Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold192
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: 2196177
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 12544 characters in sequence are not A, C, G, or T
File 10 of 14
Found at i:1435104 original size:41 final size:41
Alignment explanation
Indices: 1435005--1435092 Score: 158
Period size: 41 Copynumber: 2.1 Consensus size: 41
1434995 GTGTTTAGTG
*
1435005 TAAAAACGCCACTAAATTTTTCATATTAGTGGCGTTTATAT
1 TAAAAACGCCACTAAATTTTTCAAATTAGTGGCGTTTATAT
*
1435046 TAAAAACGCCACTAAATTTTTTAAATTAGTGGCGTTTATAT
1 TAAAAACGCCACTAAATTTTTCAAATTAGTGGCGTTTATAT
1435087 TAAAAA
1 TAAAAA
1435093 TGTCGCTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (41 bp):
TAAAAACGCCACTAAATTTTTCAAATTAGTGGCGTTTATAT
Found at i:1435491 original size:17 final size:17
Alignment explanation
Indices: 1435471--1435511 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
1435461 TAAATTTTAC
1435471 TTTTTCT-TCAATTTCTT
1 TTTTTCTGTCAA-TTCTT
1435488 TTTTTCTGTCAATTCTT
1 TTTTTCTGTCAATTCTT
1435505 TTGTTTC
1 TT-TTTC
1435512 ATTGATTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.10, C:0.17, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTTTCTGTCAATTCTT
Found at i:1436294 original size:2 final size:2
Alignment explanation
Indices: 1436287--1436313 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1436277 AATGCAATCT
1436287 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
1436314 TATCTCACTT
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:1442345 original size:20 final size:20
Alignment explanation
Indices: 1442320--1442414 Score: 122
Period size: 20 Copynumber: 4.8 Consensus size: 20
1442310 TTTTCACAAT
1442320 TTGTATCGATACATTGTT-CA
1 TTGTATCGATACATT-TTACA
*
1442340 TTGTATCGATACATTTTGCA
1 TTGTATCGATACATTTTACA
*
1442360 TTGTATCGATACATTGCT-CA
1 TTGTATCGATACATT-TTACA
*
1442380 TTGTATCGATATATTTTACA
1 TTGTATCGATACATTTTACA
*
1442400 ATGTATCGATACATT
1 TTGTATCGATACATT
1442415 CAGGCATTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.04
20 63 0.94
21 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATTTTACA
Found at i:1442367 original size:40 final size:40
Alignment explanation
Indices: 1442320--1442414 Score: 154
Period size: 40 Copynumber: 2.4 Consensus size: 40
1442310 TTTTCACAAT
* *
1442320 TTGTATCGATACATTGTTCATTGTATCGATACATTTTGCA
1 TTGTATCGATACATTGCTCATTGTATCGATACATTTTACA
*
1442360 TTGTATCGATACATTGCTCATTGTATCGATATATTTTACA
1 TTGTATCGATACATTGCTCATTGTATCGATACATTTTACA
*
1442400 ATGTATCGATACATT
1 TTGTATCGATACATT
1442415 CAGGCATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (40 bp):
TTGTATCGATACATTGCTCATTGTATCGATACATTTTACA
Found at i:1444795 original size:79 final size:78
Alignment explanation
Indices: 1444705--1445020 Score: 319
Period size: 79 Copynumber: 4.0 Consensus size: 78
1444695 TATATTTTTC
* *
1444705 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACCCCAACCCCGGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTC-AAAAT
*
1444770 ATTAATTTCTCATA
65 ATCAATTTCTCATA
* ** * * * *
1444784 ATCGGAGATACTCCAACCTTGTTATTTCCGAGGGGATACTTCAACCTCGGTTTTATTTCGAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTC-AAAAT
* *
1444849 ATCAATTTTTTATA
65 ATCAATTTCTCATA
* * * * * * *
1444863 GTCGGGGATACTCCAACCCCGTTATTTTCGAGTGGATACTCTAATCCTGATTTTATTTCCAAATC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCAAAAT-
* * * *
1444928 ACCGATTTTTCACA
65 ATCAATTTCTCATA
* * * *
1444942 ACCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATAATCCAACCCC-GTTATTATCTCCAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT-TTAT-TTCAAAA
*
1445006 TATTAAATTTCTCAT
64 TA-TCAATTTCTCAT
1445021 CGAGAAATGT
Statistics
Matches: 186, Mismatches: 47, Indels: 7
0.77 0.20 0.03
Matches are distributed among these distances:
78 5 0.03
79 168 0.90
80 13 0.07
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.34
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCAAAATA
TCAATTTCTCATA
Found at i:1449312 original size:17 final size:16
Alignment explanation
Indices: 1449285--1449354 Score: 104
Period size: 16 Copynumber: 4.2 Consensus size: 16
1449275 TTTTCCAAAC
1449285 AAAAAACAAAAAAATA
1 AAAAAACAAAAAAATA
1449301 AAAAAACAAAAAAATA
1 AAAAAACAAAAAAATA
*
1449317 AAAAAACAAAAAAAAA
1 AAAAAACAAAAAAATA
*
1449333 CAAAAAACAAAACAAAGA
1 -AAAAAACAAAA-AAATA
1449351 AAAA
1 AAAA
1449355 GAGAAAAAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
16 31 0.62
17 15 0.30
18 4 0.08
ACGTcount: A:0.87, C:0.09, G:0.01, T:0.03
Consensus pattern (16 bp):
AAAAAACAAAAAAATA
Found at i:1449329 original size:33 final size:34
Alignment explanation
Indices: 1449285--1449363 Score: 108
Period size: 32 Copynumber: 2.4 Consensus size: 34
1449275 TTTTCCAAAC
* *
1449285 AAAAAACAAAAAAATA-AAAAAACAAAA-AAATA
1 AAAAAACAAAAAAAAACAAAAAACAAAACAAAGA
1449317 AAAAAACAAAAAAAAACAAAAAACAAAACAAAGA
1 AAAAAACAAAAAAAAACAAAAAACAAAACAAAGA
* *
1449351 AAAAGAGAAAAAA
1 AAAAAACAAAAAA
1449364 GAAGAATCTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 15 0.37
33 11 0.27
34 15 0.37
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.03
Consensus pattern (34 bp):
AAAAAACAAAAAAAAACAAAAAACAAAACAAAGA
Found at i:1449354 original size:10 final size:10
Alignment explanation
Indices: 1449280--1449354 Score: 71
Period size: 11 Copynumber: 6.9 Consensus size: 10
1449270 CGTTCTTTTC
1449280 CAAACAAAAAA
1 CAAA-AAAAAA
1449291 CAAAAAAATAA
1 CAAAAAAA-AA
1449302 -AAAAACAAAA
1 CAAAAA-AAAA
*
1449312 AAATAAAAAAA
1 CAA-AAAAAAA
1449323 CAAAAAAAAA
1 CAAAAAAAAA
1449333 CAAAAAACAAAA
1 C-AAAAA-AAAA
1449345 CAAAGAAAAA
1 CAAA-AAAAA
1449355 GAGAAAAAAG
Statistics
Matches: 56, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
10 19 0.34
11 27 0.48
12 10 0.18
ACGTcount: A:0.85, C:0.11, G:0.01, T:0.03
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:1449361 original size:22 final size:22
Alignment explanation
Indices: 1449280--1449363 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 22
1449270 CGTTCTTTTC
1449280 CAAACAAAAAACAAAAAA-ATAAA
1 CAAA-AAAAAACAAAAAACA-AAA
*
1449303 -AAAACAAAAA-AATAAA-AAAA
1 CAAAA-AAAAACAAAAAACAAAA
1449323 CAAAAAAAAACAAAAAACAAAA
1 CAAAAAAAAACAAAAAACAAAA
*
1449345 CAAAGAAAAAGAGAAAAAA
1 CAAA-AAAAA-ACAAAAAA
1449364 GAAGAATCTG
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
20 8 0.15
21 16 0.31
22 16 0.31
23 5 0.10
24 7 0.13
ACGTcount: A:0.85, C:0.10, G:0.04, T:0.02
Consensus pattern (22 bp):
CAAAAAAAAACAAAAAACAAAA
Found at i:1449363 original size:1 final size:1
Alignment explanation
Indices: 1449285--1449354 Score: 59
Period size: 1 Copynumber: 70.0 Consensus size: 1
1449275 TTTTCCAAAC
* * * * * * * * *
1449285 AAAAAACAAAAAAATAAAAAAACAAAAAAATAAAAAAACAAAAAAAAACAAAAAACAAAACAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1449350 AAAAA
1 AAAAA
1449355 GAGAAAAAAG
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.87, C:0.09, G:0.01, T:0.03
Consensus pattern (1 bp):
A
Found at i:1450417 original size:26 final size:26
Alignment explanation
Indices: 1450385--1450472 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
1450375 GTTGGTGGCA
1450385 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
1450411 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
1450440 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
1450466 CCTTTCA
1 CCTTTCA
1450473 AAGCCCACAC
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.38
27 6 0.13
28 6 0.13
29 10 0.22
30 3 0.07
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:1450440 original size:55 final size:55
Alignment explanation
Indices: 1450356--1451198 Score: 1087
Period size: 55 Copynumber: 15.0 Consensus size: 55
1450346 GACGCCTTTT
** * *
1450356 CCTTTCAAAGCCCACATTAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATG
* *
1450411 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATG
* * *
1450466 CCTTTCAAAGCCCACACAAATTGGTGGCATTTTTCAGTCCTCAAAGAGCAAGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
* *
1450521 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
*
1450576 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
* * *
1450631 CTTTTTCTTTTCAAAGCCCATATAAGTTGGTGGCATTTTCCAGTTCTCAAAGAGCAGGATG
1 C-----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
** * * * * *
1450692 CCTTTTCTTAGCCCACACAAGTTGGTGGCGTTTTCTAGTCTTCAAAGAACAGGACG
1 CC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
* * *
1450748 TCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGAAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
* * * *
1450803 CCTTTCAAAGCCCACACAAATTGGTGGCGTTTTTCAGTCCTCAAAGAGCAAGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
* *
1450858 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
*
1450913 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
* *
1450968 CTTTTTCTTTTCAAAGCCCATATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
1 C-----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
** * * * *
1451029 CCTTTTCTTAGCCCACACAAGTTGGTGGCATTTTCTAGTCTTCAAAGAACAGGACG
1 CC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
1451085 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
* * *
1451140 CTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGA
1 ------CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
1451199 CGCTCTCTCC
Statistics
Matches: 705, Mismatches: 64, Indels: 32
0.88 0.08 0.04
Matches are distributed among these distances:
54 3 0.00
55 454 0.64
56 95 0.13
60 2 0.00
61 151 0.21
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (55 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
Found at i:1450843 original size:282 final size:279
Alignment explanation
Indices: 1450322--1451195 Score: 1170
Period size: 282 Copynumber: 3.1 Consensus size: 279
1450312 TTTCTCCTTT
* * * *
1450322 CATTTTTCAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTCAAAGCCCACATTAGTTGGTGGCACC
1 CATTTTCCAGTCCTCAAAGAGCAAGATG-CTTTT-CTTTCAAAGCCCACATAAGTTGGTGGCA-T
* ** *
1450387 TTT-CAGTCCTCAAAGAGCAGGACGCC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
63 TTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCTTAGCCCACACAAGTTGGTGGCA-TTTTCAGTC
* *
1450450 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAATTGGTGGCATTTTTCAGTCCTCAAAGAGC
127 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG-
* *
1450515 AA-GATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCCT
191 AAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCCT
1450579 TTCAAAGCCCACACAAGTTGGTGG
256 TTCAAAGCCCACACAAGTTGGTGG
*
1450603 CATTTTCCAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCATATAAGTTGGTGGCATT
1 CATTTTCCAGTCCTCAAAGAGCAAGATGC-TTTTC-TTTCAAAGCCCACATAAGTTGGTGGCATT
* * *
1450668 TTCCAGTTCTCAAAGAGCAGGATGCCTTTTCTTAGCCCACACAAGTTGGTGGCGTTTTCTAGTCT
64 TTCCAGTCCTCAAAGAGCAGGATGCCTTTTCTTAGCCCACACAAGTTGGTGGCATTTTC-AGTCC
* *
1450733 TCAAAGAACAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGAA
128 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGAA
* * *
1450798 GGACGCCTTTCAAAGCCCACACAAATTGGTGGCGTTTTTCAGTCCTCAAAGAGCAAGATGCCTTT
193 GGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCCTTT
*
1450863 TAAAGCCCACACAAGTTGGTGG
258 CAAAGCCCACACAAGTTGGTGG
*
1450885 CATTTTCCAGTCCTCAAAGAGCAAGATGC----CTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CATTTTCCAGTCCTCAAAGAGCAAGATGCTTTTCTTTCAAAGCCCACATAAGTTGGTGGCATTTT
* * * *
1450946 CCAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCATATAAGTTGGTGGCATTTTCCAG
66 CCAGTCCTCAAAGAGCAGGATGCCTTTTC--TT---AGCCCACACAAGTTGGTGGCATTTT-CAG
* ** * *
1451011 TCCTCAAAGAGCAGGATGCCTTTTCTTAGCCCACACAAGTTGGTGGCATTTTCTAGTCTTCAAAG
125 TCCTCAAAGAGCAGGACGCC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAG
*
1451076 A-ACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
189 AGA-AGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATG
1451140 CTTTCTCCTTTCAAAGCCCACACAAGTTGGTGG
253 ------CCTTTCAAAGCCCACACAAGTTGGTGG
* * *
1451173 CACTTCCCAATCCTCAAAGAGCA
1 CATTTTCCAGTCCTCAAAGAGCA
1451196 GGACGCTCTC
Statistics
Matches: 527, Mismatches: 46, Indels: 33
0.87 0.08 0.05
Matches are distributed among these distances:
276 55 0.10
277 1 0.00
278 2 0.00
280 5 0.01
281 123 0.23
282 295 0.56
288 46 0.09
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (279 bp):
CATTTTCCAGTCCTCAAAGAGCAAGATGCTTTTCTTTCAAAGCCCACATAAGTTGGTGGCATTTT
CCAGTCCTCAAAGAGCAGGATGCCTTTTCTTAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCA
AAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGAAGGA
CGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCCTTTCAA
AGCCCACACAAGTTGGTGG
Found at i:1450979 original size:337 final size:340
Alignment explanation
Indices: 1450322--1451519 Score: 1551
Period size: 337 Copynumber: 3.6 Consensus size: 340
1450312 TTTCTCCTTT
* * * **
1450322 CATTTTTCAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTCAAAGCCCACATTAGTTGGTGGCACC
1 CATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTT--AAGCCCACACAAGTTGGTGGCA-C
* *
1450387 TTTC-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTC
63 TTTCTAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTC
1450450 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAATTGGTGGCATTTTTCAGTCCTCAAAGAGC
127 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAATTGGTGGCATTTTTCAGTCCTCAAAGAGC
1450515 AAGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCCTT
192 AAGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCCTT
1450580 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAA
257 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAA
1450645 AGCCCATATAAGTTGGTGG
322 AGCCCATATAAGTTGGTGG
* **
1450664 CATTTTCCAGTTCTCAAAGAGCAGGATGCCTTTT-C-TT-AGCCCACACAAGTTGGTGGCGTTTT
1 CATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTAAGCCCACACAAGTTGGTGGCACTTT
* *
1450726 CTAGTCTTCAAAGAACAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
66 CTAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
* *
1450791 AAGAGAAGGACGCCTTTCAAAGCCCACACAAATTGGTGGCGTTTTTCAGTCCTCAAAGAGCAAGA
131 AAGAGCAGGACGCCTTTCAAAGCCCACACAAATTGGTGGCATTTTTCAGTCCTCAAAGAGCAAGA
1450856 TGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCCTTTCAA
196 TGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCCTTTCAA
1450921 AGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCC
261 AGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCC
1450986 CATATAAGTTGGTGG
326 CATATAAGTTGGTGG
*
1451001 CATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTT-C-TT-AGCCCACACAAGTTGGTGGCATTTT
1 CATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTAAGCCCACACAAGTTGGTGGCACTTT
*
1451063 CTAGTCTTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
66 CTAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
* * * ** *
1451128 AAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGA
131 AAGAGCAGGA------CGCCTTTCAAAGCCCACACAAATTGGTGGCATTTTTCAGTCCTCAAAGA
* * * * * ** * **
1451193 GCAGGACG-C---T----CTCTC-C---TT--TCGCCCTTT--AGTCCTCAAAGAGCAGGACACC
190 GCAAGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCC
* *
1451242 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-----TC-TTTC
255 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTC
* *
1451301 AAAGCCCACACAAGTTGGTGG
320 AAAGCCCATATAAGTTGGTGG
1451322 CATTTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCAC
1 CATTTTCCAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTT--AAGCCCACACAAGTTGGTGGCAC
* * * * * * *
1451386 TTCCCAATCCTCAAAGAGCAGGTCACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCTAGTC
63 TTTCTAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTC
* * ** * *
1451450 CTCAAAGAGCAGGGCGCCTTCTCATTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCTTCA
127 CTCAAAGAGCAGGACGCCTT-TC-----AAAGCCCACACAAATTGGTGGCATTTTTCAGTCCTCA
1451515 AAGAG
186 AAGAG
1451520 TAGGACACCT
Statistics
Matches: 781, Mismatches: 54, Indels: 58
0.87 0.06 0.06
Matches are distributed among these distances:
320 9 0.01
321 54 0.07
322 3 0.00
323 2 0.00
325 5 0.01
326 122 0.16
327 70 0.09
329 6 0.01
331 2 0.00
334 1 0.00
335 3 0.00
336 7 0.01
337 414 0.53
339 1 0.00
340 2 0.00
341 1 0.00
342 31 0.04
343 48 0.06
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (340 bp):
CATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTAAGCCCACACAAGTTGGTGGCACTTT
CTAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
AAGAGCAGGACGCCTTTCAAAGCCCACACAAATTGGTGGCATTTTTCAGTCCTCAAAGAGCAAGA
TGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCCTTTCAA
AGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCC
CATATAAGTTGGTGG
Found at i:1451397 original size:61 final size:60
Alignment explanation
Indices: 1451240--1451585 Score: 381
Period size: 61 Copynumber: 5.9 Consensus size: 60
1451230 GAGCAGGACA
* *
1451240 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG----T
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCTTCT
*
1451296 -CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGC-TTCT
* * *
1451356 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCA-G--G--TCA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCTTCT
* **
1451411 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCTAGTCCTCAAAGAGCAGGGCGCCTTCT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC-AGTCCTCAAAGAGCAGGATG-CTTCT
* * * * * ** *
1451472 CATTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCTTCAAAGAGTAGGACACCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGA-TGCTTCT
* * * **
1451533 CTTTTCAAAGTCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGA
1451586 CACCTTTTCT
Statistics
Matches: 249, Mismatches: 26, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
54 4 0.02
55 97 0.39
56 1 0.00
58 2 0.01
60 2 0.01
61 139 0.56
62 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (60 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCTTCT
Found at i:1451400 original size:210 final size:211
Alignment explanation
Indices: 1451009--1451407 Score: 710
Period size: 210 Copynumber: 1.9 Consensus size: 211
1450999 GGCATTTTCC
** ** * *
1451009 AGTCCTCAAAGAGCAGGATGCCTTTTCTTAGCCCACACAAGTTGGTGGCATTTTCTAGTCTTCAA
1 AGTCCTCAAAGAGCAGGACACCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
1451074 AGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAT
66 AGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAT
1451139 GCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACGCTC
131 GCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACGCTC
1451204 TCTCCTTTCGCCCTTT
196 TCTCCTTTCGCCCTTT
1451220 AGTCCTCAAAGAGCAGGACACCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACACCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
* * *
1451284 AGAGCAGGATGTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAT
66 AGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAT
1451349 GCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGG
131 GCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGG
1451408 TCACCTTTTA
Statistics
Matches: 179, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
210 155 0.87
211 24 0.13
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (211 bp):
AGTCCTCAAAGAGCAGGACACCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
AGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAT
GCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACGCTC
TCTCCTTTCGCCCTTT
Found at i:1451421 original size:116 final size:115
Alignment explanation
Indices: 1451240--1451591 Score: 422
Period size: 116 Copynumber: 3.0 Consensus size: 115
1451230 GAGCAGGACA
* ** *
1451240 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAT-GTCTTTCAAA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGG-TCACCTTTTAAA
* *
1451304 GCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
64 GCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
* *
1451356 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGTCACCTTTTAAAG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAGAGCAGGTCACCTTTTAAAG
*
1451421 CCCACACAAGTTGGTGGCA-TTTCCTAGTCCTCAAAGAGCAGGGCGCCTTCT
65 CCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGACGCCTTCT
* * * *
1451472 CATTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCTTCAAAGAGTAGGACACCTTTTCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGTCA-C----CTTT
* * * *
1451537 TCAAAGTCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGACACCTT
60 T-AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTT
1451592 TTCTTTTTCT
Statistics
Matches: 204, Mismatches: 20, Indels: 18
0.84 0.08 0.07
Matches are distributed among these distances:
115 8 0.04
116 141 0.69
117 4 0.02
121 5 0.02
122 43 0.21
124 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (115 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGTCACCTTTTAAAGC
CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
Found at i:1452295 original size:13 final size:13
Alignment explanation
Indices: 1452279--1452308 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1452269 ATACATTGTT
*
1452279 CATTGTATTGATA
1 CATTGTATCGATA
1452292 CATTGTATCGATA
1 CATTGTATCGATA
1452305 CATT
1 CATT
1452309 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1452351 original size:20 final size:20
Alignment explanation
Indices: 1452342--1452397 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
1452332 TACATTTTGT
1452342 ATTGTATCGATACATTGCTC
1 ATTGTATCGATACATTGCTC
1452362 ATTGTATCGATACATTGCTC
1 ATTGTATCGATACATTGCTC
1452382 ATTGTATCGATACATT
1 ATTGTATCGATACATT
1452398 TACATTCAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (20 bp):
ATTGTATCGATACATTGCTC
Found at i:1454798 original size:79 final size:79
Alignment explanation
Indices: 1454708--1455015 Score: 327
Period size: 79 Copynumber: 3.9 Consensus size: 79
1454698 TTTCATCGGA
* * *
1454708 GATACTCCAACCCCGTTATTTTCGAAGGGATACCCCAACCCCGGCTTTATTTCTAAAATATTAAT
1 GATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAAT
1454773 TTCTCATAAACGGG
66 TTCTCATAAACGGG
* * * *
1454787 GATACTTCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAAT
1 GATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAAT
* * **
1454852 TTTTTATAGTCGGG
66 TTCTCATAAACGGG
* * * * *
1454866 GATACTCCAACCCCGTTA-TTTCTGAGGGGATACTCCAATCCCGATTTTATTTC-CAAATCATCG
1 GATACTCCAACCCCGTTATTTTC-GAAGGGATACTCCAACCCCGGTTTTATTTCTAAAAT-ATCA
* * * *
1454929 ATTTTTCACAACCAGG
64 ATTTCTCATAAACGGG
* * * *
1454945 GATACTCCAACCCCGTTATTTT-TAAGAGGATACTCCAACCCC-GTTATTATCTCCAAAATATTA
1 GATACTCCAACCCCGTTATTTTCGAAG-GGATACTCCAACCCCGGTT-TTATTTCTAAAATA-TC
1455008 AATTTCTC
63 AATTTCTC
1455016 GTCGAAAAAT
Statistics
Matches: 190, Mismatches: 32, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
78 10 0.05
79 166 0.87
80 14 0.07
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (79 bp):
GATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCAAT
TTCTCATAAACGGG
Found at i:1456077 original size:41 final size:41
Alignment explanation
Indices: 1455968--1456110 Score: 164
Period size: 41 Copynumber: 3.5 Consensus size: 41
1455958 TAACTTGGGC
* * * *
1455968 GAAACCATACAAGTCAACAAGTTAGAAAGATTAACCAAGAT
1 GAAACCATACGAGTCAACAAGTTAGAATGGTTGACCAAGAT
* *
1456009 GAAACCATACGAGTCAACGAA-TTAGAATGGTTGATCGAGAT
1 GAAACCATACGAGTCAAC-AAGTTAGAATGGTTGACCAAGAT
*
1456050 GAAACCATACGAGTCAATAAGTTAGAATGGTTGACC-AGTAT
1 GAAACCATACGAGTCAACAAGTTAGAATGGTTGACCAAG-AT
* * *
1456091 GAAACTATATGAGTTAACAA
1 GAAACCATACGAGTCAACAA
1456111 AGTGTGACTA
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 81 0.93
42 2 0.02
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (41 bp):
GAAACCATACGAGTCAACAAGTTAGAATGGTTGACCAAGAT
Found at i:1456309 original size:107 final size:105
Alignment explanation
Indices: 1456045--1457401 Score: 513
Period size: 107 Copynumber: 12.8 Consensus size: 105
1456035 ATGGTTGATC
* * ** * * * * * * *
1456045 GAGATGAAACCATACGAGTCAATAAGTTAGAATGGTTGACCAGTATGAAACTATATGAGTTAA-C
1 GAGATAAAACCATACAAACCAACAAGTTAGAAGGGTTGACGAG-ATGAAACCATACGAGTCAATG
* * * * * *
1456109 AAAGTGTGACTAGGGCAGAACCTAAATAAAAAAAAGTTGGCT
65 AAAG-GTGACCAAGGTAGAACCTAATTGAAAAGAAGTTGGCT
* * * * * **
1456151 -AGGATGAAACCAAACAAACCAACAAATTTAGAAAGATTGACTGA-ACCAAACCATACGAGTCAA
1 GA-GATAAAACCATACAAACCAAC-AAGTTAGAAGGGTTGAC-GAGATGAAACCATACGAGTCAA
* *
1456214 TGAAAGGTGACCAAGATGGAACCTAATTCGAAAAGAAGTTGGCT
63 TGAAAGGTGACCAAGGTAGAACCTAATT-GAAAAGAAGTTGGCT
* * * *
1456258 GAGACAAAACCATACAAACCGACAAGTTAGAAGGGTTGATCGAGATGAAACCATACAAGTTAATG
1 GAGATAAAACCATACAAACCAACAAGTTAGAAGGGTTGA-CGAGATGAAACCATACGAGTCAATG
* * **
1456323 AATA-GTGACCAA-G-ACGAAACCTAAGTTAAAAAAAAGTTAACT
65 AA-AGGTGACCAAGGTA-G-AACCTAA-TTGAAAAGAAGTTGGCT
* * * * * * * *
1456365 -AGGACAAAACCATTCAAACCAATAAGTTAGAGGGGTTGACCAGGATAAAACTATATGAGTCAAT
1 GA-GATAAAACCATACAAACCAACAAGTTAGAAGGGTTGACGA-GATGAAACCATACGAGTCAAT
* * *
1456429 G-AAGAGTGGCTAAGGT-GAAACCTAAATTGAAAAAGAA-TTAGCT
64 GAAAG-GTGACCAAGGTAG-AACCT-AATTG-AAAAGAAGTTGGCT
* ** * * * * * * *
1456472 -AGGATGAAACCATATGAACCAACAAGTTAAAAGGTTTGACGGGGATGAAACTATATGAATCAAC
1 GA-GATAAAACCATACAAACCAACAAGTTAGAAGGGTTGAC-GAGATGAAACCATACGAGTCAAT
* * * * *
1456536 GAAAGATGACCAAGGCAGAAGCTAAGTCGAAAAGGAGTTGGGC-
64 GAAAGGTGACCAAGGTAGAACCTAA-TTGAAAAGAAGTT-GGCT
* * * * * * *
1456579 AAGATAAAA-CATACAATCCAACAAGTTAGAAGAGTTAACCAAGATGAAACCATACAAGTCAACG
1 GAGATAAAACCATACAAACCAACAAGTTAGAAGGGTTGA-CGAGATGAAACCATACGAGTCAATG
** * * * ** *
1456643 AAAAATGACTAGGGCAGAACCTAAGTCAAAAAAAAGTTGGC-
65 AAAGGTGACCAAGGTAGAACCTAA-TTGAAAAGAAGTTGGCT
* * * * * * * *
1456684 CAGGACAAAACCATACGAACTAACAAGTTAGAGGGGTTGACCAGGATGAAGCCATACGAATCAAT
1 GA-GATAAAACCATACAAACCAACAAGTTAGAAGGGTTGACGA-GATGAAACCATACGAGTCAAT
* * * * *
1456749 GAAAGATAACC-A-GAATGAGACCTAAGTT-AAAAAAGAGTTGGCC
64 GAAAGGTGACCAAGGTA-GA-ACCTAA-TTGAAAAGA-AGTTGGCT
* ** * ** * * * * ** * *
1456792 AAGACGAAATCATATGAACTAATAAGTTA-AAGGGGTTAATTGAGACAAAACCATTCAAGTCAA-
1 GAGATAAAACCATACAAACCAACAAGTTAGAA-GGGTTGA-CGAGATGAAACCATACGAGTCAAT
* * * *
1456855 CAAATGGTGA-CTAGAGTAGAACCTAAGTTGAAAAGAAGTTAGCC
64 GAAA-GGTGACCAAG-GTAGAACCTAA-TTGAAAAGAAGTTGGCT
* * * * * * * *
1456899 AAGATGAAACCAAACAAACCAACAAATTAG-AGAGGTTGACTAGGA-CAAACCATACGAGTTAAC
1 GAGATAAAACCATACAAACCAACAAGTTAGAAG-GGTTGACGA-GATGAAACCATACGAGTCAAT
* * * * * *
1456962 AAAAAGTGA-CAGGGT-GAAACTTAAGTTGAAAAAAAGTTGGTT
64 GAAAGGTGACCAAGGTAG-AACCTAA-TTGAAAAGAAGTTGGCT
* ** * * * *
1457004 G-GATGAAATAATACAAACTAACAAATTAG-TGGGATTGACCAAGATGAAACCATACGAGTCAAT
1 GAGATAAAACCATACAAACCAACAAGTTAGAAGGG-TTGA-CGAGATGAAACCATACGAGTCAAT
* * * **
1457067 GAAAGATGACCAAGCTAAAACCTAAGTCAAAAAGGAA-TTGGCT
64 GAAAGGTGACCAAGGTAGAACCTAA-TTGAAAA-GAAGTTGGCT
* *
1457110 GAGATAAAACCATACGAACCAACAAGTTAGAGACGTTGGTTGA-GACA--AAACCATACGAGTCA
1 GAGATAAAACCATACAAACCAACAAGTTAGA-A-G--GGTTGACGAGATGAAACCATACGAGTCA
* ** * * *
1457172 A-CAAAGGGTGATTAGGGT-GAAACCTAAGTCAAAA-AAGAATTGG-T
62 ATGAAA-GGTGACCAAGGTAG-AACCTAATTGAAAAGAAG--TTGGCT
* * * * * * * * *
1457216 CGGGATGAAACCCTACAAACCAACAAGTTTGAAGGGTTGATTGGGACGAATCCATACGAGTCAAC
1 -GAGATAAAACCATACAAACCAACAAGTTAGAAGGGTTGA-CGAGATGAAACCATACGAGTCAAT
* *
1457281 AAAAGGTGACCAGGGTAGAACCTAAGTTGAAAA-AGAGTTGG-T
64 GAAAGGTGACCAAGGTAGAACCTAA-TTGAAAAGA-AGTTGGCT
* * * * ** * *
1457323 CGGGACAAAAACAAATGAACCAACAAGTTAGAA-GGTTGACCAAGAAGAAA-CATACGAGTCAAT
1 -GAGATAAAACCATACAAACCAACAAGTTAGAAGGGTTGA-CGAGATGAAACCATACGAGTCAAT
1457386 GAAAGGTGACCAAGGT
64 GAAAGGTGACCAAGGT
1457402 GAAATATAAG
Statistics
Matches: 946, Mismatches: 232, Indels: 147
0.71 0.18 0.11
Matches are distributed among these distances:
103 8 0.01
104 34 0.04
105 82 0.09
106 229 0.24
107 540 0.57
108 40 0.04
109 6 0.01
110 1 0.00
111 4 0.00
112 2 0.00
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (105 bp):
GAGATAAAACCATACAAACCAACAAGTTAGAAGGGTTGACGAGATGAAACCATACGAGTCAATGA
AAGGTGACCAAGGTAGAACCTAATTGAAAAGAAGTTGGCT
Found at i:1456784 original size:320 final size:321
Alignment explanation
Indices: 1456236--1456822 Score: 698
Period size: 320 Copynumber: 1.8 Consensus size: 321
1456226 AAGATGGAAC
* * * * * * *
1456236 CTAATTCGAAAAGAAGTTGGCTGAGACAAAACCATACAAACCGACAAGTTAGAAGGGTTGATCGA
1 CTAAGTCGAAAAGAAGTTGGCTAAGACAAAACCATACAAACCAACAAGTTAGAAGAGTTAACCAA
* * * * * *
1456301 GATGAAACCATACAAGTTAATGAATAGTGACCAAGACGAAACCTAAGTTAAAAAAAAGTTAACTA
66 GATGAAACCATACAAGTCAACGAAAAATGACCAAGACGAAACCTAAGTCAAAAAAAAGTTAACCA
* * * * *
1456366 GGACAAAACCATTCAAACCAATAAGTTAGAGGGGTTGACCAGGATAAAACTATATGAGTCAATGA
131 GGACAAAACCATACAAACCAACAAGTTAGAGGGGTTGACCAGGATAAAACCATACGAATCAATGA
** * * * * * *
1456431 AGAGTGGCTAAGGTGAAACCTAAATTGAAAAAGAATTAGCTAGGATGAAACCATATGAACCAACA
196 AGAGTAACCAAGATGAAACCTAAATTAAAAAAGAATTAGCCAAGACGAAACCATATGAACCAACA
1456496 AGTTAAAAGGTTTGACGGGGATGAAACTATATGAATCAACGAAAGATGACCAAGGCAGAAG
261 AGTTAAAAGGTTTGACGGGGATGAAACTATATGAATCAACGAAAGATGACCAAGGCAGAAG
* * *
1456557 CTAAGTCGAAAAGGAGTTGGGC-AAGATAAAA-CATACAATCCAACAAGTTAGAAGAGTTAACCA
1 CTAAGTCGAAAAGAAGTT-GGCTAAGACAAAACCATACAAACCAACAAGTTAGAAGAGTTAACCA
* * * **
1456620 AGATGAAACCATACAAGTCAACGAAAAATGACTAGGGC-AGAACCTAAGTCAAAAAAAAGTTGGC
65 AGATGAAACCATACAAGTCAACGAAAAATGACCAAGACGA-AACCTAAGTCAAAAAAAAGTTAAC
* * * *
1456684 CAGGACAAAACCATACGAACTAACAAGTTAGAGGGGTTGACCAGGATGAAGCCATACGAATCAAT
129 CAGGACAAAACCATACAAACCAACAAGTTAGAGGGGTTGACCAGGATAAAACCATACGAATCAAT
* * * * * *
1456749 GAA-AGATAACC-AGAATGAGACCTAAGTTAAAAAAGAGTTGGCCAAGACGAAATCATATGAACT
194 GAAGAG-TAACCAAG-ATGAAACCTAAATTAAAAAAGAATTAGCCAAGACGAAACCATATGAACC
*
1456812 AATAAGTTAAA
257 AACAAGTTAAA
1456823 GGGGTTAATT
Statistics
Matches: 217, Mismatches: 45, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
319 5 0.02
320 186 0.86
321 23 0.11
322 3 0.01
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (321 bp):
CTAAGTCGAAAAGAAGTTGGCTAAGACAAAACCATACAAACCAACAAGTTAGAAGAGTTAACCAA
GATGAAACCATACAAGTCAACGAAAAATGACCAAGACGAAACCTAAGTCAAAAAAAAGTTAACCA
GGACAAAACCATACAAACCAACAAGTTAGAGGGGTTGACCAGGATAAAACCATACGAATCAATGA
AGAGTAACCAAGATGAAACCTAAATTAAAAAAGAATTAGCCAAGACGAAACCATATGAACCAACA
AGTTAAAAGGTTTGACGGGGATGAAACTATATGAATCAACGAAAGATGACCAAGGCAGAAG
Found at i:1457488 original size:319 final size:316
Alignment explanation
Indices: 1456625--1457458 Score: 693
Period size: 318 Copynumber: 2.6 Consensus size: 316
1456615 AACCAAGATG
* * ** *
1456625 AAACCATACAAGTCAACGAAAAA-TGACTAGGG-CAGAACCTAAGTCAAAAAAAAGTTGGCCAGG
1 AAACCATACGAGTCAAC-AAAAAGTGAC-AGGGTGA-AACCTAAGTTGAAAAAAAGTTGGTC-GG
* * * * * * * * * * *
1456688 A-CAAAACCATACGAACTAACAAGTTAGAGGGGTTGACCAGGATGAAGCCATACGAATCAATGAA
62 AGAAAAAACA-A-AAACCAACAAATTAGAAGGATTGACCAAGAAGAAACCATACGAGTCAATGAA
* * * * * * * * * ** * *
1456752 AGATAACC-AGAATGAGACCTAAGTTAAAAAAGAGTTGGCCAAGACGAAATCATATGAACTAATA
125 AGATGACCAAG-CTAAAACATAAG-TCAAAAAGAATTGGCCAAGACAAAACCATACAAACCAAAA
* ** ** * * * * *
1456816 AGTTAAAGGGGTTAATTGAGACAAAACCATTCAAGTCAACAAATGGTGACTAGAGT-AGAACCTA
188 AGTTAGAGACGTTGGTTGAGACAAAACCATACGAGTCAACAAAGGGTGATTAGGGTGA-AACCTA
** * * **
1456880 AGT-TGAAAAGAAGTTAGCCAAGATGAAACCAAACAAACCAACAAATTAGAGAGGTTGACTAGGA
252 AGTCAAAAAAGAA-TTGGTCGGGATGAAACCAAACAAACCAACAAATTAGAGAGGTTGACTAGGA
1456944 C
316 C
* * *
1456945 AAACCATACGAGTTAACAAAAAGTGACAGGGTGAAACTTAAGTTGAAAAAAAGTTGGTTGGATGA
1 AAACCATACGAGTCAACAAAAAGTGACAGGGTGAAACCTAAGTTGAAAAAAAGTTGGTCGGA-GA
* * * * ** *
1457010 AATAATACAAACTAACAAATTAGTGGGATTGACCAAGATGAAACCATACGAGTCAATGAAAGATG
65 AAAAACAAAAACCAACAAATTAGAAGGATTGACCAAGAAGAAACCATACGAGTCAATGAAAGATG
* ** * * *
1457075 ACCAAGCTAAAACCTAAGTCAAAAAGGAATTGGCTGAGATAAAACCATACGAACCAACAAGTTAG
130 ACCAAGCTAAAACATAAGTCAAAAA-GAATTGGCCAAGACAAAACCATACAAACCAAAAAGTTAG
1457140 AGACGTTGGTTGAGACAAAACCATACGAGTCAACAAAGGGTGATTAGGGTGAAACCTAAGTCAAA
194 AGACGTTGGTTGAGACAAAACCATACGAGTCAACAAAGGGTGATTAGGGTGAAACCTAAGTCAAA
** * * * *
1457205 AAAGAATTGGTCGGGATGAAACCCTACAAACCAACAAGTTTGA-AGGGTTGATTGGGAC
259 AAAGAATTGGTCGGGATGAAACCAAACAAACCAACAAATTAGAGA-GGTTGACTAGGAC
* * *
1457263 GAATCCATACGAGTCAACAAAAGGTGACCAGGGT-AGAACCTAAGTTGAAAAAGAGTTGGTCGG-
1 -AAACCATACGAGTCAACAAAAAGTGA-CAGGGTGA-AACCTAAGTTGAAAAAAAGTTGGTCGGA
*
1457326 GACAAAAACAAATGAACCAACAAGTTAGAAGG-TTGACCAAGAAGAAA-CATACGAGTCAATGAA
63 GA-AAAAACAAA--AACCAACAAATTAGAAGGATTGACCAAGAAGAAACCATACGAGTCAATGAA
* * * * * *
1457389 AGGTGACCAAGGTGAAATATAAGTCAAAAA-AAGTTGGCCAAGACGAAACTATACAAACCAATAA
125 AGATGACCAAGCTAAAACATAAGTCAAAAAGAA-TTGGCCAAGACAAAACCATACAAACCAA-AA
*
1457453 ATTTAG
188 AGTTAG
1457459 TTAGGTTGAG
Statistics
Matches: 414, Mismatches: 83, Indels: 35
0.78 0.16 0.07
Matches are distributed among these distances:
317 9 0.02
318 207 0.50
319 116 0.28
320 68 0.16
321 14 0.03
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (316 bp):
AAACCATACGAGTCAACAAAAAGTGACAGGGTGAAACCTAAGTTGAAAAAAAGTTGGTCGGAGAA
AAAACAAAAACCAACAAATTAGAAGGATTGACCAAGAAGAAACCATACGAGTCAATGAAAGATGA
CCAAGCTAAAACATAAGTCAAAAAGAATTGGCCAAGACAAAACCATACAAACCAAAAAGTTAGAG
ACGTTGGTTGAGACAAAACCATACGAGTCAACAAAGGGTGATTAGGGTGAAACCTAAGTCAAAAA
AGAATTGGTCGGGATGAAACCAAACAAACCAACAAATTAGAGAGGTTGACTAGGAC
Found at i:1457696 original size:59 final size:59
Alignment explanation
Indices: 1457623--1457794 Score: 184
Period size: 60 Copynumber: 2.9 Consensus size: 59
1457613 ATGACTTGAT
* * *
1457623 CAAAACCAAGACTCAATGGAATAGACTAGATGAAACCAAAACCTAAACAATGATTTGGG
1 CAAAACCAAAACTCAATGAAATAGACTAGATGAAACCAAAACCTAAACAATGAGTTGGG
** * * **
1457682 TGAAACCAAAACTCAATGAAATAGCCTGGATGAAATTAGAAACCTAAACAATGAGTTGGG
1 CAAAACCAAAACTCAATGAAATAGACTAGATGAAACCA-AAACCTAAACAATGAGTTGGG
* * * * **
1457742 CAAAATCAAAACTCAATGAAATGGTCTAAACAAAACCAAAACCCTAAA-AATGA
1 CAAAACCAAAACTCAATGAAATAGACTAGATGAAACCAAAA-CCTAAACAATGA
1457795 CTAATATGAG
Statistics
Matches: 91, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
59 38 0.42
60 53 0.58
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.17
Consensus pattern (59 bp):
CAAAACCAAAACTCAATGAAATAGACTAGATGAAACCAAAACCTAAACAATGAGTTGGG
Found at i:1457752 original size:60 final size:60
Alignment explanation
Indices: 1457597--1457763 Score: 194
Period size: 59 Copynumber: 2.8 Consensus size: 60
1457587 AAATGATAGT
** * *
1457597 ACTAGAAACCTACAA-AATGACTTGATCAAAACCAAGACTCAATGGAATAGACTAGATGAA
1 ACTAGAAACCTA-AACAATGACTTGGGCAAAACCAAAACTCAATGAAATAGACTAGATGAA
* * ** * *
1457657 ACCA-AAACCTAAACAATGATTTGGGTGAAACCAAAACTCAATGAAATAGCCTGGATGAA
1 ACTAGAAACCTAAACAATGACTTGGGCAAAACCAAAACTCAATGAAATAGACTAGATGAA
* * *
1457716 ATTAGAAACCTAAACAATGAGTTGGGCAAAATCAAAACTCAATGAAAT
1 ACTAGAAACCTAAACAATGACTTGGGCAAAACCAAAACTCAATGAAAT
1457764 GGTCTAAACA
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
58 2 0.02
59 45 0.51
60 42 0.47
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (60 bp):
ACTAGAAACCTAAACAATGACTTGGGCAAAACCAAAACTCAATGAAATAGACTAGATGAA
Found at i:1458545 original size:20 final size:20
Alignment explanation
Indices: 1458522--1458576 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
1458512 ACAATAAGGT
1458522 AATGTATTGATACATAAGTG
1 AATGTATTGATACATAAGTG
** ***
1458542 AATGTATCAATACATGCTTG
1 AATGTATTGATACATAAGTG
1458562 AAGTGTATTGATACA
1 AA-TGTATTGATACA
1458577 GGACCATGCA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (20 bp):
AATGTATTGATACATAAGTG
Found at i:1461764 original size:2 final size:2
Alignment explanation
Indices: 1461759--1461796 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1461749 AATAGGTGTG
1461759 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1461797 ACATATACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1462060 original size:21 final size:21
Alignment explanation
Indices: 1462035--1462104 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
1462025 ATGCACATGA
1462035 AATAATGTAAATGTAAGCATC
1 AATAATGTAAATGTAAGCATC
* * *
1462056 AATAAAGTGGCAAATG-CA-CATGA
1 AAT-AA-T-GTAAATGTAAGCAT-C
1462079 AATAATGTAAATGTAAGCATC
1 AATAATGTAAATGTAAGCATC
1462100 AATAA
1 AATAA
1462105 AGTGGCAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
20 6 0.16
21 10 0.27
22 10 0.27
23 5 0.14
24 6 0.16
ACGTcount: A:0.50, C:0.10, G:0.16, T:0.24
Consensus pattern (21 bp):
AATAATGTAAATGTAAGCATC
Found at i:1462085 original size:44 final size:44
Alignment explanation
Indices: 1462022--1462134 Score: 199
Period size: 44 Copynumber: 2.6 Consensus size: 44
1462012 TGTTGCGACA
1462022 CAAATGCACATGAAATAATGTAAATGTAAGCATCAATAAAGTGG
1 CAAATGCACATGAAATAATGTAAATGTAAGCATCAATAAAGTGG
1462066 CAAATGCACATGAAATAATGTAAATGTAAGCATCAATAAAGTGG
1 CAAATGCACATGAAATAATGTAAATGTAAGCATCAATAAAGTGG
* * *
1462110 CAAATGAATATGAAATGATGTAAAT
1 CAAATGCACATGAAATAATGTAAAT
1462135 ACCAATGTCA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.24
Consensus pattern (44 bp):
CAAATGCACATGAAATAATGTAAATGTAAGCATCAATAAAGTGG
Found at i:1462159 original size:44 final size:46
Alignment explanation
Indices: 1462108--1462247 Score: 111
Period size: 44 Copynumber: 3.2 Consensus size: 46
1462098 TCAATAAAGT
1462108 GGCAAATGAATATGAAATGATGTAAATACCAATGTCATCTAAAGCA
1 GGCAAATGAATATGAAATGATGTAAATACCAATGTCATCTAAAGCA
* * ** * *
1462154 -G-AAATGTATGTTCAATGATGCAAAT-GCAA-G-CATCAATGAAA--A
1 GGCAAATGAATATGAAATGATGTAAATACCAATGTCATC--T-AAAGCA
*
1462196 GGCAAAT-ACATATGAAATGATGTAAATACCAATGTCGTCTAAAGC-
1 GGCAAATGA-ATATGAAATGATGTAAATACCAATGTCATCTAAAGCA
1462241 -GCAAATG
1 GGCAAATG
1462248 TACATACAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 25
0.64 0.12 0.23
Matches are distributed among these distances:
41 4 0.06
42 2 0.03
43 5 0.07
44 49 0.71
45 5 0.07
46 1 0.01
47 3 0.04
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.24
Consensus pattern (46 bp):
GGCAAATGAATATGAAATGATGTAAATACCAATGTCATCTAAAGCA
Found at i:1462179 original size:88 final size:88
Alignment explanation
Indices: 1462065--1462317 Score: 291
Period size: 88 Copynumber: 2.9 Consensus size: 88
1462055 CAATAAAGTG
* * * * *
1462065 GCAAATGCACATGA-AATAATGTAAATGTAAGCATCAAT-AAAGTGGCAAATGA-ATATGAAATG
1 GCAAATGTACAT-ACAATGATGCAAATGCAAGCATCAATGAAA-AGGCAAAT-ACATATGAAATG
1462127 ATGTAAATACCAATGTCATCTAAAGC
63 ATGTAAATACCAATGTCATCTAAAGC
** *
1462153 AG-AAATGTATGTTCAATGATGCAAATGCAAGCATCAATGAAAAGGCAAATACATATGAAATGAT
1 -GCAAATGTACATACAATGATGCAAATGCAAGCATCAATGAAAAGGCAAATACATATGAAATGAT
*
1462217 GTAAATACCAATGTCGTCTAAAGC
65 GTAAATACCAATGTCATCTAAAGC
* * * * *
1462241 GCAAATGTACATACAATGATGCAAATGCAAGCATCAATG-AGAGGCAAATGCACATGAGATAATG
1 GCAAATGTACATACAATGATGCAAATGCAAGCATCAATGAAAAGGCAAATACATATGAAATGATG
* *
1462305 CAAATGCCAATGT
66 TAAATACCAATGT
1462318 GGTCTAGTAG
Statistics
Matches: 141, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
87 33 0.23
88 104 0.74
89 4 0.03
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.23
Consensus pattern (88 bp):
GCAAATGTACATACAATGATGCAAATGCAAGCATCAATGAAAAGGCAAATACATATGAAATGATG
TAAATACCAATGTCATCTAAAGC
Found at i:1462664 original size:17 final size:17
Alignment explanation
Indices: 1462642--1462674 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1462632 CAATCTTATT
1462642 TTTC-TTATTTCTTTTAC
1 TTTCTTTATTT-TTTTAC
1462659 TTTCTTTATTTTTTTA
1 TTTCTTTATTTTTTTA
1462675 TGTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTTTATTTTTTTAC
Found at i:1464768 original size:17 final size:17
Alignment explanation
Indices: 1464748--1464780 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1464738 TAATTTAACT
*
1464748 TTTTCTTATAAATGATC
1 TTTTCTTAAAAATGATC
1464765 TTTTCTTAAAAATGAT
1 TTTTCTTAAAAATGAT
1464781 TAGCTTTTAG
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:0.09, G:0.06, T:0.52
Consensus pattern (17 bp):
TTTTCTTAAAAATGATC
Found at i:1464896 original size:27 final size:27
Alignment explanation
Indices: 1464866--1464920 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
1464856 ATTAAGGATG
*
1464866 TGATACACATCTTGCAAAGTTAAAACT
1 TGATACACATCTTGCAAAGCTAAAACT
1464893 TGATACACATCTTGCAAAGCTAAAACT
1 TGATACACATCTTGCAAAGCTAAAACT
1464920 T
1 T
1464921 ACAGGAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
TGATACACATCTTGCAAAGCTAAAACT
Found at i:1466961 original size:15 final size:14
Alignment explanation
Indices: 1466939--1466982 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
1466929 AAAATTAGTT
1466939 AATGTGATAAAGTA
1 AATGTGATAAAGTA
*
1466953 AATTGTGATAAAATA
1 AA-TGTGATAAAGTA
*
1466968 AATATGATAAAGTA
1 AATGTGATAAAGTA
1466982 A
1 A
1466983 GTACAATTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.30
Consensus pattern (14 bp):
AATGTGATAAAGTA
Found at i:1467457 original size:19 final size:18
Alignment explanation
Indices: 1467428--1467472 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
1467418 ATTATAATTA
*
1467428 ATTAAATTATTAAATCAAAT
1 ATTATATTATTAAA--AAAT
1467448 -TTATATTATTAAAAAAT
1 ATTATATTATTAAAAAAT
1467465 ATTATATT
1 ATTATATT
1467473 TAATAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.17
18 7 0.30
19 12 0.52
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATATTATTAAAAAAT
Found at i:1469334 original size:3 final size:3
Alignment explanation
Indices: 1469326--1469366 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1469316 GCTTTATGCT
1469326 TTA 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 TTA TT
1469367 GAAGTGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1469501 original size:38 final size:39
Alignment explanation
Indices: 1469459--1469549 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 39
1469449 TTGGAACCAC
* *
1469459 AATATGCTATTTGGATTTGTTACC-TTGCTTGGAGCTAA
1 AATATGCTATTTGGATATGTAACCTTTGCTTGGAGCTAA
* *
1469497 AATATACT-TTTGGATATGTAACCTTTGCTTGGAGTTAA
1 AATATGCTATTTGGATATGTAACCTTTGCTTGGAGCTAA
* *
1469535 AATAAGTTATTTGGA
1 AATATGCTATTTGGA
1469550 CAAATAATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
37 13 0.30
38 25 0.57
39 6 0.14
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.42
Consensus pattern (39 bp):
AATATGCTATTTGGATATGTAACCTTTGCTTGGAGCTAA
Found at i:1470579 original size:2 final size:2
Alignment explanation
Indices: 1470567--1470603 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1470557 TGAGGCGATT
*
1470567 TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1470604 TTTACCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1471474 original size:2 final size:2
Alignment explanation
Indices: 1471467--1471491 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1471457 TGACTAATTA
1471467 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 A
1471492 AAGTGCTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1475402 original size:27 final size:25
Alignment explanation
Indices: 1475372--1475449 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 25
1475362 TTATATATCA
1475372 TTAAATAATAATTAAAATAAATTAAAT
1 TTAAAT-ATAATT-AAATAAATTAAAT
*
1475399 TTAAAT-T-A-TAAA-AAATTATAT
1 TTAAATATAATTAAATAAATTAAAT
*
1475420 TTAAAATTTAATTCAAATAAATTAAAT
1 TT-AAATATAATT-AAATAAATTAAAT
1475447 TTA
1 TTA
1475450 TCAAATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
21 10 0.23
22 7 0.16
23 2 0.05
24 2 0.05
25 2 0.05
26 4 0.09
27 16 0.37
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (25 bp):
TTAAATATAATTAAATAAATTAAAT
Found at i:1475405 original size:21 final size:21
Alignment explanation
Indices: 1475381--1475424 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1475371 ATTAAATAAT
1475381 AATTA-AAATAAATTAAATTTA
1 AATTATAAA-AAATTAAATTTA
*
1475402 AATTATAAAAAATTATATTTA
1 AATTATAAAAAATTAAATTTA
1475423 AA
1 AA
1475425 ATTTAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTATAAAAAATTAAATTTA
Found at i:1480991 original size:2 final size:2
Alignment explanation
Indices: 1480984--1481026 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
1480974 TACCTAGCTG
* *
1480984 AC AC AC AC AC AC GC AC GC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1481026 A
1 A
1481027 AAAAAGGCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.49, G:0.05, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1481764 original size:149 final size:151
Alignment explanation
Indices: 1481465--1481764 Score: 417
Period size: 149 Copynumber: 2.0 Consensus size: 151
1481455 CAAGATAAAA
* * * *
1481465 AGCATAACACATATCATCACATAAATATAGCAGACCCTAAATCCCTCTTCTTTTTTGTCTCAATA
1 AGCATAACACATATCATCACACAAATATAGAAGACCCAAAATCCCTCTTCCTTTTTGTCTCAATA
* *
1481530 ACAGTAGGGTGAAACACTGAAGGCTCACAGTAACATAACAAGACAAGATACGCAGTACCGTATAA
66 ACAGTAGGATGAAACACTGAAGGCTCACAGTAACATAACAAGACAAGATACGCAGTACCATATAA
*
1481595 GAAAATTTGCACCCAAGAAAG
131 CAAAATTTGCACCCAAGAAAG
* * *
1481616 AGCATAACACATGTCATCACACAAATATAGAAGACCCAAAATTCCTC-TCCTTTTTGTCTCAATT
1 AGCATAACACATATCATCACACAAATATAGAAGACCCAAAATCCCTCTTCCTTTTTGTCTCAATA
* * * * * * *
1481680 ACAGTAGGATGAAAC-CTGCAGGCTCATAGTGACATGACAAGACCAGATATGCAGTAGCATATAA
66 ACAGTAGGATGAAACACTGAAGGCTCACAGTAACATAACAAGACAAGATACGCAGTACCATATAA
1481744 C-AAATATTGCACCCAAGAAAG
131 CAAAAT-TTGCACCCAAGAAAG
1481765 CGGAATAGAA
Statistics
Matches: 131, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
148 4 0.03
149 56 0.43
150 29 0.22
151 42 0.32
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (151 bp):
AGCATAACACATATCATCACACAAATATAGAAGACCCAAAATCCCTCTTCCTTTTTGTCTCAATA
ACAGTAGGATGAAACACTGAAGGCTCACAGTAACATAACAAGACAAGATACGCAGTACCATATAA
CAAAATTTGCACCCAAGAAAG
Found at i:1490959 original size:22 final size:22
Alignment explanation
Indices: 1490916--1490959 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1490906 ATAAAAATTC
** *
1490916 AAAAAATTTAAAACTTTCAAAT
1 AAAAAATTTAAAAAATTAAAAT
*
1490938 AAAAATTTTAAAAAATTAAAAT
1 AAAAAATTTAAAAAATTAAAAT
1490960 TTGGTCCCAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAAAATTTAAAAAATTAAAAT
Found at i:1494279 original size:33 final size:33
Alignment explanation
Indices: 1494237--1494304 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
1494227 GTTGCGACAC
1494237 TTAGTATTTAGTTTAAAGGAGAAATTTTAATTT
1 TTAGTATTTAGTTTAAAGGAGAAATTTTAATTT
1494270 TTAGTATTTAGTTTAAAGGAGAAATTTTAATTT
1 TTAGTATTTAGTTTAAAGGAGAAATTTTAATTT
1494303 TT
1 TT
1494305 CATCTGCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (33 bp):
TTAGTATTTAGTTTAAAGGAGAAATTTTAATTT
Found at i:1494317 original size:15 final size:15
Alignment explanation
Indices: 1494297--1494327 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1494287 GGAGAAATTT
1494297 TAATTTTTCATCTGC
1 TAATTTTTCATCTGC
*
1494312 TAATTTTTCATTTGC
1 TAATTTTTCATCTGC
1494327 T
1 T
1494328 TTTTCATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.58
Consensus pattern (15 bp):
TAATTTTTCATCTGC
Found at i:1494987 original size:2 final size:2
Alignment explanation
Indices: 1494980--1495010 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1494970 AATGCAATCT
1494980 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1495011 TATCATACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1495158 original size:58 final size:57
Alignment explanation
Indices: 1495086--1495198 Score: 163
Period size: 58 Copynumber: 2.0 Consensus size: 57
1495076 AGGATTAATT
* **
1495086 AAATGATAACGATCGTGTTATAGAGAACAATTTTCCAGTGACTCTACTTCAGCTTTGC
1 AAATGATAACGATCGTATTATAGAGAACAATTTT-CAACGACTCTACTTCAGCTTTGC
* * *
1495144 AAATGATAATGATCGTATTATGGAGAATAATTTTCAACGACTCTACTTCAGCTTT
1 AAATGATAACGATCGTATTATAGAGAACAATTTTCAACGACTCTACTTCAGCTTT
1495199 ACGGCGGTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 19 0.39
58 30 0.61
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (57 bp):
AAATGATAACGATCGTATTATAGAGAACAATTTTCAACGACTCTACTTCAGCTTTGC
Found at i:1499456 original size:23 final size:23
Alignment explanation
Indices: 1499410--1499452 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1499400 GAAATAAAAT
*
1499410 TTCATATAATAAATTTAATTTAA
1 TTCATATAACAAATTTAATTTAA
1499433 TTCA-ATAACAAATTTAATTT
1 TTCATATAACAAATTTAATTT
1499453 TAATGTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (23 bp):
TTCATATAACAAATTTAATTTAA
Found at i:1500798 original size:41 final size:41
Alignment explanation
Indices: 1500753--1500878 Score: 121
Period size: 41 Copynumber: 3.1 Consensus size: 41
1500743 AACTTGGGCA
* * *
1500753 AAACCACACAAGTCAACAAGTTAGAAAGGTTAACAAGGATG
1 AAACCATACGAGTCAACAAGTTAGAATGGTTAACAAGGATG
* * **
1500794 AAACCATACGAGTC-CCGAGTTAGAATGGTTGATTAA-GATG
1 AAACCATACGAGTCAACAAGTTAGAATGGTT-AACAAGGATG
* * * * *
1500834 AAACCATATGAGTCAATAAGTTAGAATGGTTGACCAGTATG
1 AAACCATACGAGTCAACAAGTTAGAATGGTTAACAAGGATG
1500875 AAAC
1 AAAC
1500879 TATGAGTTAA
Statistics
Matches: 66, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
40 31 0.47
41 35 0.53
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (41 bp):
AAACCATACGAGTCAACAAGTTAGAATGGTTAACAAGGATG
Found at i:1500834 original size:40 final size:41
Alignment explanation
Indices: 1500753--1500866 Score: 124
Period size: 40 Copynumber: 2.8 Consensus size: 41
1500743 AACTTGGGCA
* * * **
1500753 AAACCACACAAGTCAACAAGTTAGAAAGGTT-AACAAGGATG
1 AAACCATACGAGTCAACAAGTTAGAATGGTTGATTAA-GATG
* *
1500794 AAACCATACGAGTC-CCGAGTTAGAATGGTTGATTAAGATG
1 AAACCATACGAGTCAACAAGTTAGAATGGTTGATTAAGATG
* *
1500834 AAACCATATGAGTCAATAAGTTAGAATGGTTGA
1 AAACCATACGAGTCAACAAGTTAGAATGGTTGA
1500867 CCAGTATGAA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
40 30 0.50
41 30 0.50
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (41 bp):
AAACCATACGAGTCAACAAGTTAGAATGGTTGATTAAGATG
Found at i:1503624 original size:56 final size:52
Alignment explanation
Indices: 1503492--1503624 Score: 185
Period size: 52 Copynumber: 2.5 Consensus size: 52
1503482 CGAAATATGA
* *
1503492 AAATTTGCCTTCATGTATCGATACATTTCATGGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
1503544 AAATTTGCCTGTATTTATCAATACATTTCATAGTGTATCGATACATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACAT-C---TGGGC
1503600 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1503625 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 41 0.59
53 1 0.01
56 27 0.39
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1503635 original size:56 final size:51
Alignment explanation
Indices: 1503492--1503644 Score: 139
Period size: 52 Copynumber: 2.9 Consensus size: 51
1503482 CGAAATATGA
* * *
1503492 AAATTTGCCTTCATGTATCGATACATTTCAT-GGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--ACATCAGTGTATCGATACATCTGGGC
* * * *
1503544 AAATTTGCCTGTATTTATCAATACATTTCAT-AGTGTATCGATACATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACA--ACATCAGTGTATCGATACAT-C---TGGGC
*
1503600 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATAC-AACATCAGTGTATCGATACA
1503645 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
52 41 0.48
53 1 0.01
55 2 0.02
56 40 0.47
57 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAACATCAGTGTATCGATACATCTGGGC
Found at i:1503651 original size:13 final size:13
Alignment explanation
Indices: 1503633--1503657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1503623 CAAAGATCAG
1503633 TGTATCGATACAA
1 TGTATCGATACAA
1503646 TGTATCGATACA
1 TGTATCGATACA
1503658 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1504866 original size:432 final size:430
Alignment explanation
Indices: 1504057--1505358 Score: 2149
Period size: 432 Copynumber: 3.0 Consensus size: 430
1504047 TACTTTATGA
* * *
1504057 ATTTAAAAAAATCTATGCCAAACTAAATGAGTTAATGCCTTTTAGTACTGACATAAAAGTACAGT
1 ATTTAAAAAAATCTATGCCGAACTAAATAAGTTAATGCCTTTTAGTACTGACATAAAGGTACAGT
* * *
1504122 AACAGCAACAAGAACAAATAACTATTATGAGTTTTCTAACAGGTTTTCTATCTGATTATGAAACT
66 AACAGCAACAAGAACAAATAGCTATTATGAGTTTTCTAACAGGTTTTCCATCTGACTATGAAACT
* * * *
1504187 GTCGAATCTTAAGTTCTTTCCCTCGTCGAAATTACTTCGTTAAAAGATATCTTCTCTAGAGTACT
131 GTCGAATCTTAAGTTCTTT-CCTCATCGAAATTGCTTTGTTAAAAGATATATTCTCTAGAGTACT
* *
1504252 TCCCATAAAGAGTTCTCAACCTTCTCAAATGAATAATGCATTGGTTAGCTAAAGTTTTATGGCTG
195 TCCCATAGAGAGTTCTCAACCTTCTCAAATGAATAATGCATTAGTTAGCTAAAGTTTTATGGCTG
* *
1504317 AATCTGGAAGGCGAACCTATAAAAGTGGTGGTAAGGAGTCTCTAAGACAGAACCCAGGGGTGATT
260 AATCTGGAAGGCAAACCTATAAAAGTGGTGGTAAGGAGTCTCCAAGACAGAACCCAGGGGTGATT
* *
1504382 GTATGTCATTATTGCCATAACCGAGCCATATGAAGCATGATTGTAGGAAGCTATAGAATAAGAAT
325 GTATGTCACTATTGCCATAACCGAGCCATATGAAGCGTGATTGTAGGAAGCTATAGAATAAGAAT
*
1504447 TATGGGACTCAATCTGCATGCATGGTTACTACAAATGGTGC
390 TATGGGACTCAATCTGCATGCGTGGTTACTACAAATGGTGC
*
1504488 ATTTAAAAAAAATCTATGCCGAACTAAATAAGTTAATGCCTTTTAGTACTGACATAAAGGTATAG
1 ATTT-AAAAAAATCTATGCCGAACTAAATAAGTTAATGCCTTTTAGTACTGACATAAAGGTACAG
1504553 TAACAGCAACAAGAACAAATAGCTATTATGAGTTTTCTAACAGGTTTTCCATCTGACTATGAAAC
65 TAACAGCAACAAGAACAAATAGCTATTATGAGTTTTCTAACAGGTTTTCCATCTGACTATGAAAC
* * * *
1504618 TGTCGAATCTTAAGTTCTTTCCTGCATCAAAATTGCTTTGTTAAAAGAGATTTTCTCTAAAGTAC
130 TGTCGAATCTTAAGTTCTTTCCT-CATCGAAATTGCTTTGTTAAAAGATATATTCTCTAGAGTAC
*
1504683 TTCCCATAGAGAGTTCTCAACCTTCTTAAATGAATAATGCATTAGTTAGCTAAAGTTTTATGGCT
194 TTCCCATAGAGAGTTCTCAACCTTCTCAAATGAATAATGCATTAGTTAGCTAAAGTTTTATGGCT
* *
1504748 GAATCTAGAAGGCAAACCTATAAAAGTGGTGGTAAAGAGTCTCCAAGACAGAACCCAGGGGTGAT
259 GAATCTGGAAGGCAAACCTATAAAAGTGGTGGTAAGGAGTCTCCAAGACAGAACCCAGGGGTGAT
* *
1504813 TGTATGCCACTATTGCCATAACCGAGCCATATGAAGCGTGATTGTAAGAAGCTATAGAATAAGAA
324 TGTATGTCACTATTGCCATAACCGAGCCATATGAAGCGTGATTGTAGGAAGCTATAGAATAAGAA
* * * *
1504878 TTACGAGACTCAATCTGCATGCGTGGTTACTAGAAATTGTGC
389 TTATGGGACTCAATCTGCATGCGTGGTTACTACAAATGGTGC
* * *
1504920 ATTTTAAAAAATCTATGCTGAACTGAATAAGTTAATGCCTTTTAGTACTGACATAAAGGTACAGT
1 ATTTAAAAAAATCTATGCCGAACTAAATAAGTTAATGCCTTTTAGTACTGACATAAAGGTACAGT
* * *
1504985 AACAACAACAAGAACAAATGGCTATTATGAGTTTTCTAATAGGTTTTCCATCTGACTATGAAACT
66 AACAGCAACAAGAACAAATAGCTATTATGAGTTTTCTAACAGGTTTTCCATCTGACTATGAAACT
1505050 GTCGAATCTTAAGTTCTTTCC-CATATCGAAATTGCTTTGTTAAAAGATATATTCTCTAGAGTAC
131 GTCGAATCTTAAGTTCTTTCCTC--ATCGAAATTGCTTTGTTAAAAGATATATTCTCTAGAGTAC
* * *
1505114 TTCCCATAGAGAGTTCTCAACCTTCTCAAATGAACAGTGCATTAGTTAGCTAAAGTTCTATGGCT
194 TTCCCATAGAGAGTTCTCAACCTTCTCAAATGAATAATGCATTAGTTAGCTAAAGTTTTATGGCT
*
1505179 GAATCTGGAAGGCAAACCTATAAAAGTGGCGGTAAGGAGTCTCCAAGACAGAA-CCAGGGGTGAT
259 GAATCTGGAAGGCAAACCTATAAAAGTGGTGGTAAGGAGTCTCCAAGACAGAACCCAGGGGTGAT
1505243 TGTATGTCACTATTGCCATAACCGAGCCATATGAAGCGTGATTGTAGGAAGCTATAGAATAAGAA
324 TGTATGTCACTATTGCCATAACCGAGCCATATGAAGCGTGATTGTAGGAAGCTATAGAATAAGAA
* *
1505308 TTATAGGACTCAATTTGCATGCGTGGTTACTACAAATGGTGC
389 TTATGGGACTCAATCTGCATGCGTGGTTACTACAAATGGTGC
*
1505350 ATTTTAAAA
1 ATTTAAAAA
1505359 GTTTGTTCTT
Statistics
Matches: 811, Mismatches: 56, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
429 1 0.00
430 119 0.15
431 294 0.36
432 397 0.49
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (430 bp):
ATTTAAAAAAATCTATGCCGAACTAAATAAGTTAATGCCTTTTAGTACTGACATAAAGGTACAGT
AACAGCAACAAGAACAAATAGCTATTATGAGTTTTCTAACAGGTTTTCCATCTGACTATGAAACT
GTCGAATCTTAAGTTCTTTCCTCATCGAAATTGCTTTGTTAAAAGATATATTCTCTAGAGTACTT
CCCATAGAGAGTTCTCAACCTTCTCAAATGAATAATGCATTAGTTAGCTAAAGTTTTATGGCTGA
ATCTGGAAGGCAAACCTATAAAAGTGGTGGTAAGGAGTCTCCAAGACAGAACCCAGGGGTGATTG
TATGTCACTATTGCCATAACCGAGCCATATGAAGCGTGATTGTAGGAAGCTATAGAATAAGAATT
ATGGGACTCAATCTGCATGCGTGGTTACTACAAATGGTGC
Found at i:1508435 original size:79 final size:78
Alignment explanation
Indices: 1508301--1508518 Score: 242
Period size: 79 Copynumber: 2.8 Consensus size: 78
1508291 ACGGGGCTAG
* * * * * *
1508301 AGTATCCCCGATTATGGAAAATCGGTGTTCTAGAAATAAAAAT-TGGGTTGAAGTATCCCCTCGA
1 AGTATCCCTGATTAT-GAAAATTGGTGTTTTAGAAAT-AAAATCGGGGTTGGAGTATCCCCGCGA
1508365 AAATAACAGGGTTGA
64 AAATAACAGGGTTGA
* * *
1508380 AGTATCCCTGATTATAGAAAATTGGTATTTTAAAAATAAAATCGGGGTTGGAGTATCCTCGCGAA
1 AGTATCCCTGATTAT-GAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCGCGAA
* *
1508445 AATAACGGGGTTGG
65 AATAACAGGGTTGA
* * * *
1508459 AGTAT-CTTCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 AGTATCCCT-GATTATGA-AAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1508519 AATTTTGGAA
Statistics
Matches: 117, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
78 9 0.08
79 108 0.92
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (78 bp):
AGTATCCCTGATTATGAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCGCGAAA
ATAACAGGGTTGA
Found at i:1508634 original size:102 final size:102
Alignment explanation
Indices: 1508537--1508722 Score: 291
Period size: 102 Copynumber: 1.8 Consensus size: 102
1508527 AAAACATGTA
* * *
1508537 TTTTAGAAATAAAATCGGGGTTTGAGTATCCCTTCGAAAATAACGGGATTGGAGTATCCCCGATA
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATA
*
1508602 AAATAATAGGGTTGGAGTACCTCCGATTAAACAATAT
66 AAATAACAGGGTTGGAGTACCTCCGATTAAACAATAT
* * * * *
1508639 TTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATG
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATA
1508704 AAATAACAGGGTTGGAGTA
66 AAATAACAGGGTTGGAGTA
1508723 TCCCCAATTA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 75 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (102 bp):
TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATA
AAATAACAGGGTTGGAGTACCTCCGATTAAACAATAT
Found at i:1508695 original size:28 final size:28
Alignment explanation
Indices: 1508654--1508727 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
1508644 GATATAAAGC
1508654 CGGGGTTGGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTATCCCC-CGAGAAATAA
*
1508682 TGGGGTTGGAGTAT-CCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCGA-GAAATAA
*
1508710 CAGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1508728 AATTATGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 3 0.08
27 3 0.08
28 31 0.77
29 3 0.08
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCGAGAAATAA
Found at i:1508857 original size:51 final size:50
Alignment explanation
Indices: 1508714--1508882 Score: 135
Period size: 51 Copynumber: 3.3 Consensus size: 50
1508704 AAATAACAGG
* * *
1508714 GTTGGAGTATCCCCAATTATGAAAAATT--CGTATTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAG-AAAATTGACG--TTTTGGAAATAAAATCGGA
* ** * * * * * *
1508765 GTTGAAGTATCCCCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATT-AAGAAAATTGACGTTTTGGAAATAAAATCGGA
** * *
1508816 GTTGGAGTATCCCCGATTAAGAAAATTTGACGTTTTGGAAATGGAACCGGG
1 GTTGGAGTATCCCCGATTAAGAAAA-TTGACGTTTTGGAAATAAAATCGGA
1508867 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
1508883 GATAAAAAAT
Statistics
Matches: 90, Mismatches: 24, Indels: 8
0.74 0.20 0.07
Matches are distributed among these distances:
50 4 0.04
51 84 0.93
52 1 0.01
53 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTAAGAAAATTGACGTTTTGGAAATAAAATCGGA
Found at i:1516876 original size:32 final size:32
Alignment explanation
Indices: 1516821--1516883 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
1516811 AATTCGATGG
*
1516821 AATAAAATAGAGATAGAATGGAATAATTATTC
1 AATAAAATAGAGATAGAATGGAATAAATATTC
1516853 AATAAAATAGAG-TAGAGGA-GGAATAAATATT
1 AATAAAATAGAGATAGA--ATGGAATAAATATT
1516884 AAATTATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 4 0.14
32 23 0.82
33 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.19, T:0.25
Consensus pattern (32 bp):
AATAAAATAGAGATAGAATGGAATAAATATTC
Found at i:1517081 original size:47 final size:47
Alignment explanation
Indices: 1516982--1517090 Score: 125
Period size: 46 Copynumber: 2.4 Consensus size: 47
1516972 TCTTAGGAAT
* *
1516982 ATATATAAAAATATT-ATTTTACTCTTAAATTAAATTAAATAATTGA
1 ATATATAAAAATATTAATTTAACTCTAAAATTAAATTAAATAATTGA
* * ** *
1517028 ACATATAAAAATATTAATTTAATTCTAAAATTAAATT-TTTAATTTTA
1 ATATATAAAAATATTAATTTAACTCTAAAATTAAATTAAATAA-TTGA
1517075 ATATAT-AAAATATTAA
1 ATATATAAAAATATTAA
1517091 CTTATTTTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 27 0.51
47 26 0.49
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (47 bp):
ATATATAAAAATATTAATTTAACTCTAAAATTAAATTAAATAATTGA
Found at i:1517149 original size:23 final size:21
Alignment explanation
Indices: 1517123--1517165 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1517113 ATGATATTTA
*
1517123 AATATACTATATATTCTAAAATT
1 AATATA-TACATATT-TAAAATT
1517146 AATATATACATATTTAAAAT
1 AATATATACATATTTAAAAT
1517166 ATATTCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 7 0.37
23 6 0.32
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
AATATATACATATTTAAAATT
Found at i:1517198 original size:39 final size:38
Alignment explanation
Indices: 1517111--1517199 Score: 90
Period size: 40 Copynumber: 2.3 Consensus size: 38
1517101 ATTTCTTATA
*
1517111 AAATGATATTTAAATATACTATATATTCTAAAATTAAT
1 AAATCATATTTAAATATACTATATATTCTAAAATTAAT
* * * *
1517149 ATATACATATTTAAAATATATTCATATATT-TATATTTAAT
1 AAAT-CATATTT-AAATATACT-ATATATTCTAAAATTAAT
*
1517189 AAATTATATTT
1 AAATCATATTT
1517200 TATAAAAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
38 3 0.07
39 12 0.29
40 19 0.46
41 7 0.17
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (38 bp):
AAATCATATTTAAATATACTATATATTCTAAAATTAAT
Found at i:1517872 original size:15 final size:15
Alignment explanation
Indices: 1517845--1517877 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1517835 TTCATTAAAT
1517845 AAATTAGAAGAAATAA
1 AAATTAGAAGAAA-AA
1517861 AAATTA-AAGAAAAA
1 AAATTAGAAGAAAAA
1517875 AAA
1 AAA
1517878 GAGAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 6 0.35
16 6 0.35
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (15 bp):
AAATTAGAAGAAAAA
Found at i:1520625 original size:22 final size:20
Alignment explanation
Indices: 1520582--1520632 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
1520572 CTTAATTTAA
1520582 TTAATAAAATTATTTAAAATT
1 TTAA-AAAATTATTTAAAATT
*
1520603 TTAAAAAATATATATTAACATT
1 TTAAAAAAT-TAT-TTAAAATT
1520625 TATAAAAA
1 T-TAAAAA
1520633 TAATTATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.19
21 7 0.27
22 8 0.31
23 6 0.23
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAAAATTATTTAAAATT
Found at i:1532214 original size:2 final size:2
Alignment explanation
Indices: 1532207--1532233 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1532197 CTCTTTTACT
1532207 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1532234 ATGATCACTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1537749 original size:332 final size:332
Alignment explanation
Indices: 1537211--1538443 Score: 1422
Period size: 332 Copynumber: 3.7 Consensus size: 332
1537201 AAAATTTCTC
* * * * * * * *
1537211 AAATATTATTATTTA-ATTCTCATTAAATCAGTTTTGGAAAATTTTCTTTATTTT-TGGAGTTAT
1 AAATATCATTATTTATA-TCACATTAAATCAGTTTT-TAAAAATTCCTTCATTTTCTTGAGTTTT
** * ** * *
1537274 TG-ATTTTCTT-CTAGAAATCTTCTTA-TTTTCAAATTACGAAATTTTCTATTTCGTAAATATTT
64 TGAATTTT-TTCCTTTAAAT-TTCTTATTTTTGAAAAAACG-AATTTTCTACTCCGTAAAT-TTT
** * * **
1537336 TTGAGGGGATTTTT-TTTATTTTTA-ATTTTAAAATTCATCAAATATCATTATTTATATCGCAGC
125 TTGAGGGGATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTATTTATATCACATT
* * * *
1537399 AAATCAGTTTTTAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTTTAATTTCTCATG
190 AAATCAGTTTTCAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTTTAAATTCTCTTT
* * * ** * * *
1537464 TTTGCGAAAAACGAAGTTATCTACTCCGTAAATTTTTTTG-GGGCGATTTTTCCTGGTTTTTATT
255 TTTTCGAAAAACGAAGTTTTTTACTATGTAAAATTTTTCGAGGG-GATTTTTCTTGGTTTTTATT
1537528 TTTTAAAATTCATA
319 TTTTAAAATTCATA
* * *
1537542 AAATATCATTATTTATATCACATTAAATCAATTTTTAAAAATTCATTAATTTTCTTGAGTTTTTG
1 AAATATCATTATTTATATCACATTAAATCAGTTTTTAAAAATTCCTTCATTTTCTTGAGTTTTTG
* * *
1537607 AATTTTTTCCTTGAAATTTCTTTTTTTTGAAAAAATGAATTTTCTACTCCGTAAATTTTTTGAGG
66 AATTTTTTCCTTTAAATTTCTTATTTTTGAAAAAACGAATTTTCTACTCCGTAAATTTTTTGAGG
*
1537672 GGATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTATTTATATCACATTAAATTA
131 GGATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTATTTATATCACATTAAATCA
* * * * *
1537737 TTTTTCAAAAATTTCTTCATTTTCTTGAGTTTTTAGATTTTTTCCTTAAAATTCTCTTTTTTTCT
196 GTTTTCAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTTTAAATTCTCTTTTTTTCG
* * *
1537802 AAAAATGAAGTTTTTTACTATGTAAAATTTTTCGCGGGGA-TTTTCGTTGGTTTTTATTTTTTTA
261 AAAAACGAAGTTTTTTACTATGTAAAATTTTTCGAGGGGATTTTTC-TTGGTTTTTATTTTTTAA
1537866 AATTCATA
325 AATTCATA
* * * * *
1537874 AAATGTCATTATTTATATCACATTAAATCAGCTTTCAAAAATTCCTTCATTTACTAGAGTTTTTG
1 AAATATCATTATTTATATCACATTAAATCAGTTTTTAAAAATTCCTTCATTTTCTTGAGTTTTTG
* * * ** *
1537939 GATTTTTT-CTTTAAATTCTCCTATTTTTG-AAAAACGAAATTTTCTATTCATTAAATTTTTTCA
66 AATTTTTTCCTTTAAATT-TCTTATTTTTGAAAAAACG-AATTTTCTACTCCGTAAATTTTTTGA
* * * * *
1538002 GGGGATTTTTCTTAGTCTTTATTTTTTAAAATTTATCAAATATCAATATTTATATCAAATTAAAT
129 GGGGATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTATTTATATCACATTAAAT
* *
1538067 CCGTTTTCAAAAATACCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTTTAAATTCT-TTTTTTT
194 CAGTTTTCAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTTTAAATTCTCTTTTTTT
* * * *
1538131 TGAAAAAC-AGAGTTTTTTTCTTTGTAAAATTTTTCGAGGGGATTTTTCTTAGTTTTTATTTTTT
259 CGAAAAACGA-AGTTTTTTACTATGTAAAATTTTTCGAGGGGATTTTTCTTGGTTTTTATTTTTT
1538195 AAAATTCATA
323 AAAATTCATA
* * *
1538205 AAATATTATTATTTATATCACAATAAATTAGTTTTTAAAAATTCCTTCATTTTCTTGAGTTTTTG
1 AAATATCATTATTTATATCACATTAAATCAGTTTTTAAAAATTCCTTCATTTTCTTGAGTTTTT-
* * * *
1538270 GATTTTTTTCTTTTAAA-TTCTACTATTTTTG-AAAAACGGAGTTTTTTACTCCGTAAATTTTTT
65 GAATTTTTTCCTTTAAATTTCT--TATTTTTGAAAAAAC-GAATTTTCTACTCCGTAAATTTTTT
* * *
1538333 G-GGAAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCATTATTTAT-TCCATATT
127 GAGG-GGATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTATTTATAT-CACATT
** * * *
1538396 AAATCAGTTTTCAAAAATTAATTTATTTTCATGAG-TTTTGAATTTTTT
190 AAATCAGTTTTCAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTT
1538444 TTTGAAATCC
Statistics
Matches: 769, Mismatches: 113, Indels: 39
0.83 0.12 0.04
Matches are distributed among these distances:
330 31 0.04
331 213 0.28
332 403 0.52
333 121 0.16
334 1 0.00
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (332 bp):
AAATATCATTATTTATATCACATTAAATCAGTTTTTAAAAATTCCTTCATTTTCTTGAGTTTTTG
AATTTTTTCCTTTAAATTTCTTATTTTTGAAAAAACGAATTTTCTACTCCGTAAATTTTTTGAGG
GGATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTATTTATATCACATTAAATCA
GTTTTCAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTTTAAATTCTCTTTTTTTCG
AAAAACGAAGTTTTTTACTATGTAAAATTTTTCGAGGGGATTTTTCTTGGTTTTTATTTTTTAAA
ATTCATA
Found at i:1538221 original size:166 final size:167
Alignment explanation
Indices: 1537325--1538443 Score: 1320
Period size: 167 Copynumber: 6.7 Consensus size: 167
1537315 TTTTCTATTT
** *
1537325 CGTAAATATTTTT-GAGGGGATTTTT-TTTATTTTTA-ATTTTAAAATTCATCAAATATCATTAT
1 CGTAAA-ATTTTTCGAGGGGATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTAT
* ** *
1537387 TTATATCGCAGCAAATCAGTTTTTAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTT
65 TTATATCACATTAAATCAGTTTTCAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTT
* * * ** * *
1537452 TAATTTCTCATGTTTGCGAAAAACGAAGTTATCTACTC
130 TAAATTCTCTTTTTTTTGAAAAACGAAGTTTTTTACTC
* * * *
1537490 CGTAAATTTTTTTG-GGGCGATTTTTCCTGGTTTTTATTTTTTAAAATTCATAAAATATCATTAT
1 CGTAAAATTTTTCGAGGG-GATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTAT
* * * * *
1537554 TTATATCACATTAAATCAATTTTTAAAAATTCATTAATTTTCTTGAGTTTTTGAATTTTTTCCTT
65 TTATATCACATTAAATCAGTTTTCAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTT
* * *
1537619 GAAATT-TCTTTTTTTTGAAAAAATGAA-TTTTCTACTC
130 TAAATTCTCTTTTTTTTG-AAAAACGAAGTTTTTTACTC
*
1537656 CGT-AAATTTTTTGAGGGGATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTATT
1 CGTAAAATTTTTCGAGGGGATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTATT
* * * * *
1537720 TATATCACATTAAATTATTTTTCAAAAATTTCTTCATTTTCTTGAGTTTTTAGATTTTTTCCTTA
66 TATATCACATTAAATCAGTTTTCAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTTT
* *
1537785 AAATTCTCTTTTTTTCT-AAAAATGAAGTTTTTTACTA
131 AAATTCTCTTTTTTT-TGAAAAACGAAGTTTTTTACTC
* * * * *
1537822 TGTAAAATTTTTCGCGGGGA-TTTTCGTTGGTTTTTATTTTTTTAAATTCATAAAATGTCATTAT
1 CGTAAAATTTTTCGAGGGGATTTTTC-TTGGTTTTTATTTTTTAAAATTCATCAAATATCATTAT
* * *
1537886 TTATATCACATTAAATCAGCTTTCAAAAATTCCTTCATTTACTAGAGTTTTTGGATTTTTT-CTT
65 TTATATCACATTAAATCAGTTTTCAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTT
* * * * *
1537950 TAAATTCTCCTATTTTTGAAAAACGAAATTTTCTATTC
130 TAAATTCTCTTTTTTTTGAAAAACGAAGTTTTTTACTC
** * * * * *
1537988 ATTAAATTTTTTC-AGGGGATTTTTCTTAGTCTTTATTTTTTAAAATTTATCAAATATCAATATT
1 CGTAAAATTTTTCGAGGGGATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTATT
* * *
1538052 TATATCAAATTAAATCCGTTTTCAAAAATACCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTTT
66 TATATCACATTAAATCAGTTTTCAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTTT
* *
1538117 AAATTCT-TTTTTTTTGAAAAAC-AGAGTTTTTTTCTT
131 AAATTCTCTTTTTTTTGAAAAACGA-AGTTTTTTACTC
* * * *
1538153 TGTAAAATTTTTCGAGGGGATTTTTCTTAGTTTTTATTTTTTAAAATTCATAAAATATTATTATT
1 CGTAAAATTTTTCGAGGGGATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTATT
* * * *
1538218 TATATCACAATAAATTAGTTTTTAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTTTCTTT
66 TATATCACATTAAATCAGTTTTCAAAAATTCCTTCATTTTCTTGAGTTTTTGGA-TTTTTTCCTT
* *
1538283 TAAATTCTAC-TATTTTTGAAAAACGGAGTTTTTTACTC
130 TAAATTCT-CTTTTTTTTGAAAAACGAAGTTTTTTACTC
* * *
1538321 CGT-AAATTTTTTG-GGAAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCATTAT
1 CGTAAAATTTTTCGAGG-GGATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTAT
* ** * * *
1538384 TTAT-TCCATATTAAATCAGTTTTCAAAAATTAATTTATTTTCATGAG-TTTTGAATTTTTT
65 TTATAT-CACATTAAATCAGTTTTCAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTT
1538444 TTTGAAATCC
Statistics
Matches: 817, Mismatches: 115, Indels: 44
0.84 0.12 0.05
Matches are distributed among these distances:
164 9 0.01
165 266 0.33
166 213 0.26
167 304 0.37
168 25 0.03
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (167 bp):
CGTAAAATTTTTCGAGGGGATTTTTCTTGGTTTTTATTTTTTAAAATTCATCAAATATCATTATT
TATATCACATTAAATCAGTTTTCAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTTCCTTT
AAATTCTCTTTTTTTTGAAAAACGAAGTTTTTTACTC
Found at i:1538689 original size:2 final size:2
Alignment explanation
Indices: 1538682--1538781 Score: 200
Period size: 2 Copynumber: 50.0 Consensus size: 2
1538672 AAACCAATTT
1538682 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1538724 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1538766 TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC
1538782 AGTATCTCAT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 98 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1544722 original size:2 final size:2
Alignment explanation
Indices: 1544715--1544739 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1544705 AATATTTGGT
1544715 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 T
1544740 GTAGTAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1551693 original size:13 final size:13
Alignment explanation
Indices: 1551675--1551701 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1551665 ACATTATGCT
1551675 TTGTATCGATACA
1 TTGTATCGATACA
1551688 TTGTATCGATACA
1 TTGTATCGATACA
1551701 T
1 T
1551702 GCTTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1554250 original size:2 final size:2
Alignment explanation
Indices: 1554243--1554271 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1554233 AATATTTGGT
1554243 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
1554272 GTAGTAGGAG
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:1554694 original size:2 final size:2
Alignment explanation
Indices: 1554687--1554717 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1554677 TGTATTCAAG
1554687 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1554718 TTCTTTGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1561237 original size:13 final size:13
Alignment explanation
Indices: 1561219--1561245 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1561209 ACATTATGCT
1561219 TTGTATCGATACA
1 TTGTATCGATACA
1561232 TTGTATCGATACA
1 TTGTATCGATACA
1561245 T
1 T
1561246 GCTTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1563796 original size:2 final size:2
Alignment explanation
Indices: 1563789--1563813 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1563779 AATATTTGGT
1563789 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 T
1563814 GTAGTAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1564238 original size:2 final size:2
Alignment explanation
Indices: 1564231--1564271 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1564221 TGTATTCAAG
1564231 TA 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 TA T
1564272 TTCTTTGGTT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1570783 original size:13 final size:13
Alignment explanation
Indices: 1570765--1570791 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1570755 ACATTATGCT
1570765 TTGTATCGATACA
1 TTGTATCGATACA
1570778 TTGTATCGATACA
1 TTGTATCGATACA
1570791 T
1 T
1570792 GCTTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1573778 original size:2 final size:2
Alignment explanation
Indices: 1573771--1573809 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1573761 TGTATTCAAG
1573771 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
1573810 TTCTTTGGTT
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:1580304 original size:13 final size:13
Alignment explanation
Indices: 1580283--1580314 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1580273 TCGATACATT
*
1580283 ATACTTTGTATCG
1 ATACATTGTATCG
1580296 ATACATTGTATCG
1 ATACATTGTATCG
1580309 ATACAT
1 ATACAT
1580315 GCTTATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (13 bp):
ATACATTGTATCG
Found at i:1581574 original size:16 final size:16
Alignment explanation
Indices: 1581533--1581574 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1581523 AAATGAATCA
1581533 AAACCAAAATAACTTG
1 AAACCAAAATAACTTG
*
1581549 -TACTCAAAATAACTTG
1 AAAC-CAAAATAACTTG
*
1581565 AAACCGAAAT
1 AAACCAAAAT
1581575 CACTCGAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
15 2 0.10
16 17 0.81
17 2 0.10
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.21
Consensus pattern (16 bp):
AAACCAAAATAACTTG
Found at i:1584772 original size:3 final size:3
Alignment explanation
Indices: 1584764--1584792 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1584754 AAAAATTTCA
1584764 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1584793 AAGAATCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1585535 original size:24 final size:24
Alignment explanation
Indices: 1585506--1585552 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1585496 CCATTTGAAA
1585506 ATTATATATTT-ATATTATAATTAC
1 ATTATAT-TTTAATATTATAATTAC
1585530 ATTATATTTTAATATTATAATTA
1 ATTATATTTTAATATTATAATTA
1585553 TATTTAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTATATTTTAATATTATAATTAC
Found at i:1586030 original size:38 final size:38
Alignment explanation
Indices: 1585988--1586076 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
1585978 GTGATCGTAC
* * * *
1585988 TTTTAAATATAAAT-TTCATTTAAATATTTTTTTTTAA
1 TTTTAATTATAAATATTAATATAAATATTTTTATTTAA
**
1586025 TTTTTAATTATATTTATTAATATAAATATTTTTATTTAA
1 -TTTTAATTATAAATATTAATATAAATATTTTTATTTAA
*
1586064 ATTTAATTATAAA
1 TTTTAATTATAAA
1586077 AAATAAATAT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
38 21 0.51
39 20 0.49
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (38 bp):
TTTTAATTATAAATATTAATATAAATATTTTTATTTAA
Found at i:1586086 original size:39 final size:39
Alignment explanation
Indices: 1586008--1586092 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 39
1585998 AAATTTCATT
* * *** *
1586008 TAAATATTTTTTTTTAATTTTTAATTATATTTATTAATA
1 TAAATATTTTTATTTAATATTTAATTATAAAAATAAATA
1586047 TAAATATTTTTATTTAA-ATTTAATTATAAAAAATAAATA
1 TAAATATTTTTATTTAATATTTAATTAT-AAAAATAAATA
*
1586086 TTAATAT
1 TAAATAT
1586093 AAATATAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 9 0.24
39 29 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (39 bp):
TAAATATTTTTATTTAATATTTAATTATAAAAATAAATA
Found at i:1586612 original size:38 final size:40
Alignment explanation
Indices: 1586563--1586641 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
1586553 TTAAGATGGC
*
1586563 ATTTAAGAAAAA-AATATAATT-AATAAATTATTTTT-TAA
1 ATTTAAGAAAAATAATAT-ATTAAATAAATAATTTTTATAA
* *
1586601 ATTTAATAAAAATAATATATTAAATATATAATTTTTATAA
1 ATTTAAGAAAAATAATATATTAAATAAATAATTTTTATAA
1586641 A
1 A
1586642 GTAATAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 14 0.40
39 17 0.49
40 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (40 bp):
ATTTAAGAAAAATAATATATTAAATAAATAATTTTTATAA
Found at i:1587374 original size:21 final size:23
Alignment explanation
Indices: 1587349--1587402 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 23
1587339 ATTATAATTT
* *
1587349 TATATTATTTTAAAAAAT-TAAA
1 TATATTAATATAAAAAATATAAA
1587371 -ATA-TAATATAAAAAATATAAA
1 TATATTAATATAAAAAATATAAA
*
1587392 TATATAAATAT
1 TATATTAATAT
1587403 TTTAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 11 0.42
21 7 0.27
22 3 0.12
23 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TATATTAATATAAAAAATATAAA
Found at i:1587382 original size:20 final size:22
Alignment explanation
Indices: 1587359--1587398 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1587349 TATATTATTT
1587359 TAAAAAAT-TAAA-ATATAATA
1 TAAAAAATATAAATATATAATA
1587379 TAAAAAATATAAATATATAA
1 TAAAAAATATAAATATATAA
1587399 ATATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 4 0.22
22 6 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAAAATATAAATATATAATA
Found at i:1588276 original size:19 final size:20
Alignment explanation
Indices: 1588243--1588293 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
1588233 TTCTAGAGAT
*
1588243 TCTTAAATTTATAATTTATAA
1 TCTT-AATTTTTAATTTATAA
*
1588264 T-TTAATTTTTAATTTTTAA
1 TCTTAATTTTTAATTTATAA
*
1588283 TCTTTATTTTT
1 TCTTAATTTTT
1588294 TTTATTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 15 0.58
20 10 0.38
21 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
TCTTAATTTTTAATTTATAA
Found at i:1598781 original size:27 final size:29
Alignment explanation
Indices: 1598713--1598781 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 29
1598703 ACCATAACCA
*
1598713 ATTCATGTAAATAAAATCACTATTTTAACTT
1 ATTCATATAAATAAAATCACTATTTTAA--T
*
1598744 ATTCATGTAAATAAAATCACTA-TTTAA-
1 ATTCATATAAATAAAATCACTATTTTAAT
*
1598771 ATTCGTATAAA
1 ATTCATATAAA
1598782 CTCATCTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 9 0.25
30 5 0.14
31 22 0.61
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (29 bp):
ATTCATATAAATAAAATCACTATTTTAAT
Found at i:1608284 original size:31 final size:31
Alignment explanation
Indices: 1608246--1608305 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1608236 CTACCGTTAT
**
1608246 TGACTAAAATTCTGTCAACTTGATAATTCTC
1 TGACTAAAATTCTGTCAACTCAATAATTCTC
*
1608277 TGACTAAAATTTTGTCAACTCAATAATTC
1 TGACTAAAATTCTGTCAACTCAATAATTC
1608306 CCCACAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.38
Consensus pattern (31 bp):
TGACTAAAATTCTGTCAACTCAATAATTCTC
Found at i:1610679 original size:79 final size:79
Alignment explanation
Indices: 1610538--1610714 Score: 216
Period size: 79 Copynumber: 2.2 Consensus size: 79
1610528 TTTAGAGATA
* * * *
1610538 AAAATGGGGTTGGAGTATCCCCTCAGAAATAATGGCGTTAGAGTATCCCCGATGCTAGAAAATTA
1 AAAATGGGGTTGGAGTATCCCCTCAGAAATAATGGCGTTAAAGTATCCCCAATGCTAAAAAATCA
1610603 GTGTTTT-GAAAAT
66 GTGTTTTAGAAAAT
* *
1610616 AAAATCGGGGTTGGAGTATCCCCTC-GAAAATAATGGGGTTAAAGTATCCCTAATTG-TAAAAAA
1 AAAAT-GGGGTTGGAGTATCCCCTCAG-AAATAATGGCGTTAAAGTATCCCCAA-TGCTAAAAAA
*
1610679 TCAGTGTTTTAGAAATT
63 TCAGTGTTTTAGAAAAT
* * *
1610696 AAACTGGGTTTAGAGTATC
1 AAAATGGGGTTGGAGTATC
1610715 TCCGATTGTG
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
78 6 0.07
79 68 0.80
80 11 0.13
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (79 bp):
AAAATGGGGTTGGAGTATCCCCTCAGAAATAATGGCGTTAAAGTATCCCCAATGCTAAAAAATCA
GTGTTTTAGAAAAT
Found at i:1610729 original size:51 final size:51
Alignment explanation
Indices: 1610649--1610765 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
1610639 TCGAAAATAA
* * *
1610649 TGGGGTTAAAGTATC-CCTAATTGTAAAAAATCAGTGTTTTAGAAATTAAAC
1 TGGGGTTAGAGTATCTCC-GATTGTAAAAAATCAGTGTTTTAGAAATAAAAC
* * *
1610700 TGGGTTTAGAGTATCTCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAAC
1 TGGGGTTAGAGTATCTCCGATTGTAAAAAATCAGTGTTTTAGAAATAAAAC
*
1610751 TGGGGTTGGAGTATC
1 TGGGGTTAGAGTATC
1610766 CCCTCAGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 55 0.96
52 2 0.04
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (51 bp):
TGGGGTTAGAGTATCTCCGATTGTAAAAAATCAGTGTTTTAGAAATAAAAC
Found at i:1610791 original size:79 final size:79
Alignment explanation
Indices: 1610708--1611065 Score: 357
Period size: 79 Copynumber: 4.5 Consensus size: 79
1610698 ACTGGGTTTA
* * *
1610708 GAGTATCTCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCAG
1 GAGTATCCCCGATGGTGAAAAA-TAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAG
1610773 -AAATAACGGGGTTG
65 AAAATAACGGGGTTG
* * * * ***
1610787 GAGTATCCCCGATGGTAGAAAATTGGTGTTTTAAAAATAAAACGGGGGTTGGAGTATCATTTC-G
1 GAGTATCCCCGATGGT-GAAAAATAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAG
1610851 AAAATAACGGGGTTG
65 AAAATAACGGGGTTG
* * ** * * * * **
1610866 GAATATCACCGATAATGAAAAACCAATGTTTTGGAAATAAAACCGGGGTTAGAGTGA--CCCTTT
1 GAGTATCCCCGATGGTGAAAAA-TAGTGTTTTAGAAATAAAACCGGGGTTGGAGT-ATCCCCTCA
*
1610929 GAAAATAACAGGGTTG
64 GAAAATAACGGGGTTG
* * * * * * *
1610945 GAGTATCCTCGATTGTGAAAAATCGATGTTTTAGAAATAAAACCGGGATTGAAGTATCCCTTTAG
1 GAGTATCCCCGATGGTGAAAAATAG-TGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAG
1611010 -AAATAACGGGGTTG
65 AAAATAACGGGGTTG
* *
1611024 GAGTATCCCCGATGGTGGAAAATCGTTGTTTTAGAAATAAAA
1 GAGTATCCCCGATGGTGAAAAATAG-TGTTTTAGAAATAAAA
1611066 ACATCAATAA
Statistics
Matches: 226, Mismatches: 45, Indels: 16
0.79 0.16 0.06
Matches are distributed among these distances:
78 8 0.04
79 207 0.92
80 11 0.05
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (79 bp):
GAGTATCCCCGATGGTGAAAAATAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGA
AAATAACGGGGTTG
Found at i:1610809 original size:130 final size:130
Alignment explanation
Indices: 1610574--1610844 Score: 327
Period size: 130 Copynumber: 2.1 Consensus size: 130
1610564 AAATAATGGC
1610574 GTTAGAGTATCCCCGATGCTAGAAAATTAGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCC
1 GTTAGAGTATCCCCGATGCTAGAAAATTAGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCC
* * * * * *
1610639 TCGAAAATAATGGGGTTAAAGTATCCCTAATTGTAAAAAATCAGTGTTTTAGAAATTAAACTGGG
66 TCGAAAATAACGGGGTTAAAGTATCCCCAATGGTAAAAAATCAGTGTTTTAAAAATAAAACGGGG
* *
1610704 TTTAGAGTATCTCCGATTG-T-GAAAAATTAGTGTTTT-AGAAATAAAA-CTGGGGTTGGAGTAT
1 GTTAGAGTATCCCCGA-TGCTAG-AAAATTAGTGTTTTGA-AAATAAAATC-GGGGTTGGAGTAT
** * * **
1610765 CCCCTC-AGAAATAACGGGGTTGGAGTATCCCCGATGGTAGAAAATTGGTGTTTTAAAAATAAAA
62 CCCCTCGA-AAATAACGGGGTTAAAGTATCCCCAATGGTAAAAAATCAGTGTTTTAAAAATAAAA
1610829 CGGGG
126 CGGGG
*
1610834 GTTGGAGTATC
1 GTTAGAGTATC
1610845 ATTTCGAAAA
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
129 4 0.03
130 114 0.95
131 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (130 bp):
GTTAGAGTATCCCCGATGCTAGAAAATTAGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCC
TCGAAAATAACGGGGTTAAAGTATCCCCAATGGTAAAAAATCAGTGTTTTAAAAATAAAACGGGG
Found at i:1610920 original size:209 final size:209
Alignment explanation
Indices: 1610513--1610920 Score: 538
Period size: 209 Copynumber: 1.9 Consensus size: 209
1610503 CATCCCCCGA
* *
1610513 TGAAAAATTTAATATTTTAGAGATAAAAATGGGGTTGGAGTATCCCCTCAGAAATAATGGCGTTA
1 TGAAAAATTTAATATTTTAGAAATAAAAATGGGGTTGGAGTATCCCCTCAGAAATAACGGCGTTA
* *
1610578 GAGTATCCCCGATGCTAGAAAATTAGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
66 GAGTATCCCCGATGCTAGAAAATTAGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCACCTCGA
* * * * * *
1610643 AAATAATGGGGTTAAAGTATCCCTAATTGTAAAAAATCAGTGTTTTAGAAATTAAACTGGGTTTA
131 AAATAACGGGGTTAAAGTATCCCTAATTG-AAAAAACCAATGTTTTAGAAATAAAACCGGGGTTA
1610708 GAGTATCTCCGATTG
195 GAGTATCTCCGATTG
* * * * *
1610723 TGAAAAA-TTAGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
1 TGAAAAATTTAATATTTTAGAAATAAAAATGGGGTTGGAGTATCCCCTCAGAAATAACGGCGTTA
* * **
1610787 GAGTATCCCCGATGGTAGAAAATTGGTGTTTTAAAAATAAAA-CGGGGGTTGGAGTATCATTTCG
66 GAGTATCCCCGATGCTAGAAAATTAGTGTTTTAAAAATAAAATC-GGGGTTGGAGTATCACCTCG
* *
1610851 AAAATAACGGGGTTGGAA-TATCACCGATAA-TG-AAAAACCAATGTTTTGGAAATAAAACCGGG
130 AAAATAACGGGGTT-AAAGTATC-CC--TAATTGAAAAAACCAATGTTTTAGAAATAAAACCGGG
1610913 GTTAGAGT
191 GTTAGAGT
1610921 GACCCTTTGA
Statistics
Matches: 172, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
208 1 0.01
209 155 0.90
210 11 0.06
211 2 0.01
212 3 0.02
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (209 bp):
TGAAAAATTTAATATTTTAGAAATAAAAATGGGGTTGGAGTATCCCCTCAGAAATAACGGCGTTA
GAGTATCCCCGATGCTAGAAAATTAGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCACCTCGA
AAATAACGGGGTTAAAGTATCCCTAATTGAAAAAACCAATGTTTTAGAAATAAAACCGGGGTTAG
AGTATCTCCGATTG
Found at i:1611029 original size:28 final size:30
Alignment explanation
Indices: 1610974--1611032 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
1610964 AAATCGATGT
1610974 TTTAGAAATAAAACCGGGATTGAAGTATCCC
1 TTTAGAAAT-AAACCGGGATTGAAGTATCCC
* *
1611005 TTTAGAAAT-AA-CGGGGTTGGAGTATCCC
1 TTTAGAAATAAACCGGGATTGAAGTATCCC
1611033 CGATGGTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 15 0.58
29 2 0.08
31 9 0.35
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (30 bp):
TTTAGAAATAAACCGGGATTGAAGTATCCC
Found at i:1614555 original size:24 final size:25
Alignment explanation
Indices: 1614510--1614557 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
1614500 TAGATTTTGA
1614510 TATGTTCTTATATTTATATTATGTT
1 TATGTTCTTATATTTATATTATGTT
1614535 TATGTTACTT-TA-TTATATTATGT
1 TATGTT-CTTATATTTATATTATGT
1614558 CATGTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.50
25 8 0.36
26 3 0.14
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.62
Consensus pattern (25 bp):
TATGTTCTTATATTTATATTATGTT
Found at i:1617957 original size:48 final size:47
Alignment explanation
Indices: 1617894--1619468 Score: 1367
Period size: 48 Copynumber: 32.7 Consensus size: 47
1617884 CCTCCACCTG
* * * * *
1617894 ACTATTACAATTCACCACCTCCACCATCTCC-ATCACCACCGCCTCCTT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTATC-CC-CCACCTCCAT
* * * * * * *
1617942 ACCATTACAAGTCACCACCACCACCTTCACCAAGTCCACCACCACCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* * *
1617990 ACTATTACAAGTCTCCACCTCCACCTCCACCATT-TCCTAGTCCCCCACCACCGT
1 ACTACTACAAG--T-CA---CCACCTCCACC-TTCTCCTA-TCCCCCACCTCCAT
* * * *
1618044 ACTACTACAAATCACCACCTCCACCATCTCCT-TCACCACCTCCTCCTT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTATC-CC-CCACCTCCAT
* * * * * *
1618092 ACTATTACAAAGTCACCACCACCAGCTTCACCTAGTCCTCCA---GCAT
1 ACTACTAC-AAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* * *
1618138 ACTACTACAAATCACCACCTCCACCATCTCCTAGTCCCCCACCACCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* * * *
1618186 ACTCCTACAAGTCACCACCCCCACCATCT-CTATCACCACCACCTCCTT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTATC-CC-CCACCTCCAT
* * * * * *
1618234 ATTATTACAAGTCGCCACCACCACCTTCACCTAGTCCCCCCACCACCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-T-CCCCCACCTCCAT
* * *
1618283 ACTACTACAAGTCACCACCTCCACCCTCTCCTAGTCCCCCACCGCCTT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
*
1618331 ATTACTACAAGTCACCACCTCCACCTTCTCCTAGTCCCCCACCTCCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* * *
1618379 ACTACTACAAGTCACCACCCCCACCGTCTCC-ATCACCACCACCTCCTT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTATC-CC-CCACCTCCAT
* * * * * *
1618427 ATTATTACAAGTCCCCACCTCCACCTTCACCTAGCCCCCCACCACCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* * * *
1618475 ACTACAACAAGTCACCACCTCCACCCTCTACTAATCCCCCACCGCCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCT-ATCCCCCACCTCCAT
* * *
1618523 ACTACTACAAGTCACCACCTCCACCCTCTCCTAGTCCCCCACCACCTT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
*
1618571 ATTACTACAAGTCACCACCTCCACCTTCTCCTAGTCCCCCACCTCCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* * *
1618619 ACTACTACAAGTCACCACCCCCACCGTCTCC-ATCACCACCACCTCCTT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTATC-CC-CCACCTCCAT
* * * * * * * *
1618667 ATTATTACAATTCGCCACCACCACCTTCACCTAGCCCCCCACCACCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* *
1618715 ACTACTACAAGTCACCACCTCCACCCTCTCCTAGTCCCCCACCACCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* *
1618763 ACTACTATATGTCACCACCTCCACCTTCTCCTAGTCCCCCACCTCCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* * * *
1618811 ACTACTACAAGTCACCACCCCCACCGTCTCC-ATCGCAACCACCTCCTT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTATC-C-CCCACCTCCAT
* * * * * * *
1618859 ATTATTACAAGTCGCCACCACCACCTTCACCTAGCCCCCCACCGCCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* *
1618907 ACTACTACAAGTCACCACCTCCACCCTCTCCTAGTCCCCCACCACCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* * * * *
1618955 ACTACTATAAGTCACCACCTTCACCCTCTCCTAGTCCCCCACCGCCTT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* *
1619003 ATTACTACAAGTCACCACCTCCACCTTCTCCTAGCCCCCCTACCTCCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCC-ACCTCCAT
* * *
1619052 ACTACTACAAGTCACCACCCCCCCACCGTCTCC-ATCACCACCACCTCCTT
1 ACTACTACAAGTCACCA--CCTCCACCTTCTCCTATC-CC-CCACCTCCAT
* * * * * *
1619102 ATTATTACAAGTCCCCACCTCCACCTTCACCTAGCCCCCCACCGCCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* *
1619150 ACTACTACAAGTCACCACCTCCACCCTCTCCTAGTCCCCCACCGCCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* * *
1619198 ACTACTATAAGTCACCACCTCCACCCTCTACTAGTCCCCCACCTCCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* * *
1619246 ACTACTACAAGTCACCACCCCCACCGTCTCC-ATCACCACCACCTCCTT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTATC-CC-CCACCTCCAT
* * * * * ** *
1619294 ATTATTACAAGTCCCCACCTACACCTTCACCTGGCCCCTCACCACCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTATCCCC-CACCTCCAT
* * * *
1619342 ACTACTATAAGTCACCACCCCCACCATCTCC-ATCACCGCCACCTCCTT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTATC-CC-CCACCTCCAT
* * * ** ** * *
1619390 ACTATTAAAAGTCACCACCACGTCCTTCTTTTACTCCACCACCACCAT
1 ACTACTACAAGTCACCACCTCCACCTTCTCCTA-TCCCCCACCTCCAT
* * *
1619438 ACTACTACAAGTCACCATCGCCACCATCTCC
1 ACTACTACAAGTCACCACCTCCACCTTCTCC
1619469 CTCACCTCCA
Statistics
Matches: 1248, Mismatches: 227, Indels: 104
0.79 0.14 0.07
Matches are distributed among these distances:
45 27 0.02
46 21 0.02
47 22 0.02
48 980 0.79
49 102 0.08
50 37 0.03
51 21 0.02
52 1 0.00
54 35 0.03
55 2 0.00
ACGTcount: A:0.25, C:0.49, G:0.05, T:0.21
Consensus pattern (47 bp):
ACTACTACAAGTCACCACCTCCACCTTCTCCTATCCCCCACCTCCAT
Found at i:1618209 original size:27 final size:27
Alignment explanation
Indices: 1618135--1618835 Score: 148
Period size: 27 Copynumber: 29.0 Consensus size: 27
1618125 AGTCCTCCAG
* * *
1618135 CATACTACTACAAATCACCACCTCCAC
1 CATACTCCTACAAGTCACCACCACCAC
1618162 CAT-CTCCT---AGTC-CC-CCACCAC
1 CATACTCCTACAAGTCACCACCACCAC
*
1618183 CATACTCCTACAAGTCACCACCCCCAC
1 CATACTCCTACAAGTCACCACCACCAC
*
1618210 CAT-CT-CT---A-TCACCACCACCTC
1 CATACTCCTACAAGTCACCACCACCAC
* * ** *
1618231 CTTATTATTACAAGTCGCCACCACCAC
1 CATACTCCTACAAGTCACCACCACCAC
* * *
1618258 C-TTCACCT---AGTC-CCCCCACCAC
1 CATACTCCTACAAGTCACCACCACCAC
* *
1618280 CATACTACTACAAGTCACCACCTCCAC
1 CATACTCCTACAAGTCACCACCACCAC
* *
1618307 CCT-CTCCT---AGTC-CC-CCACCGC
1 CATACTCCTACAAGTCACCACCACCAC
* * * *
1618328 CTTATTACTACAAGTCACCACCTCCAC
1 CATACTCCTACAAGTCACCACCACCAC
* *
1618355 C-TTCTCCT---AGTC-CC-CCACCTC
1 CATACTCCTACAAGTCACCACCACCAC
* *
1618376 CATACTACTACAAGTCACCACCCCCAC
1 CATACTCCTACAAGTCACCACCACCAC
* *
1618403 CGT-CT-C--C-A-TCACCACCACCTC
1 CATACTCCTACAAGTCACCACCACCAC
* * ** * *
1618424 CTTATTATTACAAGTCCCCACCTCCAC
1 CATACTCCTACAAGTCACCACCACCAC
* * *
1618451 C-TTCACCT---AG-C-CCCCCACCAC
1 CATACTCCTACAAGTCACCACCACCAC
* * *
1618472 CATACTACAACAAGTCACCACCTCCAC
1 CATACTCCTACAAGTCACCACCACCAC
*
1618499 C---CT-CTACTAA-TC-CC-CCACCGC
1 CATACTCCTAC-AAGTCACCACCACCAC
* *
1618520 CATACTACTACAAGTCACCACCTCCAC
1 CATACTCCTACAAGTCACCACCACCAC
*
1618547 CCT-CTCCT---AGTC-CC-CCACCAC
1 CATACTCCTACAAGTCACCACCACCAC
* * * *
1618568 CTTATTACTACAAGTCACCACCTCCAC
1 CATACTCCTACAAGTCACCACCACCAC
* *
1618595 C-TTCTCCT---AGTC-CC-CCACCTC
1 CATACTCCTACAAGTCACCACCACCAC
* *
1618616 CATACTACTACAAGTCACCACCCCCAC
1 CATACTCCTACAAGTCACCACCACCAC
* *
1618643 CGT-CT-C--C-A-TCACCACCACCTC
1 CATACTCCTACAAGTCACCACCACCAC
* * ** * *
1618664 CTTATTATTACAATTCGCCACCACCAC
1 CATACTCCTACAAGTCACCACCACCAC
* * *
1618691 C-TTCACCT---AG-C-CCCCCACCAC
1 CATACTCCTACAAGTCACCACCACCAC
* *
1618712 CATACTACTACAAGTCACCACCTCCAC
1 CATACTCCTACAAGTCACCACCACCAC
*
1618739 CCT-CTCCT---AGTC-CC-CCACCAC
1 CATACTCCTACAAGTCACCACCACCAC
* * * *
1618760 CATACTACTATATGTCACCACCTCCAC
1 CATACTCCTACAAGTCACCACCACCAC
* *
1618787 C-TTCTCCT---AGTC-CC-CCACCTC
1 CATACTCCTACAAGTCACCACCACCAC
* *
1618808 CATACTACTACAAGTCACCACCCCCAC
1 CATACTCCTACAAGTCACCACCACCAC
1618835 C
1 C
1618836 GTCTCCATCG
Statistics
Matches: 470, Mismatches: 119, Indels: 170
0.62 0.16 0.22
Matches are distributed among these distances:
21 114 0.24
22 71 0.15
23 45 0.10
24 8 0.02
25 43 0.09
26 66 0.14
27 123 0.26
ACGTcount: A:0.25, C:0.50, G:0.04, T:0.21
Consensus pattern (27 bp):
CATACTCCTACAAGTCACCACCACCAC
Found at i:1618324 original size:24 final size:24
Alignment explanation
Indices: 1618248--1618809 Score: 94
Period size: 24 Copynumber: 23.4 Consensus size: 24
1618238 TTACAAGTCG
* *
1618248 CCACCACCACCTTCACCTAGTCCCC
1 CCACCTCCACCTTCTCCTAGT-CCC
* * * * * *
1618273 CCACCACCATACTACTACAAGT-CA
1 CCACCTCCA-CCTTCTCCTAGTCCC
*
1618297 CCACCTCCACCCTCTCCTAGTCCC
1 CCACCTCCACCTTCTCCTAGTCCC
* *** * * *
1618321 CCACCGCCTTATTACTACAAGT-CA
1 CCACCTCCACCTT-CTCCTAGTCCC
1618345 CCACCTCCACCTTCTCCTAGTCCC
1 CCACCTCCACCTTCTCCTAGTCCC
* * * * *
1618369 CCACCTCCATACTACTACAAGT-CA
1 CCACCTCCA-CCTTCTCCTAGTCCC
* *
1618393 CCACCCCCACCGTCTCC-A-TCACC
1 CCACCTCCACCTTCTCCTAGTC-CC
*** * * *
1618416 ACCACCTCCTTATTATTACAAGT-CC
1 -CCACCTCCACCTT-CTCCTAGTCCC
* *
1618441 CCACCTCCACCTTCACCTAGCCCC
1 CCACCTCCACCTTCTCCTAGTCCC
* * * ** * *
1618465 CCACCACCATACTACAACAAGT-CA
1 CCACCTCCA-CCTTCTCCTAGTCCC
* * *
1618489 CCACCTCCACCCTCTACTAATCCC
1 CCACCTCCACCTTCTCCTAGTCCC
* * * * * *
1618513 CCACCGCCATACTACTACAAGT-CA
1 CCACCTCCA-CCTTCTCCTAGTCCC
*
1618537 CCACCTCCACCCTCTCCTAGTCCC
1 CCACCTCCACCTTCTCCTAGTCCC
* *** * * *
1618561 CCACCACCTTATTACTACAAGT-CA
1 CCACCTCCACCTT-CTCCTAGTCCC
1618585 CCACCTCCACCTTCTCCTAGTCCC
1 CCACCTCCACCTTCTCCTAGTCCC
* * * * *
1618609 CCACCTCCATACTACTACAAGT-CA
1 CCACCTCCA-CCTTCTCCTAGTCCC
* *
1618633 CCACCCCCACCGTCTCC-A-TCACC
1 CCACCTCCACCTTCTCCTAGTC-CC
*** * * * * *
1618656 ACCACCTCCTTATTATTAC-AATTCG
1 -CCACCTCCACCTT-CTCCTAGTCCC
* * *
1618681 CCACCACCACCTTCACCTAGCCCC
1 CCACCTCCACCTTCTCCTAGTCCC
* * * * * *
1618705 CCACCACCATACTACTACAAGT-CA
1 CCACCTCCA-CCTTCTCCTAGTCCC
*
1618729 CCACCTCCACCCTCTCCTAGTCCC
1 CCACCTCCACCTTCTCCTAGTCCC
* * * * *
1618753 CCACCACCATACTACT-ATATGT-CA
1 CCACCTCCA-CCTTCTCCTA-GTCCC
1618777 CCACCTCCACCTTCTCCTAGTCCC
1 CCACCTCCACCTTCTCCTAGTCCC
1618801 CCACCTCCA
1 CCACCTCCA
1618810 TACTACTACA
Statistics
Matches: 352, Mismatches: 154, Indels: 63
0.62 0.27 0.11
Matches are distributed among these distances:
21 2 0.01
22 2 0.01
23 59 0.17
24 209 0.59
25 70 0.20
26 9 0.03
27 1 0.00
ACGTcount: A:0.24, C:0.51, G:0.04, T:0.21
Consensus pattern (24 bp):
CCACCTCCACCTTCTCCTAGTCCC
Found at i:1620677 original size:13 final size:13
Alignment explanation
Indices: 1620661--1620703 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
1620651 AATGAATGAA
1620661 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
*
1620674 AAAAGAAAGAAA-
1 AAAAGAAAAAAAG
* *
1620686 AAAAGGAAAACAG
1 AAAAGAAAAAAAG
1620699 AAAAG
1 AAAAG
1620704 GAAATTCTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:1620682 original size:9 final size:8
Alignment explanation
Indices: 1620659--1620702 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
1620649 AAAATGAATG
1620659 AAAAAAGA
1 AAAAAAGA
1620667 AAAAAAGA
1 AAAAAAGA
1620675 AAAGAAAGA
1 AAA-AAAGA
*
1620684 AAAAAAGG
1 AAAAAAGA
*
1620692 AAAACAGA
1 AAAAAAGA
1620700 AAA
1 AAA
1620703 GGAAATTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
8 24 0.75
9 8 0.25
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:1620682 original size:17 final size:18
Alignment explanation
Indices: 1620662--1620695 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1620652 ATGAATGAAA
1620662 AAAGAAAAAAA-GAAAAG
1 AAAGAAAAAAAGGAAAAG
1620679 AAAGAAAAAAAGGAAAA
1 AAAGAAAAAAAGGAAAA
1620696 CAGAAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAGGAAAAG
Found at i:1620826 original size:29 final size:28
Alignment explanation
Indices: 1620773--1620834 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
1620763 TTCATCTTCA
*
1620773 TCTTTTCTTTCTATTATGTTCTTTTTATT
1 TCTTTTCTTTCAATTA-GTTCTTTTTATT
1620802 TCTTTTCTTTCCAAGTTA-TT-TTTTTATT
1 TCTTTTCTTT-CAA-TTAGTTCTTTTTATT
1620830 TCTTT
1 TCTTT
1620835 GTTATTTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 13 0.43
29 12 0.40
30 2 0.07
31 3 0.10
ACGTcount: A:0.11, C:0.15, G:0.03, T:0.71
Consensus pattern (28 bp):
TCTTTTCTTTCAATTAGTTCTTTTTATT
Found at i:1621233 original size:146 final size:146
Alignment explanation
Indices: 1621023--1621365 Score: 365
Period size: 146 Copynumber: 2.3 Consensus size: 146
1621013 TTGCTTAAGT
* ** * *
1621023 GATGTTTGAGCCAAGGTTGTAAAGACCATATTTTTATGGCCAAACTTTGAGCTATCGTACTATTT
1 GATGTTTGAG-CAAGGTTGTAAAAACCAT-TTTTTAAAGCTAAACTTTGAGCTATCATACTATTT
* * * * *
1621088 ATATTATATTCATATTTATTTTTCTTG-TAATCATACTTAA-TTCCATTATTTAAAATTTGATGA
64 AAATTATATTCATATCTATTTTCCTTGCT-ATCATACTTAACTT-CATAATTTAAAACTTGATGA
*
1621151 -TCTTAAGTTAT-GCCTAGGG
127 TTC-TAAGTTATAACCTAGGG
* * * **
1621170 TATGTTTGTGTCAAAGTTGTAAAAACCATTTTTTAAAGCTAAACTTTGAGCTATCATGTTATTTA
1 GATGTTTGAG-CAAGGTTGTAAAAACCATTTTTTAAAGCTAAACTTTGAGCTATCATACTATTTA
* * * *
1621235 AATTATGTTCATATCTATTTTCCTTGCTTTCATGCTTAACTTCATAATTTAAAGCTTGATGATTC
65 AATTATATTCATATCTATTTTCCTTGCTATCATACTTAACTTCATAATTTAAAACTTGATGATTC
* *
1621300 TAAGTTTTAACTTAGGG
130 TAAGTTATAACCTAGGG
* *
1621317 GATGTTTGAGCTAGGTTGTAAAAACCA-TTTTT-AAGATCAAACTTTGAGC
1 GATGTTTGAGCAAGGTTGTAAAAACCATTTTTTAAAGCT-AAACTTTGAGC
1621366 AAAATGTTGC
Statistics
Matches: 163, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
144 4 0.02
145 16 0.10
146 100 0.61
147 43 0.26
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (146 bp):
GATGTTTGAGCAAGGTTGTAAAAACCATTTTTTAAAGCTAAACTTTGAGCTATCATACTATTTAA
ATTATATTCATATCTATTTTCCTTGCTATCATACTTAACTTCATAATTTAAAACTTGATGATTCT
AAGTTATAACCTAGGG
Found at i:1621619 original size:19 final size:19
Alignment explanation
Indices: 1621579--1621626 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
1621569 CTAGTATTTT
**
1621579 TTTTATTATTTTATGTTCA
1 TTTTATTATTTTATGTAAA
1621598 TTTTATT-TTTTATGTAAAA
1 TTTTATTATTTTATGT-AAA
*
1621617 TTTTCTTATT
1 TTTTATTATT
1621627 AAAAGGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 8 0.33
19 14 0.58
20 2 0.08
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTTATTATTTTATGTAAA
Found at i:1622080 original size:39 final size:39
Alignment explanation
Indices: 1622036--1622155 Score: 118
Period size: 39 Copynumber: 3.1 Consensus size: 39
1622026 ATGTTTGTAT
*
1622036 TTTCATGTCAAAATATGTCCATTAAGGTTATTTTGATAA
1 TTTCATGTCAAAATATGTCCATTAAGGTCATTTTGATAA
* * * * * *
1622075 TTTCATATCTAAATGAAGTCCATTACGGTCATGTT-AGCAA
1 TTTCATGTCAAAAT-ATGTCCATTAAGGTCATTTTGA-TAA
* * *
1622115 TTTCATGTGAAAACATGTCCATTAAAGTCATTTTG-TAA
1 TTTCATGTCAAAATATGTCCATTAAGGTCATTTTGATAA
1622153 TTT
1 TTT
1622156 TATATTAAAA
Statistics
Matches: 62, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
38 5 0.08
39 29 0.47
40 28 0.45
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
TTTCATGTCAAAATATGTCCATTAAGGTCATTTTGATAA
Found at i:1623291 original size:20 final size:20
Alignment explanation
Indices: 1623249--1623291 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1623239 ATTTTATTAA
* *
1623249 TTATTTTTCTTATGGTGATT
1 TTATTTTTCTTATGGAGAAT
1623269 TTATTTTTCTT-TAGGAGAAT
1 TTATTTTTCTTAT-GGAGAAT
1623289 TTA
1 TTA
1623292 GGATAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.21, C:0.05, G:0.14, T:0.60
Consensus pattern (20 bp):
TTATTTTTCTTATGGAGAAT
Found at i:1626132 original size:20 final size:19
Alignment explanation
Indices: 1626103--1626141 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1626093 ATATTCATAG
*
1626103 TATAATACATGTGCCTATTT
1 TATAAAACATGTGCC-ATTT
*
1626123 TATAAAACATTTGCCATTT
1 TATAAAACATGTGCCATTT
1626142 GCATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (19 bp):
TATAAAACATGTGCCATTT
Found at i:1636077 original size:20 final size:21
Alignment explanation
Indices: 1636037--1636087 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
1636027 TTCTATGATT
*
1636037 TGTATCGATACAATTAGTGAA
1 TGTATCGATACAATAAGTGAA
1636058 TGTATCGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
1636078 TGTATCGATA
1 TGTATCGATA
1636088 TATGTCTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:1638665 original size:27 final size:27
Alignment explanation
Indices: 1638635--1638706 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
1638625 TTTGATTATC
*
1638635 GGGGATACTCCAATC-CTGCTCTTTCGA
1 GGGGATACTCCAATCTC-GCTCTTCCGA
*
1638662 GGGGATACTTCAATCTCGCTCTTCCGA
1 GGGGATACTCCAATCTCGCTCTTCCGA
**
1638689 GGGGATACTTTAATCTCG
1 GGGGATACTCCAATCTCG
1638707 TTTTTTTTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (27 bp):
GGGGATACTCCAATCTCGCTCTTCCGA
Found at i:1643245 original size:21 final size:21
Alignment explanation
Indices: 1643221--1643279 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
1643211 TAATATTCTT
* *
1643221 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
1643242 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
*
1643263 -AAAGAGAAAAGAAATGA
1 GAAA-AGAAAATAAATGA
1643280 GTTGCAAGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 3 0.09
21 31 0.91
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:1645620 original size:55 final size:55
Alignment explanation
Indices: 1645541--1645679 Score: 242
Period size: 55 Copynumber: 2.5 Consensus size: 55
1645531 TTGGTTTTGA
*
1645541 TATAACAAAAAGGAAGAGAGATTATTGTTCATAAATTTGGTTTTATCAACTTAGCT
1 TATAACAAAAAGG-GGAGAGATTATTGTTCATAAATTTGGTTTTATCAACTTAGCT
*
1645597 TATAACAAAATGGGGAGAGATTATTGTTCATAAATTTGGTTTTATCAACTTAGCT
1 TATAACAAAAAGGGGAGAGATTATTGTTCATAAATTTGGTTTTATCAACTTAGCT
*
1645652 TATAACAAAAGGGGGAGAGATTATTGTT
1 TATAACAAAAAGGGGAGAGATTATTGTT
1645680 TATTAGTTTA
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
55 68 0.85
56 12 0.15
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.35
Consensus pattern (55 bp):
TATAACAAAAAGGGGAGAGATTATTGTTCATAAATTTGGTTTTATCAACTTAGCT
Found at i:1646060 original size:21 final size:21
Alignment explanation
Indices: 1646018--1646056 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1646008 GAGTTTGCAT
1646018 AAAATTCGTAATTAAGGGGAG
1 AAAATTCGTAATTAAGGGGAG
*
1646039 AAAATTTGT-ATTAAGGGG
1 AAAATTCGTAATTAAGGGG
1646057 GAGAGCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.28, T:0.28
Consensus pattern (21 bp):
AAAATTCGTAATTAAGGGGAG
Found at i:1646154 original size:292 final size:294
Alignment explanation
Indices: 1645628--1646211 Score: 928
Period size: 292 Copynumber: 2.0 Consensus size: 294
1645618 TATTGTTCAT
* *
1645628 AAATTTGGTTTTATCAACTTAGCTTATAACAAAAGGGGGAGAGATTATTGTTTATTAGTTTAAGG
1 AAATTTGGTTTTATCAACTTAGCTTATAACAAAAGGGGAAAAGATTATTGTTTATTAGTTTAAGG
*
1645693 GTCAGAAGCGTATTAAGGGGGAGAGTTTGCATACAATTTATATTAAAGGGGAGAAAATTTGTAAT
66 GTCAGAAGCGTATTAAGGGGGAGAGTTTGCATAAAATTTATATTAAAGGGGAGAAAATTTGTAAT
* * *
1645758 AAGGGAGAGAAGCTTGCATAAACTTTTGGTATTTGTTACAAGAATAATAAAAAGGGAGAGAATAG
131 AAGGGAGAGAAGCTTGCATAAACTTTTGGTATTAGTTACAAGAATAACAAAAAAGGAGAGAATAG
* * *
1645823 AAAGGTTGGCCTAATAGAAAGGGGGAGAAAAGAGATGTTTCACAAATAGGGATAATTTATAGAGA
196 AAAGGTTGGCCTAATAGAAAAGGGGAGAAAAGAGATGTTTCACAAAGAGGGAGAATTTATAGAGA
*
1645888 AGTAGAATTGATTATTTGTTATAAAGGAAGAATA
261 AATAGAATTGATTATTTGTTATAAAGGAAGAATA
* *
1645922 AAATTTGTTTTTATCAACTTAGCTTATAACAAAATGGGAAAAGATTATTGTTTATT-GTTTTAAG
1 AAATTTGGTTTTATCAACTTAGCTTATAACAAAAGGGGAAAAGATTATTGTTTATTAG-TTTAAG
*
1645986 GGTCCA-AA-TGTATTAAGGGGGAGAGTTTGCATAAAATTCGTA-ATT-AAGGGGAGAAAATTTG
65 GGT-CAGAAGCGTATTAAGGGGGAGAGTTTGCATAAAATT--TATATTAAAGGGGAGAAAATTTG
* *
1646047 TATTAAGGGGGAG-AGCTTGCATAAACTTTTGGTATTAGTTACAAGAATAACAAAAAAGGAGAGA
127 TAATAAGGGAGAGAAGCTTGCATAAACTTTTGGTATTAGTTACAAGAATAACAAAAAAGGAGAGA
* *
1646111 ATAGAAAGGTTGGCCTAATAGAAAATGGGAGAAAAGAGATGTTTCACAAAGGGGGAGAATTTATA
192 ATAGAAAGGTTGGCCTAATAGAAAAGGGGAGAAAAGAGATGTTTCACAAAGAGGGAGAATTTATA
*
1646176 TAGAAATAGAATTGATTATTTGTTATAAAGGAAGAA
257 GAGAAATAGAATTGATTATTTGTTATAAAGGAAGAA
1646212 ATTAAAAAAA
Statistics
Matches: 268, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
292 142 0.53
293 56 0.21
294 66 0.25
295 4 0.01
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.30
Consensus pattern (294 bp):
AAATTTGGTTTTATCAACTTAGCTTATAACAAAAGGGGAAAAGATTATTGTTTATTAGTTTAAGG
GTCAGAAGCGTATTAAGGGGGAGAGTTTGCATAAAATTTATATTAAAGGGGAGAAAATTTGTAAT
AAGGGAGAGAAGCTTGCATAAACTTTTGGTATTAGTTACAAGAATAACAAAAAAGGAGAGAATAG
AAAGGTTGGCCTAATAGAAAAGGGGAGAAAAGAGATGTTTCACAAAGAGGGAGAATTTATAGAGA
AATAGAATTGATTATTTGTTATAAAGGAAGAATA
Found at i:1647496 original size:36 final size:35
Alignment explanation
Indices: 1647451--1647548 Score: 125
Period size: 36 Copynumber: 2.9 Consensus size: 35
1647441 CTAAGTGATT
*
1647451 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1 GAGATGTTCTATCTTAGCCTTTG-AAAAGATAGGGA
* *
1647487 GAGATGTTCTACCTTAGCCTGTGAAAAGATAGGGA
1 GAGATGTTCTATCTTAGCCTTTGAAAAGATAGGGA
1647522 G-G-T-TTCTATCTTAGCC-TT-AAAAGATAG
1 GAGATGTTCTATCTTAGCCTTTGAAAAGATAG
1647549 TGTTGTATGG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
30 9 0.16
31 1 0.02
32 12 0.21
33 1 0.02
34 1 0.02
35 13 0.23
36 20 0.35
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (35 bp):
GAGATGTTCTATCTTAGCCTTTGAAAAGATAGGGA
Found at i:1647535 original size:32 final size:31
Alignment explanation
Indices: 1647453--1647548 Score: 115
Period size: 32 Copynumber: 3.0 Consensus size: 31
1647443 AAGTGATTGA
1647453 GAGG-TTCTATCTTAGCCTTTGAAAAAGATAGG
1 GAGGTTTCTATCTTAGCC-TTG-AAAAGATAGG
*
1647485 GAGAGATGTTCTACCTTAGCCTGTGAAAAGATAGG
1 GAG-G-T-TTCTATCTTAGCCT-TGAAAAGATAGG
1647520 GAGGTTTCTATCTTAGCCTT-AAAAGATAG
1 GAGGTTTCTATCTTAGCCTTGAAAAGATAG
1647549 TGTTGTATGG
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
30 9 0.16
31 1 0.02
32 16 0.28
33 2 0.04
34 1 0.02
35 14 0.25
36 14 0.25
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (31 bp):
GAGGTTTCTATCTTAGCCTTGAAAAGATAGG
Done.