Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 40 of 62
Found at i:9438228 original size:66 final size:65
Alignment explanation
Indices: 9438135--9438394 Score: 208
Period size: 66 Copynumber: 3.8 Consensus size: 65
9438125 ATATATTTGT
* *
9438135 TATATAG-TTTAAAAACATTTTTAAAACATGTATATAATATATAGTTTTGAAAACATGTATATAA
1 TATATAGTTTTAAAAACATTTTGAAAACATATATATAATATATAGTTTTGAAAACATGTATATAA
* * * *
9438199 TATATAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATAGTTTTTAAAACATTTTGAAA
1 TATATAGTTTTAAAAACAT-TTTGAAAACATATATATAATATATAGTTTTGAAAACA---TG---
9438264 ATAAATATAA
59 -T--ATATAA
* * * *
9438274 TATATAGTTTTTAAAACATGTTTG-AAA-ATATATATATTATATAGTTTT-TAAACAT-TTTGAA
1 TATATAGTTTTAAAAACAT-TTTGAAAACATATATATAATATATAGTTTTGAAAACATGTAT--A
*
9438335 AATA
63 TA-A
*
9438339 TATATAGTTTTAAAAAACAATTTTAAAAAACATATATAT-ATACTATAGTTTTGAAA
1 TATATAGTTTT-AAAAAC-ATTTT-GAAAACATATATATAATA-TATAGTTTTGAAA
9438395 TCATTTTGAA
Statistics
Matches: 161, Mismatches: 14, Indels: 36
0.76 0.07 0.17
Matches are distributed among these distances:
62 1 0.01
64 10 0.06
65 22 0.14
66 41 0.25
67 2 0.01
68 5 0.03
69 20 0.12
70 2 0.01
72 5 0.03
73 21 0.13
74 3 0.02
75 29 0.18
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.42
Consensus pattern (65 bp):
TATATAGTTTTAAAAACATTTTGAAAACATATATATAATATATAGTTTTGAAAACATGTATATAA
Found at i:9438291 original size:75 final size:72
Alignment explanation
Indices: 9438193--9438344 Score: 250
Period size: 75 Copynumber: 2.1 Consensus size: 72
9438183 GAAAACATGT
*
9438193 ATATAATATATAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATAGTTTTTAAAACATT
1 ATATAATATATAGTTTTGAAAACATGTTTG-AAA-ATATATATATTATATAGTTTTT-AAACATT
9438258 TTGAAAATAA
63 TTGAAAATAA
*
9438268 ATATAATATATAGTTTTTAAAACATGTTTGAAAATATATATATTATATAGTTTTTAAACATTTTG
1 ATATAATATATAGTTTTGAAAACATGTTTGAAAATATATATATTATATAGTTTTTAAACATTTTG
*
9438333 AAAATAT
66 AAAATAA
9438340 ATATA
1 ATATA
9438345 GTTTTAAAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
72 21 0.28
73 21 0.28
74 3 0.04
75 29 0.39
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.44
Consensus pattern (72 bp):
ATATAATATATAGTTTTGAAAACATGTTTGAAAATATATATATTATATAGTTTTTAAACATTTTG
AAAATAA
Found at i:9438364 original size:13 final size:13
Alignment explanation
Indices: 9438346--9438370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9438336 ATATATATAG
9438346 TTTTAAAAAACAA
1 TTTTAAAAAACAA
9438359 TTTTAAAAAACA
1 TTTTAAAAAACA
9438371 TATATATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTTAAAAAACAA
Found at i:9438379 original size:36 final size:34
Alignment explanation
Indices: 9438193--9438380 Score: 165
Period size: 36 Copynumber: 5.3 Consensus size: 34
9438183 GAAAACATGT
* *
9438193 ATATAATATATAGTTTTGAAAACATGTTTGAAAACATTT
1 ATAT-ATATATAGTTTTTAAAACAT-TTTGAAAA-A--A
9438232 ATATATTATATAGTTTTTAAAACATTTTGAAAATAA
1 ATATA-TATATAGTTTTTAAAACATTTTGAAAA-AA
*
9438268 ATATAATATATAGTTTTTAAAACATGTTTGAAAATAT
1 ATAT-ATATATAGTTTTTAAAACAT-TTTGAAAA-AA
9438305 ATATATTATATAGTTTTT-AAACATTTTG----AA
1 ATATA-TATATAGTTTTTAAAACATTTTGAAAAAA
*
9438335 A-ATATATATAGTTTTAAAAAACAATTTT-AAAAAA
1 ATATATATATAGTTTT-TAAAAC-ATTTTGAAAAAA
9438369 CATATATATATA
1 -ATATATATATA
9438381 CTATAGTTTT
Statistics
Matches: 130, Mismatches: 6, Indels: 29
0.79 0.04 0.18
Matches are distributed among these distances:
28 11 0.08
29 3 0.02
30 6 0.05
31 5 0.04
34 2 0.02
35 5 0.04
36 39 0.30
37 27 0.21
38 10 0.08
39 22 0.17
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (34 bp):
ATATATATATAGTTTTTAAAACATTTTGAAAAAA
Found at i:9438412 original size:69 final size:68
Alignment explanation
Indices: 9438301--9438479 Score: 190
Period size: 70 Copynumber: 2.6 Consensus size: 68
9438291 ATGTTTGAAA
* *
9438301 ATATATATATTATATAGTTTTTAAA-CATTTTGAAAATATATA-TAGTTTTAAAAAACAATTTT-
1 ATATATATA-TATATAGTTTTAAAATCATTTTGAAAATATATACT--TTTGAAAAAA-AATTTTC
9438363 AAAAAAC
62 AAAAAAC
* * **
9438370 ATATATATATACTATAGTTTTGAAATCATTTTGAAAACTATATACTTTTGAAAATATTTTTTCAA
1 ATATATATATA-TATAGTTTTAAAATCATTTTGAAAA-TATATACTTTTGAAAAAAAATTTTCAA
9438435 AAAAC
64 AAAAC
*
9438440 ATATA-ATATATA-A-TTTTAAAATACTTTTTGAAAATATATA
1 ATATATATATATATAGTTTTAAAAT-CATTTTGAAAATATATA
9438480 TTATATAGTT
Statistics
Matches: 97, Mismatches: 7, Indels: 15
0.82 0.06 0.13
Matches are distributed among these distances:
66 14 0.14
67 11 0.11
68 4 0.04
69 30 0.31
70 31 0.32
71 6 0.06
72 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (68 bp):
ATATATATATATATAGTTTTAAAATCATTTTGAAAATATATACTTTTGAAAAAAAATTTTCAAAA
AAC
Found at i:9438449 original size:71 final size:68
Alignment explanation
Indices: 9438301--9438480 Score: 190
Period size: 69 Copynumber: 2.6 Consensus size: 68
9438291 ATGTTTGAAA
* *
9438301 ATATATATATTATATAGTTTTTAAACATTTTGAAAATATATATAGTTTTAAAAAACAATTTTAAA
1 ATATATATA-TATATAGTTTTGAAACATTTTGAAAATATATATACTTTTAAAAAACAATTTTAAA
9438366 AAAC
65 AAAC
* * **
9438370 ATATATATATACTATAGTTTTGAAATCATTTTGAAAA-CTATATACTTTTGAAAATA-TTTTTTC
1 ATATATATATA-TATAGTTTTGAAA-CATTTTGAAAATATATATACTTTT-AAAAAACAATTTT-
9438433 AAAAAAC
62 AAAAAAC
* *
9438440 ATATA-ATATATA-A-TTTTAAAATACTTTTTGAAAATATATAT
1 ATATATATATATATAGTTTT-GAA-ACATTTTGAAAATATATAT
9438481 TATATAGTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 15
0.80 0.08 0.13
Matches are distributed among these distances:
66 4 0.04
67 13 0.14
68 10 0.11
69 40 0.42
70 28 0.29
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (68 bp):
ATATATATATATATAGTTTTGAAACATTTTGAAAATATATATACTTTTAAAAAACAATTTTAAAA
AAC
Found at i:9438450 original size:38 final size:36
Alignment explanation
Indices: 9438408--9438504 Score: 97
Period size: 38 Copynumber: 2.6 Consensus size: 36
9438398 TTTTGAAAAC
*
9438408 TATATACTTTTGAAAATATTTTTTCAAAAAACATATAA
1 TATATAATTTTGAAAATATTTTTT--AAAAACATATAA
* * * *
9438446 TATATAATTTT-AAAATACTTTTTGAAAATATATAT
1 TATATAATTTTGAAAATATTTTTTAAAAACATATAA
*
9438481 TATATAGTTTTTGGAAAATATTTT
1 TATATA-ATTTT-GAAAATATTTT
9438505 ATATATAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
35 15 0.31
36 4 0.08
37 11 0.22
38 19 0.39
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (36 bp):
TATATAATTTTGAAAATATTTTTTAAAAACATATAA
Found at i:9438511 original size:25 final size:24
Alignment explanation
Indices: 9438464--9438509 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
9438454 TTTAAAATAC
9438464 TTTTTGAAAATATATATTATATAG
1 TTTTTGAAAATATATATTATATAG
9438488 TTTTTGGAAAATAT-T-TTATATA
1 TTTTT-GAAAATATATATTATATA
9438510 TAATATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 6 0.29
25 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (24 bp):
TTTTTGAAAATATATATTATATAG
Found at i:9438549 original size:28 final size:25
Alignment explanation
Indices: 9438518--9438583 Score: 60
Period size: 28 Copynumber: 2.4 Consensus size: 25
9438508 TATAATATTA
9438518 TTATTATTATTATCGTTGTTATTAATTT
1 TTATTATTATTAT--TTGTTATTAA-TT
* *
9438546 TTATTTATCTTTTATTTTTTATTAATT
1 TTA-TTAT-TATTATTTGTTATTAATT
*
9438573 TTATTTTTATT
1 TTATTATTATT
9438584 TTAATTGTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
25 3 0.09
26 3 0.09
27 5 0.16
28 12 0.38
29 4 0.12
30 5 0.16
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (25 bp):
TTATTATTATTATTTGTTATTAATT
Found at i:9438587 original size:17 final size:17
Alignment explanation
Indices: 9438542--9438589 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
9438532 GTTGTTATTA
*
9438542 ATTTTTA-TTTATCTTTT
1 ATTTTTATTTTA-ATTTT
*
9438559 ATTTTT-TATTAATTTT
1 ATTTTTATTTTAATTTT
9438575 ATTTTTATTTTAATT
1 ATTTTTATTTTAATT
9438590 GTCCAGGTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (17 bp):
ATTTTTATTTTAATTTT
Found at i:9438821 original size:16 final size:15
Alignment explanation
Indices: 9438800--9438829 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9438790 CCAGCCGAAG
9438800 ATCCCGGGACTGACCC
1 ATCCCGGGA-TGACCC
9438816 ATCCCGGGATGACC
1 ATCCCGGGATGACC
9438830 GGTCAACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.40, G:0.27, T:0.13
Consensus pattern (15 bp):
ATCCCGGGATGACCC
Found at i:9439978 original size:34 final size:34
Alignment explanation
Indices: 9439930--9439995 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
9439920 AACTAACATT
9439930 TTTTTTTATTTTTTTTCCATTTC-TTTCCTTTTA
1 TTTTTTTATTTTTTTTCCATTTCATTTCCTTTTA
* *
9439963 TTTTTTTATTGTTTTTTTCATTTCATTTTCTTT
1 TTTTTTTATT-TTTTTTCCATTTCATTTCCTTT
9439996 ACTTTCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 10 0.34
34 12 0.41
35 7 0.24
ACGTcount: A:0.09, C:0.12, G:0.02, T:0.77
Consensus pattern (34 bp):
TTTTTTTATTTTTTTTCCATTTCATTTCCTTTTA
Found at i:9445029 original size:84 final size:84
Alignment explanation
Indices: 9444774--9445858 Score: 963
Period size: 84 Copynumber: 13.1 Consensus size: 84
9444764 TTAAAGACAA
* * * * *
9444774 CATTTACAGCATAACTTAAGTCAAGAAGTGTTATTTGCCAACC-AAAGACCTTCGAGTTCAACTA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTA
*
9444838 CGATCAGCTCCAAGGCACAT
65 CGCTCAGCTCCAAGGCACAT
** * * * * * *
9444858 CATTTGTAGTATAGCTTAAGTCGAGAAGGGATATCTG---CC-AAAGACCCTCGAGTTTGATTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* * * *
9444919 ACTCAACTTCGAGGGCACAT
66 GCTCAGC-TCCAAGGCACAT
* * * *
9444939 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
*
9445004 GCTCAGCTCCAAGGCATAT
66 GCTCAGCTCCAAGGCACAT
* * * * *
9445023 CATTTACAGAATAGCTTAAGTCGAGAAGGCTTATCT-TCCATCAAAAGACCTTTGAGTTCGACTA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGT-CACCAAAAGACCTTCGAGTTCGACTA
* * * *
9445087 TGCTCAGATCCAAGACATAT
65 CGCTCAGCTCCAAGGCACAT
* * * *
9445107 CATTTGCACCATAACTTAAGTCGAGAAGGGTTATCT-TCCAACC-AAATACCTTTGAGTTCGACT
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGT-C-ACCAAAAGACCTTCGAGTTCGACT
*
9445170 ACGTTCAGCTCCAAGGCACAT
64 ACGCTCAGCTCCAAGGCACAT
* * * * * * *
9445191 CACTTGCATCATAGCTTAAGTCGAGAAGGGCTATCTG---CC-AAAGACCCTCGAGTTCGATTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* ** *
9445252 ACTCAGCTTTGAGGGCACAT
66 GCTCAGC-TCCAAGGCACAT
* * * * *
9445272 CATTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* * * *
9445337 GCTCAACTCTACGACACAT
66 GCTCAGCTCCAAGGCACAT
* * * * * * *
9445356 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATG---CC-AAAGGCCCTCGAGTTCGATTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* * ** *
9445417 ACTCAACTTTGAGGGCACAT
66 GCTCAGC-TCCAAGGCACAT
* * * * * **
9445437 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTTAACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
*
9445502 GCTCAGCTCCAAGGCATAT
66 GCTCAGCTCCAAGGCACAT
* * * *
9445521 CATTTATAGCATAACTTAAGTCGAGAAGGGTTATCTGCCA-AACAAAGACCTTCGAGTTTGACTA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCA-AAAGACCTTCGAGTTCGACTA
9445585 CGCTCAGCTCCAAGGCACAT
65 CGCTCAGCTCCAAGGCACAT
* * * * * * * * *
9445605 CATTTGCAACATAGCTTAAGTTGAGAAGGGCTA--TGT-GCC-AAAGACCCTCGAGTTCAATTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* * *
9445666 AG-TCAGCTTCGAGGGTACAT
66 -GCTCAGC-TCCAAGGCACAT
* * * * *
9445686 CATTTACAGTATAACTCAAGTCTAGAAGGGTTATCTGTCAACAAAAAACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
*
9445751 GCTCAGCTCCAAGGCATAT
66 GCTCAGCTCCAAGGCACAT
** * * * * * *
9445770 CATTTACAATATAACTCAAGGCTAAAATGGTTATCTATCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
9445835 GCTCAGCTCCAAGGCACAT
66 GCTCAGCTCCAAGGCACAT
9445854 CATTT
1 CATTT
9445859 GTAGAATAGC
Statistics
Matches: 799, Mismatches: 175, Indels: 54
0.78 0.17 0.05
Matches are distributed among these distances:
80 96 0.12
81 151 0.19
82 2 0.00
83 5 0.01
84 450 0.56
85 95 0.12
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (84 bp):
CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACAT
Found at i:9445046 original size:165 final size:164
Alignment explanation
Indices: 9444774--9445872 Score: 1057
Period size: 165 Copynumber: 6.6 Consensus size: 164
9444764 TTAAAGACAA
* * * * * * * *
9444774 CATTTACAGCATAACTTAAGTCAAGAAGTGTTATTTGCCAACC-AAAGACCTTCGAGTTCAACTA
1 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTA
* * * *
9444838 CGATCAGCTCCAAGGCACATCATTTGTAGTATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGAC
65 CGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGAC
* * * *
9444903 CCTCGAGTTTGATTACACTCAACTTCGAGGGCACAT
130 CCTCGAGTTCGACTACACTCAAC-TCCAAGGCACAT
* *
9444939 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* * * * *
9445004 GCTCAGCTCCAAGGCATATCATTTACAGAATAGCTTAAGTCGAGAAGGCTTATCTTCCATCAAAA
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATC-TGC--C-AAA
* * ** * *
9445069 GACCTTTGAGTTCGACTATGCTCAGA-TCCAAGACATAT
127 GACCCTCGAGTTCGACTACACTCA-ACTCCAAGGCACAT
* * * * * * *
9445107 CATTTGCACCATAACTTAAGTCGAGAAGGGTTATCT-TCCAACC-AAATACCTTTGAGTTCGACT
1 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGT-C-ACCAAAAGACCTTCGAGTTCGACT
* * * *
9445170 ACGTTCAGCTCCAAGGCACATCACTTGCATCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA
64 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGA
* * ** *
9445235 CCCTCGAGTTCGATTACACTCAGCTTTGAGGGCACAT
129 CCCTCGAGTTCGACTACACTCAAC-TCCAAGGCACAT
* *
9445272 CATTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTAC
1 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* * * * * * *
9445337 GCTCAACTCTACGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGGCC
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACC
* ** *
9445402 CTCGAGTTCGATTACACTCAACTTTGAGGGCACAT
131 CTCGAGTTCGACTACACTCAAC-TCCAAGGCACAT
* **
9445437 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTTAACTAC
1 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* ** *
9445502 GCTCAGCTCCAAGGCATATCATTTATAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAACAAA
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C---CAAA
* * * *
9445567 GACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACAT
127 GACCCTCGAGTTCGACTACACTCAACTCCAAGGCACAT
* * * * * * * * *
9445605 CATTTGCAACATAGCTTAA-GTTGAGAAGGGCTA--TGT-GCC-AAAGACCCTCGAGTTCAATTA
1 CATTTACAACATAACTCAAGGCT-AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTA
* * * * * * * *
9445665 CAG-TCAGCTTCGAGGGTACATCATTTACAGTATAACTCAAGTCTAGAAGGGTTATCTGTCAACA
65 C-GCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C--C-
* * * * *
9445729 AAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
124 AAAGACCCTCGAGTTCGACTACACTCAACTCCAAGGCACAT
* * * *
9445770 CATTTACAATATAACTCAAGGCTAAAATGGTTATCTATCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* *
9445835 GCTCAGCTCCAAGGCACATCATTTGTAGAATAGCTTAA
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAA
9445873 ATCAAGAAAG
Statistics
Matches: 773, Mismatches: 135, Indels: 49
0.81 0.14 0.05
Matches are distributed among these distances:
164 55 0.07
165 463 0.60
166 9 0.01
167 7 0.01
168 166 0.21
169 72 0.09
170 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (164 bp):
CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACC
CTCGAGTTCGACTACACTCAACTCCAAGGCACAT
Found at i:9445525 original size:249 final size:249
Alignment explanation
Indices: 9444774--9445923 Score: 1272
Period size: 249 Copynumber: 4.6 Consensus size: 249
9444764 TTAAAGACAA
* * * * *
9444774 CATTTACAGCATAACTTAAGTCAAGAAGTGTTATTTGCCAACC-AAAGACCTTCGAGTTCAACTA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTA
* * * * *
9444838 CGATCAGCTCCAAGGCACATCATTTGTAGTATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGAC
65 CGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGAC
*
9444903 CCTCGAGTTTGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGG
130 CCTCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGG
* *
9444968 GTTATTTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
195 GTTATCTGTCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
* * * * *
9445023 CATTTACAGAATAGCTTAAGTCGAGAAGGCTTATCT-TCCATCAAAAGACCTTTGAGTTCGACTA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGT-CACCAAAAGACCTTCGAGTTCGACTA
* * * * * * * * *
9445087 TGCTCAGATCCAAGACATATCATTTGCACCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAA
65 CGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT-AT---GCCAA
* * * * ** * * * * * * * * * *
9445152 ATACCTTTGAGTTCGACTACGTTCAGC-TCCAAGGCACATCACTTGCATCATAGCTTAAGTCGAG
126 AGACCCTCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAG
* * * * ** * *
9445216 AAGGGCTATCTG-C--C-AAAGACCCTCGAGTTCGATTACACTCAGCTTTGAGGGCACAT
191 AAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATAT
* * * * *
9445272 CATTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* * * * *
9445337 GCTCAACTCTACGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGGCC
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACC
* *
9445402 CTCGAGTTCGATTACACTCAACTTTGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGG
131 CTCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGG
**
9445467 TTATCTGTCAACAAAAGACCTTCGAGTTTAACTACGCTCAGCTCCAAGGCATAT
196 TTATCTGTCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
* * * *
9445521 CATTTATAGCATAACTTAAGTCGAGAAGGGTTATCTGCCA-AACAAAGACCTTCGAGTTTGACTA
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCA-AAAGACCTTCGAGTTCGACTA
* * *
9445585 CGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTTGAGAAGGGCTATGTGCCAAAGAC
65 CGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGAC
* * * * * *
9445650 CCTCGAGTTCAATTACAGTCAGCTTCGAGGGTACATCATTTACAGTATAACTCAAGTCTAGAAGG
130 CCTCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGG
*
9445715 GTTATCTGTCAACAAAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
195 GTTATCTGTCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
** * * * * * *
9445770 CATTTACAATATAACTCAAGGCTAAAATGGTTATCTATCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* * * * * * *
9445835 GCTCAGCTCCAAGGCACATCATTTGTAGAATAGCTTAAATCAAGAAAGGCAATCTGCCAACCGAA
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCC-A---AA
* *
9445900 GACCTTCGAGTTCGATTGCACTCA
127 GACCCTCGAGTTCGATTACACTCA
9445924 TCTCAGAGGC
Statistics
Matches: 734, Mismatches: 148, Indels: 34
0.80 0.16 0.04
Matches are distributed among these distances:
245 23 0.03
246 38 0.05
247 1 0.00
248 30 0.04
249 530 0.72
250 28 0.04
251 1 0.00
252 38 0.05
253 45 0.06
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (249 bp):
CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACC
CTCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGG
TTATCTGTCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATAT
Found at i:9446505 original size:2 final size:2
Alignment explanation
Indices: 9446498--9446538 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9446488 TTTTCGTCCC
9446498 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9446539 GTTTAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9446679 original size:37 final size:36
Alignment explanation
Indices: 9446522--9446973 Score: 318
Period size: 37 Copynumber: 12.6 Consensus size: 36
9446512 ATATATATAT
* * ** *
9446522 ATATATATATATATATAG-TTTAAAAAAAAATTAAAA
1 ATATATATA-ATATATAGTTTTTAAAACATTTTGAAA
* *
9446558 CATGTATATAATATATAGTTTTGAAAACATGTTTGAAAA
1 -ATATATATAATATATAGTTTTTAAAACAT-TTTG-AAA
* *
9446597 CATTTATATATTATATAGTTTTTAAAACATTTTGAAA
1 -ATATATATAATATATAGTTTTTAAAACATTTTGAAA
* *
9446634 ATAAATATAATATGTAGTTTTTAAAACATGTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACAT-TTTGAAA
*
9446671 ATATATATATTATATAGTTTTTAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
* *
9446707 ATAAATATAATATATAGTTTTTAAAACATTTTTAAAA
1 ATATATATAATATATAGTTTTTAAAACA-TTTTGAAA
*
9446744 ATATATATATTATATAGTTTTTAAAA-ATTTTG---
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
**
9446776 --A-ATAT-ATATATAGTTTAAAAAAACATTTTGAAAAACA
1 ATATATATAATATATAGTTT-TTAAAACATTTTG---AA-A
* *
9446813 TATATATATATATTATATAGTTTTGAAATCATTTTGAAA
1 -ATATATATA-A-TATATAGTTTTTAAAACATTTTGAAA
* * *
9446852 A-CT-TATAATATATAGTTTTAAAAATATTTTTG--A
1 ATATATATAATATATAGTTTTTAAAACA-TTTTGAAA
* *
9446885 A-A-A-CT-ATATA-A-TTTTGAAAACATTTTTAGAAAA
1 ATATATATAATATATAGTTTTTAAAACA-TTTT-G-AAA
* * * *
9446918 AAACATATAATATATA-ATTTTAAAATACTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACA-TTTTGAAA
9446954 ATATATAT--TATATAGTTTTT
1 ATATATATAATATATAGTTTTT
9446974 GGAAAAAAAA
Statistics
Matches: 338, Mismatches: 44, Indels: 68
0.75 0.10 0.15
Matches are distributed among these distances:
28 10 0.03
29 22 0.07
30 9 0.03
31 5 0.01
32 1 0.00
33 4 0.01
34 22 0.07
35 15 0.04
36 81 0.24
37 90 0.27
38 20 0.06
39 31 0.09
40 3 0.01
41 4 0.01
43 11 0.03
44 10 0.03
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:9446710 original size:73 final size:73
Alignment explanation
Indices: 9446563--9446973 Score: 368
Period size: 73 Copynumber: 5.8 Consensus size: 73
9446553 TAAAACATGT
* *
9446563 ATATAATATATAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATAGTTTTTAAAACATT
1 ATATAATATATAGTTTTTAAAACATGTTTG-AAA-ATATATATATTATATAGTTTTTAAAACATT
9446628 TTGAAAATAA
64 TTGAAAATAA
*
9446638 ATATAATATGTAGTTTTTAAAACATGTTTGAAAATATATATATTATATAGTTTTTAAAACATTTT
1 ATATAATATATAGTTTTTAAAACATGTTTGAAAATATATATATTATATAGTTTTTAAAACATTTT
9446703 GAAAATAA
66 GAAAATAA
* *
9446711 ATATAATATATAGTTTTTAAAACATTTTTAAAAATATATATATTATATAGTTTTTAAAA-ATTTT
1 ATATAATATATAGTTTTTAAAACATGTTTGAAAATATATATATTATATAGTTTTTAAAACATTTT
9446775 G------A
66 GAAAATAA
** *
9446777 ATAT-ATATATAGTTTAAAAAAACAT-TTTGAAAAACATATATATATATATTATATAGTTTTGAA
1 ATATAATATATAGTTT-TTAAAACATGTTTG----A-A-A-ATATATATATTATATAGTTTTTAA
*
9446840 ATCATTTTGAAAACT--
58 AACATTTTGAAAA-TAA
* * *
9446855 -TATAATATATAGTTTTAAAAATATTTTTGAAAACTATATA-ATT-T-T-G-----AAAACATTT
1 ATATAATATATAGTTTTTAAAACATGTTTGAAAA-TATATATATTATATAGTTTTTAAAACA-TT
*
9446910 TTAGAAAAAAA
64 TT-GAAAATAA
* *
9446921 CATATAATATATA-ATTTTAAAATACT-TTTG-AAA-ATATATATTATATAGTTTTT
1 -ATATAATATATAGTTTTTAAAACA-TGTTTGAAAATATATATATTATATAGTTTTT
9446974 GGAAAAAAAA
Statistics
Matches: 285, Mismatches: 17, Indels: 70
0.77 0.05 0.19
Matches are distributed among these distances:
63 5 0.02
64 9 0.03
65 22 0.08
66 16 0.06
67 14 0.05
68 14 0.05
69 2 0.01
70 2 0.01
71 5 0.02
72 37 0.13
73 102 0.36
74 4 0.01
75 28 0.10
77 10 0.04
78 15 0.05
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (73 bp):
ATATAATATATAGTTTTTAAAACATGTTTGAAAATATATATATTATATAGTTTTTAAAACATTTT
GAAAATAA
Found at i:9446797 original size:28 final size:31
Alignment explanation
Indices: 9446748--9446807 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 31
9446738 TTAAAAATAT
**
9446748 ATATATTATATAGTTT-TTAAAA-ATTTTGA
1 ATATATTATATAGTTTAAAAAAACATTTTGA
9446777 ATATA-TATATAGTTTAAAAAAACATTTTGA
1 ATATATTATATAGTTTAAAAAAACATTTTGA
9446807 A
1 A
9446808 AAACATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 10 0.37
29 9 0.33
30 8 0.30
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (31 bp):
ATATATTATATAGTTTAAAAAAACATTTTGA
Found at i:9446830 original size:109 final size:108
Alignment explanation
Indices: 9446711--9446973 Score: 259
Period size: 106 Copynumber: 2.5 Consensus size: 108
9446701 TTGAAAATAA
9446711 ATATA-ATATATAGTTTTTAAAACATTTTTAAAAATATATATATTATATAGTTTTTAAAA-A-TT
1 ATATATATATATAGTTTTTAAAACATTTTTAAAAATATATATATTATATAGTTTTTAAAATATTT
* *
9446773 TTGAATATA-TATATAGTTTAAAAAAACA-TTTT-GAAAAACATATAT
66 TTGAA-A-ACTATATAATTT-AAAAAACATTTTTAGAAAAA-A-ACAT
* * * * *
9446818 ATATATATTATATAGTTTTGAAATCATTTTGAAAACT-TATA-A-TATATAGTTTTAAAAATATT
1 ATATATA-TATATAGTTTTTAAAACATTTTTAAAAATATATATATTATATAGTTTTTAAAATATT
**
9446880 TTTGAAAACTATATAATTTTGAAAACATTTTTAGAAAAAAACAT
65 TTTGAAAACTATATAATTTAAAAAACATTTTTAGAAAAAAACAT
* * *
9446924 ATA-ATATATA-A--TTTTAAAATACTTTT-GAAA-ATATATATTATATAGTTTTT
1 ATATATATATATAGTTTTTAAAACATTTTTAAAAATATATATATTATATAGTTTTT
9446974 GGAAAAAAAA
Statistics
Matches: 129, Mismatches: 17, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
100 6 0.05
101 11 0.09
102 11 0.09
103 1 0.01
104 4 0.03
105 3 0.02
106 28 0.22
107 22 0.17
108 18 0.14
109 25 0.19
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (108 bp):
ATATATATATATAGTTTTTAAAACATTTTTAAAAATATATATATTATATAGTTTTTAAAATATTT
TTGAAAACTATATAATTTAAAAAACATTTTTAGAAAAAAACAT
Found at i:9446846 original size:43 final size:41
Alignment explanation
Indices: 9446777--9446865 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 41
9446767 AAAATTTTGA
9446777 ATATATATATAGTTTAAAAAAACATTTTGAAAAACATATATAT
1 ATATATATATAGTTTAAAAAAACATTTTG-AAAACATATA-AT
** * *
9446820 ATATATTATATAGTTT-TGAAATCATTTTGAAAACTTATAAT
1 ATATA-TATATAGTTTAAAAAAACATTTTGAAAACATATAAT
9446861 ATATA
1 ATATA
9446866 GTTTTAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 7 0.17
42 9 0.22
43 15 0.37
44 10 0.24
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (41 bp):
ATATATATATAGTTTAAAAAAACATTTTGAAAACATATAAT
Found at i:9446869 original size:34 final size:36
Alignment explanation
Indices: 9446819--9446972 Score: 109
Period size: 34 Copynumber: 4.5 Consensus size: 36
9446809 AACATATATA
* *
9446819 TATATATTATATAGTTTT-GAAATCA-TTTTGAAAAC
1 TATATAATATATAGTTTTAAAAAT-ATTTTTGAAAAC
9446854 T-TATAATATATAGTTTTAAAAATATTTTTGAAAAC
1 TATATAATATATAGTTTTAAAAATATTTTTGAAAAC
* *
9446889 --TAT-ATA-AT--TTTGAAAACAT-TTTTAGAAAAAAAC
1 TATATAATATATAGTTTTAAAA-ATATTTTTG---AAAAC
* *
9446922 -ATATAATATATAATTTT-AAAATACTTTTGAAAA-
1 TATATAATATATAGTTTTAAAAATATTTTTGAAAAC
*
9446955 TATATATTATATAGTTTT
1 TATATAATATATAGTTTT
9446973 TGGAAAAAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
30 12 0.12
31 2 0.02
32 2 0.02
33 8 0.08
34 41 0.42
35 18 0.19
36 4 0.04
37 7 0.07
38 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
TATATAATATATAGTTTTAAAAATATTTTTGAAAAC
Found at i:9446893 original size:29 final size:30
Alignment explanation
Indices: 9446860--9446917 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
9446850 AAACTTATAA
* *
9446860 TATATAGTTTTAAAAATATTTTT-GAAAAC
1 TATATAATTTTAAAAACATTTTTAGAAAAC
*
9446889 TATATAATTTTGAAAACATTTTTAGAAAA
1 TATATAATTTTAAAAACATTTTTAGAAAA
9446918 AAACATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (30 bp):
TATATAATTTTAAAAACATTTTTAGAAAAC
Found at i:9446926 original size:145 final size:140
Alignment explanation
Indices: 9446671--9446967 Score: 316
Period size: 145 Copynumber: 2.1 Consensus size: 140
9446661 ATGTTTGAAA
* *
9446671 ATATATATATTATATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAGTTTTTAAAACAT
1 ATATATATATTATATAGTTTTGAAAACATTTTGAAAAT--ATATAATATATAGTTTTAAAAACAT
* * ** *
9446736 TTTTAAAAATATATATATTATATAGTTTTTAAAAATTTTGAATAT-ATATATAGTTTAAAAAAAC
64 TTTTAAAAATATATATATTATAAAATTTTTAAAAA--TAAAATATAATATATAATTTAAAAAAAC
9446800 ATTTTGAAAAACATAT
127 -TTTTG-AAAACATAT
* *
9446816 ATATATATATTATATAGTTTTGAAATCATTTTGAAAACT-TATAATATATAGTTTTAAAAATATT
1 ATATATATATTATATAGTTTTGAAAACATTTTGAAAA-TATATAATATATAGTTTTAAAAACATT
* * *
9446880 TTTGAAAACTATATA-ATTTTGAAAACATTTTTAGAAAA-AAACATATAATATATAATTTTAAAA
65 TTT-AAAAATATATATATTAT--AAA-ATTTTTA-AAAATAAA-ATATAATATATAATTTAAAAA
* *
9446943 TACTTTTGAAAATATAT
124 AACTTTTGAAAACATAT
9446960 AT-TATATA
1 ATATATATA
9446968 GTTTTTGGAA
Statistics
Matches: 130, Mismatches: 14, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
143 36 0.28
144 21 0.16
145 46 0.35
146 23 0.18
147 4 0.03
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (140 bp):
ATATATATATTATATAGTTTTGAAAACATTTTGAAAATATATAATATATAGTTTTAAAAACATTT
TTAAAAATATATATATTATAAAATTTTTAAAAATAAAATATAATATATAATTTAAAAAAACTTTT
GAAAACATAT
Found at i:9450091 original size:31 final size:31
Alignment explanation
Indices: 9450053--9450115 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
9450043 TGAGATGATA
9450053 TAACCACTACTCAACAAACAAGAATGCTATT
1 TAACCACTACTCAACAAACAAGAATGCTATT
9450084 TAACCACTACTCAACAAACAAGAATGCTATT
1 TAACCACTACTCAACAAACAAGAATGCTATT
9450115 T
1 T
9450116 TCCCAGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.24
Consensus pattern (31 bp):
TAACCACTACTCAACAAACAAGAATGCTATT
Found at i:9450272 original size:24 final size:24
Alignment explanation
Indices: 9450214--9450273 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
9450204 ATTGGATTTT
* *
9450214 TTTAAAATATATCACATTTAATAC
1 TTTAATATATATCACACTTAATAC
* * *
9450238 TTTATTGTATATCATACTTAATAC
1 TTTAATATATATCACACTTAATAC
9450262 TTTAATATATAT
1 TTTAATATATAT
9450274 TTTCGAAGCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (24 bp):
TTTAATATATATCACACTTAATAC
Found at i:9454102 original size:21 final size:22
Alignment explanation
Indices: 9454060--9454107 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9454050 TTTACATTCG
* *
9454060 ATTCTTTAATTTTTTTCTAATT
1 ATTCTTTAATTTTTATCGAATT
*
9454082 ATTCTTTGATTTTTAT-GAATT
1 ATTCTTTAATTTTTATCGAATT
9454103 ATTCT
1 ATTCT
9454108 AATGTTAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.65
Consensus pattern (22 bp):
ATTCTTTAATTTTTATCGAATT
Found at i:9464119 original size:26 final size:26
Alignment explanation
Indices: 9464090--9464179 Score: 89
Period size: 26 Copynumber: 3.4 Consensus size: 26
9464080 TTAAATTCAC
9464090 AATATTTTATATATATTAACTT-TGAA
1 AATATTTTAT-TATATTAACTTATGAA
*
9464116 AATATTTT-TTATATTAACTTATTAA
1 AATATTTTATTATATTAACTTATGAA
*
9464141 ATATATTTTA-T-TATTAACTTCATTTAAA
1 A-ATATTTTATTATATTAACTT-A--TGAA
9464169 AATATTTTATT
1 AATATTTTATT
9464180 TTAATTTTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
24 11 0.20
25 14 0.25
26 17 0.31
27 8 0.15
28 5 0.09
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.54
Consensus pattern (26 bp):
AATATTTTATTATATTAACTTATGAA
Found at i:9464133 original size:24 final size:24
Alignment explanation
Indices: 9464090--9464160 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 24
9464080 TTAAATTCAC
9464090 AATATTTTATATATATTAACTT-TGAA
1 AATATTTT-T-TATATTAACTTAT-AA
*
9464116 AATATTTTTTATATTAACTTATTA
1 AATATTTTTTATATTAACTTATAA
*
9464140 AATATATTTTATTATTAACTT
1 AATATTTTTTA-TATTAACTT
9464161 CATTTAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
24 22 0.54
25 11 0.27
26 8 0.20
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (24 bp):
AATATTTTTTATATTAACTTATAA
Found at i:9464167 original size:27 final size:28
Alignment explanation
Indices: 9464105--9464244 Score: 121
Period size: 27 Copynumber: 4.9 Consensus size: 28
9464095 TTTATATATA
*
9464105 TTAACTTTGAAAATATTTTTTA-TATTAAC
1 TTAA-TTT-AAAATATATTTTATTATTAAC
9464134 TT-A-TT-AAATATATTTTATTATTAAC
1 TTAATTTAAAATATATTTTATTATTAAC
* *
9464159 TTCATTTAAAA-ATATTTTATT-TTAATT
1 TTAATTTAAAATATATTTTATTATTAA-C
*
9464186 TTAATTTAAAAATATATATTTGATTATTATC
1 TTAATTT-AAAATATAT-TTT-ATTATTAAC
*
9464217 TAAATTTTAAAAATATATTTTATTATTA
1 TTAA-TTT-AAAATATATTTTATTATTA
9464245 TTTAGCTTAA
Statistics
Matches: 94, Mismatches: 6, Indels: 21
0.78 0.05 0.17
Matches are distributed among these distances:
24 11 0.12
25 9 0.10
26 7 0.07
27 18 0.19
28 8 0.09
29 6 0.06
30 10 0.11
31 9 0.10
32 16 0.17
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTAAAATATATTTTATTATTAAC
Found at i:9465830 original size:20 final size:20
Alignment explanation
Indices: 9465780--9465831 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
9465770 TTCAAAGGGT
9465780 AGTATCGATACTGTTGAGAA
1 AGTATCGATACTGTTGAGAA
*
9465800 AGGTATGGATACTGAATTG-G-A
1 A-GTATCGATACTG--TTGAGAA
9465821 AGTATCGATAC
1 AGTATCGATAC
9465832 AAAGGATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 10 0.37
21 13 0.48
22 1 0.04
23 3 0.11
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.29
Consensus pattern (20 bp):
AGTATCGATACTGTTGAGAA
Found at i:9472281 original size:33 final size:33
Alignment explanation
Indices: 9472234--9472296 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
9472224 AGGGGTTTTG
*
9472234 GTTCTAGATGAGCCTGCT-AAAAGCTAGGGAAAT
1 GTTCTAGATGAGCCTG-TAAAAAACTAGGGAAAT
* *
9472267 GTTCTAGTTTAGCCTGTAAAAAACTAGGGA
1 GTTCTAGATGAGCCTGTAAAAAACTAGGGA
9472297 GTTGTAAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (33 bp):
GTTCTAGATGAGCCTGTAAAAAACTAGGGAAAT
Found at i:9475437 original size:41 final size:40
Alignment explanation
Indices: 9475374--9475450 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 40
9475364 ATTAGTAAGG
* **
9475374 GTAGTATCGATACCGGTTGAATGGGTAT-TGATAATGTATGA
1 GTAGTATCGATACCAGAAGAAT-GGTATAT-ATAATGTATGA
*
9475415 GTAGTATTGATACCAGAAGAATGGTATATATAATGT
1 GTAGTATCGATACCAGAAGAATGGTATATATAATGT
9475451 TCTTAAGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
40 12 0.39
41 19 0.61
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (40 bp):
GTAGTATCGATACCAGAAGAATGGTATATATAATGTATGA
Found at i:9476106 original size:21 final size:22
Alignment explanation
Indices: 9476072--9476180 Score: 66
Period size: 23 Copynumber: 5.0 Consensus size: 22
9476062 TCGAGGGTTT
9476072 TATGTGGTCA-TTCGCG-ACAAA-
1 TATGTGG-CACTTCG-GTACAAAC
*
9476093 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTACAAA-C
** *
9476116 TATGTGGCACTTCGGTGTAAATT
1 TATGTGGCACTTCGGTACAAA-C
* * *
9476139 TATGTGGTC-CTTTGGGAC-AAT
1 TATGTGG-CACTTCGGTACAAAC
*
9476160 TATGTGGCACTTCGGTGCAAA
1 TATGTGGCACTTCGGTACAAA
9476181 TTACGAGTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
20 4 0.06
21 29 0.41
22 4 0.06
23 32 0.46
24 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (22 bp):
TATGTGGCACTTCGGTACAAAC
Found at i:9476123 original size:23 final size:22
Alignment explanation
Indices: 9476089--9476183 Score: 99
Period size: 23 Copynumber: 4.3 Consensus size: 22
9476079 TCATTCGCGA
9476089 CAAA-TATGTGGCACTTCGGTG
1 CAAATTATGTGGCACTTCGGTG
*
9476110 CAAACCTATGTGGCACTTCGGTG
1 CAAA-TTATGTGGCACTTCGGTG
* *
9476133 TAAATTTATGTGGTC-CTTTGG-G
1 CAAA-TTATGTGG-CACTTCGGTG
9476155 -ACAATTATGTGGCACTTCGGTG
1 CA-AATTATGTGGCACTTCGGTG
9476177 CAAATTA
1 CAAATTA
9476184 CGAGTTACTG
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
20 1 0.02
21 18 0.29
22 9 0.15
23 33 0.53
24 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (22 bp):
CAAATTATGTGGCACTTCGGTG
Found at i:9487036 original size:18 final size:18
Alignment explanation
Indices: 9487013--9487047 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9487003 AGTGATTATC
*
9487013 AGTGGTCTTTCAGGACAT
1 AGTGGTCCTTCAGGACAT
*
9487031 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCAGGACA
9487048 AATATTCAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCAGGACAT
Found at i:9489933 original size:14 final size:14
Alignment explanation
Indices: 9489877--9489934 Score: 80
Period size: 14 Copynumber: 4.1 Consensus size: 14
9489867 ATTGGTTTTT
*
9489877 TGGAAAATGAATTC
1 TGGAAAATGAATTA
9489891 TGGAAAATGAATTA
1 TGGAAAATGAATTA
**
9489905 CTGGAATTTGAATTA
1 -TGGAAAATGAATTA
9489920 TGGAAAATGAATTA
1 TGGAAAATGAATTA
9489934 T
1 T
9489935 ATTTCTGGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
14 26 0.68
15 12 0.32
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (14 bp):
TGGAAAATGAATTA
Found at i:9489953 original size:14 final size:14
Alignment explanation
Indices: 9489936--9489967 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
9489926 ATGAATTATA
9489936 TTTCTGGAAAACGT
1 TTTCTGGAAAACGT
*
9489950 TTTCTGGAAAATGT
1 TTTCTGGAAAACGT
9489964 TTTC
1 TTTC
9489968 CGTAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (14 bp):
TTTCTGGAAAACGT
Found at i:9490412 original size:21 final size:21
Alignment explanation
Indices: 9490386--9490477 Score: 60
Period size: 23 Copynumber: 4.1 Consensus size: 21
9490376 TTTCTATAAA
9490386 ATTAATAATAATATAAATTTT
1 ATTAATAATAATATAAATTTT
* * *
9490407 ATTAATAAT-TTATTATATATT
1 ATTAATAATAATA-TAAATTTT
*
9490428 ATTAACATAAAAATATAATATTTT
1 ATT-A-ATAATAATATAA-ATTTT
* * *
9490452 ATATTATTATAATATAATTTATT
1 AT-TAATAATAATATAAATT-TT
9490475 ATT
1 ATT
9490478 TTATTATAGT
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
20 2 0.04
21 18 0.34
22 4 0.08
23 20 0.38
24 8 0.15
25 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTAATAATAATATAAATTTT
Found at i:9490446 original size:52 final size:55
Alignment explanation
Indices: 9490352--9490514 Score: 135
Period size: 52 Copynumber: 3.0 Consensus size: 55
9490342 AATACTATTC
* * * *
9490352 ATTATTAAAAATTTAATA-ATATTATT-TCTATAAAATTAATAATAATATAAATT
1 ATTATTAATAATTTATTATATATTATTAACTATAAAAATAATAATAATATAAATT
* * *
9490405 -TTATTAATAATTTATTATATATTATTAAC-ATAAAAAT-ATAATATTTTATATT
1 ATTATTAATAATTTATTATATATTATTAACTATAAAAATAATAATAATATAAATT
* * * *
9490457 ATTATAATATAATTTATTAT-T-TTATTATAGTATTCAAAAT-ATAATATTATAATATT
1 ATTATTA-ATAATTTATTATATATTATTA-ACTA-TAAAAATAATAATAATATAA-ATT
9490513 AT
1 AT
9490515 AAATATTAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
52 33 0.37
53 22 0.24
54 14 0.16
55 16 0.18
56 5 0.06
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.50
Consensus pattern (55 bp):
ATTATTAATAATTTATTATATATTATTAACTATAAAAATAATAATAATATAAATT
Found at i:9490469 original size:23 final size:23
Alignment explanation
Indices: 9490439--9490485 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
9490429 TTAACATAAA
9490439 AATATAATATT-TTATATTATTAT
1 AATATAAT-TTATTATATTATTAT
*
9490462 AATATAATTTATTATTTTATTAT
1 AATATAATTTATTATATTATTAT
9490485 A
1 A
9490486 GTATTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATATAATTTATTATATTATTAT
Found at i:9490507 original size:22 final size:23
Alignment explanation
Indices: 9490479--9490542 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
9490469 TTTATTATTT
*
9490479 TATTATAGTATTCA-AAATA-TAA
1 TATTATAATATT-ATAAATATTAA
9490501 TATTATAATATTATAAATATTAA
1 TATTATAATATTATAAATATTAA
* *
9490524 TA-AAT-ATATTTTAAATATT
1 TATTATAATATTATAAATATT
9490543 TTAATAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 14 0.38
22 18 0.49
23 5 0.14
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTATAATATTATAAATATTAA
Found at i:9490541 original size:30 final size:32
Alignment explanation
Indices: 9490493--9490555 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 32
9490483 ATAGTATTCA
9490493 AAATATAATATTATAATATTATAAAT-ATTAAT
1 AAATATAATATTATAATATT-TAAATAATTAAT
* *
9490525 AAATAT-ATTTTA-AATATTTTAATAATTAAT
1 AAATATAATATTATAATATTTAAATAATTAAT
9490555 A
1 A
9490556 TTTTGATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.14
30 13 0.46
31 5 0.18
32 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
AAATATAATATTATAATATTTAAATAATTAAT
Found at i:9490546 original size:23 final size:22
Alignment explanation
Indices: 9490505--9490559 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
9490495 ATATAATATT
*
9490505 ATAATATTATAAATATTAATAA
1 ATAATATTTTAAATATTAATAA
9490527 AT-ATATTTTAAATATTTTAATAA
1 ATAATATTTTAAATA--TTAATAA
*
9490550 TTAATATTTT
1 ATAATATTTT
9490560 GATTAAAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 11 0.39
22 2 0.07
23 8 0.29
24 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAATATTTTAAATATTAATAA
Found at i:9490819 original size:42 final size:42
Alignment explanation
Indices: 9490757--9490846 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
9490747 TCCTCCAACA
* * *
9490757 AAACACTGGAAAACAATTTCC-AGAAAATGAATTACGTGAAAT
1 AAACACGGGAAAACAATTTCCGA-AAAACGAATTACGTGAAAC
*
9490799 AAACACGGGAAAACATTTTCCGAAAAACGAATTACGTGAAAC
1 AAACACGGGAAAACAATTTCCGAAAAACGAATTACGTGAAAC
9490841 AAACAC
1 AAACAC
9490847 AAGATTTAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.18
Consensus pattern (42 bp):
AAACACGGGAAAACAATTTCCGAAAAACGAATTACGTGAAAC
Found at i:9492217 original size:23 final size:23
Alignment explanation
Indices: 9492139--9492274 Score: 130
Period size: 21 Copynumber: 6.2 Consensus size: 23
9492129 TTCGAGGGTT
*
9492139 TTATGTGGTCCTTCGG-G-ACAA
1 TTATGTGGTCCTTCGGTGCAAAA
9492160 TTATGTGGTCCTTCGG-G-ACAAA
1 TTATGTGGTCCTTCGGTGCA-AAA
*
9492182 -TATGTGGTCCTTCGGTGCAAAC
1 TTATGTGGTCCTTCGGTGCAAAA
* * *
9492204 CTATGTGG-CACTTCGGTGTAAAT
1 TTATGTGGTC-CTTCGGTGCAAAA
9492227 TTATGTGGTCCTTCGG-G-AAAA
1 TTATGTGGTCCTTCGGTGCAAAA
9492248 TTATGTGG-CACTTCGGTGC-AAA
1 TTATGTGGTC-CTTCGGTGCAAAA
9492270 TTATG
1 TTATG
9492275 AGCTGTGGTG
Statistics
Matches: 100, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.01
21 50 0.50
22 16 0.16
23 32 0.32
24 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (23 bp):
TTATGTGGTCCTTCGGTGCAAAA
Found at i:9492253 original size:44 final size:43
Alignment explanation
Indices: 9492138--9492271 Score: 157
Period size: 44 Copynumber: 3.0 Consensus size: 43
9492128 ATTCGAGGGT
*
9492138 TTTATGTGGTCCTTCGGGACAATTATGTGGTC-CTTCGG-GACAA
1 TTTATGTGGTCCTTCGGGAAAATTATGTGG-CACTTCGGTGA-AA
* **
9492181 -ATATGTGGTCCTTCGGTGCAAACCTATGTGGCACTTCGGTGTAAA
1 TTTATGTGGTCCTTCGG-G-AAAATTATGTGGCACTTCGGTG-AAA
9492226 TTTATGTGGTCCTTCGGGAAAATTATGTGGCACTTCGGTGCAAA
1 TTTATGTGGTCCTTCGGGAAAATTATGTGGCACTTCGGTG-AAA
9492270 TT
1 TT
9492272 ATGAGCTGTG
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
42 15 0.19
43 2 0.03
44 40 0.52
45 4 0.05
46 16 0.21
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (43 bp):
TTTATGTGGTCCTTCGGGAAAATTATGTGGCACTTCGGTGAAA
Found at i:9492738 original size:21 final size:21
Alignment explanation
Indices: 9492700--9492739 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9492690 CCTTTTGGTA
*
9492700 TTTATGTAAATTATTATGTTT
1 TTTATGTAAATAATTATGTTT
9492721 TTTATGTAAA-AATGTATGT
1 TTTATGTAAATAAT-TATGT
9492740 GCAATGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTATGTAAATAATTATGTTT
Found at i:9495753 original size:21 final size:21
Alignment explanation
Indices: 9495697--9495753 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
9495687 GGGTTCTACG
* * * *
9495697 AGGTTCTTTAGGATATATATG
1 AGGTCCTTCAGGACATATATA
*
9495718 AGGTCATTC-GAGACATATATA
1 AGGTCCTTCAG-GACATATATA
9495739 AGGTCCTTCAGGACA
1 AGGTCCTTCAGGACA
9495754 ATCTTATATG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (21 bp):
AGGTCCTTCAGGACATATATA
Found at i:9497231 original size:50 final size:50
Alignment explanation
Indices: 9497177--9497332 Score: 135
Period size: 50 Copynumber: 3.1 Consensus size: 50
9497167 TATTTTAACT
9497177 TTTAATAGTATATATTTTATCTTAATTTACTAAACAAATTATATTATTAC
1 TTTAATAGTATATATTTTATCTTAATTTACTAAACAAATTATATTATTAC
* ** * *
9497227 TTTAATATTAAATATATTTTA--TTCCTTTCCT-AACTTAAA-AATATT-TTAAC
1 TTTAATAGT--ATATATTTTATCTTAATTTACTAAAC--AAATTATATTATT-AC
* * *
9497277 ATTTCAA-AGTATATATTTTATCTTAATTTATTAAATATATTATATTATTAC
1 -TTT-AATAGTATATATTTTATCTTAATTTACTAAACAAATTATATTATTAC
9497328 TTTAA
1 TTTAA
9497333 ATTATTAAAT
Statistics
Matches: 81, Mismatches: 13, Indels: 25
0.68 0.11 0.21
Matches are distributed among these distances:
49 17 0.21
50 27 0.33
51 21 0.26
52 16 0.20
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.51
Consensus pattern (50 bp):
TTTAATAGTATATATTTTATCTTAATTTACTAAACAAATTATATTATTAC
Found at i:9497325 original size:101 final size:103
Alignment explanation
Indices: 9497167--9497353 Score: 308
Period size: 101 Copynumber: 1.8 Consensus size: 103
9497157 TAAACCTTTT
*
9497167 TATTTTAACTTTTAATAGTATATATTTTATCTTAATTTACTAAACAAATTATATTATTACTTT-A
1 TATTTTAACTTTCAATAGTATATATTTTATCTTAATTTACTAAACAAATTATATTATTACTTTAA
9497231 A-TATTAAATATATTTTATTCCTTTCCTAACTTAAAAA
66 ATTATTAAATATATTTTATTCCTTTCCTAACTTAAAAA
* * *
9497268 TATTTTAACATTTCAA-AGTATATATTTTATCTTAATTTATTAAATATATTATATTATTACTTTA
1 TATTTTAAC-TTTCAATAGTATATATTTTATCTTAATTTACTAAACAAATTATATTATTACTTTA
9497332 AATTATTAAATATATTTTATTC
65 AATTATTAAATATATTTTATTC
9497354 TTATCATAAC
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
101 53 0.67
102 7 0.09
103 19 0.24
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (103 bp):
TATTTTAACTTTCAATAGTATATATTTTATCTTAATTTACTAAACAAATTATATTATTACTTTAA
ATTATTAAATATATTTTATTCCTTTCCTAACTTAAAAA
Found at i:9497397 original size:101 final size:100
Alignment explanation
Indices: 9497167--9497395 Score: 284
Period size: 101 Copynumber: 2.3 Consensus size: 100
9497157 TAAACCTTTT
* * *
9497167 TATTTTAACTTTTAATAGTATATATTTTATCTTAATTTACTAAACAAATTATATTATTACTTTAA
1 TATTTTAACATTCAA-AATATATATTTTATCTTAATTTACTAAACAAATTATATTATTACTTTAA
* *
9497232 TATTAAATATATTTTATTCCTTTCCTAACTTAAAAA
65 TATTAAATATATTTTATTCCTTTCATAACTGAAAAA
* * * *
9497268 TATTTTAACATTTCAAAGTATATATTTTATCTTAATTTATTAAATATATTATATTATTACTTTAA
1 TATTTTAACA-TTCAAAATATATATTTTATCTTAATTTACTAAACAAATTATATTATTACTTT-A
* *
9497333 ATTATTAAATATATTTTATT-CTTATCATAACTGGAAAG
64 A-TATTAAATATATTTTATTCCTT-TCATAACTGAAAAA
*
9497371 TATTTTAGCA-T-AAAATATATATTTT
1 TATTTTAACATTCAAAATATATATTTT
9497396 TAAATTAAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
100 13 0.12
101 54 0.48
102 9 0.08
103 37 0.33
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.51
Consensus pattern (100 bp):
TATTTTAACATTCAAAATATATATTTTATCTTAATTTACTAAACAAATTATATTATTACTTTAAT
ATTAAATATATTTTATTCCTTTCATAACTGAAAAA
Found at i:9497445 original size:25 final size:27
Alignment explanation
Indices: 9497389--9497483 Score: 92
Period size: 26 Copynumber: 3.6 Consensus size: 27
9497379 CATAAAATAT
* *
9497389 ATATTTTTAAATTAA-ATAAAAATAAA
1 ATATTTTTAAATTAAGTTAATAATAAA
*
9497415 ATATTTTTAAATTAAGTTAATAATGAA
1 ATATTTTTAAATTAAGTTAATAATAAA
9497442 AT-TTATTT-AA-TAAGTTAATTAA-AAA
1 ATATT-TTTAAATTAAGTTAA-TAATAAA
9497467 ATATTTTTTAAAGTTAA
1 ATA-TTTTTAAA-TTAA
9497484 TATATATACA
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
25 12 0.21
26 25 0.44
27 17 0.30
29 3 0.05
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (27 bp):
ATATTTTTAAATTAAGTTAATAATAAA
Found at i:9498082 original size:22 final size:22
Alignment explanation
Indices: 9498057--9498100 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9498047 TCTACCATTC
*
9498057 ATCTTCCATCTGTCATTTTTTT
1 ATCTTCCATCTATCATTTTTTT
* *
9498079 ATCTTTCATCTATTATTTTTTT
1 ATCTTCCATCTATCATTTTTTT
9498101 TATGGCTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.18, G:0.02, T:0.64
Consensus pattern (22 bp):
ATCTTCCATCTATCATTTTTTT
Found at i:9501602 original size:18 final size:18
Alignment explanation
Indices: 9501579--9501653 Score: 78
Period size: 18 Copynumber: 3.9 Consensus size: 18
9501569 AGGGATATAC
9501579 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
9501597 AGTGGTCCTTCGGGACATAT
1 AGTGGTCCTTCGGGAC--AT
***
9501617 ACAGTGGTCCTTAAAGACAT
1 --AGTGGTCCTTCGGGACAT
*
9501637 AGTGGTCGTTCGGGACA
1 AGTGGTCCTTCGGGACA
9501654 AATATTCAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
18 29 0.63
20 4 0.09
22 13 0.28
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.27
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:9501625 original size:22 final size:22
Alignment explanation
Indices: 9501573--9501628 Score: 84
Period size: 18 Copynumber: 2.7 Consensus size: 22
9501563 GAGTCGAGGG
9501573 ATATACAGTGGTCCTTCGGGAC
1 ATATACAGTGGTCCTTCGGGAC
9501595 --AT--AGTGGTCCTTCGGGAC
1 ATATACAGTGGTCCTTCGGGAC
9501613 ATATACAGTGGTCCTT
1 ATATACAGTGGTCCTT
9501629 AAAGACATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 16 0.53
20 4 0.13
22 10 0.33
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (22 bp):
ATATACAGTGGTCCTTCGGGAC
Found at i:9501628 original size:40 final size:40
Alignment explanation
Indices: 9501573--9501653 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
9501563 GAGTCGAGGG
***
9501573 ATATACAGTGGTCCTTCGGGACATAGTGGTCCTTCGGGAC
1 ATATACAGTGGTCCTTAAAGACATAGTGGTCCTTCGGGAC
*
9501613 ATATACAGTGGTCCTTAAAGACATAGTGGTCGTTCGGGAC
1 ATATACAGTGGTCCTTAAAGACATAGTGGTCCTTCGGGAC
9501653 A
1 A
9501654 AATATTCAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATACAGTGGTCCTTAAAGACATAGTGGTCCTTCGGGAC
Found at i:9503622 original size:6 final size:6
Alignment explanation
Indices: 9503611--9503700 Score: 63
Period size: 6 Copynumber: 15.0 Consensus size: 6
9503601 ATAACTTTGG
* * * * * * *
9503611 TCATCA TCATCA TCTTCG TCATCG TCATCG TCATCG TCGTCT TCATCA
1 TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA
* * * * * *
9503659 TCTTCA TCATCG TCTTCA TCGTCA TCGTCA TCGTCA TCATCA
1 TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA
9503701 CTTTCTTCAT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.19, C:0.33, G:0.10, T:0.38
Consensus pattern (6 bp):
TCATCA
Found at i:9503641 original size:12 final size:12
Alignment explanation
Indices: 9503610--9503696 Score: 81
Period size: 12 Copynumber: 7.5 Consensus size: 12
9503600 GATAACTTTG
*
9503610 GTCATCATCATC
1 GTCATCGTCATC
* *
9503622 ATCTTCGTCATC
1 GTCATCGTCATC
9503634 GTCATCGTCATC
1 GTCATCGTCATC
* *
9503646 GTCGTCTTCATC
1 GTCATCGTCATC
* * *
9503658 ATCTTCATCATC
1 GTCATCGTCATC
9503670 GTC-T--TCATC
1 GTCATCGTCATC
9503679 GTCATCGTCATC
1 GTCATCGTCATC
9503691 GTCATC
1 GTCATC
9503697 ATCACTTTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
9 8 0.13
10 1 0.02
11 1 0.02
12 51 0.84
ACGTcount: A:0.17, C:0.33, G:0.11, T:0.38
Consensus pattern (12 bp):
GTCATCGTCATC
Found at i:9503644 original size:21 final size:21
Alignment explanation
Indices: 9503614--9503699 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 21
9503604 ACTTTGGTCA
* *
9503614 TCATCATCATCTTCGTCATCG
1 TCATCGTCATCGTCGTCATCG
*
9503635 TCATCGTCATCGTCGTCTTCATCA
1 TCATCGTCATCGTCG---TCATCG
* * *
9503659 TCTTCATCATCGTCTTCATCG
1 TCATCGTCATCGTCGTCATCG
*
9503680 TCATCGTCATCGTCATCATC
1 TCATCGTCATCGTCGTCATC
9503700 ACTTTCTTCA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
21 35 0.67
24 17 0.33
ACGTcount: A:0.17, C:0.34, G:0.10, T:0.38
Consensus pattern (21 bp):
TCATCGTCATCGTCGTCATCG
Found at i:9504547 original size:15 final size:15
Alignment explanation
Indices: 9504528--9504594 Score: 80
Period size: 15 Copynumber: 4.5 Consensus size: 15
9504518 TGAGACATTA
* *
9504528 CCCGCCCCGCATCCA
1 CCCGCCCCACATCCG
*
9504543 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
* *
9504558 CCTGCCTCACATCCG
1 CCCGCCCCACATCCG
*
9504573 CCCGCCTCACATCCG
1 CCCGCCCCACATCCG
9504588 CCCGCCC
1 CCCGCCC
9504595 AGTTAAATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.10, C:0.64, G:0.15, T:0.10
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:9508825 original size:2 final size:2
Alignment explanation
Indices: 9508818--9508856 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9508808 TATTATTAAC
9508818 TA 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 TA T
9508857 TCTAATTGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9511964 original size:22 final size:22
Alignment explanation
Indices: 9511939--9511981 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9511929 TCAAGCCCAT
*
9511939 ATTTTCACATTTCAACTCAAAA
1 ATTTACACATTTCAACTCAAAA
* *
9511961 ATTTACTCATTTCAGCTCAAA
1 ATTTACACATTTCAACTCAAA
9511982 CACACTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.37
Consensus pattern (22 bp):
ATTTACACATTTCAACTCAAAA
Found at i:9512399 original size:3 final size:3
Alignment explanation
Indices: 9512391--9512423 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9512381 GTTTATGGGT
9512391 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
9512424 AGTTTTATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:9521106 original size:68 final size:66
Alignment explanation
Indices: 9521024--9521276 Score: 279
Period size: 68 Copynumber: 3.8 Consensus size: 66
9521014 TCAAAATATA
* *
9521024 TATCTTTTAATATTCAAATTTAAACAGATAATAATATCTTTTCATTTGAAATATTCAAAAGATAT
1 TATCTTTTAATATTCAAA-TTAAATAGAT-ATAATATCTTTTAATTTGAAATATTCAAAAGATAT
9521089 -AT
64 AAT
* * *
9521091 ATATCTTTTACTATTCAAACTTAAATAG--ATAGTATC--TTAATATGAAATATTCAAAATGATA
1 -TATCTTTTAATATTCAAA-TTAAATAGATATAATATCTTTTAATTTGAAATATTCAAAA-GATA
9521152 TAAT
63 TAAT
*
9521156 TATCTTTTAATATTCAAAGTTAAATAGATAATAAATATCTTTTAATTTGAGATATTCAAAAGA-A
1 TATCTTTTAATATTCAAA-TTAAATAGAT-AT-AATATCTTTTAATTTGAAATATTCAAAAGATA
9521220 TAAT
63 TAAT
** *
9521224 TATCCTACTAATATTCAAATTACAA-AGATA-AATATCTTTTAGTTTGAAATATT
1 TAT-CTTTTAATATTCAAATTA-AATAGATATAATATCTTTTAATTTGAAATATT
9521277 ATTTTTATAT
Statistics
Matches: 160, Mismatches: 15, Indels: 23
0.81 0.08 0.12
Matches are distributed among these distances:
63 18 0.11
64 30 0.19
65 30 0.19
67 3 0.02
68 44 0.28
69 17 0.11
70 18 0.11
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.42
Consensus pattern (66 bp):
TATCTTTTAATATTCAAATTAAATAGATATAATATCTTTTAATTTGAAATATTCAAAAGATATAA
T
Found at i:9523077 original size:21 final size:21
Alignment explanation
Indices: 9523051--9523111 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
9523041 ATACTATATA
9523051 TAGGGTATCGATACTCAATCC
1 TAGGGTATCGATACTCAATCC
9523072 TAGGGTATCGATACTCAATCC
1 TAGGGTATCGATACTCAATCC
* *
9523093 TAGGGTATCAATAATCAAT
1 TAGGGTATCGATACTCAAT
9523112 GACGATATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (21 bp):
TAGGGTATCGATACTCAATCC
Found at i:9527384 original size:62 final size:62
Alignment explanation
Indices: 9527315--9527439 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
9527305 AAGCAAGGCT
9527315 TCTATCTATATGCAAAAGTGAAATCAATTCAAAAAAGAAATGATGTAAACAATAAAGCATGC
1 TCTATCTATATGCAAAAGTGAAATCAATTCAAAAAAGAAATGATGTAAACAATAAAGCATGC
9527377 TCTATCTATATGCAAAAGTGAAATCAATTCAAAAAAGAAATGATGTAAACAATAAAGCATGC
1 TCTATCTATATGCAAAAGTGAAATCAATTCAAAAAAGAAATGATGTAAACAATAAAGCATGC
9527439 T
1 T
9527440 GCAGATCATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.25
Consensus pattern (62 bp):
TCTATCTATATGCAAAAGTGAAATCAATTCAAAAAAGAAATGATGTAAACAATAAAGCATGC
Found at i:9527680 original size:24 final size:24
Alignment explanation
Indices: 9527621--9527668 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
9527611 TACCATGTTT
*
9527621 ATGGTCATGTTCATGATGATGATG
1 ATGGTCATGATCATGATGATGATG
*
9527645 ATGGTCATGATCATGATGGTGATG
1 ATGGTCATGATCATGATGATGATG
9527669 GTGAGCATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.08, G:0.31, T:0.35
Consensus pattern (24 bp):
ATGGTCATGATCATGATGATGATG
Found at i:9536693 original size:18 final size:19
Alignment explanation
Indices: 9536658--9536696 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
9536648 AGTCATGAAA
9536658 TTCATTTAAGTATATTAATT
1 TTCATTTAAG-ATATTAATT
*
9536678 TTCATTTAA-ATTTTAATT
1 TTCATTTAAGATATTAATT
9536696 T
1 T
9536697 ATTATTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
TTCATTTAAGATATTAATT
Found at i:9537015 original size:9 final size:9
Alignment explanation
Indices: 9536988--9537021 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
9536978 AATAAATATC
9536988 TTATTTTAA
1 TTATTTTAA
*
9536997 TTTATATTAA
1 -TTATTTTAA
9537007 TTATTTTAA
1 TTATTTTAA
9537016 TTATTT
1 TTATTT
9537022 ATTTTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTATTTTAA
Found at i:9537632 original size:29 final size:28
Alignment explanation
Indices: 9537590--9537657 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
9537580 AAAAGTTCAT
* *
9537590 ATATTTAATTTTTAATTATTTCTTTTCAAA
1 ATATTT-ATATTTAATTA-TTATTTTCAAA
* * *
9537620 ATTTTTATATTTACTTATTATTTTCATA
1 ATATTTATATTTAATTATTATTTTCAAA
9537648 ATATTTATAT
1 ATATTTATAT
9537658 GTTTCATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 18 0.56
29 9 0.28
30 5 0.16
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (28 bp):
ATATTTATATTTAATTATTATTTTCAAA
Found at i:9539294 original size:14 final size:14
Alignment explanation
Indices: 9539256--9539309 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
9539246 ATTTTAAATA
*
9539256 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
9539270 TTTTACATTTGCAT
1 ATTTACATTTGCAT
9539284 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
9539299 CTTTGCATTTG
1 ATTTACATTTG
9539310 TATTGCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:9542219 original size:2 final size:2
Alignment explanation
Indices: 9542212--9542343 Score: 146
Period size: 2 Copynumber: 66.0 Consensus size: 2
9542202 TATCCTTTTA
9542212 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
** *
9542254 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GA- AT GGC AT -T GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT -AT AT AT AT
* * *
9542296 TT CAT -T AT CCT TT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT -AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9542338 AT AT AT
1 AT AT AT
9542344 CCTTTGTTGT
Statistics
Matches: 113, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
1 4 0.04
2 106 0.94
3 3 0.03
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9545227 original size:114 final size:114
Alignment explanation
Indices: 9544919--9545231 Score: 493
Period size: 114 Copynumber: 2.7 Consensus size: 114
9544909 CCATGTGCTC
9544919 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
* *
9544984 CATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCA
66 CATTGAATTTGAAAGATGAATTTACTCATAGTAGAAATAAGAAGACCCA
* *
9545033 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAACTGGTTTGGTATGAACCCCAAAACTAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
* *
9545098 CATT-AGATTTAAAAGATGAATTTACTCATAGTAGAAATAAGGAGACCCA
66 CATTGA-ATTTGAAAGATGAATTTACTCATAGTAGAAATAAGAAGACCCA
* ** * * *
9545147 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTCAGTAGGAACCCCAGAACCGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
*
9545212 CATTGAAATTGAAAGATGAA
66 CATTGAATTTGAAAGATGAA
9545232 CTGCATGATC
Statistics
Matches: 181, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
114 180 0.99
115 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (114 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
CATTGAATTTGAAAGATGAATTTACTCATAGTAGAAATAAGAAGACCCA
Found at i:9547363 original size:40 final size:40
Alignment explanation
Indices: 9547303--9547378 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
9547293 CAGAGTCCAC
*
9547303 AGAAAAGGATGAATGCGTTGTCAAATTTTTTACATCCCAT
1 AGAAAAGGATGAATGCGTTGTCAAATGTTTTACATCCCAT
* *
9547343 AGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
1 AGAAAAGGATGAATGCGTTGTCAAATGTTTTACATC
9547379 TAAGCTGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (40 bp):
AGAAAAGGATGAATGCGTTGTCAAATGTTTTACATCCCAT
Found at i:9547788 original size:22 final size:22
Alignment explanation
Indices: 9547762--9547841 Score: 115
Period size: 22 Copynumber: 3.6 Consensus size: 22
9547752 TACATCTACA
9547762 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
9547784 CTCTTCAAAGATGATAGATTCC
1 CTCTTCAAAGATGATAGATTCT
* * *
9547806 CTTTTTAAAGATGACAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
9547828 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
9547842 AAGCTTTATC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:9548420 original size:113 final size:113
Alignment explanation
Indices: 9548233--9549562 Score: 2128
Period size: 113 Copynumber: 11.8 Consensus size: 113
9548223 TAGCAAAGAT
* * * * *
9548233 TCAAATCCATCAT-TCAATGGATCAACATTTCC-GGAAGAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATCT-GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* * * * *
9548296 AAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGT
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
** * * * * ** * *
9548345 TTGAATTCATCATTTGATGGATCA-ATATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTT
1 TCAAATCCATCATCTGATGGATCAGCT-TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* * * *
9548409 AAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
9548458 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
9548523 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
9548571 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
9548636 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
9548684 TCAAATCCATCATCTGAT-GATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAAAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
9548748 AGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTTC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
9548796 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
9548861 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
9548909 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATC-GA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
9548973 AGAAGGAAGAAGAAATTCATAATGAGAAGAA-TTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
9549020 TCAAA---ATCCATCTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCAT-CATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
9549082 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
9549131 TCAAATCCATCATCTAATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
9549196 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
9549244 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* * * * * *
9549309 AGAAAGAAGAAGAAGTTCATAAGGAGAAGAACTTGTTCAACTTTTTGT
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
9549357 TCAAATCCAT-AAC-AATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
9549420 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
9549468 TCAAATCCATCA-CTTGATGGATCAGCTTTTCCATAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATC-TGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
9549532 AAGAAGAAAGAAG-AGTTCATAATGAGAAGAA
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAA
9549563 CTCATCTGAA
Statistics
Matches: 1150, Mismatches: 54, Indels: 28
0.93 0.04 0.02
Matches are distributed among these distances:
108 2 0.00
109 51 0.04
110 33 0.03
111 144 0.13
112 185 0.16
113 732 0.64
114 3 0.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:9549560 original size:39 final size:39
Alignment explanation
Indices: 9549502--9549602 Score: 177
Period size: 39 Copynumber: 2.6 Consensus size: 39
9549492 GCTTTTCCAT
9549502 AGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
9549540 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
*
9549579 AGAAGGAATTCATAATGAGAAGAA
1 AGAA-GAGTTCATAATGAGAAGAA
9549603 TTTGTTCAAC
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
38 4 0.07
39 38 0.63
40 18 0.30
ACGTcount: A:0.50, C:0.09, G:0.23, T:0.18
Consensus pattern (39 bp):
AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
Found at i:9549567 original size:152 final size:150
Alignment explanation
Indices: 9549389--9549713 Score: 462
Period size: 152 Copynumber: 2.2 Consensus size: 150
9549379 ACTTTTCCAG
*
9549389 AGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA-GAAGTTCATAATGAGAAGAAC
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGGAA-TTCATAATGAGAAGAAC
*
9549452 TTGTTCAACCTTTTGCTCAAATCCATCACTT-GATGGATCAGCTTTTCCATAG-AA-AGTTCATA
65 TTGTTCAACCTTTTGCTCAAATCCATCA-TTCGATGGATCAG-TATTCC-TAGAAAGAGTTCATA
*
9549514 ATGAGAAGAACTCATCTGAAGAAGAA
127 ATAAGAAGAACTCATCTGAAG-AG-A
*
9549540 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGGAATTCATAATGAGAAGAATT
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGGAATTCATAATGAGAAGAACT
* * * * *
9549605 TGTTCAACTTTTTGCTCGATTTCATCATTCGATGGATCAGTATTGCTAGAAAGAGTTCATAATAA
66 TGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGTATTCCTAGAAAGAGTTCATAATAA
*
9549670 GAAGAACTCATCTGAAGAGG
131 GAAGAACTCATCTGAAGAGA
9549690 AGAAGAAGTTCATAATGAGAAGAA
1 AGAAG-AGTTCATAATGAGAAGAA
9549714 TTTGTTCAGC
Statistics
Matches: 158, Mismatches: 10, Indels: 12
0.88 0.06 0.07
Matches are distributed among these distances:
150 8 0.05
151 32 0.20
152 115 0.73
153 3 0.02
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.26
Consensus pattern (150 bp):
AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGGAATTCATAATGAGAAGAACT
TGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGTATTCCTAGAAAGAGTTCATAATAA
GAAGAACTCATCTGAAGAGA
Found at i:9549570 original size:263 final size:270
Alignment explanation
Indices: 9549276--9549839 Score: 706
Period size: 263 Copynumber: 2.1 Consensus size: 270
9549266 CAGCTTTTCC
*
9549276 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-AGAAGAA-GAAGTTCATAAGGAGAAGA
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA-AAGAAGGAA-TTCATAAGGAGAAGA
* *
9549339 ACTTGTTCAACTTTTTGTTCAAATCCAT-A-ACAATGGATCAACT-TTTCCAGAGAA-AGTTCAT
64 ACTTGTTCAACTTTTTGCTCAAATCCATCATACAATGGATC-ACTATTGCCAGA-AAGAGTTCAT
*
9549400 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
127 AATAAGAAGAACTCATCTGAAG-AGG-AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
* * * * *
9549465 TGC-TCAAATCCAT-C-ACT-TGATGGATCAG-C-T-TTTCCATAGAAAGTTCATAATGAGAAGA
190 TGCAT-AAATCCATACGAATGAGATAGATCAGTCATATTTCCAGAGAAAGCTCATAATGAGAAGA
9549523 ACTCATCTGAAGAAGAA
254 ACTCATCTGAAGAAGAA
* *
9549540 AGAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGGAATTCATAATGAGAAGAAT
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGGAATTCATAAGGAGAAGAAC
* * * * * * *
9549604 TTGTTCAACTTTTTGCTCGATTTCATCATTCGATGGATCAGTATTGCTAGAAAGAGTTCATAATA
66 TTGTTCAACTTTTTGCTCAAATCCATCATACAATGGATCACTATTGCCAGAAAGAGTTCATAATA
* * *
9549669 AGAAGAACTCATCTGAAGAGGAGAAGAAGTTCATAATGAGAAGAATTTGTTCAGCCTTTTGCATG
131 AGAAGAACTCATCTGAAGAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATA
* * *
9549734 ACTCTATAACGGAATGAGATAGATCAGTATCAATATTTCCAGAGACAGCTCATAATGAGAAGAAC
196 AATCCAT-AC-GAATGAGATAGATCAG--TC-ATATTTCCAGAGAAAGCTCATAATGAGAAGAAC
9549799 TCATCTGAAGAAGAA
256 TCATCTGAAGAAGAA
9549814 AGAAGAAGTTCATAATGAGAAGAACT
1 AGAAGAAGTTCATAATGAGAAGAACT
9549840 TGTTCAACTT
Statistics
Matches: 257, Mismatches: 24, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
263 117 0.46
264 17 0.07
265 43 0.17
267 2 0.01
268 9 0.04
271 1 0.00
273 1 0.00
274 47 0.18
275 20 0.08
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (270 bp):
AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGGAATTCATAAGGAGAAGAAC
TTGTTCAACTTTTTGCTCAAATCCATCATACAATGGATCACTATTGCCAGAAAGAGTTCATAATA
AGAAGAACTCATCTGAAGAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATA
AATCCATACGAATGAGATAGATCAGTCATATTTCCAGAGAAAGCTCATAATGAGAAGAACTCATC
TGAAGAAGAA
Found at i:9549675 original size:113 final size:113
Alignment explanation
Indices: 9549542--9550434 Score: 732
Period size: 113 Copynumber: 7.7 Consensus size: 113
9549532 AAGAAGAAAG
9549542 AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGGAA-TTCATAATGAGAAGAATTT
1 AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAA-GAAGTTCATAATGAGAAGAATTT
* * * ** *
9549606 GTTCAACTTTTTGCTCGATTTCATCATTCGATGGATCAGTATTGCTAGA
65 GTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAACATTGCCAGA
* *
9549655 AAGAGTTCATAATAAGAAGAACTCATCTGAAG-AG-GAGAAGAAGTTCATAATGAGAAGAATTTG
1 AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTG
* * * * * * *
9549718 TTCAGCCTTTTGCATG-ACTCTATAACGGAATGAGATAGATCAGTATCAATATTTCCAGA
66 TTCAACCTTTTGCTTGAATTC-AT--C---AT----TCGAT--GGATCAACATTGCCAGA
* * * *
9549777 GACAGCTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTG
1 AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTG
* * * * * *
9549842 TTCAACTTTTTGCTTAAATTCATCA-CCTAATGGATTAGCATTGCCAGA
66 TTCAACCTTTTGCTTGAATTCATCATTC-GATGGATCAACATTGCCAGA
* * *
9549890 GAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTT
1 -AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTT
* * *
9549954 GTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGG
65 GTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAACATTGCCAGA
* *
9550003 TAGAGTTCATAATGAGAAGAACTCATCTGAAGAA-AGAAGAAGAAATTCATAATGAGAAGAATTT
1 AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGA-AAGAAGAAGTTCATAATGAGAAGAATTT
* * * * * *
9550067 GTTCAACTTTTTGTTTGAATTCATCACTCGATGGACCAACATTTCCA-T
65 GTTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAACATTGCCAGA
* * * * *
9550115 ATGAAGTTTATAATGAGAAGATCTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAATCT
1 AAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTT
* * * * ** * *
9550179 GTTCAACCTTTTGCTCGACGCTATCA-CAGAAAGAGATAGATCAACATCAACATTTCCAAA
65 GTTCAACCTTTTGCTTGA--AT-TCATC------A-TTCGAT--GGATCAACATTGCCAGA
* * * *
9550239 AAGAGTTCATAATGAGAAGAACTCGTCTGAAG-AGGAAGAGGAAGTTCATAATGAGAAGAATCTG
1 AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTG
* * * * ** * *
9550303 TTCAACCTTTTGCTCGACGCTATCA-CAGAAAGAGATAGATCAACATCAACATTTCCAAA
66 TTCAACCTTTTGCTTGA--AT-TCATC------A-TTCGAT--GGATCAACATTGCCAGA
* *
9550362 AAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAGGAAGTTCATAATGAGAAGAATTTG
1 AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTG
9550426 TTCAACCTT
66 TTCAACCTT
9550435 GCCTTAATTT
Statistics
Matches: 664, Mismatches: 80, Indels: 62
0.82 0.10 0.08
Matches are distributed among these distances:
110 5 0.01
111 38 0.06
112 46 0.07
113 266 0.40
114 3 0.00
115 5 0.01
116 2 0.00
119 1 0.00
120 5 0.01
121 4 0.01
122 42 0.06
123 201 0.30
124 43 0.06
125 3 0.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (113 bp):
AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTG
TTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAACATTGCCAGA
Found at i:9549834 original size:235 final size:232
Alignment explanation
Indices: 9549543--9550434 Score: 929
Period size: 235 Copynumber: 3.8 Consensus size: 232
9549533 AGAAGAAAGA
9549543 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGGAA-TTCATAATGAGAAGAATTTG
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAA-GAAGTTCATAATGAGAAGAATTTG
* * * *
9549607 TTCAACTTTTTGCTCGATTTCATCATTCGATGGATCAGTATTGCTAGAAAGAGTTCATAATAAGA
65 TTCAACTTTTTGCTCGAATTCATCA-TCGATGGATCAGCATTGCCAGAAAGAGTTCATAATGAGA
*
9549672 AGAACTCATCTGAAGAGG-AGAAGAAGTTCATAATGAGAAGAATTTGTTCAGCCTTTTGCATGAC
129 AGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC-TGAC
* *
9549736 TCTATAACGGAATGAGATAGATCAGTATCAATATTTCCAGAG
193 TCTAT-AC-GAATGAGATAGATCAGCATCAACATTTCCAGAG
* * *
9549778 ACAGCTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTGT
** * * *
9549843 TCAACTTTTTGCTTAAATTCATCACCTAATGGATTAGCATTGCCAGAGAA-AGTTCATAATGAGA
66 TCAACTTTTTGCTCGAATTCATCATC-GATGGATCAGCATTGCCAGA-AAGAGTTCATAATGAGA
* * *
9549907 AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTGA
129 AGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG-CTGA
* * * *
9549972 AT-TCAT-C--AT----TTGAT--GGATCAACATTGCCAG-G
192 CTCT-ATACGAATGAGATAGATCAGCATCAACATTTCCAGAG
*
9550003 TAGAGTTCATAATGAGAAGAACTCATCTGAAGAA-AGAAGAAGAAATTCATAATGAGAAGAATTT
1 -AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGA-AAGAAGAAGTTCATAATGAGAAGAATTT
* * * * * * * *
9550067 GTTCAACTTTTTGTTTGAATTCATCACTCGATGGACCAACATTTCCA-TATGAAGTTTATAATGA
64 GTTCAACTTTTTGCTCGAATTCATCA-TCGATGGATCAGCATTGCCAGAAAG-AGTTCATAATGA
* *
9550131 GAAGATCTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATCTGTTCAACCTTTTGCTCG
127 GAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCT-G
* * * * *
9550196 ACGCTATCACAGAAAGAGATAGATCAACATCAACATTTCCAAAA
191 ACTCTAT-AC-GAATGAGATAGATCAGCATCAACATTTCCAGAG
* * * *
9550240 AGAGTTCATAATGAGAAGAACTCGTCTGAAG-AGGAAGAGGAAGTTCATAATGAGAAGAATCTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTGT
* * * ** * * *
9550304 TCAACCTTTTGCTCGACGCTATCA-CAGAAAGAGATAGATCAACATCAACATTTCCAAAAAGAGT
66 TCAACTTTTTGCTCGA--AT-TCATC--------ATCGAT--GGATCAGCATTGCCAGAAAGAGT
*
9550368 TCATAATGAGAAGAACTCATCTGAAGAGGAAGAGGAAGTTCATAATGAGAAGAATTTGTTCAACC
118 TCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACC
9550433 TT
183 TT
9550435 GCCTTAATTT
Statistics
Matches: 547, Mismatches: 69, Indels: 71
0.80 0.10 0.10
Matches are distributed among these distances:
224 2 0.00
225 47 0.09
226 135 0.25
227 2 0.00
228 4 0.01
230 1 0.00
232 2 0.00
234 8 0.01
235 165 0.30
236 48 0.09
237 45 0.08
238 3 0.01
244 4 0.01
245 1 0.00
246 78 0.14
247 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (232 bp):
AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTGT
TCAACTTTTTGCTCGAATTCATCATCGATGGATCAGCATTGCCAGAAAGAGTTCATAATGAGAAG
AACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTGACTCT
ATACGAATGAGATAGATCAGCATCAACATTTCCAGAG
Found at i:9549914 original size:387 final size:375
Alignment explanation
Indices: 9549163--9549950 Score: 1073
Period size: 387 Copynumber: 2.1 Consensus size: 375
9549153 CAGCTTTTCC
* *
9549163 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAAT
* *
9549228 TTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATG
66 TTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTGCCAGAAAAAGTTCATAATA
*
9549293 AGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAAGGAGAAGAACTTGTTCAACTTTTTGTT
131 AGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTCATAAGGAGAAGAACTTGTTCAACCTTTTG-T
*
9549358 CAAATCCATAACAATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
194 CAAATCCATAACAATGGATCAACTTTTCCAGAGAAAGCTCATAATGAGAAGAACTCATCTGAAGA
* * *
9549423 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
259 AGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACCTAATGG
* * *
9549488 ATCAGCTTTTCCATAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
324 ATCAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
*
9549540 AGAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGGAATTCATAATGAGAAGAAT
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAAT
* * * * * *
9549604 TTGTTCAACTTTTTGCTCGATTTCATCAT-TCGATGGATCAG-TATTGCTAGAAAGAGTTCATAA
66 TTGTTCAACCTTTTGCTCAAATCCATCATCT-GATGGATCAGCT-TTGCCAGAAAAAGTTCATAA
* * * *
9549667 TAAGAAGAACTCATCTGAAG-AGGAGAAGAAGTTCATAATGAGAAGAATTTGTTCAGCCTTTTG-
129 TAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAAGGAGAAGAACTTGTTCAACCTTTTGT
* * *
9549730 CATGACTCTATAACGGAATGAGATAGATCAGTATCAATATTTCCAGAGACAGCTCATAATGAGAA
194 CA--AATCCATAAC--AAT--G---GATCA--A-C--T-TTTCCAGAGAAAGCTCATAATGAGAA
* *
9549795 GAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAA
244 GAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAA
* *
9549860 TTCATCACCTAATGGATTAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
309 TCCATCACCTAATGGATCAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
*
9549925 GA
374 AA
* *
9549927 AGAAGAAATTCATAATAAGAAGAA
1 AGAAGAAGTTCATAATGAGAAGAA
9549951 TTTGTTCAAC
Statistics
Matches: 360, Mismatches: 33, Indels: 25
0.86 0.08 0.06
Matches are distributed among these distances:
372 2 0.01
374 46 0.13
375 2 0.01
376 131 0.36
377 4 0.01
378 1 0.00
381 5 0.01
383 1 0.00
384 1 0.00
386 1 0.00
387 150 0.42
388 16 0.04
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (375 bp):
AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAAT
TTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTGCCAGAAAAAGTTCATAATA
AGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAAGGAGAAGAACTTGTTCAACCTTTTGTCA
AATCCATAACAATGGATCAACTTTTCCAGAGAAAGCTCATAATGAGAAGAACTCATCTGAAGAAG
AAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACCTAATGGAT
CAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
Found at i:9549920 original size:724 final size:712
Alignment explanation
Indices: 9548834--9550194 Score: 1966
Period size: 724 Copynumber: 1.9 Consensus size: 712
9548824 TTCCAGAAAA
*
9548834 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* *
9548899 AACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGA
66 AACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTGCCAGAAAAAGTTCATAATAAGAAGA
*
9548964 ACTCATCGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTGTTCAACCTTTTGCTCAAAATCC
131 ACTCATCGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTGTTCAACCTTTTGCTCAAAATCA
* * * *
9549029 ATCTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
196 ATCAGATAGATCAACTTTTCCAGAAAAAGCTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAA
* * *
9549094 GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTAATGGATCAGCTT
261 GAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACCTAATGGATCAGCAT
* *
9549159 TTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
326 TGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAA
* * *
9549224 GAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCAT
391 GAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAACATTGCCAGAAAAAGTTCAT
*
9549289 AATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAAGGAGAAGAACTTGTTCAACTTTT
456 AATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAAGGAGAAGAACTTGTTCAACTTTT
* *
9549354 TGTTCAAATCCAT-A-ACAATGGATCAACTTTTCCAGA-GAAAGTTCATAATGAGAAGAACTCAT
521 TGTTCAAATCCATCACACAATGGACCAACATTTCCAGATG-AAGTTCATAATGAGAAGAACTCAT
9549416 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA-CTTGTTCAACCTTTTGCTCAAATCCATCA
585 CTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAATC-TGTTCAACCTTTTGCTCAAATCCATCA
9549480 CTTGATGGATCAGCTTTTCCATAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAG
648 CTTGATGGATCAGCTTTTCCATAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAG
*
9549545 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGGAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * * * * *
9549610 AACTTTTTGCTCGATTTCATCAT-TCGATGGATCAG-TATTGCTAGAAAGAGTTCATAATAAGAA
66 AACCTTTTGCTCAAATCCATCATCT-GATGGATCAGCT-TTGCCAGAAAAAGTTCATAATAAGAA
* *
9549673 GAACTCATCTGAAG-AGG-AGAAGAAGTTCATAATGAGAAGAATTTGTTCAGCCTTTTGCATGAC
129 GAACTCATC-GAAGAAGGAAGAAGAAATTCATAATGAGAAGAA-TTGTTCAACC-TTT---TG-C
* * * *
9549736 TCTATAA-CGGAATGAGATAGATCAGTATCAATATTTCCAGAGACAGCTCATAATGAGAAGAACT
187 TC-AAAATC--AATCAGATAGATCA--A-C--T-TTTCCAGAAAAAGCTCATAATGAGAAGAACT
* * * *
9549800 CATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCAT
243 CATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCAT
* *
9549865 CACCTAATGGATTAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
308 CACCTAATGGATCAGCATTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
* ** * *
9549930 AGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACA
373 AGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAACA
** * *
9549995 TTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGA
438 TTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAAGGAGA
* ** * * * * *
9550060 AGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGGACCAACATTTCCATATGAAGTTTA
503 AGAACTTGTTCAACTTTTTGTTCAAATCCATCACACAATGGACCAACATTTCCAGATGAAGTTCA
*
9550125 TAATGAGAAGATCTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATCTGTTCAACCTTT
568 TAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATCTGTTCAACCTTT
9550190 TGCTC
633 TGCTC
9550195 GACGCTATCA
Statistics
Matches: 572, Mismatches: 56, Indels: 30
0.87 0.09 0.05
Matches are distributed among these distances:
710 25 0.04
711 135 0.24
712 7 0.01
715 2 0.00
716 4 0.01
717 3 0.01
718 10 0.02
720 1 0.00
721 1 0.00
723 1 0.00
724 290 0.51
725 46 0.08
726 46 0.08
727 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (712 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTGCCAGAAAAAGTTCATAATAAGAAGA
ACTCATCGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTGTTCAACCTTTTGCTCAAAATCA
ATCAGATAGATCAACTTTTCCAGAAAAAGCTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAA
GAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACCTAATGGATCAGCAT
TGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAA
GAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAACATTGCCAGAAAAAGTTCAT
AATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAAGGAGAAGAACTTGTTCAACTTTT
TGTTCAAATCCATCACACAATGGACCAACATTTCCAGATGAAGTTCATAATGAGAAGAACTCATC
TGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATCTGTTCAACCTTTTGCTCAAATCCATCACTT
GATGGATCAGCTTTTCCATAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAG
Found at i:9550258 original size:123 final size:123
Alignment explanation
Indices: 9550119--9550434 Score: 587
Period size: 123 Copynumber: 2.6 Consensus size: 123
9550109 TTCCATATGA
* * *
9550119 AGTTTATAATGAGAAGATCTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATCTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAGGAAGTTCATAATGAGAAGAATCTGTTCA
9550184 ACCTTTTGCTCGACGCTATCACAGAAAGAGATAGATCAACATCAACATTTCCAAAAAG
66 ACCTTTTGCTCGACGCTATCACAGAAAGAGATAGATCAACATCAACATTTCCAAAAAG
*
9550242 AGTTCATAATGAGAAGAACTCGTCTGAAGAGGAAGAGGAAGTTCATAATGAGAAGAATCTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAGGAAGTTCATAATGAGAAGAATCTGTTCA
9550307 ACCTTTTGCTCGACGCTATCACAGAAAGAGATAGATCAACATCAACATTTCCAAAAAG
66 ACCTTTTGCTCGACGCTATCACAGAAAGAGATAGATCAACATCAACATTTCCAAAAAG
*
9550365 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAGGAAGTTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAGGAAGTTCATAATGAGAAGAATCTGTTCA
9550430 ACCTT
66 ACCTT
9550435 GCCTTAATTT
Statistics
Matches: 187, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 187 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (123 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAGGAAGTTCATAATGAGAAGAATCTGTTCA
ACCTTTTGCTCGACGCTATCACAGAAAGAGATAGATCAACATCAACATTTCCAAAAAG
Found at i:9552972 original size:22 final size:22
Alignment explanation
Indices: 9552947--9552991 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
9552937 TTAGGTGTCC
9552947 AAATTAAAAGAAAATAGAAACT
1 AAATTAAAAGAAAATAGAAACT
9552969 AAATTAAAAGAAAATAGAAACT
1 AAATTAAAAGAAAATAGAAACT
9552991 A
1 A
9552992 CGGGCCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.69, C:0.04, G:0.09, T:0.18
Consensus pattern (22 bp):
AAATTAAAAGAAAATAGAAACT
Found at i:9554637 original size:106 final size:106
Alignment explanation
Indices: 9554449--9555257 Score: 1252
Period size: 105 Copynumber: 7.7 Consensus size: 106
9554439 TATATAGCTT
**** *
9554449 CTTCGTCGTGAAGTTGAACTTATACTGTCTTGAGTCCAATATCCTTCGTTGTGAAGGTT-AAATT
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA-GTTGAAATT
* * * *
9554513 GGCTCTGAAGTTGGGAAGTTATTTATTGACAACCAGCGGTCC
65 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCC
* *
9554555 CTTCGTCGTGAATTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
9554620 GCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCC
66 GCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCC
* *
9554661 CTTCGTCGTGAAGTTGAACATGCGTTGTCTGGGGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
*
9554726 GCTCTGAAATTGAGAAGTTATTTGTTGACAACCAGCGGTCC
66 GCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCC
* *
9554767 CTTCGTCGTGAAGTTGAACTTTCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
* * * * *
9554832 GATCTGAAATTGGGAA-ATGTTTATTGACAACCCGCGGTCC
66 GCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCC
9554872 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
* * * *
9554937 GCTCTGAAATGGGGAA-ATGTTTATTGACAACCAGCGGTCC
66 GCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCC
*
9554977 CTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
* * * *
9555042 ACTATGGAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCC
66 GCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCC
*
9555082 CTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
*
9555147 GCTCTGAAATTGAG-AGATT-TTTGTGGACAACCAGCGGTCC
66 GCTCTGAAATTGAGAAG-TTGTTTGTTGACAACCAGCGGTCC
* *
9555187 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTAAAATTG
1 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
9555252 GCTCTG
66 GCTCTG
9555258 GGTAAAACCT
Statistics
Matches: 652, Mismatches: 48, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
104 1 0.00
105 383 0.59
106 268 0.41
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
GCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCC
Found at i:9556794 original size:19 final size:20
Alignment explanation
Indices: 9556758--9556796 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9556748 GAAATAGTCA
9556758 ATTGCTACGAGAAATGAAAC
1 ATTGCTACGAGAAATGAAAC
9556778 ATTGCTACGAG-AATGAAAC
1 ATTGCTACGAGAAATGAAAC
9556797 GGTGACCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (20 bp):
ATTGCTACGAGAAATGAAAC
Found at i:9562752 original size:71 final size:72
Alignment explanation
Indices: 9562636--9562778 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 72
9562626 TGTAGAAGTT
9562636 TGTATCTTCACAGCAGGTGCAACTTTCGCTTTGGTAACGAATGAGTCCCCGGGTAGTG-TGCTTT
1 TGTATCTTCACAGCAGGTGCAACTTTCGCTTTGGTAACGAATGAGTCCCCGGGTAGTGCTGCTTT
9562700 CCCTTTA
66 CCCTTTA
9562707 TGTATCTTCACAGCAGGTGCAACTTTCGCTTTGGTAACGAATGAGTCCCCGGGTAGTGCTGCTTT
1 TGTATCTTCACAGCAGGTGCAACTTTCGCTTTGGTAACGAATGAGTCCCCGGGTAGTGCTGCTTT
9562772 CCCTTTA
66 CCCTTTA
9562779 GTAGCAGATG
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 58 0.82
72 13 0.18
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (72 bp):
TGTATCTTCACAGCAGGTGCAACTTTCGCTTTGGTAACGAATGAGTCCCCGGGTAGTGCTGCTTT
CCCTTTA
Found at i:9562772 original size:39 final size:39
Alignment explanation
Indices: 9562751--9562839 Score: 178
Period size: 39 Copynumber: 2.3 Consensus size: 39
9562741 TAACGAATGA
9562751 GTCCCCGGGTAGTGCTGCTTTCCCTTTAGTAGCAGATGC
1 GTCCCCGGGTAGTGCTGCTTTCCCTTTAGTAGCAGATGC
9562790 GTCCCCGGGTAGTGCTGCTTTCCCTTTAGTAGCAGATGC
1 GTCCCCGGGTAGTGCTGCTTTCCCTTTAGTAGCAGATGC
9562829 GTCCCCGGGTA
1 GTCCCCGGGTA
9562840 ATATTCCGGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.12, C:0.29, G:0.29, T:0.29
Consensus pattern (39 bp):
GTCCCCGGGTAGTGCTGCTTTCCCTTTAGTAGCAGATGC
Found at i:9565469 original size:10 final size:10
Alignment explanation
Indices: 9565444--9565477 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9565434 AAGGTTAGTA
*
9565444 AAATAGAAAT
1 AAATAAAAAT
*
9565454 AGATAAAAAT
1 AAATAAAAAT
9565464 AAATAAAAAT
1 AAATAAAAAT
9565474 AAAT
1 AAAT
9565478 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:9567017 original size:22 final size:23
Alignment explanation
Indices: 9566992--9567042 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
9566982 ATAAAAATAT
9566992 AATATAATAAT-AACAAAA-GAAA
1 AATATAA-AATCAACAAAATGAAA
* *
9567014 AATAGAAAATCAATAAAATGAAA
1 AATATAAAATCAACAAAATGAAA
9567037 AATATA
1 AATATA
9567043 TATATACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 12 0.50
23 9 0.38
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.20
Consensus pattern (23 bp):
AATATAAAATCAACAAAATGAAA
Found at i:9568555 original size:115 final size:116
Alignment explanation
Indices: 9568344--9568561 Score: 273
Period size: 115 Copynumber: 1.9 Consensus size: 116
9568334 TTTATCATAT
* *
9568344 TTTAATATTTATTTATTTTTCAATATCGAAGAAAAGCAGTCTTAAAACAACTGGATGTTCATTTT
1 TTTAATATTTATTTATTTTTCAATATCGAAGAAAAGCAGTCTTAAAACAACTAGAAGTTCATTTT
* *
9568409 TCTGATATTTTTTAATAAATAAATATCTATTT-TAAATTATATATTAATTA
66 TCTGATATTTCTAAATAAATAAATATCTATTTATAAATTATATATTAATTA
* * * *** *
9568459 TTTAATTATTTATTT-TTTTTTAATATTGAAGAAAGAGCTGTCTTAAGGTACCTAGAAG-TCA-T
1 TTTAA-TATTTATTTATTTTTCAATATCGAAGAAA-AGCAGTCTTAAAACAACTAGAAGTTCATT
*
9568521 TTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAAT
64 TTTCTGATATTTCTAAATAAATAAATA-TCTATTTATAAAT
9568562 AATAAAAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
114 26 0.30
115 31 0.36
116 30 0.34
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.47
Consensus pattern (116 bp):
TTTAATATTTATTTATTTTTCAATATCGAAGAAAAGCAGTCTTAAAACAACTAGAAGTTCATTTT
TCTGATATTTCTAAATAAATAAATATCTATTTATAAATTATATATTAATTA
Found at i:9568574 original size:116 final size:115
Alignment explanation
Indices: 9568344--9568577 Score: 267
Period size: 116 Copynumber: 2.0 Consensus size: 115
9568334 TTTATCATAT
* *
9568344 TTTAATATTTATTTATTTTTCAATATCGAAGAAAAGCAGTCTTAAAACAACTGGATGTTCATTTT
1 TTTAATATTTATTTATTTTTCAATATCGAAGAAAAGCAGTCTTAAAACAACTAGAAGTTCATTTT
* * * * **
9568409 TCTGATATTTTTTAATAAATAAATATCTATTTTAAATTATATATTAATTA
66 TCTGATATTTCTAAATAAATAAATATCTATTTTAAATAATAAAAAAATTA
* * * *** *
9568459 TTTAATTATTTATTT-TTTTTTAATATTGAAGAAAGAGCTGTCTTAAGGTACCTAGAAG-TCA-T
1 TTTAA-TATTTATTTATTTTTCAATATCGAAGAAA-AGCAGTCTTAAAACAACTAGAAGTTCATT
*
9568521 TTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATAATAAAAAAATTA
64 TTTCTGATATTTCTAAATAAATAAATA-TCTATTT-TAAATAATAAAAAAATTA
9568575 TTT
1 TTT
9568578 TTTTCTAATC
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
114 26 0.26
115 31 0.31
116 42 0.42
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.47
Consensus pattern (115 bp):
TTTAATATTTATTTATTTTTCAATATCGAAGAAAAGCAGTCTTAAAACAACTAGAAGTTCATTTT
TCTGATATTTCTAAATAAATAAATATCTATTTTAAATAATAAAAAAATTA
Found at i:9572087 original size:69 final size:70
Alignment explanation
Indices: 9571970--9572114 Score: 283
Period size: 69 Copynumber: 2.1 Consensus size: 70
9571960 TACATCCACT
9571970 ACCTTAGCCATCCACGCTAAGGATTTTCACAAATTCACTAATTTGTAGCAACCTTTGAGGATAAG
1 ACCTTAGCCATCCACGCTAAGGATTTTCACAAATTCACTAATTTGTAGCAACCTTTGAGGATAAG
9572035 GTGTA
66 GTGTA
9572040 ACCTT-GCCATCCACGCTAAGGATTTTCACAAATTCACTAATTTGTAGCAACCTTTGAGGATAAG
1 ACCTTAGCCATCCACGCTAAGGATTTTCACAAATTCACTAATTTGTAGCAACCTTTGAGGATAAG
9572104 GTGTA
66 GTGTA
9572109 ACCTTA
1 ACCTTA
9572115 CAACTCCCTC
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
69 69 0.93
70 5 0.07
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (70 bp):
ACCTTAGCCATCCACGCTAAGGATTTTCACAAATTCACTAATTTGTAGCAACCTTTGAGGATAAG
GTGTA
Found at i:9573905 original size:23 final size:23
Alignment explanation
Indices: 9573879--9573922 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
9573869 TGAATTCAAG
9573879 TTTGGCTCATGTTCCTTAGATTA
1 TTTGGCTCATGTTCCTTAGATTA
*
9573902 TTTGGTTCATGTTCCTTAGAT
1 TTTGGCTCATGTTCCTTAGAT
9573923 GATACTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.50
Consensus pattern (23 bp):
TTTGGCTCATGTTCCTTAGATTA
Found at i:9575649 original size:22 final size:22
Alignment explanation
Indices: 9575623--9575677 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
9575613 TACCAAATAG
*
9575623 GGGTATCGGTACC-ATAGTATA
1 GGGTATCGATACCTATAGTATA
*
9575644 GTGGTATCGATACCTATGGTA-A
1 G-GGTATCGATACCTATAGTATA
9575666 GGGTATCGATAC
1 GGGTATCGATAC
9575678 TGGCCACATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.40
22 13 0.43
23 5 0.17
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (22 bp):
GGGTATCGATACCTATAGTATA
Found at i:9575721 original size:95 final size:97
Alignment explanation
Indices: 9575547--9575765 Score: 234
Period size: 95 Copynumber: 2.3 Consensus size: 97
9575537 TACCTAATCA
*
9575547 AGTGGTATCGATACC-ATGGTGAGGGTATCGATACCGGGTAAACATCGAACTTAATTTTGGTATC
1 AGTGGTATCGATACCTATGGTAAGGGTATCGATACCGGGTAAACATCGAACTTAATTTTGGTATC
** *
9575611 AATACCAAATAGGGGTATCGGTACCATAGTAT
66 AATACCAAATAGGGGTATCAATACCATAGTAG
* **
9575643 AGTGGTATCGATACCTATGGTAAGGGTATCGATA-CTGG-CCACATCGAA-TCTAATTTTGGTAT
1 AGTGGTATCGATACCTATGGTAAGGGTATCGATACCGGGTAAACATCGAACT-TAATTTTGGTAT
** ***
9575705 TGATA-CTGGTAGGGGGTATCAATACCATAGTAG
65 CAATACCAAATA-GGGGTATCAATACCATAGTAG
* * * *
9575738 GGTAGTATCGATA-CTATAGTAGGGGTAT
1 AGTGGTATCGATACCTATGGTAAGGGTAT
9575766 TATGGTATCG
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
94 17 0.16
95 52 0.50
96 18 0.17
97 17 0.16
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (97 bp):
AGTGGTATCGATACCTATGGTAAGGGTATCGATACCGGGTAAACATCGAACTTAATTTTGGTATC
AATACCAAATAGGGGTATCAATACCATAGTAG
Found at i:9575751 original size:22 final size:22
Alignment explanation
Indices: 9575720--9575761 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9575710 CTGGTAGGGG
9575720 GTATCAATACCATAGTAGGGTA
1 GTATCAATACCATAGTAGGGTA
* *
9575742 GTATCGATACTATAGTAGGG
1 GTATCAATACCATAGTAGGG
9575762 GTATTATGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (22 bp):
GTATCAATACCATAGTAGGGTA
Found at i:9576315 original size:45 final size:45
Alignment explanation
Indices: 9576266--9576505 Score: 297
Period size: 45 Copynumber: 5.3 Consensus size: 45
9576256 AAGGATACCG
** *
9576266 GAGTTGAAATCCATATGGGTGCATTATCAACAGAAAAATATACTA
1 GAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGTATACTA
* *
9576311 GAGTTGAAATGCATATGGGTGCATTTATCAACA-AAAAGTATGCTA
1 GAGTTGAAATGTATATGGGTGCA-TTATCAACAGAAAAGTATACTA
* *
9576356 GAGTTGAAATGTATATAGGTACATTATCAACAGAAAAGTATACTA
1 GAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGTATACTA
* * * *
9576401 TG-GTTGAGATGTATATGGGTACATTATCAACATAAAAGTATAATA
1 -GAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGTATACTA
* **
9576446 TAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAG-ATGTTA
1 GAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGTATACTA
*
9576490 GAGTTTAAAATGTATA
1 GAG-TTGAAATGTATA
9576506 ATGATGTATT
Statistics
Matches: 171, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
44 15 0.09
45 146 0.85
46 10 0.06
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (45 bp):
GAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGTATACTA
Found at i:9576517 original size:135 final size:134
Alignment explanation
Indices: 9576278--9576522 Score: 334
Period size: 135 Copynumber: 1.8 Consensus size: 134
9576268 GTTGAAATCC
* *
9576278 ATATGGGTGCATTATCAACAGAAAAATATACTAGAGTTGAAATGCATATGGGTGCATTTATCAAC
1 ATATGGGTACATTATCAACAGAAAAATATAATAGAGTTGAAATGCATATGGGTGCATTTATCAAC
* *
9576343 AAAAAGTATGCTAGAGTTGAAATGTATATAGGTACATTATCAACAGAAAAGTATACTATGGTTGA
66 AAAAAGTATGCTAGAGTTAAAATGTATATAGGTA-ATTATAAACAGAAAAGTATACTATGGTTGA
9576408 GATGT
130 GATGT
* * * *
9576413 ATATGGGTACATTATCAACATAAAAGTATAATATAGTTGAAATGTATATGGGTGCA-TTATCAAC
1 ATATGGGTACATTATCAACAGAAAAATATAATAGAGTTGAAATGCATATGGGTGCATTTATCAAC
* *
9576477 AGAAAAG-ATGTTAGAGTTTAAAATGTATAATGATGT-ATTATAAACA
66 A-AAAAGTATGCTAGAG-TTAAAATGTAT-AT-AGGTAATTATAAACA
9576523 TAAATGTAGG
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
134 17 0.18
135 74 0.77
136 2 0.02
137 3 0.03
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (134 bp):
ATATGGGTACATTATCAACAGAAAAATATAATAGAGTTGAAATGCATATGGGTGCATTTATCAAC
AAAAAGTATGCTAGAGTTAAAATGTATATAGGTAATTATAAACAGAAAAGTATACTATGGTTGAG
ATGT
Found at i:9579928 original size:18 final size:18
Alignment explanation
Indices: 9579905--9579939 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9579895 ACTGAGTGTT
*
9579905 TGTCCCGAATGACCACTA
1 TGTCCCGAAAGACCACTA
9579923 TGTCCCGAAAGACCACT
1 TGTCCCGAAAGACCACT
9579940 GGTAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:9580574 original size:19 final size:19
Alignment explanation
Indices: 9580524--9580568 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
9580514 CCCTCAACTA
9580524 AGGTATCGATACCATGCCT
1 AGGTATCGATACCATGCCT
9580543 AGGTATCGATACCATGCCT
1 AGGTATCGATACCATGCCT
9580562 AGGTATC
1 AGGTATC
9580569 ATTACCCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (19 bp):
AGGTATCGATACCATGCCT
Found at i:9600804 original size:20 final size:21
Alignment explanation
Indices: 9600766--9600809 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9600756 TAACTTTTTA
*
9600766 TTTTCTCTTTCATCCTTAACT
1 TTTTCTATTTCATCCTTAACT
*
9600787 TTTTCTATTTCAT-TTTAACT
1 TTTTCTATTTCATCCTTAACT
9600807 TTT
1 TTT
9600810 ACTTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTCTATTTCATCCTTAACT
Found at i:9608213 original size:16 final size:16
Alignment explanation
Indices: 9608192--9608222 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9608182 TAACATTAAT
*
9608192 ATATATATATGTATAC
1 ATATATATAAGTATAC
9608208 ATATATATAAGTATA
1 ATATATATAAGTATA
9608223 AAATCATAAA
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:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (16 bp):
ATATATATAAGTATAC
Found at i:9612668 original size:21 final size:20
Alignment explanation
Indices: 9612600--9612672 Score: 76
Period size: 19 Copynumber: 3.5 Consensus size: 20
9612590 ACTTAACTTT
*
9612600 GGTATCAATACCATA-TAAG
1 GGTATCGATACCATAGTAAG
*
9612619 GGTATCGGTACCATAGTATAG
1 GGTATCGATACCATAGTA-AG
* *
9612640 TTGTATCGATACCTATGGTAAG
1 -GGTATCGATACC-ATAGTAAG
9612662 GGTATCGATAC
1 GGTATCGATAC
9612673 TAGGCCACAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 13 0.30
20 2 0.05
21 12 0.27
22 12 0.27
23 5 0.11
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (20 bp):
GGTATCGATACCATAGTAAG
Found at i:9612744 original size:22 final size:22
Alignment explanation
Indices: 9612716--9612757 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
9612706 CTGGTAGGGG
9612716 GTATCGATACCATAGTAGGGTA
1 GTATCGATACCATAGTAGGGTA
9612738 GTATCGATACCATAGTAGGG
1 GTATCGATACCATAGTAGGG
9612758 GTATCAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (22 bp):
GTATCGATACCATAGTAGGGTA
Found at i:9612767 original size:20 final size:20
Alignment explanation
Indices: 9612713--9612767 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 20
9612703 ATACTGGTAG
9612713 GGGGTATCGATACCATAGTA
1 GGGGTATCGATACCATAGTA
9612733 GGGTAGTATCGATACCATAGTA
1 GGG--GTATCGATACCATAGTA
*
9612755 GGGGTATCAATAC
1 GGGGTATCGATAC
9612768 TGAAAGGCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 12 0.38
22 20 0.62
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (20 bp):
GGGGTATCGATACCATAGTA
Found at i:9613389 original size:45 final size:45
Alignment explanation
Indices: 9613219--9613385 Score: 217
Period size: 45 Copynumber: 3.7 Consensus size: 45
9613209 AGGATGCCAG
* * *
9613219 AGTTGAAATGCATATAGGTGCATTATCAACAGAAAAGTATACTAG
1 AGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTAT
* ** * *
9613264 AGTTGAAATGTATATGGGCGCATTTATCAACAGAAAAATATATTAT
1 AGTTGAAATGCATATGGGTACA-TTATCAACAGAAAAGTATACTAT
* * * *
9613310 GGTTGAGATGTATATGGGTACATTATCAACATAAAAGTATACTAT
1 AGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTAT
9613355 AGTTGAAATGCATATGGGTACATTATCAACA
1 AGTTGAAATGCATATGGGTACATTATCAACA
9613386 TAAACGATGT
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 67 0.64
46 38 0.36
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (45 bp):
AGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTAT
Found at i:9618875 original size:2 final size:2
Alignment explanation
Indices: 9618868--9618902 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
9618858 ATTATGGTAG
* *
9618868 AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9618903 GTAGAGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:9619753 original size:20 final size:20
Alignment explanation
Indices: 9619704--9619758 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
9619694 ATACTGGTAG
*
9619704 GGGTATCGATACCATAATAG
1 GGGTATCGATACCATAATAC
*
9619724 GGTAGTATCGATACCATAGTAC
1 GG--GTATCGATACCATAATAC
9619746 GGGTATCGATACC
1 GGGTATCGATACC
9619759 GAAATGCCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 18 0.58
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (20 bp):
GGGTATCGATACCATAATAC
Found at i:9620292 original size:79 final size:78
Alignment explanation
Indices: 9620161--9620314 Score: 245
Period size: 79 Copynumber: 2.0 Consensus size: 78
9620151 AAAATGAATG
* * * *
9620161 TAAAAGAATAATGCATATGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATGTGGG
1 TAAAAGAATAATGCATATGGTGCATTATGGGCATGAAAGGATGCCAGAGTTGAAATGCATATGGG
9620226 TGCATTGTCAGAA
66 TGCATTGTCAGAA
* *
9620239 TAAAAGAATAATGTATATGGGTGCATTATGGGCATGAAAGGATGCCAGGGTTGAAATGCATATGG
1 TAAAAGAATAATGCATAT-GGTGCATTATGGGCATGAAAGGATGCCAGAGTTGAAATGCATATGG
9620304 GTGCATTGTCA
65 GTGCATTGTCA
9620315 ATAGAAAAGT
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 17 0.25
79 52 0.75
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (78 bp):
TAAAAGAATAATGCATATGGTGCATTATGGGCATGAAAGGATGCCAGAGTTGAAATGCATATGGG
TGCATTGTCAGAA
Found at i:9620337 original size:45 final size:45
Alignment explanation
Indices: 9620288--9620504 Score: 274
Period size: 45 Copynumber: 4.8 Consensus size: 45
9620278 GGATGCCAGG
* *
9620288 GTTGAAATGCATATGGGTGCATTGTCAATAGAAAAGTATACTATA
1 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTATA
* * * *
9620333 GTTGAAATGCATAT-TGTAGCATTTATTAACAGAAAAGTATGCTAGA
1 GTTGAAATGCATATGGGT-GCA-TTATCAACAGAAAAGTATACTATA
* * * *
9620379 GTTGAAATGTATATGGGTACATTTTCAACAGAAAAGTATACTATG
1 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTATA
* * * * *
9620424 GTTGAGATGTATATGGGTACATTATCAACATAAAATTATACTATA
1 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTATA
9620469 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAG
1 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAG
9620505 ATGTTAGAGT
Statistics
Matches: 145, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
44 2 0.01
45 107 0.74
46 34 0.23
47 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (45 bp):
GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTATA
Found at i:9620538 original size:90 final size:89
Alignment explanation
Indices: 9620288--9620547 Score: 256
Period size: 90 Copynumber: 2.9 Consensus size: 89
9620278 GGATGCCAGG
* * * * * *
9620288 GTTGAAATGCATATGGGTGCATTGTCAATAGAAAAGTATACTATAGTTGAAATGCATATTGTAGC
1 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGAAATGTATAATGT-GT
* * *
9620353 ATTTATTAACAGAAAAGTATGCTAGA
65 A-TTATAAACATAAAAGTATACTAGA
* * * * *
9620379 GTTGAAATGTATATGGGTACATTTTCAACAGAAAAGTATACTATG-GTTGAGATGTAT-ATGGGT
1 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTA-GAGTTGAAATGTATAATGTGT
* * *
9620442 ACATTATCAACATAAAATTATACTATA
65 --ATTATAAACATAAAAGTATACTAGA
** *
9620469 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAG-ATGTTAGAGTTTAAAATGTATAATGATG
1 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAG-TTGAAATGTATAATG-TG
9620533 TATTATAAACATAAA
64 TATTATAAACATAAA
9620548 TGGAGGTTAC
Statistics
Matches: 138, Mismatches: 24, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
88 1 0.01
89 6 0.04
90 76 0.55
91 53 0.38
92 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (89 bp):
GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGAAATGTATAATGTGTA
TTATAAACATAAAAGTATACTAGA
Found at i:9621247 original size:19 final size:20
Alignment explanation
Indices: 9621205--9621248 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
9621195 CATGCATAAG
* * *
9621205 TGATATATGTTTATATGCTT
1 TGATACATGTTTATATGATA
9621225 TGATACATG-TTATATGATA
1 TGATACATGTTTATATGATA
9621244 TGATA
1 TGATA
9621249 TGGATGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.48
Consensus pattern (20 bp):
TGATACATGTTTATATGATA
Found at i:9627344 original size:16 final size:18
Alignment explanation
Indices: 9627305--9627345 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
9627295 GGGTACTTGA
*
9627305 GTTTAAGAGTATGATAGG
1 GTTTAAGAGCATGATAGG
*
9627323 GGTTAAGA-CATGA-AGG
1 GTTTAAGAGCATGATAGG
9627339 GTTTAAG
1 GTTTAAG
9627346 TTGATATGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 9 0.45
17 4 0.20
18 7 0.35
ACGTcount: A:0.34, C:0.02, G:0.34, T:0.29
Consensus pattern (18 bp):
GTTTAAGAGCATGATAGG
Found at i:9635158 original size:26 final size:26
Alignment explanation
Indices: 9635098--9635213 Score: 157
Period size: 26 Copynumber: 4.5 Consensus size: 26
9635088 ACCCACTTTA
* *
9635098 TTCTTTT-CTCTCTCATCATT-TCTTT
1 TTCTTTTCCTCT-TCATCTTTATCTCT
9635123 TTC-TTTCCTCTTCATCTTTATCTCT
1 TTCTTTTCCTCTTCATCTTTATCTCT
*
9635148 TTCTTTTCCTCTTCCTCTTTATCTCT
1 TTCTTTTCCTCTTCATCTTTATCTCT
*
9635174 TTCTTTTCCTCTTCCTCTTTATCTCT
1 TTCTTTTCCTCTTCATCTTTATCTCT
*
9635200 TTCTTTTCTTCTTC
1 TTCTTTTCCTCTTC
9635214 CCTCAAAACC
Statistics
Matches: 84, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
24 10 0.12
25 14 0.17
26 60 0.71
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.63
Consensus pattern (26 bp):
TTCTTTTCCTCTTCATCTTTATCTCT
Found at i:9635214 original size:26 final size:26
Alignment explanation
Indices: 9635122--9635214 Score: 161
Period size: 26 Copynumber: 3.6 Consensus size: 26
9635112 ATCATTTCTT
*
9635122 TTTC-TTTCCTCTTCATCTTTATCTC
1 TTTCTTTTCCTCTTCCTCTTTATCTC
9635147 TTTCTTTTCCTCTTCCTCTTTATCTC
1 TTTCTTTTCCTCTTCCTCTTTATCTC
9635173 TTTCTTTTCCTCTTCCTCTTTATCTC
1 TTTCTTTTCCTCTTCCTCTTTATCTC
*
9635199 TTTCTTTTCTTCTTCC
1 TTTCTTTTCCTCTTCC
9635215 CTCAAAACCT
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
25 4 0.06
26 61 0.94
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTCTTTTCCTCTTCCTCTTTATCTC
Found at i:9636801 original size:21 final size:21
Alignment explanation
Indices: 9636762--9636817 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
9636752 TTGTCTGAAA
9636762 TCATTGAATCATTA-TTCTTAGC
1 TCATT-AAT-ATTAGTTCTTAGC
9636784 TCATTAATATTAGTTCTTAGC
1 TCATTAATATTAGTTCTTAGC
9636805 T--TTAATACTTAGT
1 TCATTAATA-TTAGT
9636818 AGGATTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.19
20 9 0.28
21 12 0.38
22 5 0.16
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (21 bp):
TCATTAATATTAGTTCTTAGC
Found at i:9651379 original size:82 final size:82
Alignment explanation
Indices: 9651157--9651559 Score: 527
Period size: 82 Copynumber: 4.9 Consensus size: 82
9651147 GTGTTTCTTA
* ** *
9651157 AATAAACGTCGTAATAGAATAGTACTTTAAAGGCATTTTTATACAAATGCCGCAATAGAGTTCAT
1 AATAAACGTCGTAACAGAATAGTACTTTAGCGGCATTTTTATACAAACGCCGCAATAGAGTTCAT
9651222 CTATAGTGGCGTTTTTTT
66 CTATAGTGGCG-TTTTTT
** * * *
9651240 AATAAACGTCGCGACGGAATAGTACTTTAGCGACGTTTTTATACAAACGCCGCAATAGAGTTCAT
1 AATAAACGTCGTAACAGAATAGTACTTTAGCGGCATTTTTATACAAACGCCGCAATAGAGTTCAT
*
9651305 CTATAGTGGCATTTTTT
66 CTATAGTGGCGTTTTTT
* * * *
9651322 AATAAACGTCGTAACAGAATAGTACTTTAGCGGCATTTTTATATAAATGTCGTAATAGAGTTCAT
1 AATAAACGTCGTAACAGAATAGTACTTTAGCGGCATTTTTATACAAACGCCGCAATAGAGTTCAT
*
9651387 CTATAGTGTCGTTTTTT
66 CTATAGTGGCGTTTTTT
* * * * *
9651404 AATAAACGCCATAACATAATAGTACTTTAGCGACATTTTTATACAAACGTCGCAATAGAGTTCAT
1 AATAAACGTCGTAACAGAATAGTACTTTAGCGGCATTTTTATACAAACGCCGCAATAGAGTTCAT
9651469 CTATAGTGGCGTTTTTT
66 CTATAGTGGCGTTTTTT
* * * * * * * * *
9651486 GAAAAAATGACATAAGAGAATATTATTTTAGCGGCGTTTTTATACAAACGCCGTAATAGAGTTCA
1 -AATAAACGTCGTAACAGAATAGTACTTTAGCGGCATTTTTATACAAACGCCGCAATAGAGTTCA
9651551 TCTATAGTG
65 TCTATAGTG
9651560 AAAAAATGTT
Statistics
Matches: 279, Mismatches: 40, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
82 151 0.54
83 128 0.46
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (82 bp):
AATAAACGTCGTAACAGAATAGTACTTTAGCGGCATTTTTATACAAACGCCGCAATAGAGTTCAT
CTATAGTGGCGTTTTTT
Done.