Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2343
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: 105724
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:1031 original size:15 final size:15
Alignment explanation
Indices: 1011--1041 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1001 ATTTCGTTTG
*
1011 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1026 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1041 G
1 G
1042 GACATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2871 original size:21 final size:21
Alignment explanation
Indices: 2842--2886 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2832 AAGTTTTCAT
*
2842 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2862 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2884 TTT
1 TTT
2887 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:5123 original size:13 final size:13
Alignment explanation
Indices: 5105--5130 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5095 CAATTTTTTG
5105 TGTATCGATACAT
1 TGTATCGATACAT
5118 TGTATCGATACAT
1 TGTATCGATACAT
5131 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6888 original size:34 final size:35
Alignment explanation
Indices: 6850--6916 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
6840 CCTTACAACA
6850 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
6884 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
6917 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:7383 original size:19 final size:19
Alignment explanation
Indices: 7343--7412 Score: 113
Period size: 19 Copynumber: 3.6 Consensus size: 19
7333 TTCTAGCCAA
**
7343 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATACTTTG
7363 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
7382 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
7401 TGTATCGATACA
1 TGTATCGATACA
7413 AGTTTGGCTA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 37 0.77
20 11 0.23
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATACTTTG
Found at i:12174 original size:34 final size:35
Alignment explanation
Indices: 12136--12202 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
12126 CCTTACAACA
12136 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
12170 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
12203 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:19061 original size:13 final size:13
Alignment explanation
Indices: 19043--19069 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19033 TACAAAACTT
19043 ATGTATCGATACA
1 ATGTATCGATACA
19056 ATGTATCGATACA
1 ATGTATCGATACA
19069 A
1 A
19070 CACTTTATGA
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:19067 original size:32 final size:33
Alignment explanation
Indices: 19025--19089 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
19015 TAGCTTGAAT
* *
19025 TGTATTGATACAAAAC-TTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGAATCGATACAA
*
19057 TGTATCGATACAACACTTTATGAATCGATACAA
1 TGTATCGATACAAAACTTTATGAATCGATACAA
19090 ATCGTTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAAAACTTTATGAATCGATACAA
Found at i:20073 original size:52 final size:51
Alignment explanation
Indices: 19928--20289 Score: 345
Period size: 49 Copynumber: 7.2 Consensus size: 51
19918 GAAGATGAGA
* * * * * * *
19928 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTT
1 AAAGATGA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
** * *
19979 AAAGATGAGAAAAAGGATTTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTT
1 AAAGAT--G-AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
20034 AAAGATGGAAAATGTGCCAATATGCTGATTCAAGTCCAGCTATATTGGAC-T
1 AAAGAT-GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
20085 -----T--AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
20129 AAAGA--AGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
20178 AAAGGTG--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
1 AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
20227 AAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGATGA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
20279 AAAGATTGAAA
1 AAAGA-TGAAA
20290 GCTTATCAAG
Statistics
Matches: 257, Mismatches: 36, Indels: 35
0.78 0.11 0.11
Matches are distributed among these distances:
43 37 0.14
44 1 0.00
46 1 0.00
49 88 0.34
51 5 0.02
52 76 0.30
53 8 0.03
54 6 0.02
55 35 0.14
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (51 bp):
AAAGATGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:22018 original size:22 final size:20
Alignment explanation
Indices: 21992--22035 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 20
21982 TTATACATTA
21992 AAAAATCAAAGTACAATGCAAAT
1 AAAAA-CAAAGT-CAA-GCAAAT
22015 AAAAACAAAGTCAAGCAAAT
1 AAAAACAAAGTCAAGCAAAT
22035 A
1 A
22036 CATTAAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 3 0.14
22 6 0.29
23 5 0.24
ACGTcount: A:0.64, C:0.14, G:0.09, T:0.14
Consensus pattern (20 bp):
AAAAACAAAGTCAAGCAAAT
Found at i:29833 original size:13 final size:13
Alignment explanation
Indices: 29815--29840 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29805 AATTTTTTGG
29815 TGTATCGATACAT
1 TGTATCGATACAT
29828 TGTATCGATACAT
1 TGTATCGATACAT
29841 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:30305 original size:49 final size:49
Alignment explanation
Indices: 30233--30425 Score: 281
Period size: 49 Copynumber: 4.1 Consensus size: 49
30223 AGATCCTAAC
* *
30233 AAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
30282 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
30330 -----TAAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
30374 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
30423 AAA
1 AAA
30426 AGGGTTGCCA
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
43 38 0.30
44 1 0.01
48 1 0.01
49 87 0.69
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (49 bp):
AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:30397 original size:92 final size:92
Alignment explanation
Indices: 30240--30425 Score: 354
Period size: 92 Copynumber: 2.0 Consensus size: 92
30230 AACAAAGATG
30240 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
30305 GATTCAAGGCCAGCGATATTGGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
*
30332 AAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
*
30397 GATTCAAGGCCAGCTATATTGGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
30424 AA
1 AA
30426 AGGGTTGCCA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (92 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTA
Found at i:30476 original size:33 final size:33
Alignment explanation
Indices: 30423--30689 Score: 364
Period size: 33 Copynumber: 8.2 Consensus size: 33
30413 TATTGGACTT
* *
30423 AAAAGGGTTGCCACTGACTTGTGTGGGTTTTAG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
30456 AAAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
30489 -AGAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
30521 -AAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
30553 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
30586 AAAAAGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
** *
30618 -AGGGGGTTGCCACCGACTTGTATGGGCTTTAG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
30650 AGAATGGTTGCCACCAACTTGTGTGGGCTTT-G
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
30682 AGAAGGGT
1 AAAAGGGT
30690 GAAAGATGCC
Statistics
Matches: 207, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
31 26 0.13
32 70 0.34
33 111 0.54
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (33 bp):
AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:30625 original size:97 final size:98
Alignment explanation
Indices: 30424--30685 Score: 420
Period size: 97 Copynumber: 2.7 Consensus size: 98
30414 ATTGGACTTA
* * *
30424 AAAGGGTTGCCACTGACTTGTGTGGGTTTTAGAAAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
* *
30489 -AGAGGGTTGCCACCGACTTGTGTGGGCTTTAG
66 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
*
30521 AAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
30586 AAAAAGGTTGCCACCGACTTGTGTGGGCTTT-G
66 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
** *
30618 AGGGGGTTGCCACCGACTTGTATGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTGGGCTTTGA
1 AAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTGGGCTTT-A
30683 GAA
65 GAA
30686 GGGTGAAAGA
Statistics
Matches: 153, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
97 121 0.79
98 32 0.21
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (98 bp):
AAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:30648 original size:64 final size:65
Alignment explanation
Indices: 30426--30689 Score: 399
Period size: 64 Copynumber: 4.1 Consensus size: 65
30416 TGGACTTAAA
* *
30426 AGGGTTGCCACTGACTTGTGTGGGTTTTAGAAAATGGTTGCCACCAACTTGTGTGGGCTTTAGAG
1 AGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAATGGTTGCCACCAACTTGTGTGGGCTTTAGAG
* *
30491 AGGGTTGCCACCGACTTGTGTGGGCTTTAG-AAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG
1 AGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAATGGTTGCCACCAACTTGTGTGGGCTTTAGAG
* * *
30555 AAGGGTTGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTT-GA
1 -AGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAATGGTTGCCACCAACTTGTGTGGGCTTTAGA
30619 G
65 G
* * *
30620 GGGGTTGCCACCGACTTGTATGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTGGGCTTT-GAG
1 AGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAATGGTTGCCACCAACTTGTGTGGGCTTTAGAG
30684 AAGGGT
1 -AGGGT
30690 GAAAGATGCC
Statistics
Matches: 183, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
64 90 0.49
65 64 0.35
66 29 0.16
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.29
Consensus pattern (65 bp):
AGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAATGGTTGCCACCAACTTGTGTGGGCTTTAGAG
Found at i:30924 original size:34 final size:34
Alignment explanation
Indices: 30696--31211 Score: 436
Period size: 34 Copynumber: 15.8 Consensus size: 34
30686 GGGTGAAAGA
* *
30696 TGCCACGAAGTTGTGGACTTAAAAGGAACAA-GG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGG
* *
30729 TGCCACGAAGTTGTGGACTTTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGAC-TTAAAA-GGAAAAAGGG
* ** *
30765 TGCCACGGAGTTGTGGGCTTTGAA--AAGAA-GG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGG
* *
30796 TGCCACGGAGTCGTGGACTTAAAAGGAATAA-GG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGG
* * *
30829 TGCCACGGGGTTGTGGACTTTAAAAGGGGAAAAGAG
1 TGCCACGGAGTTGTGGAC-TTAAAA-GGAAAAAGGG
* * *
30865 TGCCACAGAGTTGTGGGCTT------TAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGG
* * *
30893 TGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGG
* *
30927 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-GG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGGG
* * *
30961 TGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGG
*
30995 TGCCACGGAGTTGTGGGCTT-------AAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGG
* * * *
31022 TGCCACGGAGTTATGGGCTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGG
* * * *
31056 TGCCACGTAGTTGTGGGCTTTAAAAAGAAAAAAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGGG
* *
31091 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGG
* *
31125 TGCCACAGAGTTGTGGGCTT-------AAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGG
* *
31152 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGCG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGG
*
31186 TGCCACGGAGTTGTGGGCTTAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGG
31212 GTGCCACGGA
Statistics
Matches: 392, Mismatches: 60, Indels: 61
0.76 0.12 0.12
Matches are distributed among these distances:
27 49 0.12
28 25 0.06
31 21 0.05
32 4 0.01
33 50 0.13
34 154 0.39
35 56 0.14
36 33 0.08
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (34 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGG
Found at i:30950 original size:198 final size:193
Alignment explanation
Indices: 30696--31236 Score: 610
Period size: 191 Copynumber: 2.8 Consensus size: 193
30686 GGGTGAAAGA
* * * *
30696 TGCCACGAAGTTGTGGACTTAAAAGGAACAAG-GTGCCACGAAGTTGTGGACTTTAAAAGGGAAA
1 TGCCACG-AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
* * *
30760 AAGAGTGCCACGGAGTTGTGGGCTTTG-A-AAAGAAG-GTGCCACGGAGTCGTGGACTTAAAAGG
65 AAG-GTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACGGAGTCGTGGACTTAAAA-G
* * *
30822 AATAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGGAAAAGAGTGCCACAG-AGTTGTGGGCTTT
128 -----GGTGCCACGGAGTTATGGAC-TTAAAA-GGAAAAAGAGTGCCAC-GTAGTTGTGGGCTTT
30886 -AAAAG-GG
185 AAAAAGAGG
*
30893 TGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-AGAAA
1 TGCCAC-GAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
* *
30957 AAGGTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
65 AAGGTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACGGAGTCGTGGACTTAAAAGGG
* *
31022 TGCCACGGAGTTATGGGCTTAGAAGGAAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAAAGAAAA
130 TGCCACGGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAAAG----
31087 AAGG
191 -AGG
*
31091 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGC-TTAAAA--G---
1 TGCCAC-GAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
* * * *
31150 --GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGCGTGCCACGGAGTTGTGGGCTTAAAAGGG
65 AAGGTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACGGAGTCGTGGACTTAAAAGGG
* *
31213 TGCCACGGAGTTGTGGGCTTAAAA
130 TGCCACGGAGTTATGGACTTAAAA
31237 TGGTGCCACA
Statistics
Matches: 310, Mismatches: 21, Indels: 32
0.85 0.06 0.09
Matches are distributed among these distances:
190 1 0.00
191 111 0.36
192 10 0.03
193 17 0.05
196 22 0.07
197 42 0.14
198 84 0.27
199 23 0.07
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (193 bp):
TGCCACGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAA
AGGTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACGGAGTCGTGGACTTAAAAGGGT
GCCACGGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAAAGAGG
Found at i:31018 original size:27 final size:27
Alignment explanation
Indices: 30988--31264 Score: 169
Period size: 27 Copynumber: 9.2 Consensus size: 27
30978 CTTAGAAGAA
30988 AAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
* *
31015 AAAAGGGTGCCACGGAGTTATGGGCTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
*
31042 AGAAGGAAAAAGAGTGCCACGTAGTTGTGGGCTTT
1 -------AAAAGAGTGCCACGGAGTTGTGGGC-TT
*
31077 AAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTT
1 -AAAAG-----A-GTGCCACGGAGTTGTGGGCTT
*
31111 AGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 -------AAAAGAGTGCCACGGAGTTGTGGGCTT
* *
31145 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
*
31172 AGAAGGAAAAAGCGTGCCACGGAGTTGTGGGCTT
1 -------AAAAGAGTGCCACGGAGTTGTGGGCTT
*
31206 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
* * *
31233 AAAATG-GTGCCACAGAGTTATGGACTT
1 AAAA-GAGTGCCACGGAGTTGTGGGCTT
31260 AAAAG
1 AAAAG
31265 GAAAAGAGTG
Statistics
Matches: 204, Mismatches: 18, Indels: 57
0.73 0.06 0.20
Matches are distributed among these distances:
26 1 0.00
27 101 0.50
28 1 0.00
29 6 0.03
34 69 0.34
35 20 0.10
40 6 0.03
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (27 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:31054 original size:61 final size:61
Alignment explanation
Indices: 30954--31233 Score: 416
Period size: 61 Copynumber: 4.5 Consensus size: 61
30944 CTTTAAAAAG
* *
30954 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* * *
31015 AAAAGGGTGCCACGGAGTTATGGGCTTAGAAGGAAAAAGAGTGCCACGTAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT
*
31077 AAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGG
1 -AAAAG------GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGG
31142 CTT
59 CTT
*
31145 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGCGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
31206 AAAAGGGTGCCACGGAGTTGTGGGCTTA
1 AAAAGGGTGCCACGGAGTTGTGGACTTA
31234 AAATGGTGCC
Statistics
Matches: 199, Mismatches: 12, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
61 135 0.68
62 2 0.01
63 5 0.03
67 5 0.03
68 2 0.01
69 50 0.25
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.20
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:31094 original size:35 final size:34
Alignment explanation
Indices: 31015--31292 Score: 224
Period size: 34 Copynumber: 8.8 Consensus size: 34
31005 TTGTGGGCTT
* * *
31015 AAAAGGGTGCCACGGAGTTATGGGCTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
31049 AAAAGAGTGCCACGTAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGA
* *
31084 AAAA-AGGTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGA-GTGCCACGGAGTTGTGGGCTTAAAAGGA
*
31118 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
31150 ----G-GTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
31179 AAAAGCGTGCCACGGAGTTGTGGGCTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
31211 ----G-GTGCCACGGAGTTGTGGGCTT------A
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * * *
31234 AAATG-GTGCCACAGAGTTATGGACTTAAAAGG-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
**
31266 AAAAGAGTGCCACATAGTTGTGGGCTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
31293 TGCAGAAAAG
Statistics
Matches: 198, Mismatches: 24, Indels: 45
0.74 0.09 0.17
Matches are distributed among these distances:
27 62 0.31
28 3 0.02
32 4 0.02
33 21 0.11
34 79 0.40
35 29 0.15
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
Found at i:31111 original size:130 final size:128
Alignment explanation
Indices: 30758--31209 Score: 667
Period size: 130 Copynumber: 3.5 Consensus size: 128
30748 TTAAAAGGGA
* * * * * *
30758 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAA--AAGAAG-GTGCCACGGAGTCGTGGACTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
* * * * *
30820 GGAATAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGGAAAAGAGTGCCACAGAGTTGTGGGCTT
66 AGAAAAAGGTGCCACGGAGTTGTGGAC-TTAGAA-GGAAAAAGAGTGCCACAGAGTTGTGGGC-T
30885 T
128 T
*
30886 AAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAA
* *
30951 AAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACGGAGTTGTGGGCTT
65 AAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
* * *
31015 AAAAGGGTGCCACGGAGTTATGGGCTTAGAAGGAAAAAGAGTGCCACGTAGTTGTGGGCTTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAA
31080 AAGAAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
65 AAG-AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
*
31145 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGCGTGCCACGGAGTTGTGGGCTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
31210 GGGTGCCACG
Statistics
Matches: 295, Mismatches: 24, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
128 27 0.09
129 72 0.24
130 144 0.49
131 22 0.07
132 30 0.10
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.20
Consensus pattern (128 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
AGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
Found at i:31267 original size:88 final size:87
Alignment explanation
Indices: 31118--31292 Score: 260
Period size: 88 Copynumber: 2.0 Consensus size: 87
31108 CTTAGAAGGA
* * *
31118 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGG-AAAA
* *
31183 GCGTGCCACGGAGTTGTGGGCTT
65 GAGTGCCACAGAGTTGTGGGCTT
* * *
31206 AAAAGGGTGCCACGGAGTTGTGGGCTTAAAATGGTGCCACAGAGTTATGGACTTAAAAGGAAAAG
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAG
*
31271 AGTGCCACATAGTTGTGGGCTT
66 AGTGCCACAGAGTTGTGGGCTT
31293 TGCAGAAAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 24 0.31
88 54 0.69
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (87 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAG
AGTGCCACAGAGTTGTGGGCTT
Found at i:32293 original size:24 final size:24
Alignment explanation
Indices: 32266--32339 Score: 96
Period size: 24 Copynumber: 3.0 Consensus size: 24
32256 GGGTTTTTCC
*
32266 TTTCTTCTTTTTTTTGTTTGTTTG-
1 TTTCTTCTTTTTTTT-TTTTTTTGT
32290 TTTCTTCTTTTTTTTTCTTTTTTGT
1 TTTCTTCTTTTTTTTT-TTTTTTGT
32315 TTTGCTTCTTTCTTTTTTTTTTTTG
1 TTT-CTTCTTT-TTTTTTTTTTTTG
32340 GAAAAGAACA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
23 1 0.02
24 21 0.47
25 3 0.07
26 14 0.31
27 6 0.13
ACGTcount: A:0.00, C:0.11, G:0.08, T:0.81
Consensus pattern (24 bp):
TTTCTTCTTTTTTTTTTTTTTTGT
Found at i:32327 original size:33 final size:32
Alignment explanation
Indices: 32275--32338 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
32265 CTTTCTTCTT
* *
32275 TTTTTTGTTTGTTTGTTTCTTCTTTTTTTTTC
1 TTTTTTGTTTGCTTCTTTCTTCTTTTTTTTTC
*
32307 TTTTTTGTTTTGCTTCTTTCTTTTTTTTTTTT
1 TTTTTTG-TTTGCTTCTTTCTTCTTTTTTTTT
32339 GGAAAAGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.00, C:0.09, G:0.08, T:0.83
Consensus pattern (32 bp):
TTTTTTGTTTGCTTCTTTCTTCTTTTTTTTTC
Found at i:32597 original size:17 final size:16
Alignment explanation
Indices: 32577--32619 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
32567 CCTTTGCACC
*
32577 TTTTTTCTGTATTGTT
1 TTTTTTTTGTATTGTT
* *
32593 TTTTTTGTTTTTTTGTT
1 TTTTTT-TTGTATTGTT
32610 TTTTTTTTGT
1 TTTTTTTTGT
32620 TTTTGACTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (16 bp):
TTTTTTTTGTATTGTT
Found at i:32602 original size:9 final size:9
Alignment explanation
Indices: 32588--32623 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
32578 TTTTTCTGTA
32588 TTGTTTTTT
1 TTGTTTTTT
32597 TTGTTTTTT
1 TTGTTTTTT
*
32606 TGTTTTTTTT
1 T-TGTTTTTT
32616 TTGTTTTT
1 TTGTTTTT
32624 GACTTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (9 bp):
TTGTTTTTT
Found at i:32614 original size:11 final size:11
Alignment explanation
Indices: 32577--32623 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
32567 CCTTTGCACC
*
32577 TTTTTTCTGTAT
1 TTTTTTTTGT-T
*
32589 TGTTTTTT-TT
1 TTTTTTTTGTT
*
32599 GTTTTTTTGTT
1 TTTTTTTTGTT
32610 TTTTTTTTGTT
1 TTTTTTTTGTT
32621 TTT
1 TTT
32624 GACTTTTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
10 7 0.24
11 16 0.55
12 6 0.21
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:32622 original size:17 final size:17
Alignment explanation
Indices: 32588--32624 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
32578 TTTTTCTGTA
32588 TTGTTTTTTTTGTTTTT
1 TTGTTTTTTTTGTTTTT
32605 TTGTTTTTTTT-TTGTTT
1 TTGTTTTTTTTGTT-TTT
32622 TTG
1 TTG
32625 ACTTTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (17 bp):
TTGTTTTTTTTGTTTTT
Found at i:32630 original size:19 final size:19
Alignment explanation
Indices: 32591--32631 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
32581 TTCTGTATTG
***
32591 TTTTTTTTGTTTTTTTGTT
1 TTTTTTTTGTTTTTGACTT
32610 TTTTTTTTGTTTTTGACTT
1 TTTTTTTTGTTTTTGACTT
32629 TTT
1 TTT
32632 CATCATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.85
Consensus pattern (19 bp):
TTTTTTTTGTTTTTGACTT
Found at i:39401 original size:13 final size:13
Alignment explanation
Indices: 39383--39407 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39373 TGCCAAGAAC
39383 ATGTATCGATACA
1 ATGTATCGATACA
39396 ATGTATCGATAC
1 ATGTATCGATAC
39408 TAAGTAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:39424 original size:33 final size:32
Alignment explanation
Indices: 39365--39428 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
39355 CAATTCAATG
*
39365 TGTATCGATGCCAAGAACATGTATCGATACAA
1 TGTATCGATACCAAGAACATGTATCGATACAA
* *
39397 TGTATCGATACTAAGTAATATGTATCGATACA
1 TGTATCGATACCAAG-AACATGTATCGATACA
39429 TTTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (32 bp):
TGTATCGATACCAAGAACATGTATCGATACAA
Found at i:39798 original size:24 final size:23
Alignment explanation
Indices: 39752--39796 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
39742 GCAAAGGAAA
*
39752 AGAAAATTTTTTTTAGATTTTTC
1 AGAAAATGTTTTTTAGATTTTTC
39775 AGAAAATGTTTTTTAGATTTTT
1 AGAAAATGTTTTTTAGATTTTT
39797 TCTTTTTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (23 bp):
AGAAAATGTTTTTTAGATTTTTC
Found at i:42266 original size:9 final size:9
Alignment explanation
Indices: 42252--42281 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
42242 GGATAAGAAA
42252 GCAAACATC
1 GCAAACATC
42261 GCAAACATC
1 GCAAACATC
42270 GCAAACATC
1 GCAAACATC
42279 GCA
1 GCA
42282 TTTTATAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.43, C:0.33, G:0.13, T:0.10
Consensus pattern (9 bp):
GCAAACATC
Found at i:43866 original size:20 final size:21
Alignment explanation
Indices: 43841--43891 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
43831 TTTTGTTGGT
* *
43841 AATTTTGATGT-AAAATGAAG
1 AATTTTGAAGTGAAAATAAAG
43861 AATTTTGAAGTGAAAATAAAG
1 AATTTTGAAGTGAAAATAAAG
*
43882 AAATTTGAAG
1 AATTTTGAAG
43892 AAGATTTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (21 bp):
AATTTTGAAGTGAAAATAAAG
Found at i:44018 original size:13 final size:13
Alignment explanation
Indices: 44000--44025 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43990 TAGTACCCCT
44000 TGTATCGATACAA
1 TGTATCGATACAA
44013 TGTATCGATACAA
1 TGTATCGATACAA
44026 AGAATATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:44582 original size:17 final size:15
Alignment explanation
Indices: 44547--44577 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44537 AATTACATTA
*
44547 AATTTTAAAGATGAT
1 AATTTTAAAAATGAT
44562 AATTTTAAAAATGAT
1 AATTTTAAAAATGAT
44577 A
1 A
44578 TAATTATATG
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:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (15 bp):
AATTTTAAAAATGAT
Found at i:45847 original size:19 final size:20
Alignment explanation
Indices: 45823--45875 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
45813 TAGCTTAAAT
45823 TGTATCGATACAAAAC-TTA
1 TGTATCGATACAAAACTTTA
*
45842 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAACTTTA
*
45862 TGAATCGATACAAA
1 TGTATCGATACAAA
45876 TCGTTGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (20 bp):
TGTATCGATACAAAACTTTA
Found at i:45868 original size:20 final size:19
Alignment explanation
Indices: 45826--45875 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
45816 CTTAAATTGT
*
45826 ATCGATACAAAACTTATGT
1 ATCGATACAAAACTTATGA
*
45845 ATCGATACAACACTTTATGA
1 ATCGATACAAAAC-TTATGA
45865 ATCGATACAAA
1 ATCGATACAAA
45876 TCGTTGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (19 bp):
ATCGATACAAAACTTATGA
Found at i:47871 original size:13 final size:13
Alignment explanation
Indices: 47853--47877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47843 TGCCAAGAAC
47853 ATGTATCGATACA
1 ATGTATCGATACA
47866 ATGTATCGATAC
1 ATGTATCGATAC
47878 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:47873 original size:32 final size:33
Alignment explanation
Indices: 47835--47898 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
47825 CAATTCAATG
*
47835 TGTATCGATGCCAAG-AACATGTATCGATACAA
1 TGTATCGATACCAAGCAACATGTATCGATACAA
* *
47867 TGTATCGATACTAAGCAATATGTATCGATACA
1 TGTATCGATACCAAGCAACATGTATCGATACA
47899 TTTGCGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (33 bp):
TGTATCGATACCAAGCAACATGTATCGATACAA
Found at i:48267 original size:25 final size:24
Alignment explanation
Indices: 48222--48269 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
48212 GCAAAGGAAA
*
48222 AGAAAATTTTTTTTAGATTTTTTC
1 AGAAAATGTTTTTTAGATTTTTTC
48246 AGAAAATGTTTTTTAGATTTTTTC
1 AGAAAATGTTTTTTAGATTTTTTC
48270 TTTTTGTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.56
Consensus pattern (24 bp):
AGAAAATGTTTTTTAGATTTTTTC
Found at i:50737 original size:9 final size:9
Alignment explanation
Indices: 50723--50752 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
50713 GGATAAGAAA
50723 GCAAACATC
1 GCAAACATC
50732 GCAAACATC
1 GCAAACATC
50741 GCAAACATC
1 GCAAACATC
50750 GCA
1 GCA
50753 TTTTATAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.43, C:0.33, G:0.13, T:0.10
Consensus pattern (9 bp):
GCAAACATC
Found at i:52351 original size:21 final size:21
Alignment explanation
Indices: 52321--52360 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
52311 ATTTTGATGA
* *
52321 AAAATGAAGAATTTTGAAGTG
1 AAAATAAAGAAATTTGAAGTG
52342 AAAATAAAGAAATTTGAAG
1 AAAATAAAGAAATTTGAAG
52361 AAGATTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (21 bp):
AAAATAAAGAAATTTGAAGTG
Found at i:52487 original size:13 final size:13
Alignment explanation
Indices: 52469--52494 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52459 TAGTACCCCT
52469 TGTATCGATACAA
1 TGTATCGATACAA
52482 TGTATCGATACAA
1 TGTATCGATACAA
52495 AGAATATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:58701 original size:33 final size:33
Alignment explanation
Indices: 58657--58721 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
58647 TTTGAAGCAA
* *
58657 TGTATCAATACAATTCATCATGTATCAATACAT
1 TGTATCAATACAATGCACCATGTATCAATACAT
* * *
58690 TGTATCGATACAATGGACCATGTATCGATACA
1 TGTATCAATACAATGCACCATGTATCAATACA
58722 AACAGTGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTATCAATACAATGCACCATGTATCAATACAT
Found at i:61348 original size:13 final size:13
Alignment explanation
Indices: 61330--61356 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61320 ATAGTAACTC
61330 ATGTATCGATACA
1 ATGTATCGATACA
61343 ATGTATCGATACA
1 ATGTATCGATACA
61356 A
1 A
61357 GGAATATTGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:67400 original size:31 final size:31
Alignment explanation
Indices: 67357--67432 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
67347 GCATTCTTCA
* *
67357 ATGTGTCGATACATTCTGTCTTTTTACCCAG
1 ATGTATCGATACATTCTATCTTTTTACCCAG
67388 ATGTATCGATACATTCTATCTTTTTACCCAG
1 ATGTATCGATACATTCTATCTTTTTACCCAG
67419 ATGTATCGATACAT
1 ATGTATCGATACAT
67433 CTAGTTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (31 bp):
ATGTATCGATACATTCTATCTTTTTACCCAG
Found at i:70832 original size:234 final size:234
Alignment explanation
Indices: 70402--70841 Score: 537
Period size: 234 Copynumber: 1.9 Consensus size: 234
70392 CTCAAGACAT
* * * * *
70402 AGGTTTCAATAGGCATCCAATCATGCCTAGCCCGAAATGATTGGTGGCAACTCCAAAATTTCGGT
1 AGGTTTCAATAAGCATCCAATCATGCCTAGCCCAAAATGATCGATGGCAACTCCAAAATTTCGAT
* * * * * *
70467 CATTCCATGGTGACCATCGAGGATCGGTTAGATGGGCGATTCATCTACTGATCTTCCTCTTTTCA
66 CATTCCATGGTGACCATCAAGAATCGGTTAAATGGGCGATTCATCTACTGATCTTCCCCATGTCA
* * * *
70532 ACACATATCTCTTACCATTCCATAAAAATCCCCAAATCATAGGGGTATTAAGTCGGGCATGCCTC
131 ACACATATCTCTTACCATGCAATAAAAATCCCCAAATCAGAGGGGTATTAAGTCGGGCACGCCTC
70597 ATTTGCCCTATCTCCCGGGATCCCAGTGCACGTCGCGAC
196 ATTTGCCCTATCTCCCGGGATCCCAGTGCACGTCGCGAC
*** ** *
70636 AGGTTTCAATAAGCATTTGATCATGCCTAGCCCAAAATGATCGATGGTGACTCCAGAATTTCGAT
1 AGGTTTCAATAAGCATCCAATCATGCCTAGCCCAAAATGATCGATGGCAACTCCAAAATTTCGAT
* * *
70701 CACTT-CATGGTGACCATCAAGAATCGGTTAAAT-GGCTGATTTATCTATTGATTTTCCCCATGT
66 CA-TTCCATGGTGACCATCAAGAATCGGTTAAATGGGC-GATTCATCTACTGATCTTCCCCATGT
* ** * * * *
70764 CAATATGTATTTCTTACCATGCAATAAAAATCCCCAAATCACGA-GGG-ATCTACGTTGGGCGCG
129 CAACACATATCTCTTACCATGCAATAAAAATCCCCAAATCA-GAGGGGTAT-TAAGTCGGGCACG
70827 CCTCATTTGCCCTAT
192 CCTCATTTGCCCTAT
70842 TATCGAGGTC
Statistics
Matches: 171, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
233 5 0.03
234 163 0.95
235 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (234 bp):
AGGTTTCAATAAGCATCCAATCATGCCTAGCCCAAAATGATCGATGGCAACTCCAAAATTTCGAT
CATTCCATGGTGACCATCAAGAATCGGTTAAATGGGCGATTCATCTACTGATCTTCCCCATGTCA
ACACATATCTCTTACCATGCAATAAAAATCCCCAAATCAGAGGGGTATTAAGTCGGGCACGCCTC
ATTTGCCCTATCTCCCGGGATCCCAGTGCACGTCGCGAC
Found at i:71696 original size:22 final size:22
Alignment explanation
Indices: 71654--71696 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
71644 CATATATTTA
**
71654 CTTGAAAAACATTGTTTCTTTG
1 CTTGAAAAACATTGTGACTTTG
71676 CTTGAAAAACATT-TGGACTTT
1 CTTGAAAAACATTGT-GACTTT
71697 TCTCTAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (22 bp):
CTTGAAAAACATTGTGACTTTG
Found at i:73310 original size:156 final size:154
Alignment explanation
Indices: 72918--74740 Score: 1613
Period size: 155 Copynumber: 11.8 Consensus size: 154
72908 TTTTAAAAGC
* * * * *
72918 CCTTTAGGAGTATCGAGATACTTTCACATCGAAGGTATCCCCTAGGGATATTTTTTTTATTTTTT
1 CCTTTAGG-GTATCGGGATACTTTCACGTCGAAGGTATCCCCTAGGGGTATTTTTGTAATTTTTT
* * * ** * *
72983 AAAACCAAGTCCTAAATTGTCATCGAGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATA-GTT
65 AAAATCGAGTCTTAGGTTATCACCG-GTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTT
* *
73047 TCATCCCATCTATA-TCCTTTTTAAGT
129 T-ATCCCTTTTATAGTCCTTTTTAAGT
* ** * * * * * * **
73073 -TTTCTAGAGGTATAAGG-CAC-TTCTAAGTCGAGGGTATCCCTTATGAGTATTTTCATAATTTT
1 CCTT-TAG-GGTATCGGGATACTTTC-ACGTCGAAGGTATCCCCTAGGGGTATTTTTGTAATTTT
* * *
73135 TTAAAATCGAGTCTGAGGTTATCACCTGGTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGG
63 TTAAAATCGAGTCTTAGGTTATCACC-GGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGG
*
73200 TTTATCCCTTTTATAATCCTTTTTAAGT
127 TTTATCCCTTTTATAGTCCTTTTTAAGT
* * * * *
73228 CCTTTAGCGGTATAGGGATACTTTCATGTTGAAGGTATCCCCTAGGGATATTTTTTTAATTTTTT
1 CCTTTAG-GGTATCGGGATACTTTCACGTCGAAGGTATCCCCTAGGGGTATTTTTGTAATTTTTT
* * * * *
73293 AGAACCGAGTCTTAGGTTATCACCGATTCCGCTTTTATGCTGAAGGTGGGTATTAAGGATAAGTT
65 AAAATCGAGTCTTAGGTTATCACCG-GTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTT
73358 TATCCCTTTTATAGTCCTTTTTAAGT
129 TATCCCTTTTATAGTCCTTTTTAAGT
* * * * *
73384 CCTTTAGGGTA-CTGAGG-TACTTTTACGTCGAAGGTATCTCCTAGGAGTATGTTTGTAAATTTT
1 CCTTTAGGGTATC-G-GGATACTTTCACGTCGAAGGTATCCCCTAGGGGTATTTTTGTAATTTTT
* * ** * *
73447 CAAAATCGAGTCTTAGGTTATTACCGAGTTTGCTTTTATGTTGAAAGTGGGTATTTAGGATAGG-
64 TAAAATCGAGTCTTAGGTTATCACCG-GTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGT
* *
73511 TTAGTCCCTTTTACAGTCCTTTTTATGT
128 TTA-TCCCTTTTATAGTCCTTTTTAAGT
* * * * * * *
73539 CCTTTAGGGTATTGGGATATTTTCACGTCAAAGGTATCTCCAAAGGGCATTTTTGTAATTTTTTA
1 CCTTTAGGGTATCGGGATACTTTCACGTCGAAGGTATCCCCTAGGGGTATTTTTGTAATTTTTTA
* * * * ** *
73604 GAA-CTAAGTCTTAGGTTATCAGCAGATCCAATTTTATTCCT-AAGGTGGGTATTTAGGATAGGT
66 AAATC-GAGTCTTAGGTTATCA-CCGGTCCGCTTTTA-TGCTGAAGGTGGGTATTTAGGATAGGT
*
73667 TTATCCCTTTTATAGTCCTTTTGAAGT
128 TTATCCCTTTTATAGTCCTTTTTAAGT
* * * * * *
73694 CTTTTAAGGGTATCGGGGTACTTTTACGTCGAAGGTATCTCCTAGGGGTATTTTTGTAAGTTTTC
1 CCTTT-AGGGTATCGGGATACTTTCACGTCGAAGGTATCCCCTAGGGGTATTTTTGTAATTTTTT
* * ** * *
73759 AAAATCGAGTCCTAGGTTATCACTGGGTTTGCTTTTATGCCGCAGGTGGGTATTTAGGATAGGTT
65 AAAATCGAGTCTTAGGTTATCAC-CGGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTT
* *
73824 CATCCC-TTTAAAGTCCTTTTTAAGT
129 TATCCCTTTTATAGTCCTTTTTAAGT
* * * *
73849 CCTTTAGCGGTATTGGGATATTTTCATGTCGAAAGTATCCCCTAGGGGTATTTTTGTAATTTTTT
1 CCTTTAG-GGTATCGGGATACTTTCACGTCGAAGGTATCCCCTAGGGGTATTTTTGTAATTTTTT
* * ** * *
73914 AGAACCGAGTCCTT-GGTTATCATCAAGTCC-ATGTTTATGCCGAAGGTGGGTATTTAGGATAGG
65 AAAATCGAGT-CTTAGGTTATCA-CCGGTCCGCT-TTTATGCTGAAGGTGGGTATTTAGGATAGG
* * *
73977 TTCATCCCCTTTATAGTCCTTTTAAAGT
127 TTTATCCCTTTTATAGTCCTTTTTAAGT
* * * * * *
74005 CCTTTAGGGGTACCGTGATATTTTCACGTTCGAAGGTATCTCTTAGGGGCATTTTTGTAATTTTT
1 CCTTTA-GGGTATCGGGATACTTTCACG-TCGAAGGTATCCCCTAGGGGTATTTTTGTAATTTTT
* * * *
74070 TAGAATCGAGTCTTAGGTTATCACCGAGTCCACTTTTATTCCT-AAGGTGGGCATTTAGGATAGG
64 TAAAATCGAGTCTTAGGTTATCACCG-GTCCGCTTTTA-TGCTGAAGGTGGGTATTTAGGATAGG
74134 TTTATCCCTTTTATAGTCCTTTTTAAGT
127 TTTATCCCTTTTATAGTCCTTTTTAAGT
* * * * ** *
74162 CCTTTAAGGGTACCAGGG-TACTTTTACGTCGAAGGTAT-CTCTAAGGGGTATGTCCGTAAGTTT
1 CCTTT-AGGGTATC-GGGATACTTTCACGTCGAAGGTATCCCCT-AGGGGTATTTTTGTAATTTT
* * *
74225 TCAAAATCGAAAG-C-TAAGTTATCACCAGGTTCGCTTTTATG-TCGAAGGTGGGTATTTAGGAT
63 TTAAAATCG--AGTCTTAGGTTATCACC-GGTCCGCTTTTATGCT-GAAGGTGGGTATTTAGGAT
* *
74287 AGGTTCATCCC-TTTATAGTCCTTTTTTAGT
124 AGGTTTATCCCTTTTATAGTCCTTTTTAAGT
* * * * *
74317 CCTTTAGCGGTATTGGGATATTTTCACGTCGAAAGTATCCCATAGGGGTATTTTTGTACTTTTTT
1 CCTTTAG-GGTATCGGGATACTTTCACGTCGAAGGTATCCCCTAGGGGTATTTTTGTAATTTTTT
* * * * *
74382 AGAATC-AGGTCATAGGTTATCTCTAGGTCCGCTTTTATGCCGAAGGT-GGTATTTAGGATAGGT
65 AAAATCGA-GTCTTAGGTTATCAC-CGGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGT
*
74445 TTAT-CCTTTTGTAGTCCTTTTTAAGT
128 TTATCCCTTTTATAGTCCTTTTTAAGT
* * * *
74471 CCTTTAGAGGTA-CGGAGATACTTTCACATCGAAGGTATCTCTTAAGGGTATTTTTGTAATTTTT
1 CCTTTAG-GGTATCGG-GATACTTTCACGTCGAAGGTATCCCCTAGGGGTATTTTTGTAATTTTT
* * * * * * *
74535 CTAAAATTGAGTCCTAGGTCATCACCGAGTCCACTTCTA--CATCGAAGGTGTGCATTTAGGATA
64 -TAAAATCGAGTCTTAGGTTATCACCG-GTCCGCTTTTATGC-T-GAAGGTGGGTATTTAGGATA
74598 GG--T-T--C------A-TCCTTTTTAAGT
125 GGTTTATCCCTTTTATAGTCCTTTTTAAGT
*
74616 CCTTTAGGGGTATCGGG-TAC-TTCTACGTCGAAGGTATCCCCTAGGGGTATTTTCGTAATTTTT
1 CCTTTA-GGGTATCGGGATACTTTC-ACGTCGAAGGTATCCCCTAGGGGTATTTTTGTAATTTTT
* * * * * * ** *
74679 CAAAAT-GAACTCTTAGGTTGTCCCCAAGTTCGCTTTTATGCCAAAGGTGGGCATTTAGGATA
64 TAAAATCG-AGTCTTAGGTTATCACC-GGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATA
74741 AGTTCATCTT
Statistics
Matches: 1360, Mismatches: 243, Indels: 142
0.78 0.14 0.08
Matches are distributed among these distances:
142 1 0.00
143 46 0.03
144 37 0.03
145 24 0.02
146 5 0.00
152 2 0.00
153 10 0.01
154 199 0.15
155 525 0.39
156 373 0.27
157 130 0.10
158 8 0.01
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.39
Consensus pattern (154 bp):
CCTTTAGGGTATCGGGATACTTTCACGTCGAAGGTATCCCCTAGGGGTATTTTTGTAATTTTTTA
AAATCGAGTCTTAGGTTATCACCGGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTTA
TCCCTTTTATAGTCCTTTTTAAGT
Found at i:73543 original size:311 final size:308
Alignment explanation
Indices: 72918--74740 Score: 1655
Period size: 311 Copynumber: 5.9 Consensus size: 308
72908 TTTTAAAAGC
* * * * *
72918 CCTTTAGGAGTATCGAGATACTTTCACATCGAAGGTATCCCCTAGGGATATTTTTTTTATTTTTT
1 CCTTTAGG-GTATAGGGATACTTTCACGTCGAAGGTATCCCCTAGGG-TATTTTTGTAATTTTTT
* * ** * *
72983 AAAACCAAGTCCTAAATTGTCATCGAGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATA-GTT
64 AAAACCGAGTCTTAGGTTATCACCGAGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTT
* * * * * * * *
73047 TCATCCCATCTATA-TCCTTTTTAAGT-TTTCTAGAGGTATAAGGCACTTCTAAGTCGAGGGTAT
129 T-ATCCCTTTTATAGTCCTTTTTAAGTCCTT-TAG-GGTATGAGGTACTTTTACGTCGAAGGTAT
* * ** * *
73110 C-CCTTATGAGTATTTTCATAATTTTTTAAAATCGAGTCTGAGGTTATCACCTG-GTCCACTTTT
191 CTCC-TAGGGGTATTTTTGTAATTTTTTAAAATCGAGTCTTAGGTTATCACC-GAGTCCGCTTTT
* *
73173 ATGCTAAAGGTGGGTATTTAGGATAGGTTTATCCCTTTTATAATCCTTTTTAAGT
254 ATGCTGAAGGTGGGTATTTAGGATAGGTTTATCCCTTTTATAGTCCTTTTTAAGT
* * *
73228 CCTTTAGCGGTATAGGGATACTTTCATGTTGAAGGTATCCCCTAGGGATATTTTTTTAATTTTTT
1 CCTTTAG-GGTATAGGGATACTTTCACGTCGAAGGTATCCCCTAGGG-TATTTTTGTAATTTTTT
* * * *
73293 AGAACCGAGTCTTAGGTTATCACCGATTCCGCTTTTATGCTGAAGGTGGGTATTAAGGATAAGTT
64 AAAACCGAGTCTTAGGTTATCACCGAGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTT
73358 TATCCCTTTTATAGTCCTTTTTAAGTCCTTTAGGGTACTGAGGTACTTTTACGTCGAAGGTATCT
129 TATCCCTTTTATAGTCCTTTTTAAGTCCTTTAGGGTA-TGAGGTACTTTTACGTCGAAGGTATCT
* * * * * ** *
73423 CCTAGGAGTATGTTTGTAAATTTTCAAAATCGAGTCTTAGGTTATTACCGAGTTTGCTTTTATGT
193 CCTAGGGGTATTTTTGTAATTTTTTAAAATCGAGTCTTAGGTTATCACCGAGTCCGCTTTTATGC
* * *
73488 TGAAAGTGGGTATTTAGGATAGG-TTAGTCCCTTTTACAGTCCTTTTTATGT
258 TGAAGGTGGGTATTTAGGATAGGTTTA-TCCCTTTTATAGTCCTTTTTAAGT
* * * ** *
73539 CCTTTAGGGTATTGGGATATTTTCACGTCAAAGGTATCTCCAAAGGGCATTTTTGTAATTTTTTA
1 CCTTTAGGGTATAGGGATACTTTCACGTCGAAGGTATC-CCCTAGGGTATTTTTGTAATTTTTTA
* ** * ** *
73604 GAACTAAGTCTTAGGTTATCAGC-AGATCCAATTTTATTCCT-AAGGTGGGTATTTAGGATAGGT
65 AAACCGAGTCTTAGGTTATCACCGAG-TCCGCTTTTA-TGCTGAAGGTGGGTATTTAGGATAGGT
* * *
73667 TTATCCCTTTTATAGTCCTTTTGAAGTCTTTTAAGGGTATCGGGGTACTTTTACGTCGAAGGTAT
128 TTATCCCTTTTATAGTCCTTTTTAAGTCCTTT-AGGGTAT-GAGGTACTTTTACGTCGAAGGTAT
* * * * * **
73732 CTCCTAGGGGTATTTTTGTAAGTTTTCAAAATCGAGTCCTAGGTTATCACTGGGTTTGCTTTTAT
191 CTCCTAGGGGTATTTTTGTAATTTTTTAAAATCGAGTCTTAGGTTATCACCGAGTCCGCTTTTAT
* * * *
73797 GCCGCAGGTGGGTATTTAGGATAGGTTCATCCC-TTTAAAGTCCTTTTTAAGT
256 GCTGAAGGTGGGTATTTAGGATAGGTTTATCCCTTTTATAGTCCTTTTTAAGT
* * * *
73849 CCTTTAGCGGTATTGGGATATTTTCATGTCGAAAGTATCCCCTAGGGGTATTTTTGTAATTTTTT
1 CCTTTAG-GGTATAGGGATACTTTCACGTCGAAGGTATCCCCTA-GGGTATTTTTGTAATTTTTT
* * * * *
73914 AGAACCGAGTCCTT-GGTTATCATCAAGTCC-ATGTTTATGCCGAAGGTGGGTATTTAGGATAGG
64 AAAACCGAGT-CTTAGGTTATCACCGAGTCCGCT-TTTATGCTGAAGGTGGGTATTTAGGATAGG
* * * * * *
73977 TTCATCCCCTTTATAGTCCTTTTAAAGTCCTTTAGGGGTACCGTGATA-TTTTCACGTTCGAAGG
127 TTTATCCCTTTTATAGTCCTTTTTAAGTCCTTTA-GGGTA-TGAGGTACTTTT-ACG-TCGAAGG
* * * *
74041 TATCTCTTAGGGGCATTTTTGTAATTTTTTAGAATCGAGTCTTAGGTTATCACCGAGTCCACTTT
188 TATCTCCTAGGGGTATTTTTGTAATTTTTTAAAATCGAGTCTTAGGTTATCACCGAGTCCGCTTT
* *
74106 TATTCCT-AAGGTGGGCATTTAGGATAGGTTTATCCCTTTTATAGTCCTTTTTAAGT
253 TA-TGCTGAAGGTGGGTATTTAGGATAGGTTTATCCCTTTTATAGTCCTTTTTAAGT
* * * * ** *
74162 CCTTTAAGGGTACCAGGG-TACTTTTACGTCGAAGGTAT-CTCTAAGGGGTATGTCCGTAAGTTT
1 CCTTT-AGGGTA-TAGGGATACTTTCACGTCGAAGGTATCCCCT-A-GGGTATTTTTGTAATTTT
* * * *
74225 TCAAAATCGAAAG-C-TAAGTTATCACC-AGGTTCGCTTTTATG-TCGAAGGTGGGTATTTAGGA
62 TTAAAACCG--AGTCTTAGGTTATCACCGA-GTCCGCTTTTATGCT-GAAGGTGGGTATTTAGGA
* *
74286 TAGGTTCATCCC-TTTATAGTCCTTTTTTAGTCCTTTAGCGGTATTG-GGATA-TTTTCACGTCG
123 TAGGTTTATCCCTTTTATAGTCCTTTTTAAGTCCTTTAG-GGTA-TGAGG-TACTTTT-ACGTCG
* * * * * *
74348 AAAGTATC-CCATAGGGGTATTTTTGTACTTTTTTAGAATC-AGGTCATAGGTTATC-TCTAGGT
184 AAGGTATCTCC-TAGGGGTATTTTTGTAATTTTTTAAAATCGA-GTCTTAGGTTATCACCGA-GT
* *
74410 CCGCTTTTATGCCGAAGGT-GGTATTTAGGATAGGTTTAT-CCTTTTGTAGTCCTTTTTAAGT
246 CCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTTATCCCTTTTATAGTCCTTTTTAAGT
* * * *
74471 CCTTTAGAGGTA-CGGAGATACTTTCACATCGAAGGTATCTCTTAAGGGTATTTTTGTAATTTTT
1 CCTTTAG-GGTATAGG-GATACTTTCACGTCGAAGGTATCCCCT-AGGGTATTTTTGTAATTTTT
** * * * * * *
74535 CTAAAATTGAGTCCTAGGTCATCACCGAGTCCACTTCTA--CATCGAAGGTGTGCATTTAGGATA
63 -TAAAACCGAGTCTTAGGTTATCACCGAGTCCGCTTTTATGC-T-GAAGGTGGGTATTTAGGATA
*
74598 GG--T-T--C------A-TCCTTTTTAAGTCCTTTAGGGGTATCG-GGTACTTCTACGTCGAAGG
125 GGTTTATCCCTTTTATAGTCCTTTTTAAGTCCTTTA-GGGTAT-GAGGTACTTTTACGTCGAAGG
* * * * * * * *
74650 TATCCCCTAGGGGTATTTTCGTAATTTTTCAAAAT-GAACTCTTAGGTTGTCCCCAAGTTCGCTT
188 TATCTCCTAGGGGTATTTTTGTAATTTTTTAAAATCG-AGTCTTAGGTTATCACCGAGTCCGCTT
** *
74714 TTATGCCAAAGGTGGGCATTTAGGATA
252 TTATGCTGAAGGTGGGTATTTAGGATA
74741 AGTTCATCTT
Statistics
Matches: 1273, Mismatches: 181, Indels: 129
0.80 0.11 0.08
Matches are distributed among these distances:
298 69 0.05
299 44 0.03
300 2 0.00
305 1 0.00
307 3 0.00
308 5 0.00
309 65 0.05
310 358 0.28
311 460 0.36
312 143 0.11
313 115 0.09
314 6 0.00
315 2 0.00
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.39
Consensus pattern (308 bp):
CCTTTAGGGTATAGGGATACTTTCACGTCGAAGGTATCCCCTAGGGTATTTTTGTAATTTTTTAA
AACCGAGTCTTAGGTTATCACCGAGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTTA
TCCCTTTTATAGTCCTTTTTAAGTCCTTTAGGGTATGAGGTACTTTTACGTCGAAGGTATCTCCT
AGGGGTATTTTTGTAATTTTTTAAAATCGAGTCTTAGGTTATCACCGAGTCCGCTTTTATGCTGA
AGGTGGGTATTTAGGATAGGTTTATCCCTTTTATAGTCCTTTTTAAGT
Found at i:74748 original size:143 final size:145
Alignment explanation
Indices: 74459--74748 Score: 329
Period size: 143 Copynumber: 2.0 Consensus size: 145
74449 CCTTTTGTAG
* *
74459 TCCTTTTTAAGTCCTTTAGAGGTACGGAGATACTTTCACATCGAAGGTATCTCTTAAGGGTATTT
1 TCCTTTTTAAGTCCTTTAGAGGTACGGAGATACTTTCACATCGAAGGTATCCCCTAAGGGTATTT
* * * * * *
74524 TTGTAATTTTTCTAAAATTGAGTCCTAGGTCATCACCGAGTCCACTTCTACATCGAAGGTGTGCA
66 TCGTAATTTTTCTAAAATTGACTCCTAGGTCATCACCAAGTCCACTTCTACACCAAAGGTGGGCA
*
74589 TTTAGGATAGGTTCA
131 TTTAGGATAAGTTCA
* * *
74604 TCCTTTTTAAGTCCTTTAGGGGTATCGG-G-TAC-TTCTACGTCGAAGGTATCCCCTAGGGGTAT
1 TCCTTTTTAAGTCCTTTAGAGGTA-CGGAGATACTTTC-ACATCGAAGGTATCCCCTAAGGGTAT
* ** * * * * **
74666 TTTCGTAATTTTTC-AAAA-TGAACTCTTAGGTTGTCCCCAAGTTCGCTTTTATGCCAAAGGTGG
64 TTTCGTAATTTTTCTAAAATTG-ACTCCTAGGTCATCACCAAGTCCACTTCTACACCAAAGGTGG
74729 GCATTTAGGATAAGTTCA
128 GCATTTAGGATAAGTTCA
74747 TC
1 TC
74749 TTATTTATTT
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
142 2 0.02
143 54 0.45
144 38 0.31
145 24 0.20
146 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37
Consensus pattern (145 bp):
TCCTTTTTAAGTCCTTTAGAGGTACGGAGATACTTTCACATCGAAGGTATCCCCTAAGGGTATTT
TCGTAATTTTTCTAAAATTGACTCCTAGGTCATCACCAAGTCCACTTCTACACCAAAGGTGGGCA
TTTAGGATAAGTTCA
Found at i:75799 original size:41 final size:41
Alignment explanation
Indices: 75746--75880 Score: 130
Period size: 41 Copynumber: 3.2 Consensus size: 41
75736 CGAGGAGAGA
* *
75746 AAAGGTTTACCGGGGACTGAGCCAATAGGTAAATAATGGAT
1 AAAGGTTGACCGGGGACTGAGCCGATAGGTAAATAATGGAT
* ** * *
75787 AAAGGTTGACCGGAGACTGAGTTGATAGGTCACCATAA-GGGT
1 AAAGGTTGACCGGGGACTGAGCCGATAGGT-A-AATAATGGAT
* *
75829 AATAGGCTT-ACCGGGGACTTAGCCGATAGGCAAATAATGGAT
1 AA-AGG-TTGACCGGGGACTGAGCCGATAGGTAAATAATGGAT
*
75871 GAAGGTTGAC
1 AAAGGTTGAC
75881 TAAAGACTGA
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
40 2 0.03
41 34 0.47
42 11 0.15
43 24 0.33
44 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.21
Consensus pattern (41 bp):
AAAGGTTGACCGGGGACTGAGCCGATAGGTAAATAATGGAT
Found at i:75802 original size:84 final size:84
Alignment explanation
Indices: 75694--76294 Score: 557
Period size: 84 Copynumber: 7.1 Consensus size: 84
75684 CCTCAAGTAG
** * * * ** *
75694 ATAATGGATGAAGGTTG-GTAGGAGACTGAGCCGGCAGGTCACCGAGGAGAG-AAAAGGTTTACC
1 ATAATGGATGAAGGTTGACCA-GAGACTGAGCTGACAGGTCACC-AGAAGAGTAATGGGCTTACC
* * *
75757 GGGGACTGAGCCAATAGGTAA
64 GAGGACTAAGCCGATAGGTAA
* * * * * * * *
75778 ATAATGGATAAAGGTTGACCGGAGACTGAGTTGATAGGTCACCATAAGGGTAATAGGCTTACCGG
1 ATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCAGAAGAGTAATGGGCTTACCGA
* *
75843 GGACTTAGCCGATAGGCAA
66 GGACTAAGCCGATAGGTAA
* * * * * *
75862 ATAATGGATGAAGGTTGACTAAAGACTGAGCTGGCAAGTCACCATAA-AGGTAATGGGCTTACTG
1 ATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCAGAAGA-GTAATGGGCTTACCG
*
75926 AGGACTAAGCCGACAGGTAA
65 AGGACTAAGCCGATAGGTAA
* * * * * * *
75946 ATAATAGATGAAGGTTGACCGGAGACTGAGCTGGCAAGTCACCAACAAAAG-AA-GGGATTTACC
1 ATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACC-AGAAGAGTAATGGG-CTTACC
* *
76009 GAGGACTAAGCCGACAAGTAA
64 GAGGACTAAGCCGATAGGTAA
* * *
76030 ATAATGGATGAAGGTTGATCAGAGACTGAGCTGATAGGTCACC-GTAAGGGTAATGGGCTTACCG
1 ATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCAG-AAGAGTAATGGGCTTACCG
* **
76094 AGGACTCAGCTAATAGGTAA
65 AGGACTAAGCCGATAGGTAA
** * * * * *
76114 ATAACAGATGAAGGTTGACCAGAGACTGAGTTGATAGGTCACCATAAGGGTATTGGGCTTACCGA
1 ATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCAGAAGAGTAATGGGCTTACCGA
* *
76179 GGACTGAGCCGATAAGTAA
66 GGACTAAGCCGATAGGTAA
* * * * *
76198 ATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACTGG
1 ATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCAGAAGAGTAATGGGCTTACCGA
* *
76263 GGACTAAGCCAATAGATAA
66 GGACTAAGCCGATAGGTAA
*
76282 ACAATGAGATGAA
1 ATAATG-GATGAA
76295 AGTTATTTCC
Statistics
Matches: 429, Mismatches: 77, Indels: 21
0.81 0.15 0.04
Matches are distributed among these distances:
83 10 0.02
84 405 0.94
85 13 0.03
86 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (84 bp):
ATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCAGAAGAGTAATGGGCTTACCGA
GGACTAAGCCGATAGGTAA
Found at i:76185 original size:43 final size:42
Alignment explanation
Indices: 76053--76259 Score: 128
Period size: 43 Copynumber: 4.9 Consensus size: 42
76043 GTTGATCAGA
*
76053 GACTGAGCTGATAGGTCACCGTAAGGGTAATGGGCTTACCGAG
1 GACTGAGCTGATAGGTCACCATAAGGGT-ATGGGCTTACCGAG
* * * **
76096 GACTCAGCTAATAGGT-A-AATAACAG-ATGAAGG-TTGACC-AG
1 GACTGAGCTGATAGGTCACCATAAGGGTATG--GGCTT-ACCGAG
*
76136 AGACTGAGTTGATAGGTCACCATAAGGGTATTGGGCTTACCGAG
1 -GACTGAGCTGATAGGTCACCATAAGGGTA-TGGGCTTACCGAG
* * * *
76180 GACTGAGCCGATAAGT-A-AATAATGG-ATGAAGG-TTGACC-AG
1 GACTGAGCTGATAGGTCACCATAAGGGTATG--GGCTT-ACCGAG
* *
76220 AGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTAC
1 -GACTGAGCTGATAGGTCACCATAAGGGT-ATGGGCTTAC
76260 TGGGGACTAA
Statistics
Matches: 123, Mismatches: 22, Indels: 38
0.67 0.12 0.21
Matches are distributed among these distances:
39 5 0.04
40 9 0.07
41 46 0.37
42 4 0.03
43 47 0.38
44 7 0.06
45 5 0.04
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (42 bp):
GACTGAGCTGATAGGTCACCATAAGGGTATGGGCTTACCGAG
Found at i:76227 original size:41 final size:41
Alignment explanation
Indices: 76026--76236 Score: 132
Period size: 41 Copynumber: 5.0 Consensus size: 41
76016 AAGCCGACAA
*
76026 GTAAATAATGGATGAAGGTTGATCAGAGACTGAGCTGATAG
1 GTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGATAG
** * * *
76067 GTCACCGTAA-GGGT-AATGGGCTT-ACC-GAGGACTCAGCTAATAG
1 GT-A-AATAATGGATGAA--GG-TTGACCAGA-GACTGAGCTGATAG
** *
76110 GTAAATAACAGATGAAGGTTGACCAGAGACTGAGTTGATAG
1 GTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGATAG
* * * *
76151 GTCACCATAAGGGTATTG--GGCTT-ACC-GAGGACTGAGCCGATAA
1 GT-A-AATAATGG-A-TGAAGG-TTGACCAGA-GACTGAGCTGATAG
*
76194 GTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAG
1 GTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGATAG
76235 GT
1 GT
76237 CACCATAAGG
Statistics
Matches: 126, Mismatches: 24, Indels: 40
0.66 0.13 0.21
Matches are distributed among these distances:
39 2 0.02
40 5 0.04
41 49 0.39
42 17 0.13
43 46 0.37
44 5 0.04
45 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (41 bp):
GTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGATAG
Found at i:76269 original size:252 final size:251
Alignment explanation
Indices: 75675--76274 Score: 709
Period size: 252 Copynumber: 2.4 Consensus size: 251
75665 GGTTTATTGG
** * ** * *
75675 GGACTAAGCCCTCAAGTAGATAATGGATGAAGGTTG-GTAGGAGACTGAGCCGGCAGGTCACCGA
1 GGACTAAGCCGACAAGTAAATAATGGATGAAGGTTGACCA-GAGACTGAGCTGGCAGGTCACCAA
** * * * * *
75739 GGAGAGAAAAGGTTTACCGGGGACTGAGCCAATAGGTAAATAATGGATAAAGGTTGACCGGAGAC
65 CAAGAG-AAGGGTTTACCGGGGACTAAGCCAACAAGTAAATAATGGATAAAGGTTGACCAGAGAC
* * * * **
75804 TGAGTTGATAGGTCACCATAAGGGTAATAGGCTTACCGGGGACTTAGCCGATAGGCAAATAATGG
129 TGAGCTGATAGGTCACCATAAGGGTAATAGGCTTACCGAGGACTCAGCCAATAGGCAAATAACAG
* * *
75869 ATGAAGGTTGACTAAAGACTGAGCTGGCAAGTCACCATAAAGGTAATGGGCTTACTGA
194 ATGAAGGTTGACCAAAGACTGAGCTGACAAGTCACCATAAAGGTAATGGGCTTACCGA
* * * *
75927 GGACTAAGCCGACAGGTAAATAATAGATGAAGGTTGACCGGAGACTGAGCTGGCAAGTCACCAAC
1 GGACTAAGCCGACAAGTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGGCAGGTCACCAAC
* * * * *
75992 AAAAGAAGGGATTTACCGAGGACTAAGCCGACAAGTAAATAATGGATGAAGGTTGATCAGAGACT
66 AAGAGAAGGG-TTTACCGGGGACTAAGCCAACAAGTAAATAATGGATAAAGGTTGACCAGAGACT
* * * *
76057 GAGCTGATAGGTCACCGTAAGGGTAATGGGCTTACCGAGGACTCAGCTAATAGGTAAATAACAGA
130 GAGCTGATAGGTCACCATAAGGGTAATAGGCTTACCGAGGACTCAGCCAATAGGCAAATAACAGA
* * * * * *
76122 TGAAGGTTGACCAGAGACTGAGTTGATAGGTCACCATAAGGGTATTGGGCTTACCGA
195 TGAAGGTTGACCAAAGACTGAGCTGACAAGTCACCATAAAGGTAATGGGCTTACCGA
* * * *
76179 GGACTGAGCCGATAAGTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACC-AT
1 GGACTAAGCCGACAAGTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGGCAGGTCACCAAC
* *
76243 AAGGGTAATGGGTTTACTGGGGACTAAGCCAA
66 AAGAG-AA-GGGTTTACCGGGGACTAAGCCAA
76275 TAGATAAACA
Statistics
Matches: 289, Mismatches: 55, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
251 8 0.03
252 278 0.96
253 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.20
Consensus pattern (251 bp):
GGACTAAGCCGACAAGTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGGCAGGTCACCAAC
AAGAGAAGGGTTTACCGGGGACTAAGCCAACAAGTAAATAATGGATAAAGGTTGACCAGAGACTG
AGCTGATAGGTCACCATAAGGGTAATAGGCTTACCGAGGACTCAGCCAATAGGCAAATAACAGAT
GAAGGTTGACCAAAGACTGAGCTGACAAGTCACCATAAAGGTAATGGGCTTACCGA
Found at i:76954 original size:78 final size:78
Alignment explanation
Indices: 76783--77204 Score: 412
Period size: 78 Copynumber: 5.5 Consensus size: 78
76773 AAACATGTAG
* * * * * * * * *
76783 GAAGTG-CCCTTCATGGCCAAGTGATACATCAATACCATTTAGTATTTGAGAAGGAAGGATATGA
1 GAAGTGCCCCTT-TTGGCCATGTGATGCATCAATATCATCTAGTGTTTAAGAAGGAGGGATATAA
* *
76847 TTAGAA--GTGT-A
65 CTAGAAGCGAGTGA
* *
76858 -AAGTG-CCCTTCTTGGCCATGTGATGCATCAATATCATCTAGTGTTTAAG-AGTGAAGAATATA
1 GAAGTGCCCCTT-TTGGCCATGTGATGCATCAATATCATCTAGTGTTTAAGAAG-GAGGGATATA
* * *
76920 ACTCGAAGCGAATGG
64 ACTAGAAGCGAGTGA
* * * *
76935 GAAGTGCCCCTTTTAGCCATGGGATGCATCAATATCATCTAGTGTTTATGAAGGAGGGATATGAC
1 GAAGTGCCCCTTTTGGCCATGTGATGCATCAATATCATCTAGTGTTTAAGAAGGAGGGATATAAC
*
77000 TATAAGCGAGTGA
66 TAGAAGCGAGTGA
* * * *
77013 G-AGATGCCCCTTTTAGCCATGGGATGCATCAATATCATCTAGTGTTTATGAAGGAGGGATATGA
1 GAAG-TGCCCCTTTTGGCCATGTGATGCATCAATATCATCTAGTGTTTAAGAAGGAGGGATATAA
*
77077 CTATAAGCGAGTGA
65 CTAGAAGCGAGTGA
* * * * * *
77091 GAGGTGCCCCTCTTGGCTATGTGATGCATCAATATCATCTAGTGTTTGAGAATGAGGGATACAAC
1 GAAGTGCCCCTTTTGGCCATGTGATGCATCAATATCATCTAGTGTTTAAGAAGGAGGGATATAAC
* *
77156 TAGAAGTGAGTGG
66 TAGAAGCGAGTGA
**
77169 GAAGTGCCCCTCATGGCCCA-GTGATGCATCAATATC
1 GAAGTGCCCCTTTTGG-CCATGTGATGCATCAATATC
77205 CTTTAGGGAT
Statistics
Matches: 297, Mismatches: 40, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
73 2 0.01
74 55 0.19
76 2 0.01
77 2 0.01
78 226 0.76
79 10 0.03
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (78 bp):
GAAGTGCCCCTTTTGGCCATGTGATGCATCAATATCATCTAGTGTTTAAGAAGGAGGGATATAAC
TAGAAGCGAGTGA
Found at i:78105 original size:20 final size:20
Alignment explanation
Indices: 78080--78125 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
78070 CAATAAAAAG
78080 GCAAATGCATATGGAATAAT
1 GCAAATGCATATGGAATAAT
78100 GCAAATGCATATGGAATAAT
1 GCAAATGCATATGGAATAAT
78120 GCAAAT
1 GCAAAT
78126 ACCAATGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.24
Consensus pattern (20 bp):
GCAAATGCATATGGAATAAT
Found at i:78139 original size:108 final size:108
Alignment explanation
Indices: 77992--78223 Score: 297
Period size: 108 Copynumber: 2.1 Consensus size: 108
77982 CAACAAAAGG
* * * * * *
77992 GCAAACGCATATGCAATGATGCAAATACCACTGTCATCTAAAGTGCATGTGTATGTGAAATAATG
1 GCAAATGCATATGCAATAATGCAAATACCAATGTCATCTAAAATGCATATGTAGGTGAAATAATG
* *
78057 CAAATGCAAACATCAATAAAAAGGCAAATGCATATGGAATA-AT
66 CAAATGCAAACATCAATAAAAAGGCAAAAGCATAT-GAAAAGAT
* * *
78100 GCAAATGCATATGGAATAATGCAAATACCAATGTTATCTAAAATGCATATGTAGGTGAAATGATG
1 GCAAATGCATATGCAATAATGCAAATACCAATGTCATCTAAAATGCATATGTAGGTGAAATAATG
* * **
78165 CAATTGCAAGCATCAATAGGAAGGCAAAAGCATATGAAAAGAT
66 CAAATGCAAACATCAATAAAAAGGCAAAAGCATATGAAAAGAT
78208 GCAAATGC-TGATGCAA
1 GCAAATGCAT-ATGCAA
78224 ACTAATTCCA
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
107 5 0.05
108 101 0.95
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (108 bp):
GCAAATGCATATGCAATAATGCAAATACCAATGTCATCTAAAATGCATATGTAGGTGAAATAATG
CAAATGCAAACATCAATAAAAAGGCAAAAGCATATGAAAAGAT
Found at i:78735 original size:110 final size:112
Alignment explanation
Indices: 78477--78772 Score: 268
Period size: 110 Copynumber: 2.7 Consensus size: 112
78467 GGGCGCATGC
* * * * * * *
78477 CCCATTTTCCTAGGTATGAATGTG-TCGGAACGTATGAAATAT-AAGTTTCTTCCAAAATGC-AA
1 CCCATTTCCCTAGGCACGAATG-GATCGAAACGTATAAAACATGAA-TTTCTTCGAAAAT-CAAA
* * * *
78539 CATATTTGATGT-TGCAAGGCTC--AAAGATTGCAAAACTGATAAGATACGTG
63 CAAATTTGATGTGTG-GA-GCTCAAAAAGATTG-AAAACTAACAAGATACGTG
* * *** *
78589 CTCTTTTCCCTAGGCACGAATGGATCGAAACGTATAAAGTGTGAATTTCTTCGAAAATCAAGCAA
1 CCCATTTCCCTAGGCACGAATGGATCGAAACGTATAAAACATGAATTTCTTCGAAAATCAAACAA
78654 ATTTGATGTGTGGAGCTCAAAAAGATTG-AAACTAACAAGATAC-TG
66 ATTTGATGTGTGGAGCTCAAAAAGATTGAAAACTAACAAGATACGTG
* * * * *
78699 CCCATTTCCTTAGGCATGAATGGATC-AAGATGTATAAAACATGAATTTCTTTGAAAATTAAACA
1 CCCATTTCCCTAGGCACGAATGGATCGAA-ACGTATAAAACATGAATTTCTTCGAAAATCAAACA
78763 AATTTGATGT
65 AATTTGATGT
78773 TTTTCCAAGT
Statistics
Matches: 151, Mismatches: 26, Indels: 16
0.78 0.13 0.08
Matches are distributed among these distances:
109 2 0.01
110 62 0.41
111 19 0.13
112 56 0.37
113 12 0.08
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (112 bp):
CCCATTTCCCTAGGCACGAATGGATCGAAACGTATAAAACATGAATTTCTTCGAAAATCAAACAA
ATTTGATGTGTGGAGCTCAAAAAGATTGAAAACTAACAAGATACGTG
Found at i:79057 original size:18 final size:18
Alignment explanation
Indices: 79036--79070 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79026 ATTCTTTCCA
* *
79036 TTTTTTTTTTGCTTTTTC
1 TTTTTTCTTTCCTTTTTC
79054 TTTTTTCTTTCCTTTTT
1 TTTTTTCTTTCCTTTTT
79071 ATTTATCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTTTTCTTTCCTTTTTC
Found at i:91252 original size:13 final size:13
Alignment explanation
Indices: 91234--91259 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91224 CAATTTTTTG
91234 TGTATCGATACAT
1 TGTATCGATACAT
91247 TGTATCGATACAT
1 TGTATCGATACAT
91260 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:91997 original size:21 final size:21
Alignment explanation
Indices: 91956--91999 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
91946 CTCCCCTTTA
* *
91956 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
91977 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
91998 TC
1 TC
92000 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:93823 original size:13 final size:13
Alignment explanation
Indices: 93805--93843 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
93795 ATAATCACCC
93805 TGTATCGATACAA
1 TGTATCGATACAA
93818 TGTATCGATACAA
1 TGTATCGATACAA
93831 TGTATCGATACAA
1 TGTATCGATACAA
93844 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:95942 original size:15 final size:15
Alignment explanation
Indices: 95922--95952 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
95912 ATTTCGTTTG
*
95922 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
95937 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
95952 G
1 G
95953 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:96896 original size:20 final size:19
Alignment explanation
Indices: 96850--96927 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
96840 TCATACCCTG
* * *
96850 ATGTATCGATGCATTTTTTA
1 ATGTATCGATACA-TTATGA
*
96870 ATATATCGATACATGTATGA
1 ATGTATCGATACAT-TATGA
* * *
96890 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTAT-GA
96910 ATGTATCGATACATTATG
1 ATGTATCGATACATTATG
96928 TCTTTTTACC
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
19 3 0.07
20 42 0.93
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTATGA
Done.