Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 55 of 56
Found at i:9344333 original size:32 final size:33
Alignment explanation
Indices: 9344257--9344577 Score: 485
Period size: 33 Copynumber: 9.9 Consensus size: 33
9344247 TATTGGGCTT
9344257 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
9344290 AG-A-GGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
9344321 AGAA-GGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
9344352 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
9344385 AGAA-GGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
9344417 AGAATGGTTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
9344450 AAAAGGGTTGCCACCGACTTGTGTGGGCTCTAA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
9344483 AGAA-GGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
9344515 AGAATGGTTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
9344547 AAAAAGGGTTGCCACCGACTTGTGTGGGCTT
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTT
9344578 AAAAGGGAAA
Statistics
Matches: 267, Mismatches: 15, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
31 35 0.13
32 115 0.43
33 117 0.44
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:9344487 original size:98 final size:98
Alignment explanation
Indices: 9344259--9344582 Score: 555
Period size: 98 Copynumber: 3.3 Consensus size: 98
9344249 TTGGGCTTAG
* *
9344259 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG-AGGTTGCCACCGACTTGTGTGGGCTTTAGAG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGTTGCCACCAACTTGTGTGGGCTTTAGAG
* *
9344323 AA-GGTTGCCACCGACTTGTGTGGGCTTT-GAG
66 AATGGTTGCCACCAACTTGTGTGGGCTTTGGAA
*
9344354 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCAACTTGTGTGGGCTTTAGAG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGTTGCCACCAACTTGTGTGGGCTTTAGAG
9344419 AATGGTTGCCACCAACTTGTGTGGGCTTTGGAA
66 AATGGTTGCCACCAACTTGTGTGGGCTTTGGAA
*
9344452 AAGGGTTGCCACCGACTTGTGTGGGCTCTAAAGAAGGTTGCCACCAACTTGTGTGGGCTTTAGAG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGTTGCCACCAACTTGTGTGGGCTTTAGAG
*
9344517 AATGGTTGCCACCAACTTGTGTGGGCTTTGAAA
66 AATGGTTGCCACCAACTTGTGTGGGCTTTGGAA
*
9344550 AAGGGTTGCCACCGACTTGTGTGGGCTTAAAAG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAAAG
9344583 GGAAAAAGAG
Statistics
Matches: 218, Mismatches: 8, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
95 33 0.15
96 32 0.15
97 25 0.11
98 128 0.59
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (98 bp):
AAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGTTGCCACCAACTTGTGTGGGCTTTAGAG
AATGGTTGCCACCAACTTGTGTGGGCTTTGGAA
Found at i:9344629 original size:31 final size:31
Alignment explanation
Indices: 9344588--9344955 Score: 216
Period size: 31 Copynumber: 12.0 Consensus size: 31
9344578 AAAAGGGAAA
* *
9344588 AAGAGTGCCACAGAGTTGTGGTCTTTGAAAAG
1 AAGA-TGCCACAGAGTCGTGGACTTTGAAAAG
* * *
9344620 AAGATGCCACGGAGTTGTGGGC-TT-AAAAG
1 AAGATGCCACAGAGTCGTGGACTTTGAAAAG
*
9344649 --GGTGCCACAGAGTCGTGGACTTTGAAGAA-
1 AAGATGCCACAGAGTCGTGGACTTTGAA-AAG
* ** *
9344678 AAAATGCCATTGAGTCGTGGACTTTGGAAAG
1 AAGATGCCACAGAGTCGTGGACTTTGAAAAG
* * *
9344709 -AGATGCCACTGAGTTGTGGGC-TT-AAAAG
1 AAGATGCCACAGAGTCGTGGACTTTGAAAAG
* *
9344737 --GGTGCCACAGAGTTGTGGAC-TT-AAAAGG
1 AAGATGCCACAGAGTCGTGGACTTTGAAAA-G
* *
9344765 AAAAGAGTGCCAC-GTAGTTGTGGGCTTTGAAAAG
1 --AAGA-TGCCACAG-AGTCGTGGACTTTGAAAAG
* * *
9344799 AA-AGTGCCACGGAGTTGTGGACTTTGAAAGAAA
1 AAGA-TGCCACAGAGTCGTGGACTTTG-AA-AAG
* *
9344832 AAGGTGCCACGGAGTCGTGGACTTTGAAGAA-
1 AAGATGCCACAGAGTCGTGGACTTTGAA-AAG
*
9344863 AAGGATGCCACTA-AGTCGTGGACTTTGAGACA-
1 AA-GATGCCAC-AGAGTCGTGGACTTTGA-AAAG
* * *
9344895 AA-ATGCCACTGAGTCATGGACTTTGAGAAG
1 AAGATGCCACAGAGTCGTGGACTTTGAAAAG
* *
9344925 -AGATTGCCACTGAGTCGTGGACTTTAAAAAG
1 AAGA-TGCCACAGAGTCGTGGACTTTGAAAAG
9344956 GTATTTGAAG
Statistics
Matches: 275, Mismatches: 35, Indels: 53
0.76 0.10 0.15
Matches are distributed among these distances:
27 39 0.14
28 7 0.03
29 11 0.04
30 45 0.16
31 84 0.31
32 41 0.15
33 41 0.15
34 3 0.01
35 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (31 bp):
AAGATGCCACAGAGTCGTGGACTTTGAAAAG
Found at i:9344743 original size:88 final size:88
Alignment explanation
Indices: 9344586--9344890 Score: 315
Period size: 88 Copynumber: 3.3 Consensus size: 88
9344576 TTAAAAGGGA
* * * *
9344586 AAAAGAGTGCCACAGAGTTGTGGTCTTTGAAAAGAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
1 AAAAGAATGCCA-TGAGTCGTGGACTTTGAAAAG-AGATGCCACGGAGTTGTGGGCTTAAAAGGG
9344651 TGCCACAGAGTCGTGGACTTTGAAG
64 TGCCACAGAGTCGTGGACTTTGAAG
* *
9344676 AAAA-AATGCCATTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTTGTGGGCTTAAAAGGGT
1 AAAAGAATGCCA-TGAGTCGTGGACTTTGAAAAGAGATGCCACGGAGTTGTGGGCTTAAAAGGGT
* **
9344740 GCCACAGAGTTGTGGACTTAAAAGG
65 GCCACAGAGTCGTGGACTTTGAA-G
* * * * * *
9344765 AAAAGAGTGCCACGTAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTTGTGGACTTTGAAAGA
1 AAAAGAATGCCATG-AGTCGTGGACTTTGAAAAGAGA-TGCCACGGAGTTGTGGGC-TT-----A
* *
9344830 AAAAGGTGCCACGGAGTCGTGGACTTTGAAG
58 AAAGGGTGCCACAGAGTCGTGGACTTTGAAG
* *
9344861 AAAAGGATGCCACTAAGTCGTGGACTTTGA
1 AAAAGAATGCCA-TGAGTCGTGGACTTTGA
9344891 GACAAAATGC
Statistics
Matches: 175, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
88 50 0.29
89 29 0.17
90 28 0.16
91 16 0.09
92 2 0.01
96 24 0.14
97 26 0.15
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (88 bp):
AAAAGAATGCCATGAGTCGTGGACTTTGAAAAGAGATGCCACGGAGTTGTGGGCTTAAAAGGGTG
CCACAGAGTCGTGGACTTTGAAG
Found at i:9345902 original size:21 final size:21
Alignment explanation
Indices: 9345877--9345916 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9345867 CTCACCGAGA
9345877 TTTTCTAT-TTTGTTTTTTTCT
1 TTTTCTATCTTT-TTTTTTTCT
*
9345898 TTTTCTCTCTTTTTTTTTT
1 TTTTCTATCTTTTTTTTTT
9345917 GGAAAAGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (21 bp):
TTTTCTATCTTTTTTTTTTCT
Found at i:9346173 original size:12 final size:11
Alignment explanation
Indices: 9346169--9346220 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
9346159 TTTCTGTGTT
9346169 TTTTTTTTGTG
1 TTTTTTTTGTG
9346180 TTTTTTTT-TG
1 TTTTTTTTGTG
*
9346190 TTTTGTTTTTTG
1 TTTT-TTTTGTG
*
9346202 TTTTTGTTTTTTG
1 -TTTT-TTTTGTG
9346215 TTTTTT
1 TTTTTT
9346221 GTATTAAGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.16
11 14 0.37
12 6 0.16
13 12 0.32
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:9346174 original size:13 final size:12
Alignment explanation
Indices: 9346156--9346220 Score: 73
Period size: 12 Copynumber: 5.4 Consensus size: 12
9346146 CCTTTGCACC
*
9346156 TTTTTTCTGTGTT
1 TTTTTTTTGTG-T
9346169 TTTTTTTTGTGT
1 TTTTTTTTGTGT
9346181 TTTTTTTTGT-T
1 TTTTTTTTGTGT
9346192 TTGTTTTTTGT-T
1 TT-TTTTTTGTGT
9346204 TTTGTTTTT-TGT
1 TTT-TTTTTGTGT
9346216 TTTTT
1 TTTTT
9346221 GTATTAAGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
11 7 0.15
12 31 0.65
13 10 0.21
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.85
Consensus pattern (12 bp):
TTTTTTTTGTGT
Found at i:9346193 original size:7 final size:7
Alignment explanation
Indices: 9346165--9346222 Score: 75
Period size: 7 Copynumber: 8.4 Consensus size: 7
9346155 CTTTTTTCTG
9346165 TGTTTTT
1 TGTTTTT
*
9346172 T-TTTTG
1 TGTTTTT
9346178 TGTTTTT
1 TGTTTTT
*
9346185 TTTTGTTT
1 TGTT-TTT
9346193 TGTTTTT
1 TGTTTTT
9346200 TG-TTTT
1 TGTTTTT
9346206 TGTTTTT
1 TGTTTTT
9346213 TGTTTTT
1 TGTTTTT
9346220 TGT
1 TGT
9346223 ATTAAGGGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
6 11 0.25
7 27 0.61
8 6 0.14
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (7 bp):
TGTTTTT
Found at i:9346198 original size:25 final size:23
Alignment explanation
Indices: 9346156--9346220 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 23
9346146 CCTTTGCACC
*
9346156 TTTTTTCTGTGTTTTTTTTTTGTG
1 TTTTTT-TTTGTTTTTTTTTTGTG
*
9346180 TTTTTTTTTGTTTTGTTTTTTGTT
1 TTTTTTTTTGTTTT-TTTTTTGTG
9346204 TTTGTTTTTTGTTTTTT
1 TTT-TTTTTTGTTTTTT
9346221 GTATTAAGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 7 0.19
24 19 0.51
25 11 0.30
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.85
Consensus pattern (23 bp):
TTTTTTTTTGTTTTTTTTTTGTG
Found at i:9346205 original size:20 final size:20
Alignment explanation
Indices: 9346157--9346222 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
9346147 CTTTGCACCT
9346157 TTTTTCTGTGTTTT-TTTTTTG
1 TTTTT-TGT-TTTTGTTTTTTG
*
9346178 TGTTTT-TTTTTG--TTTTG
1 TTTTTTGTTTTTGTTTTTTG
9346195 TTTTTTGTTTTTGTTTTTTG
1 TTTTTTGTTTTTGTTTTTTG
9346215 TTTTTTGT
1 TTTTTTGT
9346223 ATTAAGGGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 10 0.26
18 10 0.26
19 1 0.03
20 14 0.36
21 4 0.10
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (20 bp):
TTTTTTGTTTTTGTTTTTTG
Found at i:9350789 original size:25 final size:25
Alignment explanation
Indices: 9350755--9350805 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
9350745 GGAAGGAGAA
9350755 AGAAAATGGTCGTAATGTATCTCGG
1 AGAAAATGGTCGTAATGTATCTCGG
9350780 AGAAAATGGTCGTAATGTATCTCGG
1 AGAAAATGGTCGTAATGTATCTCGG
9350805 A
1 A
9350806 CTTGCCACCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (25 bp):
AGAAAATGGTCGTAATGTATCTCGG
Found at i:9353241 original size:52 final size:52
Alignment explanation
Indices: 9353093--9353221 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
9353083 CGAAATATGA
* *
9353093 AAATTTGCCTGCATGTATCAATACATTTTATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
9353145 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
9353197 AAATTTTCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
9353222 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:9353248 original size:13 final size:13
Alignment explanation
Indices: 9353230--9353254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9353220 CAAAGATCAG
9353230 TGTATCGATACAA
1 TGTATCGATACAA
9353243 TGTATCGATACA
1 TGTATCGATACA
9353255 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:9353360 original size:33 final size:32
Alignment explanation
Indices: 9353297--9353361 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
9353287 TAGCTTAAAT
9353297 TGTATCGATACAAAACTTATGTATCAATACAA
1 TGTATCGATACAAAACTTATGTATCAATACAA
** *
9353329 TGTATCGATACAATATTTTATGTATCGATACAA
1 TGTATCGATACAA-AACTTATGTATCAATACAA
9353362 ATCGTTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCAATACAA
Found at i:9360241 original size:16 final size:16
Alignment explanation
Indices: 9360220--9360258 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
9360210 AATAAATAGT
9360220 AACTAA-AATTGGAGAA
1 AACTAAGAATT-GAGAA
9360236 AACTAAGAATTGAGAA
1 AACTAAGAATTGAGAA
9360252 AA-TAAGA
1 AACTAAGA
9360259 CCAATTATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.23
16 13 0.59
17 4 0.18
ACGTcount: A:0.59, C:0.05, G:0.18, T:0.18
Consensus pattern (16 bp):
AACTAAGAATTGAGAA
Found at i:9363582 original size:113 final size:115
Alignment explanation
Indices: 9363381--9363603 Score: 269
Period size: 113 Copynumber: 2.0 Consensus size: 115
9363371 AAAATTAGCC
* **
9363381 CAATACAATTAAATAAAATAAGCCCCAAATAAGTTAATCAAATATGTACGTGGGCCTTATTTTAT
1 CAATACAATTAAATAAAATAAGCCCCAAATAAATTAATCAAATATGTACGTGAACCTTATTTTAT
* * * *
9363446 TCAATATATTTTTTATGGAGCTTGATCTTAAATT-AAATAATTTATGACT
66 TCAATATATTGTTTATCGAGCTTGACCCTAAATTAAAATAATTTATGACT
* * *
9363495 CAATATAATTAAATAAAATAAG-CCCAAATAAATTAATTAAATATGCT-TGTTGAACC-TATTTT
1 CAATACAATTAAATAAAATAAGCCCCAAATAAATTAATCAAATATG-TACG-TGAACCTTATTTT
*
9363557 A-TCTAATATATTGTTTATACG-GCTTGGCCCTAAATTAAAATAATTTA
64 ATTC-AATATATTGTTTAT-CGAGCTTGACCCTAAATTAAAATAATTTA
9363604 AGACCTTAAC
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
112 2 0.02
113 54 0.58
114 37 0.40
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (115 bp):
CAATACAATTAAATAAAATAAGCCCCAAATAAATTAATCAAATATGTACGTGAACCTTATTTTAT
TCAATATATTGTTTATCGAGCTTGACCCTAAATTAAAATAATTTATGACT
Found at i:9365982 original size:20 final size:20
Alignment explanation
Indices: 9365957--9366051 Score: 131
Period size: 20 Copynumber: 4.8 Consensus size: 20
9365947 TTTTCACAAT
9365957 TTGTATCGATACATTGTT-CA
1 TTGTATCGATACATT-TTACA
*
9365977 TTGTATCGATACATTTTGCA
1 TTGTATCGATACATTTTACA
*
9365997 TTGTATCGATACATTGCT-CA
1 TTGTATCGATACATT-TTACA
9366017 TTGTATCGATACATTTTACA
1 TTGTATCGATACATTTTACA
*
9366037 ATGTATCGATACATT
1 TTGTATCGATACATT
9366052 CAGGCATTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.04
20 65 0.94
21 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTTTACA
Found at i:9366004 original size:40 final size:40
Alignment explanation
Indices: 9365957--9366051 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
9365947 TTTTCACAAT
* *
9365957 TTGTATCGATACATTGTTCATTGTATCGATACATTTTGCA
1 TTGTATCGATACATTGCTCATTGTATCGATACATTTTACA
9365997 TTGTATCGATACATTGCTCATTGTATCGATACATTTTACA
1 TTGTATCGATACATTGCTCATTGTATCGATACATTTTACA
*
9366037 ATGTATCGATACATT
1 TTGTATCGATACATT
9366052 CAGGCATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (40 bp):
TTGTATCGATACATTGCTCATTGTATCGATACATTTTACA
Found at i:9368423 original size:51 final size:52
Alignment explanation
Indices: 9368343--9368508 Score: 149
Period size: 51 Copynumber: 3.2 Consensus size: 52
9368333 ATTTTTCATC
** * * *
9368343 TCGGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAATTTTT-CTTAA
1 TCGGGGATACTCCAACT-CCAATTTTATTTCCAAAACACCAATTTTTCCATAA
* * * * * *
9368394 TCGGGTATATTCCAACTTCGATTTTATTTCTAAAACACCCATTTTTCCATAA
1 TCGGGGATACTCCAACTCCAATTTTATTTCCAAAACACCAATTTTTCCATAA
* * ** * *
9368446 TTGGGGATACTGCAACTCCAATTTTATTTCCAAAACACTGACTTTT-CACAA
1 TCGGGGATACTCCAACTCCAATTTTATTTCCAAAACACCAATTTTTCCATAA
9368497 TCGGGGATACTC
1 TCGGGGATACTC
9368509 TAACCTCGTT
Statistics
Matches: 91, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
51 50 0.55
52 41 0.45
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (52 bp):
TCGGGGATACTCCAACTCCAATTTTATTTCCAAAACACCAATTTTTCCATAA
Found at i:9368598 original size:76 final size:78
Alignment explanation
Indices: 9368467--9368670 Score: 261
Period size: 76 Copynumber: 2.6 Consensus size: 78
9368457 GCAACTCCAA
* * * * * *
9368467 TTTTATTTCCAAAACACTGACTTTTCACAATCGGGGATACTCTAACCTCGTTATTTCCGAGGA-A
1 TTTTATTTCTAAAACA-TCAATTTTTATAATCGGGGATACTCTAACCCCGTTATTTCCGAGGAGA
9368531 GCACTCCAACCCCGG
65 -CACTCCAACCCCGG
* * * * *
9368546 TTTTATTTCTAAAACATCAA-TTTT-TCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
1 TTTTATTTCTAAAACATCAATTTTTATAATCGGGGATACTCTAACCCCGTTATTTCCGAGGAGAC
9368609 ACTCCAACCCCGG
66 ACTCCAACCCCGG
9368622 TTTTATTTCTAAAACATCAATTTTTTATAATCGGGGATACTCTAACCCC
1 TTTTATTTCTAAAACATCAA-TTTTTATAATCGGGGATACTCTAACCCC
9368671 AGTTTTATTT
Statistics
Matches: 108, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
76 63 0.58
77 4 0.04
78 6 0.06
79 35 0.32
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
TTTTATTTCTAAAACATCAATTTTTATAATCGGGGATACTCTAACCCCGTTATTTCCGAGGAGAC
ACTCCAACCCCGG
Found at i:9368669 original size:51 final size:50
Alignment explanation
Indices: 9368603--9368773 Score: 216
Period size: 51 Copynumber: 3.4 Consensus size: 50
9368593 TTATTTTCGA
*
9368603 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACA-CAATTTTTTACAATC
* * * ** *
9368654 GGGGATACTCTAACCCCAGTTTTATTTCTAAAACACCAATTCTCCACAATA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACA-CAATTTTTTACAATC
* * * *
9368705 GGGGATATTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTTACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC-AATTTTTTACAATC
9368756 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
9368774 TTATTTCATC
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
50 1 0.01
51 98 0.99
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACAATTTTTTACAATC
Found at i:9368793 original size:28 final size:29
Alignment explanation
Indices: 9368753--9368828 Score: 111
Period size: 28 Copynumber: 2.7 Consensus size: 29
9368743 ATTTTTTACA
9368753 ATCGGGGATACTCCAACCCCGTTATTT-C
1 ATCGGGGATACTCCAACCCCGTTATTTCC
* *
9368781 ATCGGGGGTACTCCAACCCAGTTATTTCC
1 ATCGGGGATACTCCAACCCCGTTATTTCC
*
9368810 A-AGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
9368829 AGCTTTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 40 0.95
29 2 0.05
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCGTTATTTCC
Found at i:9368888 original size:51 final size:51
Alignment explanation
Indices: 9368816--9368929 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
9368806 TTCCAAGGGG
** * *
9368816 ATACTCCAACCCCAGCTTTATTTCTAATATATTGATTTCTCACAATCAGGA
1 ATACTCCAACCCTGGCCTTATTTCTAAAATATTGATTTCTCACAATCAGGA
* * * **
9368867 ATACTTCAACCCTGGCCTTATTTCTAAAATATTGATTTGTCATAATTGGGA
1 ATACTCCAACCCTGGCCTTATTTCTAAAATATTGATTTCTCACAATCAGGA
9368918 ATACTCCAACCC
1 ATACTCCAACCC
9368930 CATTATTTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (51 bp):
ATACTCCAACCCTGGCCTTATTTCTAAAATATTGATTTCTCACAATCAGGA
Found at i:9371166 original size:4 final size:4
Alignment explanation
Indices: 9371157--9371181 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9371147 TATTTTGAGG
9371157 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
9371182 GTTTTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:9381446 original size:1 final size:1
Alignment explanation
Indices: 9381442--9381528 Score: 66
Period size: 1 Copynumber: 87.0 Consensus size: 1
9381432 ATTCTTTTTT
* * ** * * * * *
9381442 AAAAAAACAAAAAAACAGCAAAAAAAACAAAAAACAAAAAAAAAAAAAAAACAAAAAACAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
9381507 AAGAAAAAAGAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAA
9381529 GAAGAACCTG
Statistics
Matches: 63, Mismatches: 23, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:9381463 original size:11 final size:9
Alignment explanation
Indices: 9381442--9381526 Score: 81
Period size: 9 Copynumber: 9.8 Consensus size: 9
9381432 ATTCTTTTTT
9381442 AAAAAAACA
1 AAAAAAACA
9381451 AAAAAACAGCA
1 AAAAAA-A-CA
9381462 AAAAAAAC-
1 AAAAAAACA
9381470 -AAAAAACA
1 AAAAAAACA
9381478 AAAAAAA-A
1 AAAAAAACA
9381486 AAAAAAAC-
1 AAAAAAACA
9381494 -AAAAAACA
1 AAAAAAACA
* *
9381502 AAACAAAGA
1 AAAAAAACA
* *
9381511 AAAAAGAGA
1 AAAAAAACA
9381520 AAAAAAA
1 AAAAAAA
9381527 AAGAAGAACC
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
7 14 0.22
8 8 0.12
9 32 0.50
10 2 0.03
11 8 0.12
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:9381488 original size:24 final size:24
Alignment explanation
Indices: 9381443--9381528 Score: 102
Period size: 24 Copynumber: 3.5 Consensus size: 24
9381433 TTCTTTTTTA
9381443 AAAAAACAAAAAAACAGCAAAAAAAAC
1 AAAAAACAAAAAAA-A--AAAAAAAAC
9381470 AAAAAACAAAAAAAAAAAAAAAAC
1 AAAAAACAAAAAAAAAAAAAAAAC
* * *
9381494 AAAAAACAAAACAAAGAAAAAAGAG
1 AAAAAACAAAA-AAAAAAAAAAAAC
9381519 AAAAAA-AAAA
1 AAAAAACAAAA
9381529 GAAGAACCTG
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
24 24 0.44
25 16 0.29
26 1 0.02
27 14 0.25
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (24 bp):
AAAAAACAAAAAAAAAAAAAAAAC
Found at i:9381523 original size:36 final size:36
Alignment explanation
Indices: 9381442--9381527 Score: 74
Period size: 33 Copynumber: 2.5 Consensus size: 36
9381432 ATTCTTTTTT
* * *
9381442 AAAAAAACA-AAAAAACAGCAAAAAA-AACAAAAAA
1 AAAAAAACAGAAAAAAAAACAAAAAACAAAAAAAAA
* *
9381476 CAAAAAA-A-AAAAAAAAACAAAAAAC-AAAACAAA
1 AAAAAAACAGAAAAAAAAACAAAAAACAAAAAAAAA
* *
9381509 GAAAAAAGAGAAAAAAAAA
1 AAAAAAACAGAAAAAAAAA
9381528 AGAAGAACCT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
33 27 0.63
34 7 0.16
35 9 0.21
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (36 bp):
AAAAAAACAGAAAAAAAAACAAAAAACAAAAAAAAA
Found at i:9381528 original size:36 final size:36
Alignment explanation
Indices: 9381442--9381528 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
9381432 ATTCTTTTTT
* *
9381442 AAAAAAACAAAAAAACAGCAAAAAAAACAAAAAACA
1 AAAAAAAAAAAAAAACAGAAAAAAAAACAAAAAACA
9381478 AAAAAAAAAAAAAAACA-AAAAACAAAACAAAGAAA-A
1 AAAAAAAAAAAAAAACAGAAAAA-AAAACAAA-AAACA
* *
9381514 AAGAGAAAAAAAAAA
1 AAAAAAAAAAAAAAA
9381529 GAAGAACCTG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
35 4 0.09
36 38 0.84
37 3 0.07
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (36 bp):
AAAAAAAAAAAAAAACAGAAAAAAAAACAAAAAACA
Found at i:9382662 original size:100 final size:100
Alignment explanation
Indices: 9382489--9382877 Score: 571
Period size: 100 Copynumber: 4.0 Consensus size: 100
9382479 ATCTAAACTT
* * * *
9382489 TCTCCTTTCACTTTTCAGTCCTCAAAGAGCATGATGCCTTTTCCTTTTAAAGTCCACACAAGTTG
1 TCTCCTTTCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTG
9382554 GTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTC
66 GTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTC
*
9382589 TCTCCTTTCACCCTTT-AGTCCTTAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTT
1 TCTCCTTTCA-CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTT
9382653 GGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTC
65 GGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTC
* *
9382689 TCTCCTTTCACCCTTT-AGTCCTCAAAGAGCATGACGCCTTTTCCTTTTAAAGCTCACACAAGTT
1 TCTCCTTTCA-CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTT
*
9382753 GGTGGCACCTTCTAGTCCTTAAAGAGCA-GACGCTC
65 GGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTC
* *
9382788 TCTCCTTTCACCTTTCAGTCCTGAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTCG
1 TCTCCTTTCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTG
** * *
9382847 GTGGCATTTTTTAGTCCTCAAAGAGTAGGAC
66 GTGGCACCTTCTAGTCCTCAAAGAGCAGGAC
9382878 ACCTTTCAAA
Statistics
Matches: 268, Mismatches: 18, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
93 37 0.14
94 3 0.01
97 1 0.00
98 8 0.03
99 37 0.14
100 178 0.66
101 4 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (100 bp):
TCTCCTTTCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTG
GTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTC
Found at i:9382930 original size:56 final size:55
Alignment explanation
Indices: 9382804--9383488 Score: 938
Period size: 55 Copynumber: 12.3 Consensus size: 55
9382794 TTCACCTTTC
* *
9382804 AGTCCTGAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
* * * *
9382859 AGTCCTCAAAGAGTAGGACACCTTTCAAAGCCCATACAAAGTCGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAC-AAGTTGGTGGCATTTTTT
* * * * ** *
9382915 AGTCCTCAAATAGTAGGATGCCTTTCAAAGCCTACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
* * * **
9382970 AGTCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACATAAGTCAGTGGCATTTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTTT
* * * *
9383026 AGTCCTTAAAAAGCAGGACGCCTTTCAAAGCCCACAAAAGTCGGTGGCATTTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTTT
* *
9383082 AGTCCTTAAAGAGCAGGGCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
** *
9383137 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
* *
9383192 AGTCCTTAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
*
9383247 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACAAGTTGGTGGCATTTTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA--TTTTTT
* *
9383304 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGTCCACACAAGTTGGTGGCATTTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTTT
* *
9383360 AGTTCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTTT
* * * * ***
9383416 AGTCCTCAAAGAGCAAGATGCCTTTCGAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
9383471 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
9383489 TGCTCTCTCC
Statistics
Matches: 567, Mismatches: 59, Indels: 8
0.89 0.09 0.01
Matches are distributed among these distances:
55 260 0.46
56 255 0.45
57 52 0.09
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
Found at i:9383212 original size:222 final size:221
Alignment explanation
Indices: 9382804--9383710 Score: 1001
Period size: 222 Copynumber: 4.1 Consensus size: 221
9382794 TTCACCTTTC
*
9382804 AGTCCTGAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCA-TTTTTTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCATTTTTTTAGTCCTCAA
* * * * * *
9382868 AGAGTAGGACACCTTTCAAAGCCCATACAAAGTCGGTGGCATTTTTTAGTCCTCAAATAGTAGGA
66 AGAGCAGGACGCCTTTCAAAGCCCACAC-AAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGA
* * *
9382933 TGCCTTTCAAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACGCCTTTTAA
130 TGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAA
*
9382998 AGCCCACATAAGTCAGTGGCATTTTTTT
195 AGCCCACACAAGTCAGTGGCA-TTTTTT
* * * *
9383026 AGTCCTTAAAAAGCAGGACGCCTTTCAAAGCCCACAAAAGTCGGTGGCATTTTTTTAGTCCTTAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCATTTTTTTAGTCCTCAA
* *
9383091 AGAGCAGGGCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGAC
66 AGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGAT
*
9383156 GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGCAGGACGCCTTTCAAA
131 GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAA
*
9383221 GCCCACACAAGTCGGTGGCATTTTTT
196 GCCCACACAAGTCAGTGGCATTTTTT
* *
9383247 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACAAGTTGGTGGCATTTTTTTTAGTCCTCA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCA-TTTTTTTAGTCCTCA
* * *
9383312 AAGAGCAGGATGCCTTTCAAAGTCCACACAAGTTGGTGGCATTTTTTTAGTTCTCAAAGAGCAGG
65 AAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTTTAGTCCTCAAAGAGCAGG
** * * *
9383377 ATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGCAAGATGCCTTTC
129 ATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* ** * ***
9383442 GAAGCCCACACAAGTTGGTGGCACTTCCC
193 AAAGCCCACACAAGTCAGTGGCATTTTTT
* * * * * **
9383471 AGTCCTCAAAGAGCAGGATG-C--T-----CTCTC-C---T--TTCGC---CCTTTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCATTTTTTTAGTCCTCAA
* * * ** *
9383519 AGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTA-TCCTC-AAGAAGTAGGA
66 AGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAG-AGCAGGA
*
9383582 TGCTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAAGACGC
130 TG----C-C-TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACG-
* ** *
9383646 CTTTTCTTTTCAAAGCCCACACTAGTTGGTGGCACTTTTT
187 C----C-TTTCAAAGCCCACACAAGTCAGTGGCATTTTTT
*
9383686 AGTCCTCAAAGAGCAGGATGCCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTT
9383711 TCCTTTTCTC
Statistics
Matches: 600, Mismatches: 64, Indels: 46
0.85 0.09 0.06
Matches are distributed among these distances:
203 3 0.00
204 12 0.02
205 4 0.01
206 50 0.08
208 4 0.01
209 20 0.03
210 31 0.05
212 1 0.00
214 1 0.00
215 49 0.08
216 3 0.00
218 1 0.00
221 51 0.09
222 210 0.35
223 92 0.15
224 68 0.11
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (221 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCATTTTTTTAGTCCTCAA
AGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGAT
GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAA
GCCCACACAAGTCAGTGGCATTTTTT
Found at i:9383662 original size:61 final size:61
Alignment explanation
Indices: 9383510--9383718 Score: 258
Period size: 61 Copynumber: 3.5 Consensus size: 61
9383500 TTCGCCCTTT
9383510 AGTCCTCAAAGAGCAGGATG-C----CTTTT-AAAGCCCACACAAGTTGGTGGCAC-TTCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC
*
9383564 TA-TCCTC-AAGAAGTAGGATG-CTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC
1 -AGTCCTCAAAG-AGCAGGATGCCTTT-TCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC
* * * **
9383625 AGTCCTCAAAGAGCAAGACGCCTTTTCTTTTCAAAGCCCACACTAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC
9383686 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTT-CTTTTC
9383719 TCCTTTGTCC
Statistics
Matches: 133, Mismatches: 9, Indels: 17
0.84 0.06 0.11
Matches are distributed among these distances:
53 3 0.02
54 14 0.11
55 1 0.01
59 5 0.04
60 25 0.19
61 72 0.54
62 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCC
Found at i:9383730 original size:38 final size:39
Alignment explanation
Indices: 9383687--9383830 Score: 150
Period size: 45 Copynumber: 3.5 Consensus size: 39
9383677 GCACTTTTTA
*
9383687 GTCCTCAAAGAGCAGGATGC-C-TTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTTTTCCTTTTCT-CTTT
*
9383725 GTCCTCAAAGAGCAGGACACACTTTATTCCCTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTT-TT--C--CTTTTCTC-TTT
9383770 GTCCTCAAAGAGCAGGACGCACTTTGTTTTCCTCTTTCT-TTT
1 GTCCTCAAAGAGCAGGACGCAC--T-TTTTCCT-TTTCTCTTT
9383812 GTCCTCAAAGAGCAGGACG
1 GTCCTCAAAGAGCAGGACG
9383831 TATTTCGTTT
Statistics
Matches: 91, Mismatches: 3, Indels: 20
0.80 0.03 0.18
Matches are distributed among these distances:
38 18 0.20
39 1 0.01
40 2 0.02
41 2 0.02
42 22 0.24
43 3 0.03
44 6 0.07
45 32 0.35
47 3 0.03
48 2 0.02
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (39 bp):
GTCCTCAAAGAGCAGGACGCACTTTTTCCTTTTCTCTTT
Found at i:9383777 original size:45 final size:43
Alignment explanation
Indices: 9383708--9383829 Score: 167
Period size: 45 Copynumber: 2.8 Consensus size: 43
9383698 GCAGGATGCC
*
9383708 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTTA
1 TTTTCCTTTTCTCTTTTGTCCTCAAAGAGCAGGACACACTTTA
* *
9383751 TTCCCTT-CTTTTCTCTTTTGTCCTCAAAGAGCAGGACGCACTTTG
1 TT---TTCCTTTTCTCTTTTGTCCTCAAAGAGCAGGACACACTTTA
*
9383796 TTTTCCTCTT-TCTTTTGTCCTCAAAGAGCAGGAC
1 TTTTCCTTTTCTCTTTTGTCCTCAAAGAGCAGGAC
9383830 GTATTTCGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
42 26 0.37
43 6 0.08
45 37 0.52
46 2 0.03
ACGTcount: A:0.18, C:0.28, G:0.14, T:0.40
Consensus pattern (43 bp):
TTTTCCTTTTCTCTTTTGTCCTCAAAGAGCAGGACACACTTTA
Found at i:9383823 original size:42 final size:41
Alignment explanation
Indices: 9383708--9383847 Score: 165
Period size: 42 Copynumber: 3.2 Consensus size: 41
9383698 GCAGGATGCC
* *
9383708 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTTA
1 TTTTCCTTTTCT--TTTGTCCTCAAAGAGCAGGACGCACTTTG
*
9383751 TTCCCTTCTTTTCTCTTTTGTCCTCAAAGAGCAGGACGCACTTTG
1 TT---TTCCTTT-TCTTTTGTCCTCAAAGAGCAGGACGCACTTTG
*
9383796 TTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGACGTA-TTTCG
1 TTTTCCT-TTTCTTTTGTCCTCAAAGAGCAGGACGCACTTT-G
9383838 TTTTCCTTTT
1 TTTTCCTTTT
9383848 TTTCTTTATA
Statistics
Matches: 86, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
41 6 0.07
42 38 0.44
43 4 0.05
45 29 0.34
46 6 0.07
47 3 0.03
ACGTcount: A:0.16, C:0.26, G:0.14, T:0.44
Consensus pattern (41 bp):
TTTTCCTTTTCTTTTGTCCTCAAAGAGCAGGACGCACTTTG
Found at i:9383872 original size:43 final size:42
Alignment explanation
Indices: 9383764--9383877 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 42
9383754 CCTTCTTTTC
* * *
9383764 TCTTTTGTCCTCAAAGAGCAGGACGCACTTTGTTTTCCTCTT
1 TCTTTTATACTCAAAGAGCAGGACGTACTTTGTTTTCCTCTT
* * *
9383806 TCTTTTGTCCTCAAAGAGCAGGACGTA-TTTCGTTTTCCTTTT
1 TCTTTTATACTCAAAGAGCAGGACGTACTTT-GTTTTCCTCTT
*
9383848 TTTCTTTATACTCGAAA-AGCAGGACGTACT
1 TCT-TTTATACTC-AAAGAGCAGGACGTACT
9383878 CTTTTTCACT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
41 3 0.05
42 38 0.60
43 18 0.29
44 4 0.06
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (42 bp):
TCTTTTATACTCAAAGAGCAGGACGTACTTTGTTTTCCTCTT
Found at i:9384591 original size:20 final size:19
Alignment explanation
Indices: 9384566--9384612 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
9384556 TCACAATTTA
9384566 TATCGATACATTGTTCATTG
1 TATCGATACATT-TTCATTG
*
9384586 TATCGATACATTGCTCATTG
1 TATCGATACATT-TTCATTG
9384606 TATCGAT
1 TATCGAT
9384613 GCAAAATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (19 bp):
TATCGATACATTTTCATTG
Found at i:9384673 original size:20 final size:20
Alignment explanation
Indices: 9384648--9384761 Score: 176
Period size: 20 Copynumber: 5.7 Consensus size: 20
9384638 TTTACCCAGA
9384648 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTTGCAT
9384668 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTTGCAT
9384688 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTTGCAT
*
9384708 TGTATCGATACATTGCT-CAT
1 TGTATCGATACATT-TTGCAT
** *
9384728 TGTATCGATACATTTTATAA
1 TGTATCGATACATTTTGCAT
9384748 TGTATCGATACATT
1 TGTATCGATACATT
9384762 CAGGCATTTT
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
19 1 0.01
20 86 0.98
21 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTTTGCAT
Found at i:9387488 original size:21 final size:21
Alignment explanation
Indices: 9387455--9387499 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9387445 TTGCAAGTTG
*
9387455 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
9387477 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
9387497 AAA
1 AAA
9387500 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:9389323 original size:15 final size:15
Alignment explanation
Indices: 9389303--9389333 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9389293 TAAAAATGTC
*
9389303 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
9389318 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
9389333 C
1 C
9389334 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:9391419 original size:13 final size:13
Alignment explanation
Indices: 9391401--9391426 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9391391 ACATTTTTCT
9391401 TTGTATCGATACA
1 TTGTATCGATACA
9391414 TTGTATCGATACA
1 TTGTATCGATACA
9391427 GGGTGATTAT
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):
TTGTATCGATACA
Found at i:9391590 original size:20 final size:20
Alignment explanation
Indices: 9391547--9391592 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
9391537 AAATCTTTTG
9391547 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
9391568 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
9391588 CAAAA
1 CAAAA
9391593 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:9393956 original size:13 final size:13
Alignment explanation
Indices: 9393938--9393963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9393928 TACAGCAAGT
9393938 ATGTATCGATACA
1 ATGTATCGATACA
9393951 ATGTATCGATACA
1 ATGTATCGATACA
9393964 CAAAAAATTG
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):
ATGTATCGATACA
Found at i:9397041 original size:52 final size:50
Alignment explanation
Indices: 9396905--9397084 Score: 193
Period size: 51 Copynumber: 3.5 Consensus size: 50
9396895 AAATTTCTAG
* * * *
9396905 ATTTTTCAT-CTCGGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAACT-CCGATTTTATTT-CAAAACACCA
* * * * *
9396955 ATTTTTCTTAATCGAGGATAGTCTAACTCCGATTTTATTTCTAAAACACCC
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTC-AAAACACCA
* *
9397006 ATTTTTCCATAATCGGGGATACTCCAACTCTGATTTTATTTGCAAAACACCG
1 ATTTTT-CATAATCGGGGATACTCCAACTCCGATTTTATTT-CAAAACACCA
*
9397058 ATTTTTCACAATCGGGGATACTCCAAC
1 ATTTTTCATAATCGGGGATACTCCAAC
9397085 CTCGTTATTT
Statistics
Matches: 109, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
50 9 0.08
51 55 0.50
52 44 0.40
53 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (50 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCAAAACACCA
Found at i:9397109 original size:79 final size:79
Alignment explanation
Indices: 9397020--9397317 Score: 390
Period size: 79 Copynumber: 3.8 Consensus size: 79
9397010 TTCCATAATC
* * * *
9397020 GGGGATACTCCAACTCTGATTTTATTTGC-AAAACACCGATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACCAATTTTTCACAATCGGGGATACTCCAA
*
9397084 CCTCGTTATTTTCGA
65 CCCCGTTATTTTCGA
* ** *
9397099 GGGGACACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTT--C-ATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
9397161 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* *
9397175 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
* *
9397240 CCCATTATTTTCAA
66 CCCGTTATTTTCGA
* * * * *
9397254 GGGGGTATTCCAACCCCGGTTTTATTTCTAAAACACCAA-TTTCCACAATAGGGGATATTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
9397318 TCCGATTTTA
Statistics
Matches: 193, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
76 71 0.37
77 1 0.01
78 22 0.11
79 99 0.51
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:9397326 original size:155 final size:154
Alignment explanation
Indices: 9397020--9397326 Score: 384
Period size: 155 Copynumber: 2.0 Consensus size: 154
9397010 TTCCATAATC
* * *
9397020 GGGGATACTCCAACTCTGATTTTATTTGCAAAACACCGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTGCAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
* * * ** ** *
9397085 CTCGTTATTTTCGAGGGGACACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCATCGGG
66 CCCATTATTTTCAAGGGGACACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTCACATAGGG
*
9397150 GATACTCTAACCCCGTTATTTTCGA
131 GATACTCCAACCCCG-TATTTTCGA
* * *
9397175 GGGGATACTCCAACCCCGGTTTTATTT-CTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTGC-AAAACACCAATTTTTCACAATCGGGGATACTCCAA
** *
9397239 CCCCATTATTTTCAAGGGGGTATTCCAACCCCGGTTTTATTTCTAAAACACCAATTTCCACAATA
65 CCCCATTATTTTCAAGGGGACACTCCAACCCCGGTTTTATTTCTAAAACACCAATTT-CAC-ATA
* *
9397304 GGGGATATTCCAACTCCG-ATTTT
128 GGGGATACTCCAACCCCGTATTTT
9397327 ATTTCCAAAA
Statistics
Matches: 129, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
154 1 0.01
155 110 0.85
156 1 0.01
157 17 0.13
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (154 bp):
GGGGATACTCCAACCCCGATTTTATTTGCAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCATTATTTTCAAGGGGACACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTCACATAGGG
GATACTCCAACCCCGTATTTTCGA
Found at i:9397328 original size:50 final size:52
Alignment explanation
Indices: 9397253--9397370 Score: 152
Period size: 50 Copynumber: 2.3 Consensus size: 52
9397243 ATTATTTTCA
* * *
9397253 AGGGGGTATTCCAACCCCGGTTTTATTTCTAAAACACCAA-TTTCCACAAT-
1 AGGGGATATTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
* * *
9397303 AGGGGATATTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATC
1 AGGGGATATTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
*
9397355 A-GGGATACTCCAACCC
1 AGGGGATATTCCAACCC
9397371 AGTTATTTCC
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 35 0.60
51 22 0.38
52 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (52 bp):
AGGGGATATTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
Found at i:9397459 original size:51 final size:51
Alignment explanation
Indices: 9397389--9397501 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 51
9397379 CCAAGGAGAC
* * *
9397389 ACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATCAGGGAT
1 ACTCCAACCCCGACCTTATTTCCAAAACATTGATTTCTCACAATCAGGGAT
* * * **
9397440 ACTTCAACCCCGACCTTATTTCTAAAACATTGATTTCTCATAATTTGGGAT
1 ACTCCAACCCCGACCTTATTTCCAAAACATTGATTTCTCACAATCAGGGAT
9397491 ACTCCAACCCC
1 ACTCCAACCCC
9397502 ATTATTTTCA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (51 bp):
ACTCCAACCCCGACCTTATTTCCAAAACATTGATTTCTCACAATCAGGGAT
Found at i:9397525 original size:130 final size:129
Alignment explanation
Indices: 9397174--9397539 Score: 407
Period size: 129 Copynumber: 2.8 Consensus size: 129
9397164 GTTATTTTCG
* * * *
9397174 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 AGGGGATACTTCAACCCCGATTTTATTTCTAAAACATTAATTTTTCATAATCAGGGATACTCCAA
* * *
9397239 CCCCATTATTTTCAAGGGGGTATTCCAACCCCGGTTTTATTTCTAAAACACCAATTTCCACAAT
66 CCCCATTATTTTCAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTCCACAAT
* * * *
9397303 AGGGGATA-TTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATACTCCA
1 AGGGGATACTT-CAACCCCGATTTTATTTCTAAAACATTAATTTTTCATAATCAGGGATACTCCA
* * * * * ***
9397367 A-CCCAGTTATTTCCAAGGAGACACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACA
65 ACCCCA-TTATTTTCAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTC-CACA
9397431 AT
128 AT
** * * **
9397433 CA-GGGATACTTCAACCCCGACCTTATTTCTAAAACATTGATTTCTCATAATTTGGGATACTCCA
1 -AGGGGATACTTCAACCCCGATTTTATTTCTAAAACATTAATTTTTCATAATCAGGGATACTCCA
* * *
9397497 ACCCCATTATTTTCACGGGGATTA-TCCAATCCCGATTTTATTT
65 ACCCCATTATTTTCAAGGGGA-TACTCCAACCCCGGTTTTATTT
9397540 TTGAAACATC
Statistics
Matches: 194, Mismatches: 36, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
128 5 0.03
129 97 0.50
130 84 0.43
131 8 0.04
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (129 bp):
AGGGGATACTTCAACCCCGATTTTATTTCTAAAACATTAATTTTTCATAATCAGGGATACTCCAA
CCCCATTATTTTCAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTCCACAAT
Found at i:9397574 original size:130 final size:129
Alignment explanation
Indices: 9397196--9397637 Score: 412
Period size: 130 Copynumber: 3.4 Consensus size: 129
9397186 AACCCCGGTT
* * *
9397196 TTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTTCAAGGGGGTA
1 TTATTTCTAAAACATCAATTTTTCACAATCAGGGATACTCCAACCCCATTATTTTCAAGGGGATA
* * * * * * **
9397261 TTCCAACCCCGGTTTTATTTCTAAAACACCAATTTCCACAATAGGGGATA-TTCCAACTCCGATT
66 CTCCAACCCCGGTTTTATTTCTAAAACATCTATTTCTACAATCGGGGATACTT-CAACACCGACC
* * *
9397325 TTATTTCCAAAACA-CTAATTTTTCACAATCAGGGATACTCCAA-CCCAGTTATTTCCAAGGAGA
1 TTATTTCTAAAACATC-AATTTTTCACAATCAGGGATACTCCAACCCCA-TTATTTTCAAGGGGA
* * * * * *
9397388 CACTCCAACCCCGGCTTTATTTCCAAAATAT-TGATTTCTCACAATCAGGGATACTTCAACCCCG
64 TACTCCAACCCCGGTTTTATTTCTAAAACATCT-ATTTCT-ACAATCGGGGATACTTCAACACCG
9397452 ACC
127 ACC
** * * ** *
9397455 TTATTTCTAAAACATTGATTTCTCATAATTTGGGATACTCCAACCCCATTATTTTCACGGGGATT
1 TTATTTCTAAAACATCAATTTTTCACAATCAGGGATACTCCAACCCCATTATTTTCAAGGGGA-T
* * * * * * **
9397520 A-TCCAATCCCGATTTTATTTTTGAAACATCTATTTTCTATAATCGGGGACACTTCAACAATTG-
65 ACTCCAACCCCGGTTTTATTTCTAAAACATCTA-TTTCTACAATCGGGGATACTTCAAC-ACCGA
9397583 CC
128 CC
* * *
9397585 TTATTTCTAAATCATCGATTTTTCACAATC-GAGGATACTCCAACCCCGTTATT
1 TTATTTCTAAAACATCAATTTTTCACAATCAG-GGATACTCCAACCCCATTATT
9397638 ATCTCCAAAA
Statistics
Matches: 252, Mismatches: 49, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
128 5 0.02
129 81 0.32
130 152 0.60
131 14 0.06
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (129 bp):
TTATTTCTAAAACATCAATTTTTCACAATCAGGGATACTCCAACCCCATTATTTTCAAGGGGATA
CTCCAACCCCGGTTTTATTTCTAAAACATCTATTTCTACAATCGGGGATACTTCAACACCGACC
Found at i:9399359 original size:43 final size:43
Alignment explanation
Indices: 9399298--9399441 Score: 272
Period size: 43 Copynumber: 3.4 Consensus size: 43
9399288 TCCGAGAAAT
*
9399298 GTTTATTGATTTTTGAATGGTAAATAAAGAGTAAAATAAAAAG
1 GTTTATTGTTTTTTGAATGGTAAATAAAGAGTAAAATAAAAAG
9399341 GTTTATTGTTTTTTGAATGGTAAATAAAGAGTAAAATAAAAAG
1 GTTTATTGTTTTTTGAATGGTAAATAAAGAGTAAAATAAAAAG
9399384 GTTTATTGTTTTTTGAATGGTAAATAAAGAGTAAAATAAAAAG
1 GTTTATTGTTTTTTGAATGGTAAATAAAGAGTAAAATAAAAAG
9399427 GTTTATT-TTTTTTGA
1 GTTTATTGTTTTTTGA
9399442 CACACACTAA
Statistics
Matches: 100, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
42 8 0.08
43 92 0.92
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (43 bp):
GTTTATTGTTTTTTGAATGGTAAATAAAGAGTAAAATAAAAAG
Found at i:9403207 original size:28 final size:27
Alignment explanation
Indices: 9403174--9403239 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
9403164 CCTAAGGAGT
* *
9403174 TAATTAAAATTTTATGTATGAAAAAATTC
1 TAATTAAAATTTAAT-CATG-AAAAATTC
*
9403203 -AATTAGAAATTTAATCATGTAAAATTC
1 TAATTA-AAATTTAATCATGAAAAATTC
9403230 TAATTAAAAT
1 TAATTAAAAT
9403240 ATCATAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 11 0.34
28 13 0.41
29 8 0.25
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (27 bp):
TAATTAAAATTTAATCATGAAAAATTC
Found at i:9403866 original size:18 final size:18
Alignment explanation
Indices: 9403845--9403881 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9403835 AAAAATTCAA
*
9403845 AAAATGAATTTGAGTTTC
1 AAAATGAATTAGAGTTTC
9403863 AAAATGAATTAGAGTTTC
1 AAAATGAATTAGAGTTTC
9403881 A
1 A
9403882 TGTAAGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.35
Consensus pattern (18 bp):
AAAATGAATTAGAGTTTC
Found at i:9404187 original size:16 final size:16
Alignment explanation
Indices: 9404152--9404208 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
9404142 GAGACAACCC
*
9404152 GAACCCGAAAGAA-TCC
1 GAACCCGAAAGAACT-T
9404168 GAACCCGAAAGAACTT
1 GAACCCGAAAGAACTT
*
9404184 GAACCC-AAGAGAACCT
1 GAACCCGAA-AGAACTT
9404200 GAACCCGAA
1 GAACCCGAA
9404209 TTTAATGCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
15 2 0.06
16 31 0.86
17 3 0.08
ACGTcount: A:0.44, C:0.30, G:0.19, T:0.07
Consensus pattern (16 bp):
GAACCCGAAAGAACTT
Found at i:9404792 original size:16 final size:16
Alignment explanation
Indices: 9404773--9404831 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
9404763 TGAATAAGTC
*
9404773 CGAACCCTAACGAGCT
1 CGAACCCGAACGAGCT
** *
9404789 CGAACCCGAATAAGCC
1 CGAACCCGAACGAGCT
*
9404805 CAAACCCGAACGAGCT
1 CGAACCCGAACGAGCT
*
9404821 CGAGCCCGAAC
1 CGAACCCGAAC
9404832 TTGAACTTGA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.34, C:0.39, G:0.20, T:0.07
Consensus pattern (16 bp):
CGAACCCGAACGAGCT
Found at i:9404793 original size:32 final size:32
Alignment explanation
Indices: 9404764--9404830 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
9404754 GCCCGAACTT
* * *
9404764 GAATAAGTCCGAACCCTAACGAGCTCGAACCC
1 GAATAAGCCCAAACCCGAACGAGCTCGAACCC
*
9404796 GAATAAGCCCAAACCCGAACGAGCTCGAGCCC
1 GAATAAGCCCAAACCCGAACGAGCTCGAACCC
9404828 GAA
1 GAA
9404831 CTTGAACTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.34, G:0.21, T:0.09
Consensus pattern (32 bp):
GAATAAGCCCAAACCCGAACGAGCTCGAACCC
Found at i:9404933 original size:14 final size:14
Alignment explanation
Indices: 9404910--9404951 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
9404900 TTATAAAAAG
9404910 TTTATGAGAAAAATC
1 TTTAT-AGAAAAATC
9404925 TTTATAGAAAAAATC
1 TTTATAG-AAAAATC
*
9404940 TATATAGAAAAA
1 TTTATAGAAAAA
9404952 GATGAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (14 bp):
TTTATAGAAAAATC
Found at i:9408651 original size:21 final size:21
Alignment explanation
Indices: 9408610--9408652 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9408600 CTGAAAAAAT
**
9408610 TGTATCGACACATGCTTGCAA
1 TGTATCGACACATGCAGGCAA
*
9408631 TGTATCGATACATGCAGGCAA
1 TGTATCGACACATGCAGGCAA
9408652 T
1 T
9408653 TTTACATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (21 bp):
TGTATCGACACATGCAGGCAA
Found at i:9415631 original size:155 final size:153
Alignment explanation
Indices: 9415150--9415715 Score: 620
Period size: 155 Copynumber: 3.7 Consensus size: 153
9415140 GTTATATATA
* * * * * *
9415150 AAAAATGC-AAAACTTATAAAATAAATTGAATTTTCACAAACTAATTTAATATAAATTTAATAAA
1 AAAAATTCTAAAACTCATAAAATAAATTGAATTTTCA-AAACTAATTTAATATGAATTAAACAAT
* * * * *
9415214 AATAGTTGATGAATTTTAAAAATTATAAAC-TAAGAAAAATCTAACCGAAAAAATTTATAAAGTA
65 AATATTTGAAGAATTTTAAAAATTATAAACTTAA-AAAAATCTTACCGGAAAAATTTACAAAGTA
*
9415278 GAAAACT-TCGTATCTTGGT-ATCAG
129 GAAAACTCT-GTATCTCGGTAATCAG
* * * *
9415302 AAAAATTCTAAAAGTCATACAATAAACTGAAGTTTTCAAAACTAATTTAATATGAGTTAAACAAT
1 AAAAATTCTAAAACTCATAAAATAAATTGAA-TTTTCAAAACTAATTTAATATGAATTAAACAAT
* ** * * * * *
9415367 AATATTTAAAGAAGCTTGAAAATGATAAACTTAGAAAAATCGTACAGGAAAAATTTACAAAGTAG
65 AATATTTGAAGAATTTTAAAAATTATAAACTTAAAAAAATCTTACCGGAAAAATTTACAAAGTAG
9415432 AAAACTCTGTATCTCGGTAA-CAG
130 AAAACTCTGTATCTCGGTAATCAG
* * * * *
9415455 AAAAAATTTTAAAACTCATAAAATAAATTTAATTTTCCAAAATTGATTTAAAATGAATTAAACAA
1 -AAAAATTCTAAAACTCATAAAATAAATTGAATTTT-CAAAACTAATTTAATATGAATTAAACAA
* * ** * *
9415520 TAATATTTGAAGAGTTTTGAAAATTATAAACTTATAAAAAATCTTATTGGAGAAATTTACGAAGT
64 TAATATTTGAAGAATTTTAAAAATTATAAACTTA-AAAAAATCTTACCGGAAAAATTTACAAAGT
** *
9415585 AGAAAACTCTGTATCTCAATAATAAG
128 AGAAAACTCTGTATCTCGGTAATCAG
* * * * *
9415611 AAAAATTCTAAAACTAATAAAATAAATTAAATTTTTCAAAATTGATTTAATATGAATTAAAAAAT
1 AAAAATTCTAAAACTCATAAAATAAATTGAA-TTTTCAAAACTAATTTAATATGAATTAAACAAT
* *
9415676 AATATTTGAAGAATTTTAAAAATTATAAATTTAGAAAAAT
65 AATATTTGAAGAATTTTAAAAATTATAAACTTAAAAAAAT
9415716 TCTATCGTAG
Statistics
Matches: 348, Mismatches: 56, Indels: 18
0.82 0.13 0.04
Matches are distributed among these distances:
152 7 0.02
153 111 0.32
154 95 0.27
155 129 0.37
156 6 0.02
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (153 bp):
AAAAATTCTAAAACTCATAAAATAAATTGAATTTTCAAAACTAATTTAATATGAATTAAACAATA
ATATTTGAAGAATTTTAAAAATTATAAACTTAAAAAAATCTTACCGGAAAAATTTACAAAGTAGA
AAACTCTGTATCTCGGTAATCAG
Found at i:9415716 original size:26 final size:24
Alignment explanation
Indices: 9415667--9415716 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
9415657 TTAATATGAA
*
9415667 TTAAAAAATAATATTTGAAGAATT
1 TTAAAAAATAATATTTGAAAAATT
9415691 TTAAAAATTATAA-ATTTAGAAAAATT
1 TTAAAAA--ATAATATTT-GAAAAATT
9415717 CTATCGTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 7 0.32
25 4 0.18
26 11 0.50
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (24 bp):
TTAAAAAATAATATTTGAAAAATT
Found at i:9419272 original size:35 final size:33
Alignment explanation
Indices: 9419233--9419359 Score: 105
Period size: 35 Copynumber: 3.7 Consensus size: 33
9419223 TCAAAAATGA
*
9419233 TAAAGCCTCTCTTAAGGATATTTTCGTAAAACCTC
1 TAAAGCCTTTCTTAAGGATATTTTC-TAAAA-CTC
* * * *
9419268 TAAAGCCTTTCTTGAGGATGTTTTATTCAAAACTT
1 TAAAGCCTTTCTTAAGGATATTTT-CT-AAAACTC
*
9419303 TCAAAGCCTTTCTTGAA-GATA-TTTCAAAAATCTC
1 T-AAAGCCTTTCTT-AAGGATATTTTCTAAAA-CTC
* *
9419337 TAAAGTCTTTCTTGAGGATATTT
1 TAAAGCCTTTCTTAAGGATATTT
9419360 CATTAAGCAT
Statistics
Matches: 73, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
32 1 0.01
33 19 0.26
34 5 0.07
35 28 0.38
36 19 0.26
37 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (33 bp):
TAAAGCCTTTCTTAAGGATATTTTCTAAAACTC
Found at i:9419357 original size:33 final size:32
Alignment explanation
Indices: 9419233--9419361 Score: 114
Period size: 33 Copynumber: 3.8 Consensus size: 32
9419223 TCAAAAATGA
* * *
9419233 TAAAGCCTCTCTTAAGGATATTTTCGTAAAACCTC
1 TAAAGCCTTTCTTGAGGATA-TTTC--AAAAACTC
* * *
9419268 TAAAGCCTTTCTTGAGGATGTTTTATTCAAAACTT
1 TAAAGCCTTTCTTGAGGATATTTCA---AAAACTC
*
9419303 TCAAAGCCTTTCTTGAAGATATTTCAAAAATCTC
1 T-AAAGCCTTTCTTGAGGATATTTCAAAAA-CTC
*
9419337 TAAAGTCTTTCTTGAGGATATTTCA
1 TAAAGCCTTTCTTGAGGATATTTCA
9419362 TTAAGCATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
32 1 0.01
33 26 0.34
34 6 0.08
35 23 0.30
36 21 0.27
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (32 bp):
TAAAGCCTTTCTTGAGGATATTTCAAAAACTC
Found at i:9420182 original size:52 final size:52
Alignment explanation
Indices: 9420126--9420243 Score: 155
Period size: 52 Copynumber: 2.3 Consensus size: 52
9420116 ATTTCCCTTA
* * * * *
9420126 TGTATCGATATATTCACCTAAAAATGGCTAATGTATCGATACAATACCTCAT
1 TGTATCGATACATTCACCCAAAAATGGCCAATATATCGATACAATACCACAT
* *
9420178 TGTATCGATACATTCACCCAAAAATGGCCAATATATTGATACTATACCACAT
1 TGTATCGATACATTCACCCAAAAATGGCCAATATATCGATACAATACCACAT
* *
9420230 TGTCTCGATGCATT
1 TGTATCGATACATT
9420244 TAGGCTATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATTCACCCAAAAATGGCCAATATATCGATACAATACCACAT
Found at i:9425035 original size:22 final size:22
Alignment explanation
Indices: 9424993--9425035 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9424983 GATAAGTTTA
*
9424993 AATGTTTTTCAAGTAATAAATC
1 AATGTTTTTCAAGTAAAAAATC
9425015 AATGTTTTTCAAAG-AAAAAAT
1 AATGTTTTTC-AAGTAAAAAAT
9425036 ACTTAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (22 bp):
AATGTTTTTCAAGTAAAAAATC
Found at i:9425193 original size:33 final size:33
Alignment explanation
Indices: 9425134--9425198 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
9425124 CACACCTGGA
* *
9425134 TGTATTGATACAAATTGCTAGCTATCGATACAT
1 TGTATAGATACAAATTACTAGCTATCGATACAT
*
9425167 TGTATAGATACAAATTACTTTG-TATCGATACA
1 TGTATAGATACAAATTAC-TAGCTATCGATACA
9425199 CCATGAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTATAGATACAAATTACTAGCTATCGATACAT
Found at i:9431353 original size:46 final size:46
Alignment explanation
Indices: 9431300--9431401 Score: 195
Period size: 46 Copynumber: 2.2 Consensus size: 46
9431290 TATTGCAAAA
9431300 TGTATCGATACATCTGGGTTCTCCAAATATATCGATACAAAGAATT
1 TGTATCGATACATCTGGGTTCTCCAAATATATCGATACAAAGAATT
*
9431346 TGTATCGATACATCTGGGTTCTCCAAATCTATCGATACAAAGAATT
1 TGTATCGATACATCTGGGTTCTCCAAATATATCGATACAAAGAATT
9431392 TGTATCGATA
1 TGTATCGATA
9431402 TATTGTATCG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (46 bp):
TGTATCGATACATCTGGGTTCTCCAAATATATCGATACAAAGAATT
Found at i:9431570 original size:21 final size:20
Alignment explanation
Indices: 9431523--9431579 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
9431513 AATTTTTCAA
* *
9431523 TCATCAAATTCATCCAATCC
1 TCATCAAATTCATCAAATAC
* *
9431543 ACTTCAAATTTCATCAAATAC
1 TCATCAAA-TTCATCAAATAC
9431564 TCATCAAAATTCATCA
1 TCATC-AAATTCATCA
9431580 TTTTTTTACA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 6 0.21
21 20 0.69
22 3 0.10
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (20 bp):
TCATCAAATTCATCAAATAC
Found at i:9434549 original size:34 final size:33
Alignment explanation
Indices: 9434475--9434537 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
9434465 CAAGTGATTG
9434475 AGAGGTTCTATCTTAGCCTTTGAAAAAGATAAGA
1 AGAGGTTCTATCTTAGCCTTTG-AAAAGATAAGA
9434509 AGAGGTTCTATCTTAGCC-TTG-AAAGATAA
1 AGAGGTTCTATCTTAGCCTTTGAAAAGATAA
9434538 TGTTGTAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 8 0.28
33 3 0.10
34 18 0.62
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (33 bp):
AGAGGTTCTATCTTAGCCTTTGAAAAGATAAGA
Found at i:9436096 original size:34 final size:35
Alignment explanation
Indices: 9436058--9436124 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
9436048 CCTTACAACA
9436058 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
9436092 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
9436125 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:9436620 original size:26 final size:22
Alignment explanation
Indices: 9436561--9436603 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
9436551 TTAAATAGTG
9436561 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
9436583 TGAACAGTGATGTATCGATAC
1 TGAACAGTGATGTATCGATAC
9436604 TGTGATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:9436669 original size:10 final size:10
Alignment explanation
Indices: 9436654--9436754 Score: 71
Period size: 10 Copynumber: 9.7 Consensus size: 10
9436644 GGCTCAATGT
9436654 ACAGTGATGA
1 ACAGTGATGA
9436664 ACAGTGATGGA
1 ACAGTGAT-GA
* *
9436675 TC-GATATATGA
1 ACAG-T-GATGA
*
9436686 ACAGTGATTA
1 ACAGTGATGA
*
9436696 ATAGTGATGA
1 ACAGTGATGA
9436706 ACAGTGATGTA
1 ACAGTGATG-A
* *
9436717 TC-GATACATGA
1 ACAG-T-GATGA
9436728 ACAGTGATGA
1 ACAGTGATGA
*
9436738 ATAGTGATGA
1 ACAGTGATGA
9436748 ACAGTGA
1 ACAGTGA
9436755 AAAAAATGAG
Statistics
Matches: 69, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
10 48 0.70
11 14 0.20
12 7 0.10
ACGTcount: A:0.39, C:0.09, G:0.27, T:0.26
Consensus pattern (10 bp):
ACAGTGATGA
Found at i:9436688 original size:22 final size:22
Alignment explanation
Indices: 9436660--9436739 Score: 92
Period size: 22 Copynumber: 3.7 Consensus size: 22
9436650 ATGTACAGTG
* *
9436660 ATGAACAGTGATGGATCGATAT
1 ATGAACAGTGATGAATCGATAC
* * *
9436682 ATGAACAGTGATTAATAG-T-G
1 ATGAACAGTGATGAATCGATAC
*
9436702 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGAATCGATAC
9436724 ATGAACAGTGATGAAT
1 ATGAACAGTGATGAAT
9436740 AGTGATGAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 15 0.32
21 2 0.04
22 30 0.64
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.28
Consensus pattern (22 bp):
ATGAACAGTGATGAATCGATAC
Found at i:9436702 original size:42 final size:42
Alignment explanation
Indices: 9436656--9436754 Score: 171
Period size: 42 Copynumber: 2.4 Consensus size: 42
9436646 CTCAATGTAC
* *
9436656 AGTGATGAACAGTGATGGATCGATATATGAACAGTGATTAAT
1 AGTGATGAACAGTGATGGATCGATACATGAACAGTGATGAAT
*
9436698 AGTGATGAACAGTGATGTATCGATACATGAACAGTGATGAAT
1 AGTGATGAACAGTGATGGATCGATACATGAACAGTGATGAAT
9436740 AGTGATGAACAGTGA
1 AGTGATGAACAGTGA
9436755 AAAAAATGAG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (42 bp):
AGTGATGAACAGTGATGGATCGATACATGAACAGTGATGAAT
Found at i:9436707 original size:20 final size:20
Alignment explanation
Indices: 9436682--9436754 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 20
9436672 GGATCGATAT
9436682 ATGAACAGTGATTAATAGTG
1 ATGAACAGTGATTAATAGTG
* *
9436702 ATGAACAGTGATGT-ATCGATAC
1 ATGAACAGTGAT-TAATAG-T-G
*
9436724 ATGAACAGTGATGAATAGTG
1 ATGAACAGTGATTAATAGTG
9436744 ATGAACAGTGA
1 ATGAACAGTGA
9436755 AAAAAATGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
20 26 0.59
21 3 0.07
22 15 0.34
ACGTcount: A:0.40, C:0.08, G:0.26, T:0.26
Consensus pattern (20 bp):
ATGAACAGTGATTAATAGTG
Found at i:9436930 original size:21 final size:21
Alignment explanation
Indices: 9436890--9436930 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9436880 GTCAACCTTG
*
9436890 TGTATTGATACCAATAGTATA
1 TGTATTGATACCAACAGTATA
9436911 TGTATTGATA-CAACACGTAT
1 TGTATTGATACCAACA-GTAT
9436931 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATTGATACCAACAGTATA
Found at i:9437776 original size:19 final size:19
Alignment explanation
Indices: 9437754--9437805 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
9437744 TAAAGAGCAA
9437754 AAAAAAAAAGAAAAAAAGT
1 AAAAAAAAAGAAAAAAAGT
* *
9437773 AAAAAAAAAGCAAAAAATT
1 AAAAAAAAAGAAAAAAAGT
9437792 AAAGAGAAAAAGAA
1 AAA-A-AAAAAGAA
9437806 GAATAGCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 20 0.71
20 1 0.04
21 7 0.25
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.06
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAAGT
Found at i:9439747 original size:13 final size:13
Alignment explanation
Indices: 9439729--9439754 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9439719 CAATTTTTTG
9439729 TGTATCGATACAT
1 TGTATCGATACAT
9439742 TGTATCGATACAT
1 TGTATCGATACAT
9439755 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:9440494 original size:21 final size:21
Alignment explanation
Indices: 9440453--9440496 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9440443 CTCTCCTTTA
* *
9440453 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
9440474 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
9440495 TC
1 TC
9440497 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:9442320 original size:13 final size:13
Alignment explanation
Indices: 9442302--9442326 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9442292 ATAATCACCC
9442302 TGTATCGATACAA
1 TGTATCGATACAA
9442315 TGTATCGATACA
1 TGTATCGATACA
9442327 TTGAATTTCC
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:9445568 original size:15 final size:15
Alignment explanation
Indices: 9445548--9445578 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9445538 ATTTCGTTTG
*
9445548 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
9445563 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
9445578 G
1 G
9445579 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:9447409 original size:21 final size:21
Alignment explanation
Indices: 9447380--9447424 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9447370 AAGTTTTCAT
*
9447380 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
9447400 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
9447422 TTT
1 TTT
9447425 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:9449669 original size:13 final size:13
Alignment explanation
Indices: 9449651--9449676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9449641 CAATTTTTTG
9449651 TGTATCGATACAT
1 TGTATCGATACAT
9449664 TGTATCGATACAT
1 TGTATCGATACAT
9449677 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:9450228 original size:81 final size:82
Alignment explanation
Indices: 9450084--9450242 Score: 293
Period size: 82 Copynumber: 2.0 Consensus size: 82
9450074 ATTTAAAGGC
*
9450084 TATTTCATAATGTTCATGCATGTTAGGTCTATTTAGATTATTTTTCATAATTAAATAATCAATTT
1 TATTTCATAATGTCCATGCATGTTAGGTCTATTTAGATTATTTTTCATAATTAAATAATCAATTT
*
9450149 TCAATTTCATGTAGGGT
66 GCAATTTCATGTAGGGT
9450166 TATTTCATAATGTCCATGCATGTTAGGTCTATTTAGATT-TTTTTCATAATTAAATAATCAATTT
1 TATTTCATAATGTCCATGCATGTTAGGTCTATTTAGATTATTTTTCATAATTAAATAATCAATTT
9450230 GCAATTTCATGTA
66 GCAATTTCATGTA
9450243 TGTATTATGG
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 37 0.49
82 38 0.51
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (82 bp):
TATTTCATAATGTCCATGCATGTTAGGTCTATTTAGATTATTTTTCATAATTAAATAATCAATTT
GCAATTTCATGTAGGGT
Found at i:9461643 original size:23 final size:23
Alignment explanation
Indices: 9461617--9461675 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
9461607 TTAAATTTTT
*
9461617 TATAAGATATAAATTATATAATA
1 TATAAGATATAAATAATATAATA
* *
9461640 TATAA-AAATAAAATAATATATTA
1 TATAAGATAT-AAATAATATAATA
*
9461663 TATTAGTATATAA
1 TATAAG-ATATAA
9461676 TTAAAAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 3 0.11
23 20 0.71
24 2 0.07
25 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (23 bp):
TATAAGATATAAATAATATAATA
Found at i:9464335 original size:13 final size:13
Alignment explanation
Indices: 9464317--9464351 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
9464307 TTTTACTATG
9464317 TATCGATACAATC
1 TATCGATACAATC
* *
9464330 TATCGATACACTG
1 TATCGATACAATC
9464343 TATCGATAC
1 TATCGATAC
9464352 TAAGTAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.31
Consensus pattern (13 bp):
TATCGATACAATC
Found at i:9464391 original size:39 final size:39
Alignment explanation
Indices: 9464341--9464424 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
9464331 ATCGATACAC
* *
9464341 TGTATCGATACTAAGTAAGTTTAACTACTGCTAGTTTCA
1 TGTATCAATACTAAGTAAGTTTAACTACTGCCAGTTTCA
* *
9464380 TTTATCAATACTAAGTAAGTTTAGCTACTGCCAGTTTCA
1 TGTATCAATACTAAGTAAGTTTAACTACTGCCAGTTTCA
9464419 TGTATC
1 TGTATC
9464425 GATATAATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (39 bp):
TGTATCAATACTAAGTAAGTTTAACTACTGCCAGTTTCA
Found at i:9464457 original size:13 final size:13
Alignment explanation
Indices: 9464439--9464463 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9464429 TAATTCACTA
9464439 TGTATCGATACAT
1 TGTATCGATACAT
9464452 TGTATCGATACA
1 TGTATCGATACA
9464464 AAGCAATATA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:9468407 original size:21 final size:22
Alignment explanation
Indices: 9468362--9468416 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
9468352 TGGACATGTT
9468362 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
9468384 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
*
9468406 AAAAATTCATG
1 AAAAATGCATG
9468417 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.20
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:9469375 original size:20 final size:20
Alignment explanation
Indices: 9469328--9469402 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
9469318 AAAAAGACAT
*
9469328 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
9469347 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
9469368 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
9469388 AATGTATCGATACAT
1 AATGTATCGATACAT
9469403 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:9469396 original size:40 final size:39
Alignment explanation
Indices: 9469325--9469402 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
9469315 GGTAAAAAGA
* *
9469325 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
9469364 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
9469403 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:9476515 original size:146 final size:145
Alignment explanation
Indices: 9476252--9476550 Score: 519
Period size: 146 Copynumber: 2.1 Consensus size: 145
9476242 GGAAACTCAT
9476252 ATTTATAGGCTAGAATGTTGACATACTCGTTGGAGGTTGAATGATTGTGTTTGTAGCCGTTGTCG
1 ATTTATAGGCTAGAATGTTGACATACTCGTTGGAGGTTGAATGATTGTGTTTGTAGCCGTTGTCG
* *
9476317 ACTTGTTTGGAGCTTGTTTCTGTGCATTCACGCTCCTATATATCGATACAATTTATAATGTATCG
66 ACTTGTTTAGAGCTTGTTTCTGTGCATTCACGCTCCTATATATCGATACAATTCATAATGTATCG
9476382 ATACATGCATTTGAA
131 ATACATGCATTTGAA
* *
9476397 ATTTATAGGCTAGAATGTTGACATACTCAGTTGGAGGTTGAATGATTGTGTTTGTGGCCGTTGTT
1 ATTTATAGGCTAGAATGTTGACATACTC-GTTGGAGGTTGAATGATTGTGTTTGTAGCCGTTGTC
* *
9476462 GACTTGTTTAGAGCTTGTTT-TCGTGCATTCACGCTCCTATGTATTGATACAATTCATAATGTAT
65 GACTTGTTTAGAGCTTGTTTCT-GTGCATTCACGCTCCTATATATCGATACAATTCATAATGTAT
9476526 CGATACATGCATTTGAA
129 CGATACATGCATTTGAA
9476543 ATTTATAG
1 ATTTATAG
9476551 CTGTTGGGCT
Statistics
Matches: 146, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
145 29 0.20
146 117 0.80
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (145 bp):
ATTTATAGGCTAGAATGTTGACATACTCGTTGGAGGTTGAATGATTGTGTTTGTAGCCGTTGTCG
ACTTGTTTAGAGCTTGTTTCTGTGCATTCACGCTCCTATATATCGATACAATTCATAATGTATCG
ATACATGCATTTGAA
Found at i:9476582 original size:13 final size:13
Alignment explanation
Indices: 9476561--9476600 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
9476551 CTGTTGGGCT
9476561 CAATATATCGATA
1 CAATATATCGATA
*
9476574 CAATGTATCGATA
1 CAATATATCGATA
*
9476587 CACTATATCGATA
1 CAATATATCGATA
9476600 C
1 C
9476601 TAAGTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (13 bp):
CAATATATCGATA
Found at i:9482693 original size:21 final size:20
Alignment explanation
Indices: 9482644--9482698 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
9482634 ACAAACAGTT
9482644 AATGTATCGATACATAAGCAA
1 AATGTATCGATACAT-AGCAA
9482665 AA-GTATCGATACAT-GCCTAA
1 AATGTATCGATACATAG-C-AA
9482685 AATGTATCGATACA
1 AATGTATCGATACA
9482699 AAACTACCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 16 0.52
21 13 0.42
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACATAGCAA
Found at i:9484695 original size:79 final size:79
Alignment explanation
Indices: 9484436--9484714 Score: 338
Period size: 79 Copynumber: 3.6 Consensus size: 79
9484426 TTAACCCCGC
* * * **
9484436 TTTTATTTTCAAAATATTAAATTTTTTATTTCGGTTATACTCCAACCTCGTTATTTTTG-AGAGG
1 TTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCTCGTTATTTTTGAAG-GG
*
9484500 ATACTCCAA-CCTCAT
65 ATACTCCAACCCT-GT
** * * *
9484515 TTTTATTTCCAAAATATTAAATTTTTC-T-T-TAGG-TACTCTAACCCCGTTATTTTTGAAAGGA
1 TTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCTCGTTATTTTTGAAGGGA
*
9484576 TACTCCAGCCCTG-
66 TACTCCAACCCTGT
*
9484589 TTTTATTTCCAAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCTCGTTATTTCTGAAGGG
1 TTTTATTTCC-AAAATATTAAATTTTTCATCTCGGGGATACTCCAACCTCGTTATTTTTGAAGGG
9484654 ATACTCCAACCCTGT
65 ATACTCCAACCCTGT
* *
9484669 TTTTATTTTCAAAATATTAAATTTTTCATCATCGGGGGTACTCCAA
1 TTTTATTTCCAAAATATTAAATTTTTCATC-TCGGGGATACTCCAA
9484715 TCCCATATTC
Statistics
Matches: 171, Mismatches: 20, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
74 10 0.06
75 47 0.27
76 5 0.03
77 2 0.01
78 3 0.02
79 81 0.47
80 23 0.13
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (79 bp):
TTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCTCGTTATTTTTGAAGGGA
TACTCCAACCCTGT
Found at i:9484965 original size:22 final size:24
Alignment explanation
Indices: 9484918--9484967 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
9484908 CGTCCATCTT
**
9484918 TTTTATGTATTTTTGTGTGCGTTA
1 TTTTATGTAAATTTGTGTGCGTTA
9484942 TTTTATGTAAATTTGT-T-CGTTA
1 TTTTATGTAAATTTGTGTGCGTTA
9484964 TTTT
1 TTTT
9484968 CTTTTCTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
23 1 0.04
24 14 0.58
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (24 bp):
TTTTATGTAAATTTGTGTGCGTTA
Found at i:9485755 original size:11 final size:12
Alignment explanation
Indices: 9485734--9485764 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
9485724 AGAAGTTATG
9485734 GAAATAAACTTA
1 GAAATAAACTTA
9485746 GAAA-AAACTTA
1 GAAATAAACTTA
9485757 GAAATAAA
1 GAAATAAA
9485765 TAAACAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (12 bp):
GAAATAAACTTA
Found at i:9487607 original size:9 final size:8
Alignment explanation
Indices: 9487583--9487631 Score: 73
Period size: 8 Copynumber: 6.1 Consensus size: 8
9487573 CATTTTTTTG
9487583 TTTAATTT
1 TTTAATTT
9487591 TTT-ATTT
1 TTTAATTT
9487598 TTTAATTT
1 TTTAATTT
9487606 TTTAAATTT
1 TTT-AATTT
*
9487615 TTAAATTT
1 TTTAATTT
9487623 TTTAATTT
1 TTTAATTT
9487631 T
1 T
9487632 AAAGAAATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
7 7 0.19
8 23 0.62
9 7 0.19
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTAATTT
Found at i:9487626 original size:17 final size:16
Alignment explanation
Indices: 9487586--9487631 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 16
9487576 TTTTTTGTTT
*
9487586 AATTTTTT-ATTTTTT
1 AATTTTTTAATTTTTA
9487601 AATTTTTTAAATTTTTA
1 AATTTTTT-AATTTTTA
9487618 AATTTTTTAATTTT
1 AATTTTTTAATTTT
9487632 AAAGAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 8 0.29
16 6 0.21
17 14 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
AATTTTTTAATTTTTA
Found at i:9487632 original size:15 final size:15
Alignment explanation
Indices: 9487586--9487634 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
9487576 TTTTTTGTTT
* *
9487586 AATTTTTTATTTTTT
1 AATTTTTTAATTTTA
9487601 AATTTTTTAAATTTTTA
1 AATTTTTT-AA-TTTTA
9487618 AATTTTTTAATTTTA
1 AATTTTTTAATTTTA
9487633 AA
1 AA
9487635 GAAATTGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 15 0.50
16 3 0.10
17 12 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
AATTTTTTAATTTTA
Found at i:9488613 original size:24 final size:25
Alignment explanation
Indices: 9488563--9488614 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
9488553 TAATAAAATT
* * **
9488563 TAATTAAAATAAAATTTTTAATTAA
1 TAATTAAAATAAAACTTATAAAAAA
9488588 TAATT-AAATAAAACTTATAAAAAA
1 TAATTAAAATAAAACTTATAAAAAA
9488612 TAA
1 TAA
9488615 AACAAAAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
TAATTAAAATAAAACTTATAAAAAA
Found at i:9499776 original size:79 final size:79
Alignment explanation
Indices: 9499662--9499866 Score: 302
Period size: 79 Copynumber: 2.6 Consensus size: 79
9499652 ACAGGGCTTT
* * *
9499662 AATTGCGTGCCATGGTGCCAACCAGAATAAGGGTGACTTGGTGTCACAAGGCGCTAATGACTTAG
1 AATTGCGTGCCATGGTGGCGACCAGAATAAGGGTGACTTGGTGTCACAAGGCACTAATGACTTAG
9499727 CATCATGAGGGGTC
66 CATCATGAGGGGTC
* * * * *
9499741 AATTGTGTGCCATGGTGGCGACCAGAGTAATGGTGACTTGGTGTCACAGGGCACTAATGACTTGG
1 AATTGCGTGCCATGGTGGCGACCAGAATAAGGGTGACTTGGTGTCACAAGGCACTAATGACTTAG
*
9499806 CATCATGAGGGGTT
66 CATCATGAGGGGTC
* **
9499820 AATTGCGTTCCATGGTGGCGAATAGAATAAGGGTGACTTGGTGTCAC
1 AATTGCGTGCCATGGTGGCGACCAGAATAAGGGTGACTTGGTGTCAC
9499867 TTGGCGATCA
Statistics
Matches: 111, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 111 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (79 bp):
AATTGCGTGCCATGGTGGCGACCAGAATAAGGGTGACTTGGTGTCACAAGGCACTAATGACTTAG
CATCATGAGGGGTC
Found at i:9507472 original size:17 final size:18
Alignment explanation
Indices: 9507452--9507491 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
9507442 CTATAAATTC
*
9507452 ATAAAAACAAT-AATATA
1 ATAAAAACAATAAAGATA
*
9507469 ATAAAGACAATAAAGATA
1 ATAAAAACAATAAAGATA
9507487 ATAAA
1 ATAAA
9507492 GATTCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (18 bp):
ATAAAAACAATAAAGATA
Found at i:9507489 original size:18 final size:17
Alignment explanation
Indices: 9507452--9507493 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
9507442 CTATAAATTC
* *
9507452 ATAAAAACAATAATATA
1 ATAAAGACAATAAGATA
9507469 ATAAAGACAATAAAGATA
1 ATAAAGACAAT-AAGATA
9507487 ATAAAGA
1 ATAAAGA
9507494 TTCAACCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.19
Consensus pattern (17 bp):
ATAAAGACAATAAGATA
Found at i:9510054 original size:31 final size:32
Alignment explanation
Indices: 9510014--9510080 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
9510004 CAATATCAAT
* *
9510014 TATACTATATTTAAAAAATTAAACATTTAATA
1 TATACTATATATAAAAAATTAAACAATTAATA
*
9510046 TATA-TATATATAACAAATTAAACAATTAATA
1 TATACTATATATAAAAAATTAAACAATTAATA
9510077 TATA
1 TATA
9510081 AGGCAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (32 bp):
TATACTATATATAAAAAATTAAACAATTAATA
Found at i:9514469 original size:16 final size:16
Alignment explanation
Indices: 9514445--9514496 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
9514435 ATTTAAGCAA
9514445 TTATATATATTTAAATT
1 TTAT-TATATTTAAATT
*
9514462 TTATTATATTAATAATT
1 TTATTATATTTA-AATT
9514479 TATATTATA--TAAATT
1 T-TATTATATTTAAATT
9514494 TTA
1 TTA
9514497 ATACATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 2 0.06
15 5 0.16
16 8 0.26
17 9 0.29
18 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATTATATTTAAATT
Found at i:9514484 original size:18 final size:17
Alignment explanation
Indices: 9514445--9514488 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
9514435 ATTTAAGCAA
*
9514445 TTATA-TATATTTAAAT
1 TTATATTATATTAAAAT
9514461 TT-TATTATATTAATAAT
1 TTATATTATATTAA-AAT
9514478 TTATATTATAT
1 TTATATTATAT
9514489 AAATTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 2 0.08
16 9 0.38
17 5 0.21
18 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATATTATATTAAAAT
Found at i:9514511 original size:24 final size:24
Alignment explanation
Indices: 9514470--9514516 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9514460 TTTTATTATA
9514470 TTAATAATTTATATTATATAAATT
1 TTAATAATTTATATTATATAAATT
*
9514494 TTAATACATTTTTA-TATATAAAT
1 TTAATA-ATTTATATTATATAAAT
9514517 CATATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAATAATTTATATTATATAAATT
Found at i:9515112 original size:6 final size:6
Alignment explanation
Indices: 9515079--9515109 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
9515069 TAACCATTTC
*
9515079 ATCAAA ATCAAA ATCAAA ATCAAA ACCAAA A
1 ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA A
9515110 CCATATTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.68, C:0.19, G:0.00, T:0.13
Consensus pattern (6 bp):
ATCAAA
Found at i:9516304 original size:16 final size:15
Alignment explanation
Indices: 9516284--9516324 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 15
9516274 TTTCATAATT
9516284 TTATTTAAAAATAAA
1 TTATTTAAAAATAAA
9516299 TATATTTAAAAAAATAAA
1 T-TATTT--AAAAATAAA
9516317 TTATTTAA
1 TTATTTAA
9516325 TTTATTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.13
16 5 0.22
17 5 0.22
18 10 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTATTTAAAAATAAA
Found at i:9516321 original size:17 final size:18
Alignment explanation
Indices: 9516290--9516324 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9516280 AATTTTATTT
9516290 AAAAATAAATATATTTAA
1 AAAAATAAATATATTTAA
9516308 AAAAATAAAT-TATTTAA
1 AAAAATAAATATATTTAA
9516325 TTTATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATAAATATATTTAA
Found at i:9516338 original size:24 final size:24
Alignment explanation
Indices: 9516311--9516359 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
9516301 TATTTAAAAA
9516311 AATAAATTATT-TAATTTATTTAAT
1 AATAAATTATTATAATTT-TTTAAT
* *
9516335 AATAATTTATTATACTTTTTTAAT
1 AATAAATTATTATAATTTTTTAAT
9516359 A
1 A
9516360 TTTATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATAAATTATTATAATTTTTTAAT
Found at i:9516380 original size:24 final size:23
Alignment explanation
Indices: 9516318--9516380 Score: 54
Period size: 24 Copynumber: 2.6 Consensus size: 23
9516308 AAAAATAAAT
*
9516318 TATTTAATTTATTTAATAATAATT
1 TATTTAA-TTATTTAATAATAATA
* * * *
9516342 TATTATACTTTTTTAATATTTATA
1 TATT-TAATTATTTAATAATAATA
9516366 TATTTAATTAATTTA
1 TATTTAATT-ATTTA
9516381 TTTGATATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
23 4 0.13
24 24 0.80
25 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTTAATTATTTAATAATAATA
Found at i:9518159 original size:2 final size:2
Alignment explanation
Indices: 9518147--9518179 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
9518137 CTTTATTTAT
*
9518147 TA TA CA 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 T
9518180 GTTCATCATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9518945 original size:3 final size:3
Alignment explanation
Indices: 9518937--9518976 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
9518927 ATCGTGTAGA
*
9518937 TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9518977 GAATGTACAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:9520969 original size:18 final size:18
Alignment explanation
Indices: 9520948--9520983 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9520938 TGATTGTTAA
9520948 TTTTAAAAATTAAAAATT
1 TTTTAAAAATTAAAAATT
*
9520966 TTTTAAAAGTTAAAAATT
1 TTTTAAAAATTAAAAATT
9520984 AAAAGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TTTTAAAAATTAAAAATT
Found at i:9523533 original size:19 final size:20
Alignment explanation
Indices: 9523504--9523541 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9523494 AAACTACCAC
*
9523504 TTTTCTCTTAAAAATTTATA
1 TTTTCTCTTAAAAAATTATA
9523524 TTTT-TCTTAAAAAATTAT
1 TTTTCTCTTAAAAAATTAT
9523542 CAATCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTCTCTTAAAAAATTATA
Found at i:9525960 original size:21 final size:20
Alignment explanation
Indices: 9525936--9525986 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
9525926 TTTTACAATT
*
9525936 TGTATCAATACAACAAGTTAA
1 TGTATCAATA-AACAAGTGAA
* *
9525957 TGTATCGATATACAAGTGAA
1 TGTATCAATAAACAAGTGAA
9525977 TGTATCAATA
1 TGTATCAATA
9525987 GTGGACCTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (20 bp):
TGTATCAATAAACAAGTGAA
Found at i:9526574 original size:14 final size:15
Alignment explanation
Indices: 9526546--9526575 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9526536 CGTAGCTCTT
9526546 AAACACCTCCCAAAG
1 AAACACCTCCCAAAG
9526561 AAACACCT-CCAAAG
1 AAACACCTCCCAAAG
9526575 A
1 A
9526576 CTTCTTCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.50, C:0.37, G:0.07, T:0.07
Consensus pattern (15 bp):
AAACACCTCCCAAAG
Found at i:9529842 original size:23 final size:23
Alignment explanation
Indices: 9529791--9529842 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
9529781 TCTTGATTCC
9529791 TTTTTTTCTTAACTTTTTCCTTT
1 TTTTTTTCTTAACTTTTTCCTTT
* *
9529814 TGTTTTTCTT-GCTTTCTT-CTTT
1 TTTTTTTCTTAACTTT-TTCCTTT
9529836 TTTTTTT
1 TTTTTTT
9529843 ACTGGAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (23 bp):
TTTTTTTCTTAACTTTTTCCTTT
Done.