACCTG
*
108300 TCATCGTTCAAGAGGCCTCTCA
1 TCATCGTTCAAGAGGCCCCT-A
108322 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTA
** * *
108342 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTA
* * *
108363 CCAGCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTA
* *
108384 TCATCGTTGAAGAGGTCCCT
1 TCATCGTTCAAGAGGCCCCT
108404 CCCACCATTC
Statistics
Matches: 66, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
20 2 0.03
21 63 0.95
22 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:108397 original size:42 final size:42
Alignment explanation
Indices: 108296--108418 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
108286 GCCCGACTCA
* * ** *
108296 CCTGTCATCGTTCAAGAGGCCTCTCATATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
* ** *
108338 CCTATCATCCCTCAAGAGTCCCCTCCCAGCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
* *
108380 CCTGTCATCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 CCTGTCATCGTTCAAGA-GTCCCCTCCCACCGTTCAAGAG
108419 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 64 0.97
43 2 0.03
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.23
Consensus pattern (42 bp):
CCTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
Found at i:108417 original size:21 final size:21
Alignment explanation
Indices: 108349--108418 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
108339 CTATCATCCC
*
108349 TCAAGA-GTCCCCTCCCAGCGT
1 TCAAGAGGT-CCCTCCCACCGT
* ** *
108370 TCAAGAGGCCCCTGTCATCGT
1 TCAAGAGGTCCCTCCCACCGT
* *
108391 TGAAGAGGTCCCTCCCACCAT
1 TCAAGAGGTCCCTCCCACCGT
108412 TCAAGAG
1 TCAAGAG
108419 CCCGATTCAC
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.23, C:0.36, G:0.21, T:0.20
Consensus pattern (21 bp):
TCAAGAGGTCCCTCCCACCGT
Found at i:109822 original size:14 final size:14
Alignment explanation
Indices: 109803--109837 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
109793 GCTTGTTTAA
109803 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
109817 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
109831 TTGATTT
1 TTGATTT
109838 TCTCTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:109989 original size:20 final size:20
Alignment explanation
Indices: 109964--110029 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
109954 AAGTACACTT
*
109964 TCGCAATACTAAACTCAAAA
1 TCGCAATACAAAACTCAAAA
* *
109984 TCGCAATGCAAAAGTCAAAA
1 TCGCAATACAAAACTCAAAA
*
110004 TCGCAATGCAAAAGC-CAAAA
1 TCGCAATACAAAA-CTCAAAA
*
110024 TTGCAA
1 TCGCAA
110030 CGCGAAAGTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.48, C:0.23, G:0.12, T:0.17
Consensus pattern (20 bp):
TCGCAATACAAAACTCAAAA
Found at i:110037 original size:20 final size:20
Alignment explanation
Indices: 109979--110029 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
109969 ATACTAAACT
*
109979 CAAAATCGCAATGCAAAAGT
1 CAAAATCGCAATGCAAAAGC
109999 CAAAATCGCAATGCAAAAGC
1 CAAAATCGCAATGCAAAAGC
*
110019 CAAAATTGCAA
1 CAAAATCGCAA
110030 CGCGAAAGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.51, C:0.22, G:0.14, T:0.14
Consensus pattern (20 bp):
CAAAATCGCAATGCAAAAGC
Found at i:110086 original size:20 final size:20
Alignment explanation
Indices: 110061--110157 Score: 158
Period size: 20 Copynumber: 4.8 Consensus size: 20
110051 GCGATTTTCT
*
110061 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
110081 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
110101 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
110121 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
110141 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
110158 GAATGTGTAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:110498 original size:12 final size:12
Alignment explanation
Indices: 110483--110511 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
110473 TGGGATTTTG
110483 ATTTTGATTGCC
1 ATTTTGATTGCC
110495 ATTTTGATTGCC
1 ATTTTGATTGCC
110507 ATTTT
1 ATTTT
110512 CTTGGCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (12 bp):
ATTTTGATTGCC
Found at i:110930 original size:24 final size:25
Alignment explanation
Indices: 110892--110940 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
110882 CATGACCACA
*
110892 CATATAACCAGATGT-TTTCCATTT
1 CATATAACCACATGTCTTTCCATTT
* *
110916 CATATAACTACATGTCTTTGCATTT
1 CATATAACCACATGTCTTTCCATTT
110941 AGATCTACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (25 bp):
CATATAACCACATGTCTTTCCATTT
Found at i:112793 original size:24 final size:24
Alignment explanation
Indices: 112766--112819 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
112756 CTGAAATATC
112766 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
112790 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
112814 ATCAAA
1 ATCAAA
112820 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:112833 original size:24 final size:24
Alignment explanation
Indices: 112766--112833 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
112756 CTGAAATATC
* * *
112766 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
112790 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
112814 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
112834 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:113673 original size:20 final size:20
Alignment explanation
Indices: 113641--113748 Score: 119
Period size: 20 Copynumber: 5.3 Consensus size: 20
113631 AAATTCAGCA
*
113641 TTGCGACAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
* *
113661 TTACGATAGTCAGAATCGAG
1 TTGCGATAGTCAGAATCGCG
**
113681 TTGCGATTATGT-ATTATCGCG
1 TTGCGA-TA-GTCAGAATCGCG
*
113702 TTGCGATAATCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
* *
113722 TTGCAATAGTCAGAATCGTG
1 TTGCGATAGTCAGAATCGCG
113742 TTGCGAT
1 TTGCGAT
113749 TTACATATTC
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.01
20 54 0.76
21 14 0.20
22 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:113781 original size:61 final size:61
Alignment explanation
Indices: 113638--113768 Score: 149
Period size: 61 Copynumber: 2.2 Consensus size: 61
113628 TTGAAATTCA
* * * * **
113638 GCATTGCGACAGTCAGAATCGCGTTACGATAGTCAGAATCGAGTTGCGATTATGTATTATC
1 GCATTGCGATAATCAAAATCGCGTTACAATAGTCAGAATCGAGTTGCGATTACATATTATC
* * * *
113699 GCGTTGCGATAATCAGAATCGCGTTGCAATAGTCAGAATCGTGTTGCGATTTACATA-T-TC
1 GCATTGCGATAATCAAAATCGCGTTACAATAGTCAGAATCGAGTTGCGA-TTACATATTATC
113759 GCATTGCGAT
1 GCATTGCGAT
113769 TTTCTAAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
60 11 0.18
61 44 0.73
62 5 0.08
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (61 bp):
GCATTGCGATAATCAAAATCGCGTTACAATAGTCAGAATCGAGTTGCGATTACATATTATC
Found at i:113867 original size:20 final size:19
Alignment explanation
Indices: 113844--113889 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
113834 GGAAACTGAT
* *
113844 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
113864 TTGCGATGTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
113883 TTGCGAT
1 TTGCGAT
113890 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:114077 original size:18 final size:18
Alignment explanation
Indices: 114054--114091 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
114044 CTAATCATCA
114054 TTAAATT-TAGATTTAATT
1 TTAAATTATAGATTT-ATT
*
114072 TTAAATTATTGATTTATT
1 TTAAATTATAGATTTATT
114090 TT
1 TT
114092 CCTATGAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TTAAATTATAGATTTATT
Found at i:116281 original size:2 final size:2
Alignment explanation
Indices: 116276--116312 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
116266 TTTTAAAAAC
116276 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
116313 TAAAATCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:118084 original size:29 final size:30
Alignment explanation
Indices: 118021--118084 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 30
118011 CTTTGTAGCA
* * *
118021 TATTTTTCTCTGTCTTTGTAATACGTTTTT
1 TATTTTTCTCAGTCGTTGTAATACATTTTT
*
118051 CATTTTTCTCAGTCGTT-TAAT-CATTCTTT
1 TATTTTTCTCAGTCGTTGTAATACATT-TTT
118080 TATTT
1 TATTT
118085 ATGTTTTCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 3 0.11
29 11 0.39
30 14 0.50
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.61
Consensus pattern (30 bp):
TATTTTTCTCAGTCGTTGTAATACATTTTT
Found at i:118634 original size:6 final size:6
Alignment explanation
Indices: 118623--118674 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
118613 AAACTCTTCA
* * * *
118623 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTC TTCTTC ATCTTC TTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
118671 TTCT
1 TTCT
118675 ATTGTCGCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (6 bp):
TTCTTT
Found at i:118646 original size:18 final size:18
Alignment explanation
Indices: 118617--118674 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
118607 CTCGTTAAAC
118617 TCTTCATTCTTTTTCTTTT
1 TCTTC-TTCTTTTTCTTTT
* *
118636 TCTTTTTCTTTTTCTTCT
1 TCTTCTTCTTTTTCTTTT
* *
118654 TCTTCATCTTCTTCTTTT
1 TCTTCTTCTTTTTCTTTT
118672 TCT
1 TCT
118675 ATTGTCGCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 29 0.88
19 4 0.12
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.72
Consensus pattern (18 bp):
TCTTCTTCTTTTTCTTTT
Found at i:121664 original size:26 final size:23
Alignment explanation
Indices: 121617--121662 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
121607 AGATCTAAAA
121617 CAACAAAAATACCAATTTTCTTC
1 CAACAAAAATACCAATTTTCTTC
*
121640 CAACAAAAATACCAACTTTCTTC
1 CAACAAAAATACCAATTTTCTTC
121663 TTTCTCTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.28
Consensus pattern (23 bp):
CAACAAAAATACCAATTTTCTTC
Found at i:122976 original size:17 final size:18
Alignment explanation
Indices: 122940--122976 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
122930 AATATCTAAA
122940 ATAATATGCAATACTATTT
1 ATAATATGCAATA-TATTT
122959 ATAATATGCAAT-TATTT
1 ATAATATGCAATATATTT
122976 A
1 A
122977 ATATGAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (18 bp):
ATAATATGCAATATATTT
Found at i:123730 original size:14 final size:14
Alignment explanation
Indices: 123711--123739 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
123701 TCCCTTTATG
123711 AAGGATTGAGTAAC
1 AAGGATTGAGTAAC
123725 AAGGATTGAGTAAC
1 AAGGATTGAGTAAC
123739 A
1 A
123740 TGAAAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.21
Consensus pattern (14 bp):
AAGGATTGAGTAAC
Found at i:124540 original size:21 final size:21
Alignment explanation
Indices: 124516--124556 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
124506 TTTCCTTTCT
* *
124516 ATTTTTTTTCTTTTTTTCTTC
1 ATTTTTCTTATTTTTTTCTTC
124537 ATTTTTCTTATTTTTTTCTT
1 ATTTTTCTTATTTTTTTCTT
124557 TTTCTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (21 bp):
ATTTTTCTTATTTTTTTCTTC
Found at i:124541 original size:17 final size:17
Alignment explanation
Indices: 124520--124563 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
124510 CTTTCTATTT
124520 TTTTTCTTTTTTTCTTCA
1 TTTTTCTTTTTTT-TTCA
124538 TTTTTCTTATTTTTTTC-
1 TTTTTCTT-TTTTTTTCA
124555 TTTTTCTTT
1 TTTTTCTTT
124564 AAAACTTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.04
17 8 0.32
18 11 0.44
19 5 0.20
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTCA
Found at i:125232 original size:6 final size:5
Alignment explanation
Indices: 125224--125278 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
125214 TGAACCCTCA
125224 TTTTC ATTTT- TTTTC TTTTTC TTTT- TCTTT- TTTTC TTTTC TTTTC
1 TTTTC -TTTTC TTTTC -TTTTC TTTTC T-TTTC TTTTC TTTTC TTTTC
125269 TTCTTC TTTT
1 TT-TTC TTTT
125279 ATCTTCAAGC
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
4 8 0.18
5 22 0.50
6 14 0.32
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:125255 original size:13 final size:13
Alignment explanation
Indices: 125233--125273 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
125223 ATTTTCATTT
125233 TTTTTC-TTTTTC
1 TTTTTCTTTTTTC
125245 TTTTTCTTTTTT-
1 TTTTTCTTTTTTC
125257 TCTTTTCTTTTCTTC
1 T-TTTTCTTTT-TTC
125272 TT
1 TT
125274 CTTTTATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 7 0.28
13 14 0.56
14 3 0.12
15 1 0.04
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:125267 original size:24 final size:24
Alignment explanation
Indices: 125230--125278 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
125220 CTCATTTTCA
*
125230 TTTTTTTTCTTTTTCTTTTTCTTT
1 TTTTTTTTCTTTTTCTTCTTCTTT
125254 TTTTCTTTTC-TTTTCTTCTTCTTT
1 TTTT-TTTTCTTTTTCTTCTTCTTT
125278 T
1 T
125279 ATCTTCAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (24 bp):
TTTTTTTTCTTTTTCTTCTTCTTT
Found at i:125268 original size:30 final size:31
Alignment explanation
Indices: 125224--125283 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
125214 TGAACCCTCA
*
125224 TTTTCATTTTTTTTCTTTTTCTTTT-TCTTT
1 TTTTCATTTTTTTTCTTCTTCTTTTATCTTT
125254 TTTTC-TTTTCTTTTCTTCTTCTTTTATCTT
1 TTTTCATTTT-TTTTCTTCTTCTTTTATCTT
125284 CAAGCATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
30 19 0.70
31 4 0.15
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (31 bp):
TTTTCATTTTTTTTCTTCTTCTTTTATCTTT
Found at i:125283 original size:13 final size:12
Alignment explanation
Indices: 125236--125284 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
125226 TTCATTTTTT
*
125236 TTCTTTTTCTTT
1 TTCTTTTTCTTC
125248 TTCTTTTT-TTC
1 TTCTTTTTCTTC
*
125259 TTTTCTTTTCTTC
1 TTCT-TTTTCTTC
125272 TTCTTTTATCTTC
1 TTCTTTT-TCTTC
125285 AAGCATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 5 0.16
12 15 0.48
13 11 0.35
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (12 bp):
TTCTTTTTCTTC
Done.