Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 27 of 93
Found at i:11298903 original size:25 final size:25
Alignment explanation
Indices: 11298819--11298902 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
11298809 TTTTAGTGGA
*
11298819 AAAATTATCCTTATATTCTAATAGT
1 AAAATTATCCTTACATTCTAATAGT
* * *
11298844 AAAATTATCCATCCACTTCTAATAAT
1 AAAATTATCCTTACA-TTCTAATAGT
* * *
11298870 AAAATTATTCTTAGATTCTTATAGT
1 AAAATTATCCTTACATTCTAATAGT
11298895 AAAATTAT
1 AAAATTAT
11298903 TATCCACTTA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
25 28 0.58
26 20 0.42
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.42
Consensus pattern (25 bp):
AAAATTATCCTTACATTCTAATAGT
Found at i:11305879 original size:16 final size:17
Alignment explanation
Indices: 11305850--11305882 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11305840 TATTGCTTGT
*
11305850 TTATATTGATATTTTTG
1 TTATATTGAAATTTTTG
11305867 TTAT-TTGAAATTTTTG
1 TTATATTGAAATTTTTG
11305883 AATATAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (17 bp):
TTATATTGAAATTTTTG
Found at i:11308043 original size:24 final size:24
Alignment explanation
Indices: 11307979--11308043 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 24
11307969 CCTGATTCTC
* * * *
11307979 CTCCTACAGCTCTTCATGGTGCTT
1 CTCCTACTGCTCATCATGCTGCTA
* * *
11308003 TTCCTGCTACTCATCATGCTGCTA
1 CTCCTACTGCTCATCATGCTGCTA
*
11308027 CTCCTACTGCTCCTCAT
1 CTCCTACTGCTCATCAT
11308044 CTTGCTTTTA
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.14, C:0.37, G:0.12, T:0.37
Consensus pattern (24 bp):
CTCCTACTGCTCATCATGCTGCTA
Found at i:11310047 original size:26 final size:26
Alignment explanation
Indices: 11310009--11310058 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
11309999 CATTATTCTA
*
11310009 TATCATTTCCATATTATTCTTTGTTG
1 TATCATTTACATATTATTCTTTGTTG
11310035 TATCATTTACATATTATTCTTTGT
1 TATCATTTACATATTATTCTTTGT
11310059 ATAAAATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (26 bp):
TATCATTTACATATTATTCTTTGTTG
Found at i:11311111 original size:21 final size:21
Alignment explanation
Indices: 11311087--11311149 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 21
11311077 CTTGCTATAG
11311087 CGAGATTCAATTTCGCTGTAA
1 CGAGATTCAATTTCGCTGTAA
* * * * *
11311108 CGAGAATCCATTCTCACTGCAG
1 CGAGATTCAATT-TCGCTGTAA
*
11311130 CGAGATTCAATTTTGCTGTA
1 CGAGATTCAATTTCGCTGTA
11311150 GTGAGAATCC
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (21 bp):
CGAGATTCAATTTCGCTGTAA
Found at i:11311132 original size:43 final size:43
Alignment explanation
Indices: 11311085--11311182 Score: 151
Period size: 43 Copynumber: 2.3 Consensus size: 43
11311075 TTCTTGCTAT
11311085 AGCGAGATTCAATTTCGCTGTAACGAGAATCCATTCTCACTGC
1 AGCGAGATTCAATTTCGCTGTAACGAGAATCCATTCTCACTGC
* **
11311128 AGCGAGATTCAATTTTGCTGTAGTGAGAATCCATTCTCACTGC
1 AGCGAGATTCAATTTCGCTGTAACGAGAATCCATTCTCACTGC
* *
11311171 AGTGAAATTCAA
1 AGCGAGATTCAA
11311183 AGCATGGATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (43 bp):
AGCGAGATTCAATTTCGCTGTAACGAGAATCCATTCTCACTGC
Found at i:11311174 original size:22 final size:22
Alignment explanation
Indices: 11311109--11311175 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
11311099 TCGCTGTAAC
*
11311109 GAGAATCCATTCTCACTGCAGC
1 GAGAATCCATTCTCACTGCAGT
* * ** *
11311131 GAGATTCAATT-TTGCTGTAGT
1 GAGAATCCATTCTCACTGCAGT
11311152 GAGAATCCATTCTCACTGCAGT
1 GAGAATCCATTCTCACTGCAGT
11311174 GA
1 GA
11311176 AATTCAAAGC
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
21 15 0.45
22 18 0.55
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (22 bp):
GAGAATCCATTCTCACTGCAGT
Found at i:11311496 original size:38 final size:42
Alignment explanation
Indices: 11311443--11311638 Score: 174
Period size: 43 Copynumber: 4.7 Consensus size: 42
11311433 CCACACTCAG
* *
11311443 CTCATGTGCAATCCCTACACGTACA-ATGCAA-T-ATCATC-A
1 CTCATGTGCACTCCCTACACGCACATA-GCAAGTCATCATCAA
*
11311482 -TCATGTGCACTCCCTACTCGCACATAGCAAGGTCATCATCAA
1 CTCATGTGCACTCCCTACACGCACATAGCAA-GTCATCATCAA
** *
11311524 CTCATGTGCACTCCC-ACATCGCACATAGCTGGGTCATCATCAG
1 CTCATGTGCACTCCCTACA-CGCACATAGC-AAGTCATCATCAA
** *
11311567 CTCATGTGCACTCCC-ACACCGCACATAGTTGAGTCATCATCAG
1 CTCATGTGCACTCCCTACA-CGCACATAG-CAAGTCATCATCAA
* *
11311610 CTCATGTCCACTCCC-ACACCGTACATAGC
1 CTCATGTGCACTCCCTACA-CGCACATAGC
11311639 TGGGTCATCA
Statistics
Matches: 135, Mismatches: 13, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
38 25 0.19
39 1 0.01
40 1 0.01
41 6 0.04
42 3 0.02
43 99 0.73
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.23
Consensus pattern (42 bp):
CTCATGTGCACTCCCTACACGCACATAGCAAGTCATCATCAA
Found at i:11311534 original size:43 final size:43
Alignment explanation
Indices: 11311475--11311649 Score: 196
Period size: 43 Copynumber: 4.1 Consensus size: 43
11311465 ACAATGCAAT
11311475 ATCATC-A-TCATGTGCACTCCCTAC-TCGCACATAGCAAGGTC
1 ATCATCAACTCATGTGCACTCCC-ACATCGCACATAGCAAGGTC
**
11311516 ATCATCAACTCATGTGCACTCCCACATCGCACATAGCTGGGTC
1 ATCATCAACTCATGTGCACTCCCACATCGCACATAGCAAGGTC
* * **
11311559 ATCATCAGCTCATGTGCACTCCCACACCGCACATAG-TTGAGTC
1 ATCATCAACTCATGTGCACTCCCACATCGCACATAGCAAG-GTC
* * * * **
11311602 ATCATCAGCTCATGTCCACTCCCACACCGTACATAGCTGGGTC
1 ATCATCAACTCATGTGCACTCCCACATCGCACATAGCAAGGTC
11311645 ATCAT
1 ATCAT
11311650 TATCACACAA
Statistics
Matches: 121, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
41 6 0.05
42 5 0.04
43 108 0.89
44 2 0.02
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.24
Consensus pattern (43 bp):
ATCATCAACTCATGTGCACTCCCACATCGCACATAGCAAGGTC
Found at i:11311590 original size:86 final size:84
Alignment explanation
Indices: 11311475--11311654 Score: 238
Period size: 86 Copynumber: 2.1 Consensus size: 84
11311465 ACAATGCAAT
* *
11311475 ATCATCATCATGTGCACTCCCTACTCGCACATAGCAAG-GTCATCATCAACTCATGTGCACTCCC
1 ATCATCATCATGTGCACTCCCTACCCGCACATAG-AAGAGTCATCATCAACTCATGTCCACTCCC
*
11311539 ACATCGCACATAGCTGGGTC
65 ACACCGCACATAGCTGGGTC
** *
11311559 ATCATCAGCTCATGTGCACTCCC-ACACCGCACATAGTTGAGTCATCATCAGCTCATGTCCACTC
1 ATCATCA--TCATGTGCACTCCCTAC-CCGCACATAGAAGAGTCATCATCAACTCATGTCCACTC
*
11311623 CCACACCGTACATAGCTGGGTC
63 CCACACCGCACATAGCTGGGTC
*
11311645 ATCATTATCA
1 ATCATCATCA
11311655 CACAAAAAGA
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
84 10 0.12
85 3 0.04
86 71 0.85
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.24
Consensus pattern (84 bp):
ATCATCATCATGTGCACTCCCTACCCGCACATAGAAGAGTCATCATCAACTCATGTCCACTCCCA
CACCGCACATAGCTGGGTC
Found at i:11313166 original size:23 final size:23
Alignment explanation
Indices: 11313140--11313236 Score: 61
Period size: 23 Copynumber: 4.2 Consensus size: 23
11313130 CTAATCGACT
11313140 TGGAATCACGTGAGTAGTAAATA
1 TGGAATCACGTGAGTAGTAAATA
* *** *
11313163 TGG-ATCGCGTGAACCGTTAAGATT
1 TGGAATCACGTGAGTAG-TAA-ATA
* * **
11313187 TAGAATCGCGTGAGTAGTTGATA
1 TGGAATCACGTGAGTAGTAAATA
* * *
11313210 TTGACTCATGTGAGTAGTAAATA
1 TGGAATCACGTGAGTAGTAAATA
11313233 TGGA
1 TGGA
11313237 GTGACGTTAC
Statistics
Matches: 52, Mismatches: 19, Indels: 6
0.68 0.25 0.08
Matches are distributed among these distances:
22 9 0.17
23 28 0.54
24 5 0.10
25 10 0.19
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (23 bp):
TGGAATCACGTGAGTAGTAAATA
Found at i:11313341 original size:46 final size:46
Alignment explanation
Indices: 11313201--11313343 Score: 117
Period size: 46 Copynumber: 3.1 Consensus size: 46
11313191 ATCGCGTGAG
** * * *
11313201 TAGTTGATATTGACTCATGTGAGTAGTAAATATGGAGTGACGTTAC
1 TAGTTGATATTGACTCGCGTGAGTAGTATATATGAAGTGGCGTTAC
* ** * * * * * * * *
11313247 TAGTT-ATTATGGAAGCGCGTGACTAGTTTTTGTGAAATCGTGTAAC
1 TAGTTGA-TATTGACTCGCGTGAGTAGTATATATGAAGTGGCGTTAC
*
11313293 TAGTTGATATTGACTCGCGTGAGTAATATATATGAAGTGGCGTTAC
1 TAGTTGATATTGACTCGCGTGAGTAGTATATATGAAGTGGCGTTAC
11313339 TAGTT
1 TAGTT
11313344 ATTATGGAAT
Statistics
Matches: 67, Mismatches: 28, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
45 1 0.01
46 65 0.97
47 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (46 bp):
TAGTTGATATTGACTCGCGTGAGTAGTATATATGAAGTGGCGTTAC
Found at i:11321218 original size:22 final size:22
Alignment explanation
Indices: 11321193--11321237 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11321183 ATATCAACAG
*
11321193 GTCACGCAATATATAAAAACTA
1 GTCACGCAATACATAAAAACTA
*
11321215 GTCACGCAATACCTAAAAACTA
1 GTCACGCAATACATAAAAACTA
11321237 G
1 G
11321238 CGACCAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (22 bp):
GTCACGCAATACATAAAAACTA
Found at i:11330327 original size:5 final size:5
Alignment explanation
Indices: 11330293--11330341 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
11330283 TAATATTAAA
* *
11330293 TTATT TTAATT TAATT TTA-T TTATGA TTATT TTATT TTATT TTATT TTA
1 TTATT TT-ATT TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TTA
11330342 AAATATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
4 4 0.11
5 25 0.68
6 8 0.22
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (5 bp):
TTATT
Found at i:11330380 original size:19 final size:18
Alignment explanation
Indices: 11330358--11330448 Score: 50
Period size: 22 Copynumber: 5.0 Consensus size: 18
11330348 TAATAATTGA
11330358 TAATTTATTTAAATATTAT
1 TAATTTATTT-AATATTAT
*
11330377 TAATTGATAATTTCAATATTAA
1 TAATT--T-ATTT-AATATTAT
*
11330399 T-ATTTATTT-AT-TTTT
1 TAATTTATTTAATATTAT
*
11330414 TAA-ATATTTAATATT-T
1 TAATTTATTTAATATTAT
11330430 T-ATTTAATTTAAATATTAT
1 TAATTT-ATTT-AATATTAT
11330449 GATGATCAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
15 9 0.16
16 8 0.14
17 6 0.11
18 10 0.18
19 7 0.12
21 4 0.07
22 12 0.21
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (18 bp):
TAATTTATTTAATATTAT
Found at i:11330380 original size:26 final size:28
Alignment explanation
Indices: 11330333--11330389 Score: 91
Period size: 26 Copynumber: 2.1 Consensus size: 28
11330323 TTTATTTTAT
11330333 TTTATTTTAAAATATTAATAATTGATAA
1 TTTATTTTAAAATATTAATAATTGATAA
*
11330361 TTTA-TTT-AAATATTATTAATTGATAA
1 TTTATTTTAAAATATTAATAATTGATAA
11330387 TTT
1 TTT
11330390 CAATATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 21 0.75
27 3 0.11
28 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
TTTATTTTAAAATATTAATAATTGATAA
Found at i:11330419 original size:25 final size:24
Alignment explanation
Indices: 11330325--11330447 Score: 83
Period size: 25 Copynumber: 5.0 Consensus size: 24
11330315 ATGATTATTT
*
11330325 TATTTTATTTTATTTTAAAATATTAA
1 TATTTTA-TTTAATTT-AAATATTAA
* *
11330351 TAATTGATAATTT-ATTTAAATATTAT
1 T-ATT--TTATTTAATTTAAATATTAA
* * *
11330377 TAATTGA--TAATTTCAATATTAA
1 TATTTTATTTAATTTAAATATTAA
*
11330399 TA-TTTATTTATTTTTTAAATATTTAA
1 TATTTTATTTA--ATTTAAATA-TTAA
11330425 TATTTTATTTAATTTAAATATTA
1 TATTTTATTTAATTTAAATATTA
11330448 TGATGATCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
21 4 0.05
22 13 0.17
23 4 0.05
24 3 0.04
25 17 0.22
26 16 0.21
27 14 0.18
28 3 0.04
29 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.58
Consensus pattern (24 bp):
TATTTTATTTAATTTAAATATTAA
Found at i:11330422 original size:108 final size:103
Alignment explanation
Indices: 11330212--11330439 Score: 221
Period size: 108 Copynumber: 2.1 Consensus size: 103
11330202 TTTATGTGAC
* *
11330212 ATTTTATTTTTATTAGATTTTTAAATATTAATAATCTAGAATTTAATTAAAATATTAATTATAAA
1 ATTTTA-TTTTATTTGATTTTAAAATATTAATAATCTAGAATTTAATTAAAATATTAATTATAAA
*
11330277 TAACATTAATATTAAATTATTTTAATTTAATTTTATTTATGATT
65 TAACATTAATATTAAATTATTTT-ATTTAA-TATATTTA--A-T
* * *
11330321 ATTTTATTTTATTTTATTTTAAAATATTAATAAT-TGATAATTTATTTAAATATTATTAATTGAT
1 ATTTTATTTTATTTGATTTTAAAATATTAATAATCT-AGAATTTAATTAAA-A-TATTAATT-AT
* * * *
11330385 AATTTCAATATTAATATTTATTTA-TTT-TTTAA-ATATTTAAT
62 AA-AT-AACATTAATATTAAATTATTTTATTTAATATATTTAAT
*
11330426 ATTTTATTTAATTT
1 ATTTTATTTTATTT
11330440 AAATATTATG
Statistics
Matches: 102, Mismatches: 11, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
105 14 0.14
106 1 0.01
107 1 0.01
108 43 0.42
109 7 0.07
110 13 0.13
111 4 0.04
112 4 0.04
113 15 0.15
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (103 bp):
ATTTTATTTTATTTGATTTTAAAATATTAATAATCTAGAATTTAATTAAAATATTAATTATAAAT
AACATTAATATTAAATTATTTTATTTAATATATTTAAT
Found at i:11330529 original size:65 final size:64
Alignment explanation
Indices: 11330401--11330529 Score: 142
Period size: 65 Copynumber: 2.0 Consensus size: 64
11330391 AATATTAATA
* *
11330401 TTTATTTATTTTTTAAATATTTAATATTTTATTTAATTTAAATATTATGATGATCAATTATTTAT
1 TTTATTTATTTTTTAAATATTTAATATTTTATTTAATTTAAATATTA-GATAATCAATAATTTAT
11330466 TTTATTTATTTTTTGAAA-A-TTAATAATTGATTATTT-ATTTAAAATATTA-ATAAT-AGATAA
1 TTTATTTATTTTTT-AAATATTTAAT-ATT--TTATTTAATTT-AAATATTAGATAATCA-ATAA
11330526 TTTA
60 TTTA
11330530 AATATTAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
64 6 0.11
65 29 0.52
66 7 0.12
67 14 0.25
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.57
Consensus pattern (64 bp):
TTTATTTATTTTTTAAATATTTAATATTTTATTTAATTTAAATATTAGATAATCAATAATTTAT
Found at i:11330560 original size:32 final size:33
Alignment explanation
Indices: 11330523--11330605 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
11330513 TAATAATAGA
*
11330523 TAATTTAAATATTAATAATTTTAT-TTTAATTT
1 TAATTTTAATATTAATAATTTTATATTTAATTT
* * * * *
11330555 TAATTTTATTATGATTAATTTTTTATTTATTTT
1 TAATTTTAATATTAATAATTTTATATTTAATTT
*
11330588 TATTTTTAATATTAATAA
1 TAATTTTAATATTAATAA
11330606 ATTNNNNNNN
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
32 19 0.47
33 21 0.52
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (33 bp):
TAATTTTAATATTAATAATTTTATATTTAATTT
Found at i:11330834 original size:25 final size:26
Alignment explanation
Indices: 11330793--11330842 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
11330783 TTAATAATTG
11330793 ATAATTTAAATATTAATATTTTATTT
1 ATAATTTAAATATTAATATTTTATTT
11330819 ATAATTT-AATATTAATATTTTATT
1 ATAATTTAAATATTAATATTTTATT
11330843 AAAAATTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATAATTTAAATATTAATATTTTATTT
Found at i:11330849 original size:25 final size:26
Alignment explanation
Indices: 11330795--11330849 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
11330785 AATAATTGAT
* *
11330795 AATTTAAATATTAATATTTTATTTAT
1 AATTTAAATATTAATATTTTATTAAA
11330821 AATTT-AATATTAATATTTTATTAAA
1 AATTTAAATATTAATATTTTATTAAA
11330846 AATT
1 AATT
11330850 GGAATCAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATTTAAATATTAATATTTTATTAAA
Found at i:11334705 original size:33 final size:33
Alignment explanation
Indices: 11334632--11334705 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
11334622 ATAAAATATT
* *
11334632 AAATATAGAAAATTATATTAAGAAATGAAAATA
1 AAATATATAAAATTATAATAAGAAATGAAAATA
* *
11334665 AAATATATAAGATTATAATAAGAAATGCAAATA
1 AAATATATAAAATTATAATAAGAAATGAAAATA
11334698 AAATATAT
1 AAATATAT
11334706 GCAATTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.28
Consensus pattern (33 bp):
AAATATATAAAATTATAATAAGAAATGAAAATA
Found at i:11334709 original size:15 final size:16
Alignment explanation
Indices: 11334689--11334721 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11334679 ATAATAAGAA
11334689 ATGCAAATAAAA-TAT
1 ATGCAAATAAAAGTAT
*
11334704 ATGCAATTAAAAGTAT
1 ATGCAAATAAAAGTAT
11334720 AT
1 AT
11334722 TTAAGAGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (16 bp):
ATGCAAATAAAAGTAT
Found at i:11337959 original size:20 final size:22
Alignment explanation
Indices: 11337910--11337961 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
11337900 AAGTAAAACC
11337910 AAGAAAAGCTTGAAGAAGAAGTA
1 AAGAAAAGCTTGAAGAAGAAG-A
*
11337933 AAGAAAAGCTTGAAGGAGAA-A
1 AAGAAAAGCTTGAAGAAGAAGA
*
11337954 AAAAAAAG
1 AAGAAAAG
11337962 GGAGCTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 8 0.30
23 19 0.70
ACGTcount: A:0.62, C:0.04, G:0.25, T:0.10
Consensus pattern (22 bp):
AAGAAAAGCTTGAAGAAGAAGA
Found at i:11338257 original size:40 final size:40
Alignment explanation
Indices: 11338202--11338282 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
11338192 TCTAAAGTAG
*
11338202 TAAAGTTAGTCTATTTTCCTTGTTTGTGATATTAATTCTT
1 TAAAGTTAGTCTATTTTCCTTGTTTATGATATTAATTCTT
*
11338242 TAAAGTTAGTCTATTTTCCTTGTTTATGATTTTAATTCTT
1 TAAAGTTAGTCTATTTTCCTTGTTTATGATATTAATTCTT
11338282 T
1 T
11338283 TAATGAAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.22, C:0.10, G:0.11, T:0.57
Consensus pattern (40 bp):
TAAAGTTAGTCTATTTTCCTTGTTTATGATATTAATTCTT
Found at i:11343320 original size:11 final size:11
Alignment explanation
Indices: 11343306--11343333 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
11343296 TGAAAAATAC
11343306 AAAAAAAAGAA
1 AAAAAAAAGAA
11343317 AAAAAAAAGAA
1 AAAAAAAAGAA
11343328 AAAAAA
1 AAAAAA
11343334 GCATAGAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:11345843 original size:46 final size:47
Alignment explanation
Indices: 11345784--11345899 Score: 198
Period size: 46 Copynumber: 2.5 Consensus size: 47
11345774 ATTTTGTTTG
* *
11345784 ATTTTACTGATTTGTTAGGTAAAATTTATAAAATGCATGGTGTAGTT
1 ATTTTACTTATTTGTTAGGTAAAATTTATAAAATGCATGGTGTAATT
11345831 A-TTTACTTATTTGTTAGGTAAAATTTATAAAATGCATGGTGTAATT
1 ATTTTACTTATTTGTTAGGTAAAATTTATAAAATGCATGGTGTAATT
*
11345877 ATTTTACTTATTTGTTAAGTAAA
1 ATTTTACTTATTTGTTAGGTAAA
11345900 CTTGTATGCA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
46 44 0.68
47 21 0.32
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.47
Consensus pattern (47 bp):
ATTTTACTTATTTGTTAGGTAAAATTTATAAAATGCATGGTGTAATT
Found at i:11351633 original size:21 final size:21
Alignment explanation
Indices: 11351607--11351676 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
11351597 TATCTATTGT
11351607 ATTTAAATTTAATTTGTTTAA
1 ATTTAAATTTAATTTGTTTAA
* **
11351628 ATTTAAA-TAAGGATTAATTGT--
1 ATTTAAATTTA--ATTTGTT-TAA
11351649 ATTTAAATTTAATTTGTTTAA
1 ATTTAAATTTAATTTGTTTAA
11351670 ATTTAAA
1 ATTTAAA
11351677 CATAATATCT
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 1 0.03
20 7 0.19
21 21 0.57
22 7 0.19
23 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (21 bp):
ATTTAAATTTAATTTGTTTAA
Found at i:11357172 original size:22 final size:21
Alignment explanation
Indices: 11357142--11357182 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
11357132 AGACTAACTG
**
11357142 TTTCTTTTCATCAATTATTGT
1 TTTCTTTTCAAAAATTATTGT
11357163 TTTCGTTTTCAAAAATTATT
1 TTTC-TTTTCAAAAATTATT
11357183 TGACGACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTCTTTTCAAAAATTATTGT
Found at i:11365740 original size:11 final size:11
Alignment explanation
Indices: 11365719--11365756 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
11365709 TTCTATAGAG
11365719 AAAGAGAAAAAA
1 AAAG-GAAAAAA
11365731 AAAGGAAAAAA
1 AAAGGAAAAAA
11365742 AAA-GAAAAAA
1 AAAGGAAAAAA
11365752 AAAGG
1 AAAGG
11365757 TTTTTCTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.40
11 11 0.44
12 4 0.16
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAGGAAAAAA
Found at i:11365741 original size:10 final size:10
Alignment explanation
Indices: 11365723--11365755 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
11365713 ATAGAGAAAG
11365723 AGAAAAAAAA
1 AGAAAAAAAA
11365733 AGGAAAAAAAA
1 A-GAAAAAAAA
11365744 AGAAAAAAAA
1 AGAAAAAAAA
11365754 AG
1 AG
11365756 GTTTTTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:11369581 original size:23 final size:20
Alignment explanation
Indices: 11369536--11369573 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
11369526 TTAAGTGATC
11369536 AATTATTAATATTTTAAATA
1 AATTATTAATATTTTAAATA
11369556 AATTATTAATATTTTAAA
1 AATTATTAATATTTTAAA
11369574 AATAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTATTAATATTTTAAATA
Found at i:11369617 original size:38 final size:32
Alignment explanation
Indices: 11369551--11369622 Score: 81
Period size: 37 Copynumber: 2.1 Consensus size: 32
11369541 TTAATATTTT
11369551 AAATAAATTATTAATATTTTAAAAATAAAATAA
1 AAATAAATTATTAATATTTTAAAAAT-AAATAA
*
11369584 AAATAAATTATCATAATAATATTTAAATTATAAATAA
1 AAATAAATTAT--TAAT-AT-TTTAAA-AATAAATAA
11369621 AA
1 AA
11369623 TGTTAATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
33 11 0.33
35 4 0.12
36 2 0.06
37 14 0.42
38 2 0.06
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (32 bp):
AAATAAATTATTAATATTTTAAAAATAAATAA
Found at i:11369693 original size:148 final size:152
Alignment explanation
Indices: 11369474--11369787 Score: 397
Period size: 148 Copynumber: 2.1 Consensus size: 152
11369464 AATCTTACCC
* ** * *
11369474 ATATTATTATTTGAAAATATTAATGATTAAATTATAACTAAAATATTAACATTTAAGTGATCAAT
1 ATATTAATATTTTTAAATATTAATCATTAAATTATAACTAAAATATTAACATTTAAATGATCAAT
* *
11369539 TATTAATATTTTAAATAAAT-T-ATTAATA-T-TTTAAAA-ATAAAATAAAAATAAATTATCATA
66 TATTAATATTTTAAATAAATATAATTAATACTATTTAAAATATAAAATAAAAATAAATGATCACA
*
11369599 ATAATATTTAAATTATAAATAAA
131 ATAATATATAAATTATAAAT-AA
* * * * * *
11369622 ATGTTAATATTTTTAAATATTAATCATTCAATTATGAAC-AAAATGTTAATATTTAAATTATTAA
1 ATATTAATATTTTTAAATATTAATCATTAAATTAT-AACTAAAATATTAACATTTAAATGATCAA
* * *
11369686 TTGTTAATATTTTAAATAAATGATAAATTATTACTATTTAAAATATAAAATATAAATAAATGATC
65 TTATTAATATTTTAAATAAAT-AT-AATTAATACTATTTAAAATATAAAATAAAAATAAATGATC
11369751 ACAATAATATATAAATTATAAATAA
128 ACAATAATATATAAATTATAAATAA
11369776 ATATTAATATTT
1 ATATTAATATTT
11369788 AAAAATAAAA
Statistics
Matches: 140, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
148 69 0.49
149 3 0.02
150 1 0.01
152 6 0.04
153 1 0.01
154 20 0.14
155 40 0.29
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (152 bp):
ATATTAATATTTTTAAATATTAATCATTAAATTATAACTAAAATATTAACATTTAAATGATCAAT
TATTAATATTTTAAATAAATATAATTAATACTATTTAAAATATAAAATAAAAATAAATGATCACA
ATAATATATAAATTATAAATAA
Found at i:11369714 original size:27 final size:27
Alignment explanation
Indices: 11369675--11369730 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
11369665 TGTTAATATT
* * * *
11369675 TAAATTATTAATTGTTAATATTTTAAA
1 TAAATGATAAATTATTAATATTTAAAA
*
11369702 TAAATGATAAATTATTACTATTTAAAA
1 TAAATGATAAATTATTAATATTTAAAA
11369729 TA
1 TA
11369731 TAAAATATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (27 bp):
TAAATGATAAATTATTAATATTTAAAA
Found at i:11369772 original size:67 final size:67
Alignment explanation
Indices: 11369701--11369855 Score: 176
Period size: 67 Copynumber: 2.3 Consensus size: 67
11369691 AATATTTTAA
* * * *
11369701 ATAAATGATAAATTATTACTATTT-AAAAT-ATAAAATATAAATAAATGATCACAATAATATATA
1 ATAAAT-ATAAA-TATTAATATTTAAAAATAATAAAATAGAAATAAATAATCACAATAACATATA
11369764 AATT
64 AATT
* *
11369768 AT-AA-ATAAATATTAATATTTAAAAATAAAATAAAATAGAAATAAATAATCATAATAACATTTA
1 ATAAATATAAATATTAATATTTAAAAAT--AATAAAATAGAAATAAATAATCACAATAACATATA
11369831 AATT
64 AATT
*
11369835 ATAAATA-AAATATTATTATTT
1 ATAAATATAAATATTAATATTT
11369856 TACAATGTTG
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
63 10 0.13
64 10 0.13
66 2 0.03
67 37 0.49
68 15 0.20
69 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (67 bp):
ATAAATATAAATATTAATATTTAAAAATAATAAAATAGAAATAAATAATCACAATAACATATAAA
TT
Found at i:11369796 original size:31 final size:31
Alignment explanation
Indices: 11369708--11369804 Score: 85
Period size: 31 Copynumber: 3.1 Consensus size: 31
11369698 TAAATAAATG
*
11369708 ATAAATTATTACTATTTAAAATATAAAATATAA
1 ATAAA-TATTAATATTTAAAA-ATAAAATATAA
* * *
11369741 ATAAATGATCACA-A--TAATATATAAATTATAA
1 ATAAAT-ATTA-ATATTTAA-AAATAAAATATAA
11369772 ATAAATATTAATATTTAAAAATAAAATA-AA
1 ATAAATATTAATATTTAAAAATAAAATATAA
11369802 ATA
1 ATA
11369805 GAAATAAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 15
0.70 0.10 0.21
Matches are distributed among these distances:
29 1 0.02
30 9 0.18
31 27 0.53
32 5 0.10
33 9 0.18
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (31 bp):
ATAAATATTAATATTTAAAAATAAAATATAA
Found at i:11369874 original size:42 final size:42
Alignment explanation
Indices: 11369828--11369933 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
11369818 ATAATAACAT
11369828 TTAAATTATAAATAAAATATTATTATTTTACAATGTTGATGA
1 TTAAATTATAAATAAAATATTATTATTTTACAATGTTGATGA
*
11369870 TTAAATTATAAATTAAATATTATTATTTTACAATGTTGATGA
1 TTAAATTATAAATAAAATATTATTATTTTACAATGTTGATGA
11369912 TTAAATTATAAATAAAATATTA
1 TTAAATTATAAATAAAATATTA
11369934 ATACCTAAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (42 bp):
TTAAATTATAAATAAAATATTATTATTTTACAATGTTGATGA
Found at i:11370218 original size:26 final size:27
Alignment explanation
Indices: 11370171--11370225 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
11370161 AGTATTTTAT
**
11370171 AATATTAATGATTAAATTAT-AAATAA
1 AATATTAATGATTAAAAAATAAAATAA
11370197 AATATTAAT-ATTTAAAAAATAAAATAA
1 AATATTAATGA-TTAAAAAATAAAATAA
11370224 AA
1 AA
11370226 ATATATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 16 0.64
27 8 0.32
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (27 bp):
AATATTAATGATTAAAAAATAAAATAA
Found at i:11372505 original size:2 final size:2
Alignment explanation
Indices: 11372500--11372526 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11372490 TCTCTCTCTC
11372500 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 T
11372527 TATTTNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11372732 original size:2 final size:2
Alignment explanation
Indices: 11372727--11372755 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11372717 TCTCTCTCTC
11372727 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 T
11372756 TTCAGATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11375904 original size:16 final size:18
Alignment explanation
Indices: 11375879--11375916 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 18
11375869 TAAAAATGAA
11375879 ATAAATAAATAAATATAAAT
1 ATAAAT-AAT-AATATAAAT
11375899 ATAAATAATAATATAAAT
1 ATAAATAATAATATAAAT
11375917 TGAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAATAATATAAAT
Found at i:11377709 original size:21 final size:21
Alignment explanation
Indices: 11377683--11377744 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
11377673 TCCCACAATG
*
11377683 TGCATGTTACTCTCAAGTAGT
1 TGCATGTTACTCTCAAGTAAT
11377704 TGCATGTTACTCTCAAGTAAT
1 TGCATGTTACTCTCAAGTAAT
* * *
11377725 TGCGTGATACTCCCAAGTAA
1 TGCATGTTACTCTCAAGTAA
11377745 CTACTATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (21 bp):
TGCATGTTACTCTCAAGTAAT
Found at i:11388803 original size:250 final size:250
Alignment explanation
Indices: 11388353--11388821 Score: 778
Period size: 250 Copynumber: 1.9 Consensus size: 250
11388343 TTATGGATCC
* *
11388353 GCAACATGTCATGAAAGACTTTATGTTATGAATCTTGATAGCTGAACGCTCAATATAGATGTCAA
1 GCAACATGTCATGAAAGACTTTATGTTATGAATCTTGATAGCTCAACGCTCAATATAGATATCAA
*
11388418 GAAAGCAAGGAAAGATAATCCAAACAAAACCTACATCTGACATTGTAGACTTGGTCATATCAATG
66 GAAAGCAAGGAAAGATAATCCAAACAAAACCTACATCTGACATTGTAAACTTGGTCATATCAATG
* * *
11388483 AGACAAGGATAACCAAATTGCATAGACAAGTTTATCTAAATCCATTTGATTATGAATAATATGAA
131 AGACAAGGATAACCAAAGTGCATAAAAAAGTTTATCTAAATCCATTTGATTATGAATAATATGAA
11388548 ACTTGTGAATGTTGTTTCCCTGGTCACAAAGTAGGAAAGCGAAGAAAGATAATCT
196 ACTTGTGAATGTTGTTTCCCTGGTCACAAAGTAGGAAAGCGAAGAAAGATAATCT
* * * *
11388603 GCAACATGTCATGAAAGACTTTATGTTGTGGATCTTGATAGCTCAATGCTCAATATAGATATTAA
1 GCAACATGTCATGAAAGACTTTATGTTATGAATCTTGATAGCTCAACGCTCAATATAGATATCAA
*
11388668 GAAAGCAAGGAAAGATAATCCAAACAAAATCTACATCTGACATTGTAAACTTGGTCATATCAATG
66 GAAAGCAAGGAAAGATAATCCAAACAAAACCTACATCTGACATTGTAAACTTGGTCATATCAATG
* * * *
11388733 AGACAAGGATAACTAAAGTGCATAAATAAAG-TTATCTAAATCTATTTGATTATGAATCATATGG
131 AGACAAGGATAACCAAAGTGCATAAA-AAAGTTTATCTAAATCCATTTGATTATGAATAATATGA
*
11388797 AACTTGTGAATGTTGTTTCCTTGGT
195 AACTTGTGAATGTTGTTTCCCTGGT
11388822 AAGAAGACTA
Statistics
Matches: 202, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
250 199 0.99
251 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (250 bp):
GCAACATGTCATGAAAGACTTTATGTTATGAATCTTGATAGCTCAACGCTCAATATAGATATCAA
GAAAGCAAGGAAAGATAATCCAAACAAAACCTACATCTGACATTGTAAACTTGGTCATATCAATG
AGACAAGGATAACCAAAGTGCATAAAAAAGTTTATCTAAATCCATTTGATTATGAATAATATGAA
ACTTGTGAATGTTGTTTCCCTGGTCACAAAGTAGGAAAGCGAAGAAAGATAATCT
Found at i:11391810 original size:24 final size:24
Alignment explanation
Indices: 11391778--11391838 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
11391768 GGCTCCTAGC
**
11391778 TTGACACTTGGTGTGCTTCTTGGT
1 TTGACACTTGGCATGCTTCTTGGT
11391802 TTGACACTTGGCATGCTTCTTGGT
1 TTGACACTTGGCATGCTTCTTGGT
11391826 TTGACACTTGGCA
1 TTGACACTTGGCA
11391839 CTCTCACATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.13, C:0.20, G:0.26, T:0.41
Consensus pattern (24 bp):
TTGACACTTGGCATGCTTCTTGGT
Found at i:11393108 original size:235 final size:234
Alignment explanation
Indices: 11392685--11393108 Score: 580
Period size: 235 Copynumber: 1.8 Consensus size: 234
11392675 GCCCCAACAG
* * * *
11392685 AAACATGATCGTCACTTCTAAGGCTTTGGTATTAGATACATGGGGAATTGGTTTAGTGCTAATAA
1 AAACATGATAGTCACTTCGAAGGCTTTGGTATTAGATACATGGGGAATTGCTTTACTGCTAATAA
* *
11392750 GAGATTATTAATATAAGCCCTGCAAGCCAATCTATTTGATACTTGTAAAACACTATATTAATTAG
66 GAGATTATTAATATAAGCCCTGCAAGCCAATCGATTTGATACTTGTAAAACACTACATTAATTAG
* * * *
11392815 TTATATTTCATGTTAAATACATTATATATATTTTATATAATATATAAAGTATTTCTTTATTCATT
131 TCATATTTCATGTTAAATACATTATAGATATTTTATATAATACATAAAGTACTTCTTTATTCATT
11392880 AGTTTACTTAACCCTCTCACTAAAATTCTGTCCTAGCAA
196 AGTTTACTTAACCCTCTCACTAAAATTCTGTCCTAGCAA
* * * * *
11392919 AAACATGATAGTCACTTGGAGGGCTTTGGTATTAGATACATGGGGGATTGACTTTACTGCTAGTG
1 AAACATGATAGTCACTTCGAAGGCTTTGGTATTAGATACATGGGGAATTG-CTTTACTGCTAATA
* * * ** * *
11392984 AGAGATTGTTAGTCTAAGCTTTGCAAGCCAATCGATTTTATGCTTGTAAAACACTACATTAATTA
65 AGAGATTATTAATATAAGCCCTGCAAGCCAATCGATTTGATACTTGTAAAACACTACATTAATTA
* * * * *
11393049 GTCATATTTCATGTTGAAA-AGATTATGGATATTTTATATAATGCATGAGGTACTTCTTTA
130 GTCATATTTCATGTT-AAATACATTATAGATATTTTATATAATACATAAAGTACTTCTTTA
11393109 CCCATGAGTT
Statistics
Matches: 161, Mismatches: 27, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
234 45 0.28
235 113 0.70
236 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (234 bp):
AAACATGATAGTCACTTCGAAGGCTTTGGTATTAGATACATGGGGAATTGCTTTACTGCTAATAA
GAGATTATTAATATAAGCCCTGCAAGCCAATCGATTTGATACTTGTAAAACACTACATTAATTAG
TCATATTTCATGTTAAATACATTATAGATATTTTATATAATACATAAAGTACTTCTTTATTCATT
AGTTTACTTAACCCTCTCACTAAAATTCTGTCCTAGCAA
Found at i:11394730 original size:38 final size:39
Alignment explanation
Indices: 11394652--11394730 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
11394642 AACTAAAACT
* * *
11394652 AAAAATTGGAAGTAAAAGTTACTTTCATGCTTGACAAAA
1 AAAAATTGAAAGTAAAAGTTACCTTCATGCTCGACAAAA
11394691 AAAAATTGAAAGTAAAAGTTACCTTCATGCTCGACAAAA
1 AAAAATTGAAAGTAAAAGTTACCTTCATGCTCGACAAAA
11394730 A
1 A
11394731 GTATTGTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (39 bp):
AAAAATTGAAAGTAAAAGTTACCTTCATGCTCGACAAAA
Found at i:11398861 original size:17 final size:17
Alignment explanation
Indices: 11398839--11398880 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
11398829 GTAAAAGAGA
11398839 AGAGATGAGAAGGTATT
1 AGAGATGAGAAGGTATT
*
11398856 AGAGATCAGAAGGTATT
1 AGAGATGAGAAGGTATT
*
11398873 GGAGATGA
1 AGAGATGA
11398881 AGGCGATGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.36, T:0.21
Consensus pattern (17 bp):
AGAGATGAGAAGGTATT
Found at i:11402106 original size:27 final size:26
Alignment explanation
Indices: 11402066--11402116 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
11402056 TTTCTCTTCT
*
11402066 TTTTTTATGGTTATTATTATTTGTTTA
1 TTTTTTATGGTTATT-CTATTTGTTTA
**
11402093 TTTTTTATTTTTATTCTATTTGTT
1 TTTTTTATGGTTATTCTATTTGTT
11402117 CATATATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.75
Consensus pattern (26 bp):
TTTTTTATGGTTATTCTATTTGTTTA
Found at i:11402201 original size:21 final size:22
Alignment explanation
Indices: 11402177--11402237 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 22
11402167 ACTATGTTTT
11402177 TTTTCTTTTTTATTATGT-AGG
1 TTTTCTTTTTTATTATGTCAGG
* * *
11402198 TTTTATATTTTATT-TGTCATG
1 TTTTCTTTTTTATTATGTCAGG
11402219 TTCTTCTTTTGTTTATTAT
1 TT-TTC-TTT-TTTATTAT
11402238 ATGTATGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 3 0.10
21 16 0.53
22 2 0.07
23 2 0.07
24 6 0.20
25 1 0.03
ACGTcount: A:0.15, C:0.07, G:0.10, T:0.69
Consensus pattern (22 bp):
TTTTCTTTTTTATTATGTCAGG
Found at i:11406188 original size:3 final size:3
Alignment explanation
Indices: 11406182--11406219 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11406172 CTTCTTCTTC
11406182 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11406220 TTCTTGAGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11407903 original size:15 final size:16
Alignment explanation
Indices: 11407883--11407925 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
11407873 ACATAAAATT
*
11407883 AAAATAACTCACT-TA
1 AAAATAACTAACTATA
*
11407898 AAAATAAACTAATTATA
1 AAAAT-AACTAACTATA
11407915 AAAATAACTAA
1 AAAATAACTAA
11407926 AAATAAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 12 0.50
17 7 0.29
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATAACTAACTATA
Found at i:11409180 original size:10 final size:10
Alignment explanation
Indices: 11409167--11409200 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
11409157 AAAAAAATTA
11409167 AAATTAAAAT
1 AAATTAAAAT
*
11409177 AAATTAAAAC
1 AAATTAAAAT
*
11409187 AAAGTAAAAT
1 AAATTAAAAT
11409197 AAAT
1 AAAT
11409201 GAATGCTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (10 bp):
AAATTAAAAT
Found at i:11409710 original size:21 final size:20
Alignment explanation
Indices: 11409686--11409730 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
11409676 ATCCTCTCCC
* *
11409686 ATATCTCCTTTATTGACATG
1 ATATATCCTTAATTGACATG
*
11409706 TATATATCCTTAATTGATATG
1 -ATATATCCTTAATTGACATG
11409727 ATAT
1 ATAT
11409731 GTATGATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (20 bp):
ATATATCCTTAATTGACATG
Found at i:11416674 original size:14 final size:14
Alignment explanation
Indices: 11416655--11416681 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11416645 CAAAATTTAT
11416655 TAATTAACTAAAAC
1 TAATTAACTAAAAC
11416669 TAATTAACTAAAA
1 TAATTAACTAAAA
11416682 TTAAAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAC
Found at i:11417797 original size:20 final size:20
Alignment explanation
Indices: 11417772--11417812 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
11417762 TAATAATCAT
11417772 ATTAAAA-AGAATAACATAAA
1 ATTAAAATA-AATAACATAAA
*
11417792 ATTAAAATAAATAACTTAAA
1 ATTAAAATAAATAACATAAA
11417812 A
1 A
11417813 GTAACTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (20 bp):
ATTAAAATAAATAACATAAA
Found at i:11417850 original size:27 final size:29
Alignment explanation
Indices: 11417781--11417855 Score: 82
Period size: 27 Copynumber: 2.6 Consensus size: 29
11417771 TATTAAAAAG
*
11417781 AATAACATAAAATTAAAATAAATAACTTAAA
1 AATAAC-T-AAATTATAATAAATAACTTAAA
* *
11417812 AGTAACTTAATTATAA-AAATAAC-TAAA
1 AATAACTAAATTATAATAAATAACTTAAA
*
11417839 AATAAGTAAATTATAAT
1 AATAACTAAATTATAAT
11417856 TGAAAATTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
27 17 0.46
28 7 0.19
29 7 0.19
30 1 0.03
31 5 0.14
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (29 bp):
AATAACTAAATTATAATAAATAACTTAAA
Found at i:11444012 original size:223 final size:222
Alignment explanation
Indices: 11443624--11444068 Score: 863
Period size: 223 Copynumber: 2.0 Consensus size: 222
11443614 TTCCTCAAAA
11443624 TACTTTTCAAAATCTCTCTTCACAGCAGGTGTTTCATCGAAGCTTGGCCAATCAAATAATTTTTC
1 TACTTTTCAAAATCTCTCTTCACAGCAGGTGTTTCATCGAAGCTTGGCCAATCAAATAATTTTTC
11443689 ACCGGTCACAATTGCATTTTCTATTTTCTTAATCTATCAGCATGCATCTTCCTTCTAAATCGAGA
66 ACCGGTCACAATTGCATTTTCTATTTTCTTAATCTATCAGCATGCATCTTCCTTCTAAATCGAGA
11443754 AGTGAAAATTGTACCTTTTACTATGCAAGCCCTTACAGTAACTGTTGCTTTCTCTTTCCCTACAA
131 AGTGAAAATTGTACCTTTTACTATGCAAGCCCTTACAGTAACTGTTGCTTTCTCTTTCCCTACAA
11443819 TTTTTTTCTCACTTTCCCCATTTTTCT
196 TTTTTTTCTCACTTTCCCCATTTTTCT
11443846 NTACTTTTCAAAATCTCTCTTCACAGCAGGTGTTTCATCGAAGCTTGGCCAATCAAATAATTTTT
1 -TACTTTTCAAAATCTCTCTTCACAGCAGGTGTTTCATCGAAGCTTGGCCAATCAAATAATTTTT
11443911 CACCGGTCACAATTGCATTTTCTATTTTCTTAATCTATCAGCATGCATCTTCCTTCTAAATCGAG
65 CACCGGTCACAATTGCATTTTCTATTTTCTTAATCTATCAGCATGCATCTTCCTTCTAAATCGAG
*
11443976 AGGTGAAAATTGTACCTTTTACTATGCAAGCCCTTACAGTAACTGTTGCTTTCTCTTTCCCTACA
130 AAGTGAAAATTGTACCTTTTACTATGCAAGCCCTTACAGTAACTGTTGCTTTCTCTTTCCCTACA
*
11444041 ATTTTTTTCTCACTTTCCCCCTTTTTCT
195 ATTTTTTTCTCACTTTCCCCATTTTTCT
11444069 AGGTTGAAGG
Statistics
Matches: 220, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
223 220 1.00
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (222 bp):
TACTTTTCAAAATCTCTCTTCACAGCAGGTGTTTCATCGAAGCTTGGCCAATCAAATAATTTTTC
ACCGGTCACAATTGCATTTTCTATTTTCTTAATCTATCAGCATGCATCTTCCTTCTAAATCGAGA
AGTGAAAATTGTACCTTTTACTATGCAAGCCCTTACAGTAACTGTTGCTTTCTCTTTCCCTACAA
TTTTTTTCTCACTTTCCCCATTTTTCT
Found at i:11450775 original size:18 final size:20
Alignment explanation
Indices: 11450738--11450777 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
11450728 GTACATTATA
11450738 TTAACCAATTAAAGGAGATT
1 TTAACCAATTAAAGGAGATT
11450758 TTAACCAATT-AA-GAGATT
1 TTAACCAATTAAAGGAGATT
11450776 TT
1 TT
11450778 TGTCTTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 10 0.50
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (20 bp):
TTAACCAATTAAAGGAGATT
Found at i:11462580 original size:24 final size:24
Alignment explanation
Indices: 11462553--11462626 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
11462543 GACACAGTCG
11462553 GGTTTAGAGTTTGTGACATGACAT
1 GGTTTAGAGTTTGTGACATGACAT
* * ** * * *
11462577 GG-TTGGAATGGGTGACACGGCAG
1 GGTTTAGAGTTTGTGACATGACAT
*
11462600 GGTTTAGAGTTTGTGACATGCCAT
1 GGTTTAGAGTTTGTGACATGACAT
11462624 GGT
1 GGT
11462627 GGGAATGTGT
Statistics
Matches: 35, Mismatches: 14, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
23 16 0.46
24 19 0.54
ACGTcount: A:0.22, C:0.11, G:0.36, T:0.31
Consensus pattern (24 bp):
GGTTTAGAGTTTGTGACATGACAT
Found at i:11462611 original size:47 final size:47
Alignment explanation
Indices: 11462552--11462644 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
11462542 TGACACAGTC
* *
11462552 GGGTTTAGAGTTTGTGACATGACATGGTTGGAATGGGTGACACGGCA
1 GGGTTTAGAGTTTGTGACATGACATGGTGGGAATGGGTGAAACGGCA
* *
11462599 GGGTTTAGAGTTTGTGACATGCCATGGTGGGAATGTGTGAAACGGC
1 GGGTTTAGAGTTTGTGACATGACATGGTGGGAATGGGTGAAACGGC
11462645 TGTGACACTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.23, C:0.11, G:0.39, T:0.28
Consensus pattern (47 bp):
GGGTTTAGAGTTTGTGACATGACATGGTGGGAATGGGTGAAACGGCA
Found at i:11462736 original size:47 final size:47
Alignment explanation
Indices: 11462644--11462883 Score: 250
Period size: 47 Copynumber: 5.1 Consensus size: 47
11462634 TGTGAAACGG
** * *
11462644 CTGTGACACTTCAGCGTTCAGAGTT-GTGACACTCCATGGAAGGAAT
1 CTGTGACACGCCAGAGTTCAGAGTTGGTGACACGCCATGGAAGGAAT
* * * * * *
11462690 CTGTGAAACTCTAAAGTTCAAAGTTGGTGACACGCCATGGAGGGAAT
1 CTGTGACACGCCAGAGTTCAGAGTTGGTGACACGCCATGGAAGGAAT
* *
11462737 CTGTGACACTCCAGAGTTCAGAGTTGGTGACACGCCATGGAAGAAAT
1 CTGTGACACGCCAGAGTTCAGAGTTGGTGACACGCCATGGAAGGAAT
* * *
11462784 CTGTGACACGCCAGTGTTTAGAGTTGGTGACACGCCATGAAAGGAAT
1 CTGTGACACGCCAGAGTTCAGAGTTGGTGACACGCCATGGAAGGAAT
* * * * ** * **
11462831 ATGTGAGACGCTAGCGTTCAGAG-TCCTAACACGCCATGGGGGGAAT
1 CTGTGACACGCCAGAGTTCAGAGTTGGTGACACGCCATGGAAGGAAT
11462877 CTGTGAC
1 CTGTGAC
11462884 TCACCAGCTT
Statistics
Matches: 161, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
46 41 0.25
47 120 0.75
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
CTGTGACACGCCAGAGTTCAGAGTTGGTGACACGCCATGGAAGGAAT
Found at i:11462742 original size:23 final size:23
Alignment explanation
Indices: 11462716--11462796 Score: 60
Period size: 23 Copynumber: 3.5 Consensus size: 23
11462706 TTCAAAGTTG
11462716 GTGACACGCCATGGAGGGAATCT
1 GTGACACGCCATGGAGGGAATCT
* * *
11462739 GTGACACTCCA--GAGTTCAGAGT-T
1 GTGACACGCCATGGAG---GGAATCT
* *
11462762 GGTGACACGCCATGGAAGAAATCT
1 -GTGACACGCCATGGAGGGAATCT
11462786 GTGACACGCCA
1 GTGACACGCCA
11462797 GTGTTTAGAG
Statistics
Matches: 43, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
21 3 0.07
23 24 0.56
24 14 0.33
26 2 0.05
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (23 bp):
GTGACACGCCATGGAGGGAATCT
Found at i:11462818 original size:24 final size:24
Alignment explanation
Indices: 11462739--11462820 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 24
11462729 GAGGGAATCT
* * *
11462739 GTGACACTCCAGAGTTCAGAGTTG
1 GTGACACGCCAGTGTTAAGAGTTG
* *
11462763 GTGACACGCCA-TG-GAAGAAATCT-
1 GTGACACGCCAGTGTTAAG-AGT-TG
*
11462786 GTGACACGCCAGTGTTTAGAGTTG
1 GTGACACGCCAGTGTTAAGAGTTG
11462810 GTGACACGCCA
1 GTGACACGCCA
11462821 TGAAAGGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
22 2 0.04
23 15 0.33
24 26 0.58
25 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (24 bp):
GTGACACGCCAGTGTTAAGAGTTG
Found at i:11463614 original size:31 final size:31
Alignment explanation
Indices: 11463576--11463837 Score: 201
Period size: 31 Copynumber: 8.5 Consensus size: 31
11463566 GTGTCAGCAT
* * *
11463576 TGGCGTGTTACGATATTTTACTATATATGCA
1 TGGCGTGTTACCACATTCTACTATATATGCA
11463607 TGGCGTGTTACCACATTCTAC-ATTATATGCA
1 TGGCGTGTTACCACATTCTACTA-TATATGCA
*
11463638 TGGCGTGTTACCACATTCTACGT-TATATGCG
1 TGGCGTGTTACCACATTCTAC-TATATATGCA
*
11463669 TGGCGTGTTACCACAATT-TA-TGTTATATGCA
1 TGGCGTGTTACCAC-ATTCTACT-ATATATGCA
** **
11463700 TGGCAAGTTACCACAGTT-TACGT-TATATGTG
1 TGGCGTGTTACCACA-TTCTAC-TATATATGCA
**
11463731 TGGC--G-TACCACAGTT-TACGT-TATATGTG
1 TGGCGTGTTACCACA-TTCTAC-TATATATGCA
*
11463759 TGGCATGTTACCACAATT-TACGT-TATATGCA
1 TGGCGTGTTACCAC-ATTCTAC-TATATATGCA
* *
11463790 TGGCGTGCTACCACATTTTACGT-TATATGCA
1 TGGCGTGTTACCACATTCTAC-TATATATGCA
11463821 TGGCGTGTTACCACATT
1 TGGCGTGTTACCACATT
11463838 ATGGGTTAAC
Statistics
Matches: 203, Mismatches: 14, Indels: 28
0.83 0.06 0.11
Matches are distributed among these distances:
28 27 0.13
29 2 0.01
30 6 0.03
31 163 0.80
32 4 0.02
33 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (31 bp):
TGGCGTGTTACCACATTCTACTATATATGCA
Found at i:11463673 original size:62 final size:60
Alignment explanation
Indices: 11463576--11463837 Score: 298
Period size: 62 Copynumber: 4.3 Consensus size: 60
11463566 GTGTCAGCAT
* * *
11463576 TGGCGTGTTACGATATTTTAC-TATATATGCATGGCGTGTTACCACATTCTACATTATATGCA
1 TGGCGTGTTACCACA-TTTACGT-TATATGCATGGCGTGTTACCACATT-TACGTTATATGCA
* *
11463638 TGGCGTGTTACCACATTCTACGTTATATGCGTGGCGTGTTACCACAATTTATGTTATATGCA
1 TGGCGTGTTACCACATT-TACGTTATATGCATGGCGTGTTACCAC-ATTTACGTTATATGCA
** ** **
11463700 TGGCAAGTTACCACAGTTTACGTTATATGTGTGGC--G-TACCACAGTTTACGTTATATGTG
1 TGGCGTGTTACCACA-TTTACGTTATATGCATGGCGTGTTACCACA-TTTACGTTATATGCA
* *
11463759 TGGCATGTTACCACAATTTACGTTATATGCATGGCGTGCTACCACATTTTACGTTATATGCA
1 TGGCGTGTTACCAC-ATTTACGTTATATGCATGGCGTGTTACCACA-TTTACGTTATATGCA
11463821 TGGCGTGTTACCACATT
1 TGGCGTGTTACCACATT
11463838 ATGGGTTAAC
Statistics
Matches: 173, Mismatches: 18, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
58 1 0.01
59 48 0.28
60 2 0.01
61 6 0.03
62 110 0.64
63 6 0.03
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (60 bp):
TGGCGTGTTACCACATTTACGTTATATGCATGGCGTGTTACCACATTTACGTTATATGCA
Found at i:11463774 original size:90 final size:91
Alignment explanation
Indices: 11463599--11463837 Score: 322
Period size: 90 Copynumber: 2.6 Consensus size: 91
11463589 TATTTTACTA
*
11463599 TATATGCATGGCGTGTTACCACATTCTACATTATATGCATGGCGTGTTACCACATTCTACGTTAT
1 TATATGCATGGCGTGTTACCACATT-TACGTTATATGCATGGCG-GTTACCACATTCTACGTTAT
* *
11463664 ATGCGTGGCGTGTTACCACAATTTATGT
64 ATGCGTGGCATGTTACCACAATTTACGT
** **
11463692 TATATGCATGGCAAGTTACCACAGTTTACGTTATATGTGTGGC-G-TACCACAGTT-TACGTTAT
1 TATATGCATGGCGTGTTACCACA-TTTACGTTATATGCATGGCGGTTACCACA-TTCTACGTTAT
*
11463754 ATGTGTGGCATGTTACCACAATTTACGT
64 ATGCGTGGCATGTTACCACAATTTACGT
*
11463782 TATATGCATGGCGTGCTACCACATTTTACGTTATATGCATGGCGTGTTACCACATT
1 TATATGCATGGCGTGTTACCACA-TTTACGTTATATGCATGGCG-GTTACCACATT
11463838 ATGGGTTAAC
Statistics
Matches: 127, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
90 77 0.61
91 3 0.02
92 3 0.02
93 42 0.33
94 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (91 bp):
TATATGCATGGCGTGTTACCACATTTACGTTATATGCATGGCGGTTACCACATTCTACGTTATAT
GCGTGGCATGTTACCACAATTTACGT
Found at i:11463802 original size:121 final size:121
Alignment explanation
Indices: 11463615--11463835 Score: 320
Period size: 121 Copynumber: 1.8 Consensus size: 121
11463605 CATGGCGTGT
* * *
11463615 TACCACATTCTACATTATATGCATGGCGTGTTACCACATTCTACGTTATATGCGTGGCGTGTTAC
1 TACCACATTCTACATTATATGCATGGCATGTTACCACATTCTACGTTATATGCATGGCGTGCTAC
*
11463680 CACAATTTATGTTATATGCATGGCAAGTTACCACAGTTTACGTTATATGTGTGGCG
66 CACAATTTACGTTATATGCATGGCAAGTTACCACAGTTTACGTTATATGTGTGGCG
* **
11463736 TACCACAGTT-TACGTTATATGTGTGGCATGTTACCACAATT-TACGTTATATGCATGGCGTGCT
1 TACCACA-TTCTACATTATATGCATGGCATGTTACCAC-ATTCTACGTTATATGCATGGCGTGCT
* **
11463799 ACCACATTTTACGTTATATGCATGGCGTGTTACCACA
64 ACCACAATTTACGTTATATGCATGGCAAGTTACCACA
11463836 TTATGGGTTA
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
121 83 0.94
122 5 0.06
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (121 bp):
TACCACATTCTACATTATATGCATGGCATGTTACCACATTCTACGTTATATGCATGGCGTGCTAC
CACAATTTACGTTATATGCATGGCAAGTTACCACAGTTTACGTTATATGTGTGGCG
Found at i:11475869 original size:31 final size:31
Alignment explanation
Indices: 11475819--11475937 Score: 148
Period size: 31 Copynumber: 3.8 Consensus size: 31
11475809 TTTGTCAGTC
* * *
11475819 ATGTTGTAACACGCTATGCATATAATGTAGA
1 ATGTGGTAACACGCCATGCATATAACGTAGA
*
11475850 ATGTGGTAACATGCCATGCATATAACGTAGA
1 ATGTGGTAACACGCCATGCATATAACGTAGA
** * *
11475881 ATGTGGTAATGCGTCATGCATATAACGTAAA
1 ATGTGGTAACACGCCATGCATATAACGTAGA
* *
11475912 ATGTGGTTACACCCCATGCATATAAC
1 ATGTGGTAACACGCCATGCATATAAC
11475938 ACCAATGTTG
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (31 bp):
ATGTGGTAACACGCCATGCATATAACGTAGA
Found at i:11476399 original size:16 final size:19
Alignment explanation
Indices: 11476370--11476411 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
11476360 GTTGCTCAAC
11476370 AGAGAGTTGGC-AA-AGTTG
1 AGAGAGTT-GCAAAGAGTTG
11476388 AGAGAGTT-CAAAGAGTTG
1 AGAGAGTTGCAAAGAGTTG
11476406 AGAGAG
1 AGAGAG
11476412 AAAGATGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 1 0.05
17 2 0.09
18 19 0.86
ACGTcount: A:0.38, C:0.05, G:0.38, T:0.19
Consensus pattern (19 bp):
AGAGAGTTGCAAAGAGTTG
Found at i:11476545 original size:20 final size:20
Alignment explanation
Indices: 11476520--11476565 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
11476510 TTTTTAAGGA
11476520 TATTTTAGTCTACTCATGCT
1 TATTTTAGTCTACTCATGCT
*
11476540 TATTTTAGTCTACTCGTGCT
1 TATTTTAGTCTACTCATGCT
*
11476560 TCTTTT
1 TATTTT
11476566 TGGCTAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.20, G:0.11, T:0.54
Consensus pattern (20 bp):
TATTTTAGTCTACTCATGCT
Found at i:11482549 original size:18 final size:18
Alignment explanation
Indices: 11482513--11482550 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11482503 CACACATCGA
*
11482513 TAATAATAATAATAGAAT
1 TAATAATAACAATAGAAT
11482531 TAATAATAAACAATA-AAT
1 TAATAAT-AACAATAGAAT
11482549 TA
1 TA
11482551 GAGAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
TAATAATAACAATAGAAT
Found at i:11484318 original size:21 final size:20
Alignment explanation
Indices: 11484293--11484338 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
11484283 TATAAGAAAT
11484293 TTAAAGCAAAATAACATAAAA
1 TTAAAGCAAAATAAC-TAAAA
* *
11484314 TTAAATCAAAATAACTCAAA
1 TTAAAGCAAAATAACTAAAA
11484334 TTAAA
1 TTAAA
11484339 CTAATCAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.63, C:0.11, G:0.02, T:0.24
Consensus pattern (20 bp):
TTAAAGCAAAATAACTAAAA
Found at i:11484780 original size:62 final size:63
Alignment explanation
Indices: 11484650--11484782 Score: 169
Period size: 63 Copynumber: 2.1 Consensus size: 63
11484640 CCCCCCCCTC
* *
11484650 AAATTTTAAAAATTTTAAAACATGCCAATATTTTTTTGGAAATTTATAATTTTGCCTTTACAA
1 AAATTTTAAAAATTTTAAAACATACCAATATTTTTTTGGAAATTTATAATTTTGCCTCTACAA
* * *** * *
11484713 AAATTTTAAAATTTTTATAACATACTTTTATTTTTTTGGAATTTTATAATTTTGTCTCTA-AA
1 AAATTTTAAAAATTTTAAAACATACCAATATTTTTTTGGAAATTTATAATTTTGCCTCTACAA
*
11484775 TAATTTTA
1 AAATTTTA
11484783 TAGCATGCCA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
62 9 0.15
63 51 0.85
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (63 bp):
AAATTTTAAAAATTTTAAAACATACCAATATTTTTTTGGAAATTTATAATTTTGCCTCTACAA
Found at i:11488598 original size:5 final size:5
Alignment explanation
Indices: 11488588--11488613 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11488578 AACAAAAAAC
11488588 AAGAA AAGAA AAGAA AAGAA AAGAA A
1 AAGAA AAGAA AAGAA AAGAA AAGAA A
11488614 TTTATTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:11492617 original size:65 final size:65
Alignment explanation
Indices: 11492537--11492685 Score: 174
Period size: 65 Copynumber: 2.3 Consensus size: 65
11492527 TCTCCGATCA
** * * * * *
11492537 GTTGTGTTGCATGCTTTATATCATTGATATGTGATT-TCAAGCATAATGCTTGATATCCTTAATA
1 GTTGTGTTGTTTGCTTGATATCATTGATATATGGTTCT-AAGCATAATGCTTGAAATCCTGAATA
11492601 T
65 T
* * * *
11492602 GTTGTGTTGTTTGCTTGATATCCTTGATTTATGGTTCTAAGCATAATGCTTGAAATCCTGGATCT
1 GTTGTGTTGTTTGCTTGATATCATTGATATATGGTTCTAAGCATAATGCTTGAAATCCTGAATAT
*
11492667 GTTTTGTTGTTTGCTTGAT
1 GTTGTGTTGTTTGCTTGAT
11492686 CTCCTTGTCC
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
65 70 0.99
66 1 0.01
ACGTcount: A:0.21, C:0.12, G:0.20, T:0.47
Consensus pattern (65 bp):
GTTGTGTTGTTTGCTTGATATCATTGATATATGGTTCTAAGCATAATGCTTGAAATCCTGAATAT
Found at i:11492935 original size:56 final size:56
Alignment explanation
Indices: 11492843--11492967 Score: 173
Period size: 56 Copynumber: 2.2 Consensus size: 56
11492833 ATTGTCTTTT
11492843 CAAGCATAATGCTCATTATCTTGCGTTGTCTACTTGATATATTAAATTTGTGGTTC
1 CAAGCATAATGCTCATTATCTTGCGTTGTCTACTTGATATATTAAATTTGTGGTTC
* * * *
11492899 CAAGCATAAT-CTTCGA-TATCTTGTGTTGTTTGCTTGATATCTTAAATTTGTGGTTC
1 CAAGCATAATGC-TC-ATTATCTTGCGTTGTCTACTTGATATATTAAATTTGTGGTTC
*
11492955 CAAGTATAATGCT
1 CAAGCATAATGCT
11492968 TAACAATACA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
55 1 0.02
56 58 0.95
57 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (56 bp):
CAAGCATAATGCTCATTATCTTGCGTTGTCTACTTGATATATTAAATTTGTGGTTC
Found at i:11516699 original size:42 final size:42
Alignment explanation
Indices: 11516640--11516829 Score: 290
Period size: 42 Copynumber: 4.5 Consensus size: 42
11516630 NNNNNNNNNN
*
11516640 GTTGCTGACCCGACTATGTGCGAGTAGGAGTGCACATAAGCC
1 GTTGCTGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCC
* * *
11516682 GTTGCTGACCCAGCTATGTGTGAGTGGGAGTGCACATAAGCC
1 GTTGCTGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCC
* *
11516724 GTTGCTGACCCGGCTATGTGCGAGTAAGAGTGCACATAAACC
1 GTTGCTGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCC
* * *
11516766 ATTGCTGACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCC
1 GTTGCTGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCC
*
11516808 GTTGCTGACCCGGCTATATGCG
1 GTTGCTGACCCGGCTATGTGCG
11516830 CCTAAGCCGT
Statistics
Matches: 131, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 131 1.00
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.23
Consensus pattern (42 bp):
GTTGCTGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCC
Found at i:11516782 original size:84 final size:84
Alignment explanation
Indices: 11516640--11516829 Score: 326
Period size: 84 Copynumber: 2.3 Consensus size: 84
11516630 NNNNNNNNNN
* * * *
11516640 GTTGCTGACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCAGCTATGTGTGA
1 GTTGCTGACCCGGCTATGTGCGAGTAAGAGTGCACATAAACCATTGCTGACCCAGCTATGTGTGA
11516705 GTGGGAGTGCACATAAGCC
66 GTGGGAGTGCACATAAGCC
*
11516724 GTTGCTGACCCGGCTATGTGCGAGTAAGAGTGCACATAAACCATTGCTGACCCGGCTATGTGTGA
1 GTTGCTGACCCGGCTATGTGCGAGTAAGAGTGCACATAAACCATTGCTGACCCAGCTATGTGTGA
11516789 GTGGGAGTGCACATAAGCC
66 GTGGGAGTGCACATAAGCC
*
11516808 GTTGCTGACCCGGCTATATGCG
1 GTTGCTGACCCGGCTATGTGCG
11516830 CCTAAGCCGT
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 100 1.00
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.23
Consensus pattern (84 bp):
GTTGCTGACCCGGCTATGTGCGAGTAAGAGTGCACATAAACCATTGCTGACCCAGCTATGTGTGA
GTGGGAGTGCACATAAGCC
Found at i:11516838 original size:30 final size:30
Alignment explanation
Indices: 11516800--11516872 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
11516790 TGGGAGTGCA
*
11516800 CATAAGCCGTTGCTGACCCGGCTATATGCG
1 CATAAGCCGTTGCTGACCCGACTATATGCG
*
11516830 CCTAAGCCGTTGCTGACCCGACTATATGCG
1 CATAAGCCGTTGCTGACCCGACTATATGCG
11516860 CATAAGCCGTTGC
1 CATAAGCCGTTGC
11516873 ATATGAGATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.21, C:0.32, G:0.25, T:0.23
Consensus pattern (30 bp):
CATAAGCCGTTGCTGACCCGACTATATGCG
Found at i:11516915 original size:26 final size:26
Alignment explanation
Indices: 11516879--11516940 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
11516869 TTGCATATGA
11516879 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGGTGTGCAT
11516905 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGGTGTGCAT
*
11516931 GTTGATGATG
1 GATGATGATG
11516941 GGTATATAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.23, C:0.03, G:0.42, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGGTGTGCAT
Found at i:11529702 original size:17 final size:17
Alignment explanation
Indices: 11529680--11529712 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11529670 TGCTTTGCTT
11529680 GAATATATATTGATTTG
1 GAATATATATTGATTTG
*
11529697 GAATATATCTTGATTT
1 GAATATATATTGATTT
11529713 AATACTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.48
Consensus pattern (17 bp):
GAATATATATTGATTTG
Found at i:11529716 original size:15 final size:16
Alignment explanation
Indices: 11529678--11529716 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
11529668 TATGCTTTGC
11529678 TTGAATATATATTGAT
1 TTGAATATATATTGAT
*
11529694 TTGGAATATATCTTGAT
1 TT-GAATATATATTGAT
11529711 TT-AATA
1 TTGAATA
11529717 CTCTCATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 2 0.10
17 15 0.71
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (16 bp):
TTGAATATATATTGAT
Found at i:11530704 original size:20 final size:21
Alignment explanation
Indices: 11530652--11530704 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
11530642 AACTTTAAGA
*
11530652 AGCCATAGTTGACTATAAAAG
1 AGCCAAAGTTGACTATAAAAG
*
11530673 AGGCAAAGTTGACTATAAAAG
1 AGCCAAAGTTGACTATAAAAG
*
11530694 -GCCAAATTTGA
1 AGCCAAAGTTGA
11530705 AAAACACACG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (21 bp):
AGCCAAAGTTGACTATAAAAG
Found at i:11536608 original size:18 final size:18
Alignment explanation
Indices: 11536572--11536609 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11536562 ATGTAAGATC
*
11536572 ATATTTTATTTAATTTTA
1 ATATTTTATTTAATGTTA
11536590 ATATTTTAATTT-ATGTTA
1 ATATTTT-ATTTAATGTTA
11536608 AT
1 AT
11536610 GAGTACTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
ATATTTTATTTAATGTTA
Found at i:11538302 original size:31 final size:30
Alignment explanation
Indices: 11538266--11538332 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 30
11538256 CAATTAAACT
11538266 CTTATATATTTAGGTTGAGTCAAATAAGTC
1 CTTATATATTTAGGTTGAGTCAAATAAGTC
* **
11538296 CATTATATTTTTATTTTGAGTCAAATAAGTC
1 C-TTATATATTTAGGTTGAGTCAAATAAGTC
11538327 CTTATA
1 CTTATA
11538333 ACTAATGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 6 0.18
31 27 0.82
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (30 bp):
CTTATATATTTAGGTTGAGTCAAATAAGTC
Found at i:11540727 original size:3 final size:3
Alignment explanation
Indices: 11540719--11540751 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
11540709 ATGGTTTCTA
*
11540719 AGG AGG AGG AAG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
11540752 GATTAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:11543123 original size:32 final size:32
Alignment explanation
Indices: 11543087--11543153 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
11543077 GGTGACTATA
11543087 TTGTTATTTTGTGGTTGATCTTACTTCGAAAG
1 TTGTTATTTTGTGGTTGATCTTACTTCGAAAG
*
11543119 TTGTTATTTTGTGGTTGATCTTACTTGGAAAG
1 TTGTTATTTTGTGGTTGATCTTACTTCGAAAG
11543151 TTG
1 TTG
11543154 CACTTTGCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.18, C:0.07, G:0.24, T:0.51
Consensus pattern (32 bp):
TTGTTATTTTGTGGTTGATCTTACTTCGAAAG
Found at i:11547931 original size:25 final size:25
Alignment explanation
Indices: 11547889--11547936 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
11547879 TTAAACAATA
11547889 AGGAAGATTGACCGAAAAAAAAAAG
1 AGGAAGATTGACCGAAAAAAAAAAG
*
11547914 AGGAAGATTTGGCC-AAAAAAAAA
1 AGGAAGA-TTGACCGAAAAAAAAA
11547937 GAAGTTAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.58, C:0.08, G:0.23, T:0.10
Consensus pattern (25 bp):
AGGAAGATTGACCGAAAAAAAAAAG
Found at i:11556733 original size:19 final size:20
Alignment explanation
Indices: 11556706--11556745 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11556696 TTGGTGACAA
*
11556706 ATGTC-AAAATCATTTTTTT
1 ATGTCAAAAATAATTTTTTT
*
11556725 ATGTTAAAAATAATTTTTTT
1 ATGTCAAAAATAATTTTTTT
11556745 A
1 A
11556746 AAGAAATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (20 bp):
ATGTCAAAAATAATTTTTTT
Found at i:11561270 original size:20 final size:20
Alignment explanation
Indices: 11561238--11561306 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
11561228 CTACTCTCAC
11561238 AAAAACATAAAAATAAACAT
1 AAAAACATAAAAATAAACAT
*
11561258 AAAAA-ATATAAAATTAACATT
1 AAAAACATA-AAAATAAACA-T
***
11561279 ATTCACAT-AAAATAAACAT
1 AAAAACATAAAAATAAACAT
*
11561298 TAAAACATA
1 AAAAACATA
11561307 GATTAAACTA
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
19 8 0.22
20 23 0.64
21 3 0.08
22 2 0.06
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAACATAAAAATAAACAT
Found at i:11569205 original size:59 final size:58
Alignment explanation
Indices: 11569131--11569308 Score: 212
Period size: 60 Copynumber: 3.0 Consensus size: 58
11569121 AGACATCATC
** * *
11569131 ACCTACTCGTGGGAACTGTCCATGCCACCATATAAATTGGGGCTTCAAGTCCCCTTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATAAATCGGGGCTTCAAGTCCCC-TTTT
* * * *
11569190 ACCTACTCGTAGGAACTACCCACGTCACCAAATATAAATCGGGGCTTTAGGTCCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACC--ATATAAATCGGGGCTTCAAGTCCCCTTTT
* * * * *
11569250 GCCTACTCTTGGGAACTACCCACACCACCATATGAATCGGGGCTTCAAGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATATAAATCGGGGCTTCAAGTCCCCTTTT
11569308 A
1 A
11569309 AAATCAAATA
Statistics
Matches: 99, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
58 25 0.25
59 24 0.24
60 28 0.28
61 22 0.22
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (58 bp):
ACCTACTCGTGGGAACTACCCACGCCACCATATAAATCGGGGCTTCAAGTCCCCTTTT
Found at i:11570166 original size:23 final size:22
Alignment explanation
Indices: 11570124--11570167 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11570114 ACCCTTGGTG
*
11570124 GAAAAATTCAAAGAAAAAGTGT
1 GAAAAATTCAAAAAAAAAGTGT
11570146 GAAAAA-TCAAGAAAAACAAGTG
1 GAAAAATTCAA-AAAAA-AAGTG
11570168 AAAAATGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.61, C:0.07, G:0.18, T:0.14
Consensus pattern (22 bp):
GAAAAATTCAAAAAAAAAGTGT
Found at i:11572809 original size:12 final size:12
Alignment explanation
Indices: 11572785--11572822 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11572775 GCCGCTACTC
*
11572785 CTTC-TCTTCTT
1 CTTCTTCTTTTT
11572796 CTTCTTCTTTTT
1 CTTCTTCTTTTT
*
11572808 CTTTTTCTTTTT
1 CTTCTTCTTTTT
11572820 CTT
1 CTT
11572823 TTTTCTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
CTTCTTCTTTTT
Found at i:11572829 original size:7 final size:6
Alignment explanation
Indices: 11572789--11572825 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
11572779 CTACTCCTTC
* *
11572789 TCTTCT TCTTCT TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
11572826 TCTTCCCCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TCTTTT
Found at i:11573009 original size:23 final size:22
Alignment explanation
Indices: 11572983--11573027 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
11572973 CTCTCTCTCA
11572983 TTTCT-TATTCTCTTTCTCTTTTT
1 TTTCTCTA-TCTCTTTC-CTTTTT
11573006 TTTCTCTATCTCTTTCCTTTTT
1 TTTCTCTATCTCTTTCCTTTTT
11573028 CTGCTATGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.29
23 13 0.62
24 2 0.10
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTCTCTATCTCTTTCCTTTTT
Found at i:11573059 original size:30 final size:29
Alignment explanation
Indices: 11573025--11573167 Score: 85
Period size: 26 Copynumber: 5.2 Consensus size: 29
11573015 CTCTTTCCTT
11573025 TTTCTGCTATGCCGTGCTCTTTCTCTCTCA
1 TTTCTGCT-TGCCGTGCTCTTTCTCTCTCA
* * *
11573055 TTTCTTCTT-CTCTTTCTCTTTC-CT-T--
1 TTTCTGCTTGC-CGTGCTCTTTCTCTCTCA
*
11573080 TTTCTGCTCTGTCGTGCTCTTTCTCTCTCA
1 TTTCTGCT-TGCCGTGCTCTTTCTCTCTCA
* * *
11573110 TTTCTTCTT-CTCTTTCTCTTTC-CT-T--
1 TTTCTGCTTGC-CGTGCTCTTTCTCTCTCA
*
11573135 TTTCTGCTCTGTCGTGCTCTTTCTCT-TC-
1 TTTCTGCT-TGCCGTGCTCTTTCTCTCTCA
11573163 TTTCT
1 TTTCT
11573168 TCTTCTCTTT
Statistics
Matches: 86, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
25 14 0.16
26 20 0.23
27 7 0.08
28 11 0.13
29 20 0.23
30 14 0.16
ACGTcount: A:0.02, C:0.32, G:0.08, T:0.57
Consensus pattern (29 bp):
TTTCTGCTTGCCGTGCTCTTTCTCTCTCA
Found at i:11573066 original size:55 final size:55
Alignment explanation
Indices: 11573007--11573179 Score: 305
Period size: 55 Copynumber: 3.2 Consensus size: 55
11572997 TCTCTTTTTT
* * *
11573007 TTCTCTATCTCTTTCCTTTTTCTGCTATGCCGTGCTCTTTCTCTCTCATTTCTTC
1 TTCTCTTTCTCTTTCCTTTTTCTGCTCTGTCGTGCTCTTTCTCTCTCATTTCTTC
11573062 TTCTCTTTCTCTTTCCTTTTTCTGCTCTGTCGTGCTCTTTCTCTCTCATTTCTTC
1 TTCTCTTTCTCTTTCCTTTTTCTGCTCTGTCGTGCTCTTTCTCTCTCATTTCTTC
11573117 TTCTCTTTCTCTTTCCTTTTTCTGCTCTGTCGTGCTCTTTCTCT-TC-TTTCTTC
1 TTCTCTTTCTCTTTCCTTTTTCTGCTCTGTCGTGCTCTTTCTCTCTCATTTCTTC
11573170 TTCTCTTTCT
1 TTCTCTTTCT
11573180 TTTTTCTTCT
Statistics
Matches: 115, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
53 17 0.15
54 2 0.02
55 96 0.83
ACGTcount: A:0.02, C:0.32, G:0.07, T:0.58
Consensus pattern (55 bp):
TTCTCTTTCTCTTTCCTTTTTCTGCTCTGTCGTGCTCTTTCTCTCTCATTTCTTC
Found at i:11573080 original size:5 final size:6
Alignment explanation
Indices: 11572958--11573135 Score: 56
Period size: 6 Copynumber: 29.8 Consensus size: 6
11572948 CCGTGCTCTT
* *
11572958 TCTTTC TC--TC TCTCTC TCTCTC TCATTTC T-TATTC TCTTTC TCTTT-
1 TCTTTC TCTTTC TCTTTC TCTTTC TC-TTTC TCT-TTC TCTTTC TCTTTC
* * * * * *
11573004 TTTTTC TCTATC TCTTTCC TTTTTC TGCTATGC -CGTGC TCTTTC TC--TC
1 TCTTTC TCTTTC TCTTT-C TCTTTC T-CT-TTC TCTTTC TCTTTC TCTTTC
* * * * *
11573052 TCATTTC T-TCTTC TCTTTC TCTTTCC TTTTTC TGCTCTG TCGTGC TCTTTC
1 TC-TTTC TCT-TTC TCTTTC TCTTT-C TCTTTC T-CTTTC TCTTTC TCTTTC
11573103 TC--TC TCATTTC T-TCTTC TCTTTC TCTTTC -CTTT
1 TCTTTC TC-TTTC TCT-TTC TCTTTC TCTTTC TCTTT
11573136 TTCTGCTCTG
Statistics
Matches: 129, Mismatches: 21, Indels: 45
0.66 0.11 0.23
Matches are distributed among these distances:
4 12 0.09
5 14 0.11
6 74 0.57
7 27 0.21
8 2 0.02
ACGTcount: A:0.03, C:0.33, G:0.04, T:0.60
Consensus pattern (6 bp):
TCTTTC
Found at i:11573121 original size:72 final size:71
Alignment explanation
Indices: 11572905--11573122 Score: 168
Period size: 72 Copynumber: 3.1 Consensus size: 71
11572895 GCCGTGCTCC
* * * *
11572905 CTCTCTCA-TT-TTCTTCTCTTT-TCTTTCTTTTTTTTTTGCTTTGCCGTGCTCTTTCTTTCTC-
1 CTCTCTCATTTCTTCTTCTCTTTCTCTTTC---TTTTTCTGCTATGTCGTGCTCTTTCTCTCTCA
11572966 TCTC-TCTCT
63 TCTCTTCT-T
* * * * *
11572975 CTCTCTCATTTCTTATTCTCTTTCTCTTT-TTTTTCT-CTATCTCTTTC-CTTTTTCTGCT-ATG
1 CTCTCTCATTTCTTCTTCTCTTTCTCTTTCTTTTTCTGCTATGTCGTGCTCTTTCTCT-CTCAT-
11573036 C-CGTGCTCTTT
64 CTC-T--TC-TT
* *
11573047 CTCTCTCATTTCTTCTTCTCTTTCTCTTTCCTTTTTCTGCTCTGTCGTGCTCTTTCTCTCTCATT
1 CTCTCTCATTTCTTCTTCTCTTTCTCTTT-CTTTTTCTGCTATGTCGTGCTCTTTCTCTCTCATC
11573112 TCTTCTT
65 TCTTCTT
11573119 CTCT
1 CTCT
11573123 TTCTCTTTCC
Statistics
Matches: 115, Mismatches: 16, Indels: 32
0.71 0.10 0.20
Matches are distributed among these distances:
67 6 0.05
68 10 0.09
69 7 0.06
70 8 0.07
71 2 0.02
72 47 0.41
73 8 0.07
74 7 0.06
75 10 0.09
76 10 0.09
ACGTcount: A:0.03, C:0.31, G:0.06, T:0.60
Consensus pattern (71 bp):
CTCTCTCATTTCTTCTTCTCTTTCTCTTTCTTTTTCTGCTATGTCGTGCTCTTTCTCTCTCATCT
CTTCTT
Found at i:11573188 original size:16 final size:16
Alignment explanation
Indices: 11573155--11573194 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
11573145 GTCGTGCTCT
11573155 TTCTC-TTCTTTCTTC
1 TTCTCTTTCTTTCTTC
*
11573170 TTCTCTTTCTTTTTTC
1 TTCTCTTTCTTTCTTC
*
11573186 TTCTTTTTC
1 TTCTCTTTC
11573195 CCTCTCTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
TTCTCTTTCTTTCTTC
Found at i:11576144 original size:2 final size:2
Alignment explanation
Indices: 11576137--11576164 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11576127 GATGTATGTG
11576137 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11576165 AATGTTATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11577785 original size:15 final size:15
Alignment explanation
Indices: 11577765--11577795 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11577755 AAGTTCTATG
11577765 CGAATGATTGTGCAC
1 CGAATGATTGTGCAC
11577780 CGAATGATTGTGCAC
1 CGAATGATTGTGCAC
11577795 C
1 C
11577796 AAATTGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (15 bp):
CGAATGATTGTGCAC
Found at i:11580132 original size:47 final size:47
Alignment explanation
Indices: 11580081--11580476 Score: 422
Period size: 47 Copynumber: 8.4 Consensus size: 47
11580071 GGCACCGCTC
* * * *
11580081 AGAGTTGGTGAGACGCCATGGAGGGAATTTATGAGACGCCAGAGTTA
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGAGTTA
* * * * **
11580128 AGAGTTAGTGACACGCCATGGTGAGAATCTGTGACACGACAGCTTTCA
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGAGTT-A
* * *
11580176 A-AGTTGGTGAGACGCCATGAAGGGAATCTGTGACACGCTAGA-TTA
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGAGTTA
* * * * *
11580221 AGAGTTGGTGACACGACGTGGAGGGAATCTATGACACACCA-ACGTTT
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGA-GTTA
* * * * * * *
11580268 AGAGTTAGTGAGATGCCATGGATGGAATTTGTGAGACGCTAGAGTTA
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGAGTTA
* * *
11580315 AGAGTTGGTGACACACCATGGAGGGAATCTGTGACACGCCAGCGTTC
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGAGTTA
* * * *
11580362 AGAGTTGGTGAGACGCCAAGGAGGGAATCTGTGACACGCTAGAGTTC
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGAGTTA
* *
11580409 AGAGTTGGTGACACGCCATGGAGGGAAGT-TGTGACATGCCAGAGTTC
1 AGAGTTGGTGACACGCCATGGAGGGAA-TCTGTGACACGCCAGAGTTA
*
11580456 ATAGTTGGTGACACGCCATGG
1 AGAGTTGGTGACACGCCATGG
11580477 TCATGTTTAG
Statistics
Matches: 285, Mismatches: 58, Indels: 12
0.80 0.16 0.03
Matches are distributed among these distances:
45 3 0.01
46 34 0.12
47 244 0.86
48 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (47 bp):
AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGAGTTA
Found at i:11580200 original size:94 final size:94
Alignment explanation
Indices: 11580056--11580476 Score: 506
Period size: 94 Copynumber: 4.5 Consensus size: 94
11580046 ACGTCATGTT
* * * * * * * *
11580056 GGGAATGTGTGACACGGCACCGCTCAGAGTTGGTGAGACGCCATGGAGGGAATTTATGAGACGCC
1 GGGAATCTGTGACACGACAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCT
* *
11580121 AGAGTTAAGAGTTAGTGACACGCCATGGT
66 AGAGTTAAGAGTTGGTGACACGCCATGGA
* * * *
11580150 GAGAATCTGTGACACGACAGCTTTCAAAGTTGGTGAGACGCCATGAAGGGAATCTGTGACACGCT
1 GGGAATCTGTGACACGACAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCT
* *
11580215 AGA-TTAAGAGTTGGTGACACGACGTGGA
66 AGAGTTAAGAGTTGGTGACACGCCATGGA
* * * * * * * *
11580243 GGGAATCTATGACAC-ACCAACGTTTAGAGTTAGTGAGATGCCATGGATGGAATTTGTGAGACGC
1 GGGAATCTGTGACACGA-CAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGC
*
11580307 TAGAGTTAAGAGTTGGTGACACACCATGGA
65 TAGAGTTAAGAGTTGGTGACACGCCATGGA
* *
11580337 GGGAATCTGTGACACGCCAGCGTTCAGAGTTGGTGAGACGCCAAGGAGGGAATCTGTGACACGCT
1 GGGAATCTGTGACACGACAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCT
*
11580402 AGAGTTCAGAGTTGGTGACACGCCATGGA
66 AGAGTTAAGAGTTGGTGACACGCCATGGA
* * * * *
11580431 GGGAAGT-TGTGACATGCCAGAGTTCATAGTTGGTGACACGCCATGG
1 GGGAA-TCTGTGACACGACAGCGTTCAGAGTTGGTGAGACGCCATGG
11580477 TCATGTTTAG
Statistics
Matches: 275, Mismatches: 48, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
92 1 0.00
93 75 0.27
94 198 0.72
95 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.22
Consensus pattern (94 bp):
GGGAATCTGTGACACGACAGCGTTCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCT
AGAGTTAAGAGTTGGTGACACGCCATGGA
Found at i:11580473 original size:24 final size:23
Alignment explanation
Indices: 11580345--11580473 Score: 79
Period size: 24 Copynumber: 5.5 Consensus size: 23
11580335 GAGGGAATCT
*
11580345 GTGACACGCCAGCGTTCAGAGTTG
1 GTGACACGCCAGAGTTCA-AGTTG
* **
11580369 GTGAGACGCCAAGGAG-GGAA-TCT-
1 GTGACACGCC-A-GAGTTCAAGT-TG
*
11580392 GTGACACGCTAGAGTTCAGAGTTG
1 GTGACACGCCAGAGTTCA-AGTTG
**
11580416 GTGACACGCCATGGAG-GGAAGTT-
1 GTGACACGCCA--GAGTTCAAGTTG
*
11580439 GTGACATGCCAGAGTTCATAGTTG
1 GTGACACGCCAGAGTTCA-AGTTG
11580463 GTGACACGCCA
1 GTGACACGCCA
11580474 TGGTCATGTT
Statistics
Matches: 78, Mismatches: 15, Indels: 24
0.67 0.13 0.21
Matches are distributed among these distances:
21 6 0.08
22 3 0.04
23 25 0.32
24 36 0.46
25 3 0.04
26 5 0.06
ACGTcount: A:0.26, C:0.20, G:0.34, T:0.20
Consensus pattern (23 bp):
GTGACACGCCAGAGTTCAAGTTG
Found at i:11580575 original size:53 final size:52
Alignment explanation
Indices: 11580466--11580575 Score: 132
Period size: 53 Copynumber: 2.1 Consensus size: 52
11580456 ATAGTTGGTG
* * * *
11580466 ACACGCCATGGTCATGTTTAGAGTGTGTGACACGACATTACTTGAAAAGTTG
1 ACACGCCATAGTCATGTTTAGAGTGTGTGACACGACAGTACTTGAAAAGCTA
* **
11580518 ACACGCCATAGTCATGGTTTAGAGTGTGTGACAC-AGCAGTGCTTGAGTAGCTA
1 ACACGCCATAGTCAT-GTTTAGAGTGTGTGACACGA-CAGTACTTGAAAAGCTA
11580571 ACACG
1 ACACG
11580576 TCATGGTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
52 15 0.31
53 34 0.69
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (52 bp):
ACACGCCATAGTCATGTTTAGAGTGTGTGACACGACAGTACTTGAAAAGCTA
Found at i:11581098 original size:31 final size:31
Alignment explanation
Indices: 11581054--11581191 Score: 150
Period size: 31 Copynumber: 4.5 Consensus size: 31
11581044 GTTATTGACA
*
11581054 TGTGACAGCATTTTACTTGATATGCATAGTG
1 TGTGACAGCATTTTACTTGATATGCATAGCG
** *
11581085 TGTGACATAATTTTACTTGATATGCATGGCG
1 TGTGACAGCATTTTACTTGATATGCATAGCG
* * *
11581116 TATGACAGCATTTTACTTGATATGCATGGCA
1 TGTGACAGCATTTTACTTGATATGCATAGCG
* * * * *
11581147 TGTCATAGAATTTTACTTGTTATGCATGGCG
1 TGTGACAGCATTTTACTTGATATGCATAGCG
* *
11581178 TGTCACAACATTTT
1 TGTGACAGCATTTT
11581192 GATTACAATG
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 90 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.39
Consensus pattern (31 bp):
TGTGACAGCATTTTACTTGATATGCATAGCG
Found at i:11581190 original size:62 final size:61
Alignment explanation
Indices: 11581062--11581252 Score: 192
Period size: 62 Copynumber: 3.1 Consensus size: 61
11581052 CATGTGACAG
* * * * * *
11581062 CATTTTACTTGATATGCATAGTGTGTGACATAATTTTACTTGATATGCATGGCGTATGACAG
1 CATTTTACTTGATATGCATGGCGTGTCACA-AATTTTACTTGATATGCATGGCGTGTCACAA
* * *
11581124 CATTTTACTTGATATGCATGGCATGTCATAGAATTTTACTTGTTATGCATGGCGTGTCACAA
1 CATTTTACTTGATATGCATGGCGTGTCACA-AATTTTACTTGATATGCATGGCGTGTCACAA
* *
11581186 CATTTTGA-TT-ACAATGCATGGCGTGTCACAACATTTTGA-TTGCA-ATGCATGGCATGTCACA
1 CATTTT-ACTTGA-TATGCATGGCGTGTCACAA-ATTTT-ACTTG-ATATGCATGGCGTGTCACA
11581247 A
61 A
11581248 CATTT
1 CATTT
11581253 ATTCCTTATT
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
61 2 0.02
62 105 0.96
63 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (61 bp):
CATTTTACTTGATATGCATGGCGTGTCACAAATTTTACTTGATATGCATGGCGTGTCACAA
Found at i:11581203 original size:31 final size:31
Alignment explanation
Indices: 11581168--11581252 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
11581158 TTTACTTGTT
11581168 ATGCATGGCGTGTCACAACATTTTGATTACA
1 ATGCATGGCGTGTCACAACATTTTGATTACA
*
11581199 ATGCATGGCGTGTCACAACATTTTGATTGCA
1 ATGCATGGCGTGTCACAACATTTTGATTACA
*
11581230 ATGCATGGCATGTCACAACATTT
1 ATGCATGGCGTGTCACAACATTT
11581253 ATTCCTTATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (31 bp):
ATGCATGGCGTGTCACAACATTTTGATTACA
Found at i:11583075 original size:156 final size:154
Alignment explanation
Indices: 11582885--11583381 Score: 645
Period size: 156 Copynumber: 3.2 Consensus size: 154
11582875 GTTTATCGAG
* * * * *
11582885 TAACACAGTAATTTCTGTAATTGCAGTTTACGAAAGCGACAACAGGTCCTCAAGTACCGATCGGT
1 TAACACAGTTATATATGTAATTGCAGTTT-CGAAAGCGACGACAGGTCCTCAAGCACCGATCGGT
* * *
11582950 CCAGCTCAACCGCAGACAGCTAATGAGCCGACGGTAAGGATATTAAAGTTGTAACGGTTAATGTT
65 CCAGCTCAACCGCAGACTGCTAACGAGCC-ACGGTTAGGATATTAAAGTTGTAACGGTTAATGTT
*
11583015 CAACAATTTCATACATGATTATTGAA
129 CAACAATTCCATACATGATTATTGAA
* * *
11583041 TAACACAGTTATATATGTAATTGCAGTTTGCGAAAGTGACGACAGATCCTCAAGCACCGATCGAT
1 TAACACAGTTATATATGTAATTGCAGTTT-CGAAAGCGACGACAGGTCCTCAAGCACCGATCGGT
* * *
11583106 CCAGCTCTATCGCAGACTGCTAACGAGCCACCGGTTAGGATATTAAAGTTGTAACAGTTAATGTT
65 CCAGCTCAACCGCAGACTGCTAACGAGCCA-CGGTTAGGATATTAAAGTTGTAACGGTTAATGTT
* *
11583171 CAACAATTCCACACATGATTAATGAA
129 CAACAATTCCATACATGATTATTGAA
** * * *
11583197 TAACACAGTTATATATGTAATTGCAGTTTATAGAAGCGACGATAGGTCCTCAAGCATCGATC-GA
1 TAACACAGTTATATATGTAATTGCAGTTTCGA-AAGCGACGACAGGTCCTCAAGCACCGATCGGT
* * * *
11583261 CCTGGCTCCACCGCAGACTGTTAACGAGCCTCCGGTTAGGATATTAAAGTTTGTAACGGTTAATG
65 CC-AGCTCAACCGCAGACTGCTAACGAGCC-ACGGTTAGGATATTAAAG-TTGTAACGGTTAATG
*
11583326 TTCAACAATTCCATATATGATTATTGAA
127 TTCAACAATTCCATACATGATTATTGAA
* * *
11583354 TAACACAATTATATATGTTATTGTAGTT
1 TAACACAGTTATATATGTAATTGCAGTT
11583382 AACCCAGTCG
Statistics
Matches: 298, Mismatches: 38, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
155 4 0.01
156 230 0.77
157 64 0.21
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (154 bp):
TAACACAGTTATATATGTAATTGCAGTTTCGAAAGCGACGACAGGTCCTCAAGCACCGATCGGTC
CAGCTCAACCGCAGACTGCTAACGAGCCACGGTTAGGATATTAAAGTTGTAACGGTTAATGTTCA
ACAATTCCATACATGATTATTGAA
Found at i:11583774 original size:31 final size:31
Alignment explanation
Indices: 11583736--11584034 Score: 252
Period size: 31 Copynumber: 9.6 Consensus size: 31
11583726 GTCTGCCTTA
11583736 GCGTGTCACAACATTTTACTTGTTATTCATG
1 GCGTGTCACAACATTTTACTTGTTATTCATG
* * * * *
11583767 GCGTGTCACAACGTTTGATTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGTTATTCATG
* * *
11583798 GCGTGTCATAACATTTTGCTTGTTA-TCCTCG
1 GCGTGTCACAACATTTTACTTGTTATTCAT-G
* * * *
11583829 GTGTGTCACCA-AGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTA-CTTGTTATTCATG
*
11583860 GCATGTCACAACATTTTACTTGTT-TTGCATG
1 GCGTGTCACAACATTTTACTTGTTATT-CATG
* *
11583891 GCGTGTCACAACATTTTGCTTGTTA-TCTTTG
1 GCGTGTCACAACATTTTACTTGTTATTC-ATG
* * *
11583922 GCGTGTCACCA-AGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTA-CTTGTTATTCATG
* ** *
11583953 GTGTGTCATGACATTTTACTTGTT-TTACATA
1 GCGTGTCACAACATTTTACTTGTTATT-CATG
* * *
11583984 GCGTGTGACAACATTTTACTTGGTATGCACT-
1 GCGTGTCACAACATTTTACTTGTTATTCA-TG
*
11584015 GTGTGTCACAACATTTTACT
1 GCGTGTCACAACATTTTACT
11584035 GTTTATGGTT
Statistics
Matches: 208, Mismatches: 47, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
30 13 0.06
31 180 0.87
32 15 0.07
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (31 bp):
GCGTGTCACAACATTTTACTTGTTATTCATG
Found at i:11583897 original size:93 final size:93
Alignment explanation
Indices: 11583750--11584023 Score: 343
Period size: 93 Copynumber: 3.0 Consensus size: 93
11583740 GTCACAACAT
* * * * * * *
11583750 TTTA-CTTGTTATTCATGGCGTGTCACAACGTTTGATTTGATATGCATGGCGTGTCATAACATTT
1 TTTATCTTGTTATGCATGGCGTGTCACAACATTTTACTTGTTTTGCATGGCGTGTCACAACATTT
11583814 TGCTTGTTATCCTCGGTGTGTCACCAAG
66 TGCTTGTTATCCTCGGTGTGTCACCAAG
*
11583842 TTTATCTTGTTATGCATGGCATGTCACAACATTTTACTTGTTTTGCATGGCGTGTCACAACATTT
1 TTTATCTTGTTATGCATGGCGTGTCACAACATTTTACTTGTTTTGCATGGCGTGTCACAACATTT
* * *
11583907 TGCTTGTTATCTTTGGCGTGTCACCAAG
66 TGCTTGTTATCCTCGGTGTGTCACCAAG
* ** * * *
11583935 TTTATCTTGTTATGCATGGTGTGTCATGACATTTTACTTGTTTTACATAGCGTGTGACAACATTT
1 TTTATCTTGTTATGCATGGCGTGTCACAACATTTTACTTGTTTTGCATGGCGTGTCACAACATTT
* * * * *
11584000 TACTTGGTATGCACTGTGTGTCAC
66 TGCTTGTTATCCTCGGTGTGTCAC
11584024 AACATTTTAC
Statistics
Matches: 155, Mismatches: 26, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
92 4 0.03
93 151 0.97
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (93 bp):
TTTATCTTGTTATGCATGGCGTGTCACAACATTTTACTTGTTTTGCATGGCGTGTCACAACATTT
TGCTTGTTATCCTCGGTGTGTCACCAAG
Found at i:11584032 original size:62 final size:62
Alignment explanation
Indices: 11583736--11584034 Score: 293
Period size: 62 Copynumber: 4.8 Consensus size: 62
11583726 GTCTGCCTTA
* * * * * *
11583736 GCGTGTCACAACATTTTACTTGTTATTCATGGCGTGTCACAACGTTTGATTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATGGTGTGTCACAACATTTTACTTGTTATGCATG
* * * * *
11583798 GCGTGTCATAACATTTTGCTTGTTAT-CCTCGGTGTGTCACCA-AGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCAT-GGTGTGTCACAACATTTTA-CTTGTTATGCATG
* * * * *
11583860 GCATGTCACAACATTTTACTTGTTTTGCATGGCGTGTCACAACATTTTGCTTGTTAT-CTTTG
1 GCGTGTCACAACATTTTACTTGTTATGCATGGTGTGTCACAACATTTTACTTGTTATGC-ATG
* * ** * * *
11583922 GCGTGTCACCA-AGTTTATCTTGTTATGCATGGTGTGTCATGACATTTTACTTGTTTTACATA
1 GCGTGTCACAACATTTTA-CTTGTTATGCATGGTGTGTCACAACATTTTACTTGTTATGCATG
* *
11583984 GCGTGTGACAACATTTTACTTGGTATGCACT-GTGTGTCACAACATTTTACT
1 GCGTGTCACAACATTTTACTTGTTATGCA-TGGTGTGTCACAACATTTTACT
11584035 GTTTATGGTT
Statistics
Matches: 191, Mismatches: 37, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
61 11 0.06
62 167 0.87
63 13 0.07
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (62 bp):
GCGTGTCACAACATTTTACTTGTTATGCATGGTGTGTCACAACATTTTACTTGTTATGCATG
Found at i:11585509 original size:16 final size:15
Alignment explanation
Indices: 11585484--11585565 Score: 62
Period size: 16 Copynumber: 5.3 Consensus size: 15
11585474 CCCTTGTCTG
*
11585484 TACAATTTTTTTAGTA
1 TACAAATTTTTT-GTA
*
11585500 TACAAATTTTTTTTTA
1 TACAAA-TTTTTTGTA
*
11585516 TAC-AATTCATTT-TA
1 TACAAATT-TTTTGTA
*
11585530 TACACATTTTTTGTA
1 TACAAATTTTTTGTA
11585545 TACACAATTTATTT-TA
1 TACA-AATTT-TTTGTA
11585561 TACAA
1 TACAA
11585566 TTCATTGTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
14 10 0.19
15 15 0.28
16 20 0.37
17 9 0.17
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.52
Consensus pattern (15 bp):
TACAAATTTTTTGTA
Found at i:11585528 original size:14 final size:14
Alignment explanation
Indices: 11585511--11585571 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 14
11585501 ACAAATTTTT
11585511 TTTTATACAATTCA
1 TTTTATACAATTCA
*
11585525 TTTTATACACATT-T
1 TTTTATACA-ATTCA
*
11585539 TTTGTATACACAATTTA
1 TTT-TAT--ACAATTCA
11585556 TTTTATACAATTCA
1 TTTTATACAATTCA
11585570 TT
1 TT
11585572 GTAAACAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 21 0.54
15 6 0.15
16 6 0.15
17 6 0.15
ACGTcount: A:0.33, C:0.13, G:0.02, T:0.52
Consensus pattern (14 bp):
TTTTATACAATTCA
Found at i:11585552 original size:31 final size:30
Alignment explanation
Indices: 11585498--11585565 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
11585488 ATTTTTTTAG
* *
11585498 TATACAAATTTTTTTTTATACAATTCATTT
1 TATACAAATTTTTTTATACACAATTCATTT
* *
11585528 TATACACATTTTTTGTATACACAATTTATTT
1 TATACAAATTTTTT-TATACACAATTCATTT
11585559 TATACAA
1 TATACAA
11585566 TTCATTGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 13 0.41
31 19 0.59
ACGTcount: A:0.35, C:0.12, G:0.01, T:0.51
Consensus pattern (30 bp):
TATACAAATTTTTTTATACACAATTCATTT
Found at i:11586703 original size:31 final size:31
Alignment explanation
Indices: 11586668--11586990 Score: 298
Period size: 31 Copynumber: 10.4 Consensus size: 31
11586658 ACACCACAAC
* *
11586668 TTGTTATGCATGGTGAGTCAGAACAATTTAA
1 TTGTTATGCATGGTGTGTCACAACAATTTAA
** *
11586699 TTGTTATGCATGGCATGTCACAAC-GTTTAA
1 TTGTTATGCATGGTGTGTCACAACAATTTAA
* ** *
11586729 CTTGTTATGCATGGCGTGTCAGTACAATTTAC
1 -TTGTTATGCATGGTGTGTCACAACAATTTAA
* *
11586761 TTGTTATGCATGGTGGGTCAAAACAATTTAA
1 TTGTTATGCATGGTGTGTCACAACAATTTAA
*
11586792 TTGTTATGCATGGTGTGTCACAAC-GTTTAA
1 TTGTTATGCATGGTGTGTCACAACAATTTAA
* *
11586822 CTTGTTATGCATGGTGGGTCAGAACAATTTAA
1 -TTGTTATGCATGGTGTGTCACAACAATTTAA
* *
11586854 TTGTTATGCATGGCGTGTCACAACGA-TTAA
1 TTGTTATGCATGGTGTGTCACAACAATTTAA
* * **
11586884 CTTGTTATGCATGGCGTGTCATAA-AATTTTTC
1 -TTGTTATGCATGGTGTGTCACAACAA-TTTAA
* * *
11586916 TTGTTATGCATGGCGTGTCACAA-TATATTAC
1 TTGTTATGCATGGTGTGTCACAACAAT-TTAA
* * ** *
11586947 TTGATATGCACGACGTGTCACAA-TATTTAA
1 TTGTTATGCATGGTGTGTCACAACAATTTAA
11586977 CTTGTTATGCATGG
1 -TTGTTATGCATGG
11586991 CGTTTCTCAC
Statistics
Matches: 244, Mismatches: 39, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
30 19 0.08
31 214 0.88
32 11 0.05
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (31 bp):
TTGTTATGCATGGTGTGTCACAACAATTTAA
Found at i:11586765 original size:62 final size:62
Alignment explanation
Indices: 11586665--11586993 Score: 351
Period size: 62 Copynumber: 5.3 Consensus size: 62
11586655 TACACACCAC
* * * * * *
11586665 AACTTGTTATGCATGGTGAGTCAGAACAATTTAATTGTTATGCATGGCATGTCACAACGTTT
1 AACTTGTTATGCATGGCGTGTCACAACAATTTACTTGTTATGCATGGCGTGTCACAACATTT
** * * *
11586727 AACTTGTTATGCATGGCGTGTCAGTACAATTTACTTGTTATGCATGGTGGGTCAAAACAATTT
1 AACTTGTTATGCATGGCGTGTCACAACAATTTACTTGTTATGCATGGCGTGTCACAAC-ATTT
* * * * *
11586790 AA-TTGTTATGCATGGTGTGTCACAAC-GTTTAACTTGTTATGCATGGTGGGTCAGAACAATTT
1 AACTTGTTATGCATGGCGTGTCACAACAATTT-ACTTGTTATGCATGGCGTGTCACAAC-ATTT
* * * *
11586852 AA-TTGTTATGCATGGCGTGTCACAACGATTAACTTGTTATGCATGGCGTGTCATAAAATTT
1 AACTTGTTATGCATGGCGTGTCACAACAATTTACTTGTTATGCATGGCGTGTCACAACATTT
** * * * * *
11586913 TTCTTGTTATGCATGGCGTGTCACAA-TATATTACTTGATATGCACGACGTGTCACAATATTT
1 AACTTGTTATGCATGGCGTGTCACAACAAT-TTACTTGTTATGCATGGCGTGTCACAACATTT
11586975 AACTTGTTATGCATGGCGT
1 AACTTGTTATGCATGGCGT
11586994 TTCTCACATT
Statistics
Matches: 230, Mismatches: 32, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
61 9 0.04
62 214 0.93
63 7 0.03
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (62 bp):
AACTTGTTATGCATGGCGTGTCACAACAATTTACTTGTTATGCATGGCGTGTCACAACATTT
Done.