Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 53 of 100
Found at i:12778642 original size:28 final size:28
Alignment explanation
Indices: 12778611--12778672 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
12778601 TATATATGTT
*
12778611 TATTAAAAATAAATGATAAAACTAAACA
1 TATTAAAAATAAATAATAAAACTAAACA
* * *
12778639 TATTAAAAGTAAGTAATAAAATTAAACA
1 TATTAAAAATAAATAATAAAACTAAACA
*
12778667 TGTTAA
1 TATTAA
12778673 TTTTTATTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (28 bp):
TATTAAAAATAAATAATAAAACTAAACA
Found at i:12779098 original size:13 final size:13
Alignment explanation
Indices: 12779074--12779105 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
12779064 TTTTAGTTGT
12779074 AACTTA-TTATCA
1 AACTTAGTTATCA
12779086 AACTTAGTTATCA
1 AACTTAGTTATCA
12779099 AACTTAG
1 AACTTAG
12779106 AATAGAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (13 bp):
AACTTAGTTATCA
Found at i:12784069 original size:11 final size:12
Alignment explanation
Indices: 12784048--12784078 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
12784038 TTAAAAAAAA
*
12784048 AAAATTTTTTTG
1 AAAATTTTTTGG
12784060 AAAATTTTTTGG
1 AAAATTTTTTGG
12784072 AAAATTT
1 AAAATTT
12784079 CTAGATTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (12 bp):
AAAATTTTTTGG
Found at i:12784496 original size:14 final size:14
Alignment explanation
Indices: 12784477--12784522 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
12784467 CAACCAAGTC
*
12784477 GAGCCGCATTCCTT
1 GAGCCGCATTCCCT
12784491 GAGCCGCATTCCCT
1 GAGCCGCATTCCCT
*
12784505 GAGCCGCATTCCCC
1 GAGCCGCATTCCCT
12784519 GAGC
1 GAGC
12784523 TATTGTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.15, C:0.41, G:0.24, T:0.20
Consensus pattern (14 bp):
GAGCCGCATTCCCT
Found at i:12784839 original size:19 final size:18
Alignment explanation
Indices: 12784811--12784846 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
12784801 ATTTATTTTC
12784811 AAACAAAAAAATTAAAAAA
1 AAACAAAAAAA-TAAAAAA
*
12784830 AAACATAAAAATAAAAA
1 AAACAAAAAAATAAAAA
12784847 TTTTGGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (18 bp):
AAACAAAAAAATAAAAAA
Found at i:12785007 original size:195 final size:195
Alignment explanation
Indices: 12784641--12785015 Score: 498
Period size: 195 Copynumber: 1.9 Consensus size: 195
12784631 TAGATTTAGG
** * *
12784641 AAAAATAAAAATTTTGAGAATAAATATTAATTATCCAATAATAGAATTTATAGAAATTTCAAATG
1 AAAAATAAAAATTTTGAGAATAAATACAAATTACCCAATAATAGAATTTATAGAAATTTCAAATA
* * *
12784706 GTAAATTTTTATAAAATTTTTAGGTGAGAAATTTTGTCTAAATTTATCCCAAATGGTAGAATAAT
66 GTAAATTTTTATAAAATCTTTAGGTGAGAAATTTTATCAAAATTTATCCCAAATGGTAGAATAAT
12784771 TTAGATAAAGTTTCAATAATAATAATTAATATTTATTTTCAAACAAAAAAATTAAAAAAAAACAT
131 TTAGATAAAGTTTCAATAATAATAATTAATATTTATTTTCAAACAAAAAAATTAAAAAAAAACAT
*
12784836 AAAAATAAAAATTTTG-GAATTAAATACAAATTACCCAATGAT-GAGATTCT-TAGAAATTTCAA
1 AAAAATAAAAATTTTGAGAA-TAAATACAAATTACCCAATAATAGA-ATT-TATAGAAATTTCAA
* *
12784898 ATAGTAAATTTTT-TAAGAAATCTTTAGGTGA-AAATTTTATCAAAAATTTATCCTAAATGGTGG
63 ATAGTAAATTTTTAT-A-AAATCTTTAGGTGAGAAATTTTATC-AAAATTTATCCCAAATGGTAG
* *
12784961 AATAATTTAGATGAAA-TTTCAATAA-AAGTAATT-GTATTCT-TTTTCAAATAAAAAA
125 AATAATTTAGAT-AAAGTTTCAATAATAA-TAATTAATATT-TATTTTCAAACAAAAAA
12785016 TTTGGGTTGA
Statistics
Matches: 159, Mismatches: 12, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
194 6 0.04
195 91 0.57
196 59 0.37
197 3 0.02
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (195 bp):
AAAAATAAAAATTTTGAGAATAAATACAAATTACCCAATAATAGAATTTATAGAAATTTCAAATA
GTAAATTTTTATAAAATCTTTAGGTGAGAAATTTTATCAAAATTTATCCCAAATGGTAGAATAAT
TTAGATAAAGTTTCAATAATAATAATTAATATTTATTTTCAAACAAAAAAATTAAAAAAAAACAT
Found at i:12786632 original size:20 final size:21
Alignment explanation
Indices: 12786590--12786651 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
12786580 GTCTTAAAAC
*
12786590 AAAAAAA-AAATGAAAAATGA
1 AAAAAAAGAAAAGAAAAATGA
*
12786610 AAAAAAAGAAAAGTAAAAT-A
1 AAAAAAAGAAAAGAAAAATGA
* * *
12786630 AAATAGAGAAAAGAGAAATGA
1 AAAAAAAGAAAAGAAAAATGA
12786651 A
1 A
12786652 TGCCATACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 23 0.68
21 11 0.32
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.10
Consensus pattern (21 bp):
AAAAAAAGAAAAGAAAAATGA
Found at i:12787029 original size:9 final size:8
Alignment explanation
Indices: 12787017--12787111 Score: 50
Period size: 8 Copynumber: 10.6 Consensus size: 8
12787007 GAAAAAGATG
12787017 AAAAAGAA
1 AAAAAGAA
12787025 TAAAAA-AA
1 -AAAAAGAA
12787033 AGAAAAGAA
1 A-AAAAGAA
12787042 AAAAA-AA
1 AAAAAGAA
12787049 AGAAAAGTGAA
1 A-AAAA--GAA
*
12787060 AAAGTGAAAAA
1 AAA---AAGAA
12787071 AAAAAGAA
1 AAAAAGAA
12787079 AAAGAATGAA
1 AAA-AA-GAA
*
12787089 AGAAAGAGGA
1 A-AAA-AGAA
12787099 AAAAAGAA
1 AAAAAGAA
12787107 AAAAA
1 AAAAA
12787112 AATGAAAGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 27
0.69 0.04 0.27
Matches are distributed among these distances:
7 4 0.06
8 29 0.42
9 13 0.19
10 10 0.14
11 11 0.16
13 2 0.03
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (8 bp):
AAAAAGAA
Found at i:12787034 original size:12 final size:12
Alignment explanation
Indices: 12787018--12787118 Score: 61
Period size: 11 Copynumber: 8.2 Consensus size: 12
12787008 AAAAAGATGA
12787018 AAAAGAATAAAA-
1 AAAAGAA-AAAAG
12787030 AAAAG--AAAAG
1 AAAAGAAAAAAG
12787040 AAAA-AAAAAAG
1 AAAAGAAAAAAG
*
12787051 AAAAGTGAAAAAGTG
1 AAAA--GAAAAA-AG
12787066 AAAA-AAAAAAG
1 AAAAGAAAAAAG
*
12787077 AAAAAGAATGAAAG
1 -AAAAGAA-AAAAG
12787091 AAAGAGGAAAAAAG
1 AAA-A-GAAAAAAG
*
12787105 AAAA-AAAAATG
1 AAAAGAAAAAAG
12787116 AAA
1 AAA
12787119 GAATAGAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 25
0.71 0.05 0.25
Matches are distributed among these distances:
9 4 0.06
10 4 0.06
11 19 0.26
12 14 0.19
13 6 0.08
14 17 0.24
15 8 0.11
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:12787038 original size:17 final size:16
Alignment explanation
Indices: 12787018--12787130 Score: 70
Period size: 16 Copynumber: 6.7 Consensus size: 16
12787008 AAAAAGATGA
12787018 AAAAGAATAAAAAAAAG
1 AAAAGAA-AAAAAAAAG
12787035 AAAAGAAAAAAAAAAG
1 AAAAGAAAAAAAAAAG
*
12787051 AAAAGTGAAAAAGTGAAAAAA
1 AAAA--GAAAAA---AAAAAG
12787072 AAAAGAAAAAGAATGAAAG
1 AAAAGAAAAA-AA--AAAG
**
12787091 -AAAG-AGGAAAAAAG
1 AAAAGAAAAAAAAAAG
**
12787105 AAAA-AAAAATGAAAG
1 AAAAGAAAAAAAAAAG
*
12787120 AATAGAAAAAA
1 AAAAGAAAAAA
12787131 GATGAAAATG
Statistics
Matches: 76, Mismatches: 10, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
14 4 0.05
15 12 0.16
16 20 0.26
17 12 0.16
18 10 0.13
19 9 0.12
21 9 0.12
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAG
Found at i:12787109 original size:37 final size:37
Alignment explanation
Indices: 12787067--12787138 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
12787057 GAAAAAGTGA
*
12787067 AAAAAAAAAGAAAAAGAAT-GAAAGAAAGAGGAAAAAAG
1 AAAAAAAAA-TAAAAGAATAGAAA-AAAGAGGAAAAAAG
* *
12787105 AAAAAAAAATGAAAGAATAGAAAAAAGATGAAAA
1 AAAAAAAAATAAAAGAATAGAAAAAAGAGGAAAA
12787139 TGAGAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 17 0.57
38 13 0.43
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (37 bp):
AAAAAAAAATAAAAGAATAGAAAAAAGAGGAAAAAAG
Found at i:12787130 original size:29 final size:28
Alignment explanation
Indices: 12787031--12787130 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 28
12787021 AGAATAAAAA
* * *
12787031 AAAGAAAAG-AAAAAAAAAAGAAAAGTG
1 AAAGAATAGAAAAAAAAAAAAAAAAATG
12787058 AAA-AAGT-GAAAAAAAAAAGAAAAAGAATG
1 AAAGAA-TAGAAAAAAAAAA-AAAAA-AATG
*
12787087 AAAGAA-AGAGGAAAAAAGAAAAAAAAATG
1 AAAGAATAGA--AAAAAAAAAAAAAAAATG
12787116 AAAGAATAGAAAAAA
1 AAAGAATAGAAAAAA
12787131 GATGAAAATG
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
26 3 0.05
27 12 0.20
28 9 0.15
29 18 0.30
30 10 0.17
31 8 0.13
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (28 bp):
AAAGAATAGAAAAAAAAAAAAAAAAATG
Found at i:12787138 original size:29 final size:26
Alignment explanation
Indices: 12787017--12787130 Score: 83
Period size: 29 Copynumber: 4.2 Consensus size: 26
12787007 GAAAAAGATG
*
12787017 AAAAAGAATAAAAA--AAAGAAAAGAA
1 AAAAAGAAAAAAAATGAAAG-AAAGAA
*
12787042 AAAAA-AAAGAAAAGTGAAAAAGTGAAA-AA
1 AAAAAGAAA-AAAAATG--AAA--GAAAGAA
*
12787071 AAAAAGAAAAAGAATGAAAGAAAGAGGA
1 AAAAAGAAAAAAAATGAAAGAAAGA--A
12787099 AAAAAGAAAAAAAAATGAAAGAATAGAA
1 AAAAAG-AAAAAAAATGAAAGAA-AGAA
12787127 AAAA
1 AAAA
12787131 GATGAAAATG
Statistics
Matches: 71, Mismatches: 5, Indels: 23
0.72 0.05 0.23
Matches are distributed among these distances:
24 2 0.03
25 13 0.18
26 1 0.01
27 3 0.04
28 12 0.17
29 30 0.42
30 9 0.13
31 1 0.01
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (26 bp):
AAAAAGAAAAAAAATGAAAGAAAGAA
Found at i:12787864 original size:23 final size:23
Alignment explanation
Indices: 12787833--12787876 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12787823 AAGGTTTATG
*
12787833 AATGGTGATTAAATGATGAAAAT
1 AATGATGATTAAATGATGAAAAT
**
12787856 AATGATGATTAGTTGATGAAA
1 AATGATGATTAAATGATGAAA
12787877 CTTGTCCCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (23 bp):
AATGATGATTAAATGATGAAAAT
Found at i:12788279 original size:25 final size:25
Alignment explanation
Indices: 12788244--12788323 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
12788234 CTTGAGTTTA
12788244 AAATGAGAATCTTTAAGACATTTTT
1 AAATGAGAATCTTTAAGACATTTTT
* *
12788269 AAATGCA-AATCTTT--G--AGTCTT
1 AAATG-AGAATCTTTAAGACATTTTT
*
12788290 AAATGAGAATCTTTAAGACATTTTC
1 AAATGAGAATCTTTAAGACATTTTT
12788315 AAATGAGAA
1 AAATGAGAA
12788324 CGTTTGAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
20 1 0.02
21 16 0.36
23 2 0.05
25 24 0.55
26 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (25 bp):
AAATGAGAATCTTTAAGACATTTTT
Found at i:12788286 original size:46 final size:46
Alignment explanation
Indices: 12788235--12788612 Score: 448
Period size: 46 Copynumber: 8.5 Consensus size: 46
12788225 TGATGAAGTC
*
12788235 TTGAGT-TTAAAATGAGAATCTTTAAGACATTTTTAAATGCA-AATCT
1 TTGAGTCTT-AAATGAGAATCTTTAAGACATTTTCAAATG-AGAATCT
12788281 TTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAA-CGT
1 TTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATC-T
* * * ** *
12788327 TTGAGTTTTAAATAAAAATCTTTAAGATGTTTT----TGAGAACCT
1 TTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCT
* * *
12788369 TTGAATCTTAAATGAGAATCTTTTAAGATATTTTCAAATGAGAACCT
1 TTGAGTCTTAAATGAGAATC-TTTAAGACATTTTCAAATGAGAATCT
* *
12788416 TTAAGTCTCAAATGAG--------A-A-ATTTTCAAATGAGAATCT
1 TTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCT
*
12788452 TTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAACCT
1 TTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCT
* *
12788498 TTGAGTTTTAAATGAGAATCTTTAAGACCTTTTCAAATGAGAATCT
1 TTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCT
*
12788544 TTGAGTCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCT
1 TTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCT
*
12788590 TTGAGTCTTAAATGAGAACCTTT
1 TTGAGTCTTAAATGAGAATCTTT
12788613 GAGTCTTAAA
Statistics
Matches: 289, Mismatches: 24, Indels: 38
0.82 0.07 0.11
Matches are distributed among these distances:
36 31 0.11
37 1 0.00
38 1 0.00
42 23 0.08
43 13 0.04
44 1 0.00
45 3 0.01
46 192 0.66
47 24 0.08
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (46 bp):
TTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCT
Found at i:12788346 original size:67 final size:65
Alignment explanation
Indices: 12788265--12788665 Score: 292
Period size: 67 Copynumber: 6.1 Consensus size: 65
12788255 TTTAAGACAT
12788265 TTTTAAATGCA-AATCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAA-CGTT
1 TTTTAAATG-AGAATCTTTGAGTCTTAAATGAGAATCTTT-AGA-ATTTTCAAATGAGAATC-TT
12788328 TGAG
62 TGAG
* * * * ** * *
12788332 TTTTAAATAAAAATCTTTAAGATGTT-TTTGAGAACCTTT-GAATCTT-AAATGAGAATCTTTTA
1 TTTTAAATGAGAATCTTTGAG-TCTTAAATGAGAATCTTTAGAATTTTCAAATGAGAATC-TTT-
*
12788394 AGATA
63 -GA-G
* * *
12788399 TTTTCAAATGAGAACCTTTAAGTCTCAAATGAG-------A-AATTTTCAAATGAGAATCTTTGA
1 TTTT-AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAGAATTTTCAAATGAGAATCTTTGA
12788456 G
65 G
* * * * *
12788457 TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAACCTTT-GAGTTTT-AAATGAGAATCTT
1 TTTTAAATGAGAATCTTT--GA-GTCTT-AAATGAGAATCTTTAGAATTTTCAAATGAGAATCTT
*
12788520 TAAGACC
62 T--GA-G
*
12788527 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTT
1 TTTT-AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTT-AGA-ATTTTCAAATGAGAATCTTT
12788592 GAG
63 GAG
* * *
12788595 TCTTAAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGATATTTTTAAATGAGAATCTTTG
1 TTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTT-AGA-ATTTTCAAATGAGAATCTTTG
*
12788660 CG
64 AG
12788662 TTTT
1 TTTT
12788666 GAGTTTCAAA
Statistics
Matches: 266, Mismatches: 38, Indels: 60
0.73 0.10 0.16
Matches are distributed among these distances:
57 13 0.05
58 3 0.01
59 3 0.01
60 2 0.01
61 15 0.06
62 11 0.04
63 9 0.03
64 8 0.03
65 2 0.01
66 3 0.01
67 121 0.45
68 32 0.12
69 8 0.03
70 8 0.03
71 28 0.11
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (65 bp):
TTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAGAATTTTCAAATGAGAATCTTTGAG
Found at i:12788380 original size:42 final size:43
Alignment explanation
Indices: 12788318--12788402 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 43
12788308 CATTTTCAAA
* * * *
12788318 TGAGAACGTTTGAGTTTTAAATAAAAATC-TTTAAGATGTTTT
1 TGAGAACCTTTGAATCTTAAATAAAAATCTTTTAAGATATTTT
* *
12788360 TGAGAACCTTTGAATCTTAAATGAGAATCTTTTAAGATATTTT
1 TGAGAACCTTTGAATCTTAAATAAAAATCTTTTAAGATATTTT
12788403 CAAATGAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 24 0.67
43 12 0.33
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (43 bp):
TGAGAACCTTTGAATCTTAAATAAAAATCTTTTAAGATATTTT
Found at i:12788384 original size:21 final size:21
Alignment explanation
Indices: 12788360--12788633 Score: 209
Period size: 21 Copynumber: 12.5 Consensus size: 21
12788350 AAGATGTTTT
* *
12788360 TGAGAACCTTTGAATCTTAAA
1 TGAGAATCTTTGAGTCTTAAA
* *
12788381 TGAGAATCTTTTAAGATATTTTCAAA
1 TGAGAATC-TTT--GA-GTCTT-AAA
* * *
12788407 TGAGAACCTTTAAGTCTCAAA
1 TGAGAATCTTTGAGTCTTAAA
*
12788428 TGAGAA-ATTT---TC--AAA
1 TGAGAATCTTTGAGTCTTAAA
12788443 TGAGAATCTTTGAGTCTTAAA
1 TGAGAATCTTTGAGTCTTAAA
* *
12788464 TGAGAATCTTTAAGACATTTTCAAA
1 TGAGAATCTTT--GA-GTCTT-AAA
* *
12788489 TGAGAACCTTTGAGTTTTAAA
1 TGAGAATCTTTGAGTCTTAAA
* *
12788510 TGAGAATCTTTAAGACCTTTTCAAA
1 TGAGAATCTTT--GA-GTCTT-AAA
12788535 TGAGAATCTTTGAGTCTTAAA
1 TGAGAATCTTTGAGTCTTAAA
*
12788556 TGAGAATCTTTAAGACGTTTTCAAA
1 TGAGAATCTTT--GA-GTCTT-AAA
12788581 TGAGAATCTTTGAGTCTTAAA
1 TGAGAATCTTTGAGTCTTAAA
*
12788602 TGAGAACCTTTGAGTCTTAAA
1 TGAGAATCTTTGAGTCTTAAA
12788623 TGAGAATCTTT
1 TGAGAATCTTT
12788634 AAGATATTTT
Statistics
Matches: 209, Mismatches: 21, Indels: 46
0.76 0.08 0.17
Matches are distributed among these distances:
15 9 0.04
16 3 0.01
17 2 0.01
19 2 0.01
20 3 0.01
21 90 0.43
22 16 0.08
23 13 0.06
24 13 0.06
25 48 0.23
26 10 0.05
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (21 bp):
TGAGAATCTTTGAGTCTTAAA
Found at i:12788445 original size:36 final size:36
Alignment explanation
Indices: 12788398--12788469 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
12788388 CTTTTAAGAT
12788398 ATTTTCAAATGAGAACCTTTAAGTCTCAAATGAGAA
1 ATTTTCAAATGAGAACCTTTAAGTCTCAAATGAGAA
* * *
12788434 ATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAA
1 ATTTTCAAATGAGAACCTTTAAGTCTCAAATGAGAA
12788470 TCTTTAAGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (36 bp):
ATTTTCAAATGAGAACCTTTAAGTCTCAAATGAGAA
Found at i:12788800 original size:20 final size:20
Alignment explanation
Indices: 12788775--12788816 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
12788765 CTAAGTTTTA
*
12788775 TTAAATGTGAACCTTTGAAC
1 TTAAATGAGAACCTTTGAAC
*
12788795 TTAAATGAGAAGCTTTGAAC
1 TTAAATGAGAACCTTTGAAC
12788815 TT
1 TT
12788817 TTGGATGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (20 bp):
TTAAATGAGAACCTTTGAAC
Found at i:12789199 original size:42 final size:42
Alignment explanation
Indices: 12789092--12789280 Score: 213
Period size: 41 Copynumber: 4.5 Consensus size: 42
12789082 ATGATTGTTA
* * * *
12789092 AGGAGCCTTTTAATTTTT-AAAATTGTGGTGCCTCTGTTTAG
1 AGGAGCATTTTTATTTTTCAAAGTTGTGGTACCTCTGTTTAG
* * *
12789133 AGGAGCA-TTTTATTTTTTAAAGTTGTTGTACCTTTGTTTAG
1 AGGAGCATTTTTATTTTTCAAAGTTGTGGTACCTCTGTTTAG
*
12789174 AGGAGCATTTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCATTTTTATTTTTCAAAGTTGTGGTACCTCTGTTTAG
* * * * *
12789216 AGGAGTA-TTTTATTTTTCAAAGTCGTTGAACCCCTGTTTAG
1 AGGAGCATTTTTATTTTTCAAAGTTGTGGTACCTCTGTTTAG
*
12789257 AGGAGCTTTGTTTACTTTTTCAAA
1 AGGAGCATT-TTTA-TTTTTCAAA
12789281 AAAAAAAAAA
Statistics
Matches: 125, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
40 9 0.07
41 66 0.53
42 37 0.30
43 4 0.03
44 9 0.07
ACGTcount: A:0.22, C:0.12, G:0.21, T:0.46
Consensus pattern (42 bp):
AGGAGCATTTTTATTTTTCAAAGTTGTGGTACCTCTGTTTAG
Found at i:12789230 original size:83 final size:83
Alignment explanation
Indices: 12789092--12789281 Score: 265
Period size: 83 Copynumber: 2.3 Consensus size: 83
12789082 ATGATTGTTA
* * *
12789092 AGGAGCCTTTTAATTTTT-AAAATTGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTTAAAGT
1 AGGAGCATTTTTATTTTTCAAAATTGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGT
* * **
12789156 TGTTGTACCTTTGTTTAG
66 CGTTGAACCCCTGTTTAG
* *
12789174 AGGAGCATTTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGTATTTTATTTTTCAAAGT
1 AGGAGCATTTTTATTTTTCAAAATTGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGT
12789239 CGTTGAACCCCTGTTTAG
66 CGTTGAACCCCTGTTTAG
*
12789257 AGGAGCTTTGTTTACTTTTTCAAAA
1 AGGAGCATT-TTTA-TTTTTCAAAA
12789282 AAAAAAAAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
82 16 0.17
83 65 0.69
84 4 0.04
85 9 0.10
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.45
Consensus pattern (83 bp):
AGGAGCATTTTTATTTTTCAAAATTGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGT
CGTTGAACCCCTGTTTAG
Found at i:12790288 original size:7 final size:8
Alignment explanation
Indices: 12790271--12790297 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
12790261 TAGATTTAGG
12790271 AAAAATAA
1 AAAAATAA
12790279 AAAAATAA
1 AAAAATAA
12790287 AAAAATAA
1 AAAAATAA
12790295 AAA
1 AAA
12790298 TTTTGAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:12790612 original size:195 final size:194
Alignment explanation
Indices: 12790276--12790660 Score: 467
Period size: 195 Copynumber: 2.0 Consensus size: 194
12790266 TTAGGAAAAA
* ** * * *
12790276 TAAAAAAATAAAAAAATAAAAATTTTGAGAATAAATATTAGTTATCCAATGATGGAATTTATAAA
1 TAAAAAAACAAAAAAATAAAAATTTTGAGAATAAATACAAATTACCCAAGGATGGAATTTATAAA
* * * * *
12790341 AATTTCAAATGGTAAATTTCTATAAAATTTTTAGGTGAGAAATTTTGTCTAAATTTGTCCCAAAT
66 AATTTCAAATGGTAAATTTCTATAAAATCTCTAGGTGAAAAATTTTATCAAAATTTGTCCCAAAT
* * * * *
12790406 GGTGGAATAATTTAGATAAAGTTTTAATAACAA-TAATTAATATTTATTTTCAAACAAAAAAAAT
131 GGTGAAATAATTTAGATAAAATTTCAATAA-AAGTAATT-ATATTCATTTCCAAACAAAAAAAAT
12790470 T
194 T
*
12790471 TAAAAAAACATAAAAATAAAAATTTTG-GAATTAAATACAAATTACCCAAGGAT-GAGATTCTA-
1 TAAAAAAACAAAAAAATAAAAATTTTGAGAA-TAAATACAAATTACCCAAGGATGGA-ATT-TAT
* * *
12790533 AAAAATTTCAAATGGTAAATTT-TTTAAGAAATCTCTAGGT-AAAAATTTTATCAAAATTTTTCT
63 AAAAATTTCAAATGGTAAATTTCTAT-A-AAATCTCTAGGTGAAAAATTTTATCAAAATTTGTCC
* *
12790596 CAAATGGTGAAATAATTTAGATAAAATTTCAATAAAAGTAATTGTATTCATTTCCAAATAAAAAA
126 CAAATGGTGAAATAATTTAGATAAAATTTCAATAAAAGTAATTATATTCATTTCCAAACAAAAAA
12790661 TTTGGGTTGA
Statistics
Matches: 162, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
194 27 0.17
195 123 0.76
196 12 0.07
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.35
Consensus pattern (194 bp):
TAAAAAAACAAAAAAATAAAAATTTTGAGAATAAATACAAATTACCCAAGGATGGAATTTATAAA
AATTTCAAATGGTAAATTTCTATAAAATCTCTAGGTGAAAAATTTTATCAAAATTTGTCCCAAAT
GGTGAAATAATTTAGATAAAATTTCAATAAAAGTAATTATATTCATTTCCAAACAAAAAAAATT
Found at i:12794295 original size:20 final size:21
Alignment explanation
Indices: 12794259--12794327 Score: 54
Period size: 20 Copynumber: 3.4 Consensus size: 21
12794249 ATGATAATAG
*
12794259 CAAGAAAA-TGAGCGGTTCAA
1 CAAGAAAATTGAGCGGTTAAA
*
12794279 CAAGAAAATTGA-TGGTTAAA
1 CAAGAAAATTGAGCGGTTAAA
* * *
12794299 AAAGAAACTTGA-CTGTTTAAA
1 CAAGAAAATTGAGC-GGTTAAA
*
12794320 AAAGAAAA
1 CAAGAAAA
12794328 AGATGATAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
20 24 0.60
21 16 0.40
ACGTcount: A:0.52, C:0.09, G:0.19, T:0.20
Consensus pattern (21 bp):
CAAGAAAATTGAGCGGTTAAA
Found at i:12794320 original size:21 final size:20
Alignment explanation
Indices: 12794280--12794327 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
12794270 GCGGTTCAAC
12794280 AAGAAAATTGATGGTTAAAA
1 AAGAAAATTGATGGTTAAAA
* *
12794300 AAGAAACTTGACTGTTTAAAA
1 AAGAAAATTGA-TGGTTAAAA
12794321 AAGAAAA
1 AAGAAAA
12794328 AGATGATAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.56, C:0.04, G:0.17, T:0.23
Consensus pattern (20 bp):
AAGAAAATTGATGGTTAAAA
Found at i:12799106 original size:14 final size:14
Alignment explanation
Indices: 12799087--12799114 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12799077 CCATGAGAAA
12799087 ATTTAAATAAAATT
1 ATTTAAATAAAATT
12799101 ATTTAAATAAAATT
1 ATTTAAATAAAATT
12799115 CATGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTTAAATAAAATT
Found at i:12799337 original size:28 final size:28
Alignment explanation
Indices: 12799265--12799338 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
12799255 TTTTATGTTG
*
12799265 ATAAAATTTTTGTTATTAAATAAATATTT
1 ATAAAATTTTTATTA-TAAATAAATATTT
* **
12799294 ATCAAATTTAAATTATAAAT-AATATTT
1 ATAAAATTTTTATTATAAATAAATATTT
*
12799321 ATAATAATTTTTTTTATA
1 ATAA-AATTTTTATTATA
12799339 TATTATTGAT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 10 0.28
28 15 0.42
29 11 0.31
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
ATAAAATTTTTATTATAAATAAATATTT
Found at i:12799414 original size:13 final size:12
Alignment explanation
Indices: 12799382--12799415 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12799372 AATCCATTTG
12799382 AATTTTTTATTA
1 AATTTTTTATTA
*
12799394 AAATTTTTATTA
1 AATTTTTTATTA
12799406 AATTATTTTA
1 AATT-TTTTA
12799416 AAAAATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AATTTTTTATTA
Found at i:12800322 original size:36 final size:36
Alignment explanation
Indices: 12800282--12800361 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
12800272 AATAATTAAA
* * *
12800282 ATTTATTTATTACTTTATTATATAATAATAACA-TTT
1 ATTTATTAATTAATTTATGATATAATAATAA-ATTTT
*
12800318 ATTTATTAATTAATTTATGATATGATAATAAATTTT
1 ATTTATTAATTAATTTATGATATAATAATAAATTTT
12800354 ATTT-TTAA
1 ATTTATTAA
12800362 ATTTAATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
35 5 0.13
36 34 0.87
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (36 bp):
ATTTATTAATTAATTTATGATATAATAATAAATTTT
Found at i:12800355 original size:32 final size:32
Alignment explanation
Indices: 12800272--12800356 Score: 80
Period size: 36 Copynumber: 2.5 Consensus size: 32
12800262 TTTGTTAATA
* * * *
12800272 AATAATTAAAATTTATTTATTACTTTATTATAT
1 AATAA-TAAATTTTATTAATTAATTTATGATAT
12800305 AATAATAACATTTATTTATTAATTAATTTATGATAT
1 AATAATAA-A--T-TTTATTAATTAATTTATGATAT
*
12800341 GATAATAAATTTTATT
1 AATAATAAATTTTATT
12800357 TTTAAATTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
32 9 0.21
33 7 0.16
35 1 0.02
36 26 0.60
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (32 bp):
AATAATAAATTTTATTAATTAATTTATGATAT
Found at i:12800758 original size:22 final size:24
Alignment explanation
Indices: 12800730--12800794 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
12800720 GTTAGTTAGA
12800730 TAATTATTA-AATAATT-ATAATT
1 TAATTATTATAATAATTGATAATT
*
12800752 TAATTATAGTATAATAATTGATTATT
1 TAATTAT--TATAATAATTGATAATT
*
12800778 TAATTGATTATATTAAT
1 TAATT-ATTATAATAAT
12800795 GTAATACTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
22 7 0.19
24 2 0.06
25 15 0.42
26 10 0.28
27 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.51
Consensus pattern (24 bp):
TAATTATTATAATAATTGATAATT
Found at i:12800783 original size:12 final size:13
Alignment explanation
Indices: 12800761--12800794 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
12800751 TTAATTATAG
*
12800761 TATAATAATTGAT
1 TATATTAATTGAT
12800774 TAT-TTAATTGAT
1 TATATTAATTGAT
12800786 TATATTAAT
1 TATATTAAT
12800795 GTAATACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (13 bp):
TATATTAATTGAT
Found at i:12805343 original size:588 final size:575
Alignment explanation
Indices: 12803930--12805680 Score: 2280
Period size: 588 Copynumber: 3.0 Consensus size: 575
12803920 CCCATTACAG
* * * *
12803930 GGGGAAAATGAAATGGTAAAATAATATTATTTTTAAGGATGTCAATGAATATGATATGAGATGGG
1 GGGGAAAATGAAATGATAAAATAATATTATTGTTAAGGATATC-A-G-----GGTATGAGAT-GG
* * * *
12803995 TAAAGTATTTTTCATCTCTATATCTGGATTTTTATATTATATATATATCTTATTTATACCTAACG
58 TAAAGTATTCTTCATCCCTATATCT-GATTTTTATATTATAT-TATCTCATATTTATACCTAACG
* * * * *
12804060 AATATTTCAAATTTATCTCCATCTT-TATCAATACGAGTATTTAACGGATATGAACAATTTTCGT
121 AGTATTTCAAATTTATCTCCAT-TTCTATCCACACGAGTATTTAATGGATATGAATAATTTT-GT
* * *
12804124 ATAAATAGCTTTTTTAAAAGAT-AAAACCAAAATGTATTTTTTTTATTTTTTAAAATTTTGTATC
184 ACAGATAGCTTTTTTAAAAAATAAAAACCAAAATGTATTTTTTTTATTTTTTAAAATTTTGTATC
*
12804188 TTGTATATTTATGTAATTTTTTAATAAATATATTAATATATATTTTAAATAGAAATATATTAGTT
249 TTGTATATTTATGTAATTTTTTTATAAATATATTAATATATATTTTAAATAGAAATATATTAGTT
* * *
12804253 CTAATTAATCTAAAATAATTATATTATTTAATAAAAAAATCTATTTTCTAATATATATATTTAGA
314 CTAATTAATCTAAAATAATTATAATATTTAATAAAAAAATCTATTTTCTAATATATATATGTAAA
* * *
12804318 GTATCGGTAGAGGTACAAGACGGGTGTTATATTACTC-ATC-TCTATCCTCGTACTTGATAAAAA
379 GTATCGGTAGAAG--CATGAGGGGTGTTATATTACTCAATCTTC-ATCCTCGTACTTGATAAAAA
* * * *
12804381 ATTTAAAATAATATCTATTTCCATTAAAAAATATCCATCCCAATCCCCGTTTGG-AAAAAAATTG
441 ATTTAAAATAATACCTATTTCCTTTAAATAATATTCATCCCAATCCCCG-TTGGAAAAAAAATTG
* *
12804445 AAATTCCCCATTAGGTATGGATAAATTTGATATTCTTAATTATTGTTCTATAACTAACTACTAAT
505 AAATTCCCCGTTAGGTAT-GATAAATTTGACATTCTTAATTATTGTTCTATAAC-AACTACTAAT
* *
12804510 TAGTATAG
568 CAGTATAA
*
12804518 GGGGAAAATGAAATGAT-AAATAATATTATTGTTAAGGATGTTAATGAATAGGGTATGAGATGGA
1 GGGGAAAATGAAATGATAAAATAATATTATTGTTAAGGA---T-AT---CAGGGTATGAGATGG-
** * *
12804582 TAAAGTATTCTTTTTCCCTATATCTGAATTTTTATATTACATTAATCACATATTTATACCTAACG
58 TAAAGTATTCTTCATCCCTATATCTG-ATTTTTATATTATATT-ATCTCATATTTATACCTAACG
*
12804647 AGTATTTCAAATTTATCTCCATCTCTATCCACACGAGTATTTAATGGATATGAATAATTTTTGTA
121 AGTATTTCAAATTTATCTCCATTTCTATCCACACGAGTATTTAATGGATATGAATAA-TTTTGTA
* **
12804712 CAGATAGCTTTTTTAAAAAATAAAAACTAAAATG--TTTTTTTTATTTTTTTTAATTTTGTATCT
185 CAGATAGCTTTTTTAAAAAATAAAAACCAAAATGTATTTTTTTTATTTTTTAAAATTTTGTATCT
*
12804775 TGTATATTTATGTAATTTTTTTTTATAAATATATTAATATATATTTTAAATAGAAATATACTAGT
250 TGTATATTTATGTAA--TTTTTTTATAAATATATTAATATATATTTTAAATAGAAATATATTAGT
*
12804840 TCTAATTAATCTAAAATAATTATACTATTTAATAAAAAAATCTATTTTCTAATATATATATGTAA
313 TCTAATTAATCTAAAATAATTATAATATTTAATAAAAAAATCTATTTTCTAATATATATATGTAA
* * *
12804905 AGTATCGGTAGAAGCATGGGGTTGGTGTTATATTACCCAATCTTCATCCTCGTACCTGATAAAAA
378 AGTATCGGTAGAAGCATGAGG--GGTGTTATATTACTCAATCTTCATCCTCGTACTTGATAAAAA
* ** *
12804970 ATTTAAAATAATACCTATTTCCTTTAAATAATATTTATCCCAATCATCATTCGGAAAAAAAATTG
441 ATTTAAAATAATACCTATTTCCTTTAAATAATATTCATCCCAATCCCCGTT-GGAAAAAAAATTG
*
12805035 GAATTCCCCGTTAGGTATAGATAAATTTGACATTCTTAATTATTGTTCTATAACAAACTACTAAT
505 AAATTCCCCGTTAGGTAT-GATAAATTTGACATTCTTAATTATTGTTCTATAAC-AACTACTAAT
12805100 CAGTATAA
568 CAGTATAA
*
12805108 GGGGAAAGTGAAATGATAAAATAATATTATTGTTAAGGATATCA-GGTATGAGATAGGTAAAGTA
1 GGGGAAAATGAAATGATAAAATAATATTATTGTTAAGGATATCAGGGTATGAGAT-GGTAAAGTA
* * * *
12805172 TTCTTCATCCCCATATTTAGA-TTTTATATTATATTCATCTCATACTTATACCTAGCGAGTATTT
65 TTCTTCATCCCTATATCT-GATTTTTATATTATATT-ATCTCATATTTATACCTAACGAGTATTT
12805236 CAAATTTAT-TCTCATTTCTATCCACACGAGTATTTAATGGATATGAATAATTTCTGTACAGATA
128 CAAATTTATCTC-CATTTCTATCCACACGAGTATTTAATGGATATGAATAATTT-TGTACAGATA
*
12805300 GCTTTTTAAAAAAATAAAAACCAAAATGTATCTTTTGTTTTTATTTTTTAAAATTTTGTATCTTG
191 GCTTTTTTAAAAAATAAAAACCAAAATGTA---TTT-TTTTTATTTTTTAAAATTTTGTATCTTG
*
12805365 TATATTTATGTAATTTTTTTATAAATATATTAATATATATTTTAAATAGAAATATATTAGTTTTA
252 TATATTTATGTAATTTTTTTATAAATATATTAATATATATTTTAAATAGAAATATATTAGTTCTA
*
12805430 ATTAATCTAAAATAATTATAATATTTACTAAAAAAATCTATTTTCTAATATATATATATGTAAAG
317 ATTAATCTAAAATAATTATAATATTTAATAAAAAAATCTATTTTCT-A-ATATATATATGTAAAG
* * *
12805495 TATTGGTAG-AG-ATACGAGGCAGGTGTTATATT-GTCATATCTTTATCCTCGTACTTGATAAAA
380 TATCGGTAGAAGCAT--GAGG--GGTGTTATATTACTCA-ATCTTCATCCTCGTACTTGATAAAA
* * *
12805557 AATTTAAAATAATACCTATTT-TTATTATATAATATTCATCCCAATCCCCGTTTGAAAAAAAATT
440 AATTTAAAATAATACCTATTTCCT-TTAAATAATATTCATCCCAATCCCCGTTGGAAAAAAAATT
** * *
12805621 GAAATTTTCCGTTAAGTATG---AATTTAACATTCTTAATTATTGTTCTATAAC-ACTACTAAT
504 GAAATTCCCCGTTAGGTATGATAAATTTGACATTCTTAATTATTGTTCTATAACAACTACTAAT
12805681 AAGTGCTTGG
Statistics
Matches: 1034, Mismatches: 91, Indels: 83
0.86 0.08 0.07
Matches are distributed among these distances:
581 14 0.01
582 120 0.12
583 62 0.06
584 4 0.00
586 148 0.14
587 189 0.18
588 313 0.30
589 65 0.06
590 95 0.09
591 22 0.02
592 1 0.00
593 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (575 bp):
GGGGAAAATGAAATGATAAAATAATATTATTGTTAAGGATATCAGGGTATGAGATGGTAAAGTAT
TCTTCATCCCTATATCTGATTTTTATATTATATTATCTCATATTTATACCTAACGAGTATTTCAA
ATTTATCTCCATTTCTATCCACACGAGTATTTAATGGATATGAATAATTTTGTACAGATAGCTTT
TTTAAAAAATAAAAACCAAAATGTATTTTTTTTATTTTTTAAAATTTTGTATCTTGTATATTTAT
GTAATTTTTTTATAAATATATTAATATATATTTTAAATAGAAATATATTAGTTCTAATTAATCTA
AAATAATTATAATATTTAATAAAAAAATCTATTTTCTAATATATATATGTAAAGTATCGGTAGAA
GCATGAGGGGTGTTATATTACTCAATCTTCATCCTCGTACTTGATAAAAAATTTAAAATAATACC
TATTTCCTTTAAATAATATTCATCCCAATCCCCGTTGGAAAAAAAATTGAAATTCCCCGTTAGGT
ATGATAAATTTGACATTCTTAATTATTGTTCTATAACAACTACTAATCAGTATAA
Found at i:12813129 original size:19 final size:19
Alignment explanation
Indices: 12813102--12813140 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12813092 TTTTCATTTC
*
12813102 AATTCATTCTCTCTTTAAA
1 AATTCATTCTCTCTCTAAA
* *
12813121 AATTTATTCTTTCTCTAAA
1 AATTCATTCTCTCTCTAAA
12813140 A
1 A
12813141 CCAAACAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTCATTCTCTCTCTAAA
Found at i:12815908 original size:24 final size:25
Alignment explanation
Indices: 12815872--12815918 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
12815862 CTAATTATCC
*
12815872 AATGATGAAATTTTTAAAAATTTCA
1 AATGATGAAATTTCTAAAAATTTCA
*
12815897 AATGAT-AAATTTCTATAAATTT
1 AATGATGAAATTTCTAAAAATTT
12815919 TTTAGGTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (25 bp):
AATGATGAAATTTCTAAAAATTTCA
Found at i:12816294 original size:45 final size:45
Alignment explanation
Indices: 12816227--12816315 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
12816217 GATAAAAAAG
*
12816227 AAAATTTTAAATTAACCTAAATGATGAAAAATTTAGAAATTAAAC
1 AAAATTTTAAATTAACCCAAATGATGAAAAATTTAGAAATTAAAC
* * * *
12816272 AAAATTTCTAAA-TAGCCCAAATGGTGAAAATTTTAGGAATTAAA
1 AAAATTT-TAAATTAACCCAAATGATGAAAAATTTAGAAATTAAA
12816316 AAGAGAAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
45 34 0.89
46 4 0.11
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (45 bp):
AAAATTTTAAATTAACCCAAATGATGAAAAATTTAGAAATTAAAC
Found at i:12822146 original size:44 final size:43
Alignment explanation
Indices: 12821861--12822420 Score: 528
Period size: 44 Copynumber: 12.9 Consensus size: 43
12821851 TTGAAGAGAT
* * * * * * * *
12821861 TTATTTATTTTCCAAAAGTCATTAAGCCTTTGCTTAAAGGAACT
1 TTATTTATTTTTC-AAAGTTATTGAGCCTCTGTTTAGAGGAGCC
* **
12821905 TTATTTATTTTTCAAAGTTATTGAGCTTCTACTTAGAGGAGCC
1 TTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAGAGGAGCC
* * * * ** * *
12821948 TTATTTATTTTCCATAGTTGTTGAGCATCTACTTAGATGAGTC
1 TTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAGAGGAGCC
* * * * *
12821991 TTATTTA-TTTTCTAAAGTTATTGAGCTTTTTTTTTAAAGAAGCC
1 TTATTTATTTTTC-AAAGTTATTGAGC-CTCTGTTTAGAGGAGCC
* ** * *
12822035 TTATTTATTTTTCAAAGCTATTGAGCCTCTACTTAGAGAAGCT
1 TTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAGAGGAGCC
* * ** *
12822078 TTATTTATTTTTCAAAGCTGTTGAGCCTCTACTTAGAGGAGTC
1 TTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAGAGGAGCC
* **
12822121 TTATTTTATTTTTCAAAGCTATTGAGCCTCTGTTTAGAATAGCC
1 TTA-TTTATTTTTCAAAGTTATTGAGCCTCTGTTTAGAGGAGCC
* * *
12822165 TTATTTTATTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGGAACC
1 TTA-TTTATTTTTCAAAGTTATTGAGCCTCTGTTTAGAGGAGCC
* * *
12822209 TTATTTTATTTTTCCAAGTCATTGAGCCTCTGCTTAGAGGAGCC
1 TTA-TTTATTTTTCAAAGTTATTGAGCCTCTGTTTAGAGGAGCC
* * * * *
12822253 TTATTTACTTTTGCAAAGTTGTTGAACCTTTGTTTAGAGAAGCC
1 TTATTTA-TTTTTCAAAGTTATTGAGCCTCTGTTTAGAGGAGCC
* * *
12822297 TTATTTACTTTTCAAAGTCATTAAGCCTCTGTTTAGAGGAGCC
1 TTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAGAGGAGCC
** *
12822340 TTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGTC
1 TTATTTA-TTTTTCAAAGTTATTGAGCCTCTGTTTAGAGGAGCC
* * *
12822384 TTATTTATTTTACAAAGTCATTGAGCTTCTGTTTAGA
1 TTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAGA
12822421 TGAGTTTTTA
Statistics
Matches: 432, Mismatches: 78, Indels: 13
0.83 0.15 0.02
Matches are distributed among these distances:
42 4 0.01
43 196 0.45
44 227 0.53
45 5 0.01
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (43 bp):
TTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAGAGGAGCC
Found at i:12822415 original size:87 final size:87
Alignment explanation
Indices: 12821861--12822420 Score: 556
Period size: 87 Copynumber: 6.4 Consensus size: 87
12821851 TTGAAGAGAT
* * * * * * *
12821861 TTATTTATTTTCCAAAAGTCATTAAGCCTTTGCTTAAAGGAACTTTATTTA-TTTTTCAAAGTTA
1 TTATTTATTTTTC-AAAGTCATTGAGCCTCTGCTTAGAGGAGCCTTATTTATTTTTTCAAAGTTG
* **
12821925 TTGAGCTTCTACTTAGAGGAGCC
65 TTGAGCCTCTGTTTAGAGGAGCC
* * ** * * * * * *
12821948 TTATTTATTTTCCATAGTTGTTGAGCATCTACTTAGATGAGTCTTATTTATTTTCT-AAAGTTAT
1 TTATTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGAGGAGCCTTATTTATTTTTTCAAAGTTGT
* * * * *
12822012 TGAGCTTTTTTTTTAAAGAAGCC
66 TGAGC-CTCTGTTTAGAGGAGCC
* * * *
12822035 TTATTTATTTTTCAAAG-CTATTGAGCCTCTACTTAGAGAAGCTTTATTTA-TTTTTCAAAGCTG
1 TTATTTATTTTTCAAAGTC-ATTGAGCCTCTGCTTAGAGGAGCCTTATTTATTTTTTCAAAGTTG
** *
12822098 TTGAGCCTCTACTTAGAGGAGTC
65 TTGAGCCTCTGTTTAGAGGAGCC
* **
12822121 TTATTTTATTTTTCAAAG-CTATTGAGCCTCTGTTTAGAATAGCCTTATTT-TATTTTTCAAAGT
1 TTA-TTTATTTTTCAAAGTC-ATTGAGCCTCTGCTTAGAGGAGCCTTATTTAT-TTTTTCAAAGT
* *
12822184 TGTTGAGCCTTTGTTTAGAGGAACC
63 TGTTGAGCCTCTGTTTAGAGGAGCC
* * *
12822209 TTATTTTATTTTTCCAAGTCATTGAGCCTCTGCTTAGAGGAGCCTTATTTACTTTTGCAAAGTTG
1 TTA-TTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGAGGAGCCTTATTTATTTTTTCAAAGTTG
* * *
12822274 TTGAACCTTTGTTTAGAGAAGCC
65 TTGAGCCTCTGTTTAGAGGAGCC
* * * *
12822297 TTATTTACTTTTCAAAGTCATTAAGCCTCTGTTTAGAGGAGCCTTATTTATTTTTTCAAAGTCGT
1 TTATTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGAGGAGCCTTATTTATTTTTTCAAAGTTGT
*
12822362 TGAGCCTCTGTTTAGAGGAGTC
66 TGAGCCTCTGTTTAGAGGAGCC
* * *
12822384 TTATTTATTTTACAAAGTCATTGAGCTTCTGTTTAGA
1 TTATTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGA
12822421 TGAGTTTTTA
Statistics
Matches: 392, Mismatches: 72, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
86 55 0.14
87 227 0.58
88 109 0.28
89 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (87 bp):
TTATTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGAGGAGCCTTATTTATTTTTTCAAAGTTGT
TGAGCCTCTGTTTAGAGGAGCC
Found at i:12822907 original size:21 final size:22
Alignment explanation
Indices: 12822871--12822911 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
12822861 GATATTTTGG
*
12822871 AGATTTTTTGTTTGAAAAAAGA
1 AGATTTTTTGTATGAAAAAAGA
12822893 AGATTTTTT-TATGAAAAAA
1 AGATTTTTTGTATGAAAAAA
12822912 TATGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (22 bp):
AGATTTTTTGTATGAAAAAAGA
Found at i:12823519 original size:25 final size:24
Alignment explanation
Indices: 12823491--12823538 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12823481 CTAATTATCC
12823491 AATGATGAAATTTTTAAAAATTTCA
1 AATGAT-AAATTTTTAAAAATTTCA
* *
12823516 AATGGTAAATTTTTATAAATTTC
1 AATGATAAATTTTTAAAAATTTC
12823539 CTATGTAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (24 bp):
AATGATAAATTTTTAAAAATTTCA
Found at i:12824668 original size:25 final size:23
Alignment explanation
Indices: 12824633--12824681 Score: 55
Period size: 25 Copynumber: 2.0 Consensus size: 23
12824623 ATTATTATTA
*
12824633 TATTTCTTTTT-TTCCTTTTTCTT
1 TATTTCTTTTTATT-CTTTCTCTT
12824656 TATTATCTCTTTTATTCTTTCTCTT
1 TATT-TCT-TTTTATTCTTTCTCTT
12824681 T
1 T
12824682 TTGTTCCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.18
24 3 0.14
25 13 0.59
26 2 0.09
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.73
Consensus pattern (23 bp):
TATTTCTTTTTATTCTTTCTCTT
Found at i:12829468 original size:4 final size:4
Alignment explanation
Indices: 12829459--12829654 Score: 226
Period size: 4 Copynumber: 49.2 Consensus size: 4
12829449 AAGAGCTTTA
*
12829459 TCAT TCAT TCAT TCAT TC-T ATCAT TCAT TCGT TCAT TCAT TCGA- TCAT
1 TCAT TCAT TCAT TCAT TCAT -TCAT TCAT TCAT TCAT TCAT TC-AT TCAT
* *
12829507 TCAT TCAT TTAT TCAT TCAT TCGA- TCAT TCAT TCAT TTAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TC-AT TCAT TCAT TCAT TCAT TCAT TCAT
* *
12829555 TCGA- TCAT TCAT TCAT TTA- TCAT TCAT TCAT TTAT TCAT TCAT TCGA-
1 TC-AT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TC-AT
* *
12829602 TCAT TCAT TCAT TTAT TCAT TCAT TCGA- TCAT TCAT TCAT TTAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TC-AT TCAT TCAT TCAT TCAT TCAT
12829650 TCAT T
1 TCAT T
12829655 TGTATATTTA
Statistics
Matches: 165, Mismatches: 14, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
3 8 0.05
4 151 0.92
5 6 0.04
ACGTcount: A:0.24, C:0.22, G:0.03, T:0.51
Consensus pattern (4 bp):
TCAT
Found at i:12831580 original size:143 final size:143
Alignment explanation
Indices: 12831322--12831583 Score: 332
Period size: 143 Copynumber: 1.8 Consensus size: 143
12831312 TGTACTAGGA
* *
12831322 AAAATGTGAAATTACTAAAATACCCATATAAGGTTATTTTCGTAATTTAGCCTTCTCGAGCTCAG
1 AAAATGTGAAATTACTAAAATACCCATATAAGGTTATTTTCGTAATTTAGCCTTCCCAAGCTCAG
* *
12831387 ATTTTCATGAAACTTTTCAAATCTTAATTTCATAATATTTCATGACTTTTGGTGCATTTGAAATC
66 ATTTTCATGAAACTTTTCAAATCTTAATTTAATAATATTTCATAACTTTTGGTGCATTTGAAATC
12831452 ATAGTAGTAGCCC
131 ATAGTAGTAGCCC
* * * * * * *
12831465 AAAATGTGAAATTTCTTAAATACCCCTATATGAG-TATTTTTGTAATTTGGCTTTCCCAAGCTC-
1 AAAATGTGAAATTACTAAAATACCCATATAAG-GTTATTTTCGTAATTTAGCCTTCCCAAGCTCA
* *** *
12831528 GAATTTTCTTGAAACTTTTTGGAT-TTCAATTTAATAATATTTCATAATTTTTGGTG
65 G-ATTTTCATGAAACTTTTCAAATCTT-AATTTAATAATATTTCATAACTTTTGGTG
12831584 TTTTAAAATC
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
142 3 0.03
143 96 0.96
144 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (143 bp):
AAAATGTGAAATTACTAAAATACCCATATAAGGTTATTTTCGTAATTTAGCCTTCCCAAGCTCAG
ATTTTCATGAAACTTTTCAAATCTTAATTTAATAATATTTCATAACTTTTGGTGCATTTGAAATC
ATAGTAGTAGCCC
Found at i:12831867 original size:76 final size:77
Alignment explanation
Indices: 12831727--12831881 Score: 215
Period size: 76 Copynumber: 2.0 Consensus size: 77
12831717 ATAATGTGGA
* * **
12831727 CCATCATATCTTTTATTTATTTTGATCCAATGGCCAAAGGTGGTTCCTTGAAAAGATGAAAAAAG
1 CCATCATATCTTTTATTTATTTTGATACAATGGCCAAAGGTGGTTCCTTGAAAAAAAAAAAAAAG
12831792 A-AAACTTTAAC
66 AGAAACTTTAAC
* * *
12831803 CCATCATATCTTTTATTTATTTTGATACAGTGGCCAAATGTGGTT-CTTTAAAAAAAAAAGAAAA
1 CCATCATATCTTTTATTTATTTTGATACAATGGCCAAAGGTGGTTCCTTGAAAAAAAAAA-AAAA
*
12831867 GAGAAACTTTGAC
65 GAGAAACTTTAAC
12831880 CC
1 CC
12831882 TTGGATGAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
75 10 0.14
76 48 0.70
77 11 0.16
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.33
Consensus pattern (77 bp):
CCATCATATCTTTTATTTATTTTGATACAATGGCCAAAGGTGGTTCCTTGAAAAAAAAAAAAAAG
AGAAACTTTAAC
Found at i:12836519 original size:40 final size:39
Alignment explanation
Indices: 12836430--12836525 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 39
12836420 TATTTAAAAT
12836430 TAATCAAATTAATTAGA-AAATTATAGAAAAAGTATATAAA
1 TAAT-AAATTAATTA-ATAAATTATAGAAAAAGTATATAAA
*
12836470 TAATTAATTAATTAATCAAATTATA-AAAAA-TATATGTAAAA
1 TAATAAATTAATTAAT-AAATTATAGAAAAAGTATA--T-AAA
12836511 TAA-AAATTAATTAAT
1 TAATAAATTAATTAAT
12836526 TATAAAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
38 5 0.10
39 14 0.29
40 24 0.49
41 6 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.34
Consensus pattern (39 bp):
TAATAAATTAATTAATAAATTATAGAAAAAGTATATAAA
Found at i:12836530 original size:17 final size:18
Alignment explanation
Indices: 12836488--12836537 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
12836478 TAATTAATCA
*
12836488 AATTATAAAAAATATATGT
1 AATTATAAAAATTA-ATGT
*
12836507 AA-AATAAAAATTAAT-T
1 AATTATAAAAATTAATGT
12836523 AATTATAAAAATTAA
1 AATTATAAAAATTAA
12836538 ATTACACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.11
17 13 0.48
18 9 0.33
19 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAAAAATTAATGT
Found at i:12836540 original size:18 final size:18
Alignment explanation
Indices: 12836488--12836541 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
12836478 TAATTAATCA
* *
12836488 AATTATAAAAAATATATGT
1 AATTATAAAAATTAAAT-T
*
12836507 AA-AATAAAAATT-AATT
1 AATTATAAAAATTAAATT
12836523 AATTATAAAAATTAAATT
1 AATTATAAAAATTAAATT
12836541 A
1 A
12836542 CACAAAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 3 0.10
17 11 0.38
18 13 0.45
19 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AATTATAAAAATTAAATT
Found at i:12836557 original size:21 final size:20
Alignment explanation
Indices: 12836531--12836570 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
12836521 TTAATTATAA
*
12836531 AAATTAAATTACACAAAAAAG
1 AAATTAAAATACA-AAAAAAG
12836552 AAATTAAAATACAAAAAAA
1 AAATTAAAATACAAAAAAA
12836571 TGCAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.17
Consensus pattern (20 bp):
AAATTAAAATACAAAAAAAG
Found at i:12837808 original size:16 final size:16
Alignment explanation
Indices: 12837783--12837838 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
12837773 TAGTTCTTGG
*
12837783 AGAAAGAAGAAGAAAA
1 AGAAAAAAGAAGAAAA
12837799 AGAAAAAAGAAAGAAAATA
1 AGAAAAAAG-AAG-AAA-A
*
12837818 AGAAAAAAAAATG-AAA
1 AGAAAAAAGAA-GAAAA
12837834 AGAAA
1 AGAAA
12837839 GGGAATATGG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
16 14 0.41
17 5 0.15
18 5 0.15
19 10 0.29
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (16 bp):
AGAAAAAAGAAGAAAA
Found at i:12837809 original size:19 final size:19
Alignment explanation
Indices: 12837785--12837839 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
12837775 GTTCTTGGAG
12837785 AAAG-AAGAAGAAAAAGAAA
1 AAAGAAAGAA-AAAAAGAAA
*
12837804 AAAGAAAGAAAATAAGAAA
1 AAAGAAAGAAAAAAAGAAA
12837823 AAA-AAATGAAAAGAAAG
1 AAAGAAA-GAAAA-AAAG
12837840 GGAATATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 3 0.10
19 20 0.65
20 8 0.26
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (19 bp):
AAAGAAAGAAAAAAAGAAA
Found at i:12841650 original size:34 final size:32
Alignment explanation
Indices: 12841612--12841679 Score: 82
Period size: 34 Copynumber: 2.1 Consensus size: 32
12841602 CCATAGAAAG
* * *
12841612 AAAATGTAAATACAAAATTAACAAAGGTGAAAAT
1 AAAATGCAAATAAAAAATTAA-AAA-ATGAAAAT
*
12841646 AAAATGCAACTAAAAAATTAAAAAATGAAAAT
1 AAAATGCAAATAAAAAATTAAAAAATGAAAAT
12841678 AA
1 AA
12841680 CTAGAAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 9 0.30
33 3 0.10
34 18 0.60
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.19
Consensus pattern (32 bp):
AAAATGCAAATAAAAAATTAAAAAATGAAAAT
Found at i:12847042 original size:14 final size:14
Alignment explanation
Indices: 12847023--12847050 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12847013 ATGTATGGTT
12847023 CATGTCACTACCTC
1 CATGTCACTACCTC
12847037 CATGTCACTACCTC
1 CATGTCACTACCTC
12847051 TTATCGCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.07, T:0.29
Consensus pattern (14 bp):
CATGTCACTACCTC
Found at i:12848065 original size:25 final size:25
Alignment explanation
Indices: 12848037--12848090 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
12848027 AATATATAAT
*
12848037 AAATAACATAATTGAAATATGCAGG
1 AAATAACATAATTAAAATATGCAGG
* *
12848062 AAATTACATAATTAAAATATGCATG
1 AAATAACATAATTAAAATATGCAGG
12848087 AAAT
1 AAAT
12848091 GCAAAACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (25 bp):
AAATAACATAATTAAAATATGCAGG
Found at i:12848184 original size:16 final size:17
Alignment explanation
Indices: 12848163--12848202 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
12848153 AAATCAAAAC
12848163 ATTTTTTCAATTTTTT-
1 ATTTTTTCAATTTTTTG
*
12848179 ATTTTTTCATTTTTTTG
1 ATTTTTTCAATTTTTTG
12848196 ATTTTTT
1 ATTTTTT
12848203 TTTCAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (17 bp):
ATTTTTTCAATTTTTTG
Found at i:12849144 original size:17 final size:17
Alignment explanation
Indices: 12849122--12849180 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
12849112 TAATGAATGC
12849122 ATGACAATATGACATGA
1 ATGACAATATGACATGA
*
12849139 ATGACAAAATATGA-ATGT
1 ATGAC--AATATGACATGA
*
12849157 ATCACAATATGACATGA
1 ATGACAATATGACATGA
12849174 ATGACAA
1 ATGACAA
12849181 ACTATTACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 7 0.20
17 14 0.40
18 7 0.20
19 7 0.20
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (17 bp):
ATGACAATATGACATGA
Found at i:12849153 original size:35 final size:35
Alignment explanation
Indices: 12849114--12849181 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
12849104 TAAAATGATA
*
12849114 ATGAATGCATGACAATATGACATGAATGACAAAAT
1 ATGAATGCATCACAATATGACATGAATGACAAAAT
*
12849149 ATGAATGTATCACAATATGACATGAATGACAAA
1 ATGAATGCATCACAATATGACATGAATGACAAA
12849182 CTATTACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.24
Consensus pattern (35 bp):
ATGAATGCATCACAATATGACATGAATGACAAAAT
Found at i:12852079 original size:15 final size:15
Alignment explanation
Indices: 12852059--12852107 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
12852049 AGGGTTTTGG
12852059 GTTTAGGGTTTCAAA
1 GTTTAGGGTTTCAAA
*
12852074 GTTTAGGGTTT-TAA
1 GTTTAGGGTTTCAAA
*
12852088 GATTTAGGGTTTCAAG
1 G-TTTAGGGTTTCAAA
12852104 GTTT
1 GTTT
12852108 GGATTTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 3 0.10
15 24 0.83
16 2 0.07
ACGTcount: A:0.22, C:0.04, G:0.29, T:0.45
Consensus pattern (15 bp):
GTTTAGGGTTTCAAA
Found at i:12852096 original size:30 final size:29
Alignment explanation
Indices: 12852046--12852107 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
12852036 GTTTAGGTAA
* *
12852046 TTTAGGGTTTTGGGTTTAGGGTTTCAAAG
1 TTTAGGGTTTTAGATTTAGGGTTTCAAAG
*
12852075 TTTAGGGTTTTAAGATTTAGGGTTTCAAGG
1 TTTAGGGTTTT-AGATTTAGGGTTTCAAAG
12852105 TTT
1 TTT
12852108 GGATTTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.47
Consensus pattern (29 bp):
TTTAGGGTTTTAGATTTAGGGTTTCAAAG
Found at i:12852381 original size:3 final size:3
Alignment explanation
Indices: 12852373--12852416 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
12852363 TAATGACCGT
12852373 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
12852417 TATTAATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12852421 original size:3 final size:3
Alignment explanation
Indices: 12852415--12852465 Score: 93
Period size: 3 Copynumber: 16.7 Consensus size: 3
12852405 AATAATAATA
12852415 ATT ATT AATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12852461 ATT AT
1 ATT AT
12852466 AATGAATGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12853247 original size:8 final size:9
Alignment explanation
Indices: 12853221--12853263 Score: 54
Period size: 8 Copynumber: 4.8 Consensus size: 9
12853211 CTTTTTTAAA
12853221 AATTTTATT
1 AATTTTATT
12853230 AATTTT-TT
1 AATTTTATT
12853238 ATTATTTTATT
1 A--ATTTTATT
12853249 AATTTT-TT
1 AATTTTATT
12853257 AATTTTA
1 AATTTTA
12853264 AAGAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 11 0.37
9 11 0.37
10 5 0.17
11 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
AATTTTATT
Found at i:12854728 original size:17 final size:16
Alignment explanation
Indices: 12854706--12854759 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
12854696 TGCACTAGAT
12854706 AAGAAAAAAGAAGAAGA
1 AAGAAAAAA-AAGAAGA
* *
12854723 AAGAAAAAAAATAAAA
1 AAGAAAAAAAAGAAGA
*
12854739 AAGGAAAAAAAGAATGA
1 AAGAAAAAAAAGAA-GA
12854756 AAGA
1 AAGA
12854760 GAAAGAACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.04
Consensus pattern (16 bp):
AAGAAAAAAAAGAAGA
Found at i:12854747 original size:33 final size:33
Alignment explanation
Indices: 12854710--12854773 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
12854700 CTAGATAAGA
*
12854710 AAAAAGAAGAA-GAAAGAAAAAAAATAAAAAAGG
1 AAAAA-AAGAATGAAAGAAAAAAAACAAAAAAGG
* *
12854743 AAAAAAAGAATGAAAGAGAAAGAACAAAAAA
1 AAAAAAAGAATGAAAGAAAAAAAACAAAAAA
12854774 TAATGATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (33 bp):
AAAAAAAGAATGAAAGAAAAAAAACAAAAAAGG
Found at i:12855643 original size:20 final size:19
Alignment explanation
Indices: 12855620--12855668 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
12855610 TTCTTTCACT
* *
12855620 TCTTTTTCTCCTTTTTCCCC
1 TCTTTTTCTCC-CTTCCCCC
*
12855640 TCTTTTTTTCCCTTCCCCC
1 TCTTTTTCTCCCTTCCCCC
12855659 TCTATTTTCT
1 TCT-TTTTCT
12855669 TTTGACTCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59
Consensus pattern (19 bp):
TCTTTTTCTCCCTTCCCCC
Found at i:12857260 original size:11 final size:11
Alignment explanation
Indices: 12857256--12857285 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12857246 AAAAAGTGAA
*
12857256 AAAAAAAAAAG
1 AAAAAAAAGAG
12857267 AAAAAAAAGAG
1 AAAAAAAAGAG
12857278 AAAAAAAA
1 AAAAAAAA
12857286 TTAAAGAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:12857271 original size:22 final size:23
Alignment explanation
Indices: 12857229--12857272 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
12857219 AATAGAGATG
*
12857229 GAAAAAAAAAACCAAGCAAAAAGT
1 GAAAAAAAAAA-CAAGAAAAAAGT
12857253 GAAAAAAAAAA-AAGAAAAAA
1 GAAAAAAAAAACAAGAAAAAA
12857273 AAGAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.80, C:0.07, G:0.11, T:0.02
Consensus pattern (23 bp):
GAAAAAAAAAACAAGAAAAAAGT
Found at i:12857273 original size:24 final size:25
Alignment explanation
Indices: 12857246--12857294 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
12857236 AAAACCAAGC
*
12857246 AAAAAGTGAAAAAAAA-AAAAGAAA
1 AAAAAGAGAAAAAAAATAAAAGAAA
*
12857270 AAAAAGAGAAAAAAAATTAAAGAAA
1 AAAAAGAGAAAAAAAATAAAAGAAA
12857295 GCTTGAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (25 bp):
AAAAAGAGAAAAAAAATAAAAGAAA
Found at i:12858245 original size:18 final size:17
Alignment explanation
Indices: 12858206--12858247 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
12858196 ATAATTACAT
*
12858206 GAAACCCCAAATCCCAT
1 GAAACCCCAAATCCCAC
*
12858223 TAAACCCCAAATTCCCAC
1 GAAACCCCAAA-TCCCAC
12858241 GAAACCC
1 GAAACCC
12858248 TTAACCCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.40, C:0.43, G:0.05, T:0.12
Consensus pattern (17 bp):
GAAACCCCAAATCCCAC
Found at i:12858273 original size:15 final size:15
Alignment explanation
Indices: 12858250--12858284 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12858240 CGAAACCCTT
* *
12858250 AACCCTAAACCTTAA
1 AACCATAAACCCTAA
12858265 AACCATAAACCCTAA
1 AACCATAAACCCTAA
12858280 AACCA
1 AACCA
12858285 ATACTTAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.34, G:0.00, T:0.14
Consensus pattern (15 bp):
AACCATAAACCCTAA
Found at i:12858413 original size:26 final size:25
Alignment explanation
Indices: 12858350--12858413 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
12858340 TAAATTACAA
*
12858350 ATGCATTCATATTATGTCATTCATAC
1 ATGCATTC-TATTATGTCATGCATAC
* *
12858376 ATTCATTTTATTATGATCATGCATATC
1 ATGCATTCTATTATG-TCATGCATA-C
12858403 ATGCA-TCTATT
1 ATGCATTCTATT
12858414 TGCAAAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
25 7 0.23
26 19 0.61
27 5 0.16
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (25 bp):
ATGCATTCTATTATGTCATGCATAC
Found at i:12859378 original size:23 final size:22
Alignment explanation
Indices: 12859346--12859429 Score: 86
Period size: 23 Copynumber: 3.9 Consensus size: 22
12859336 GTTTCCTTTA
12859346 CTTTTCTTTTCTTTCTCTTTTT
1 CTTTTCTTTTCTTTCTCTTTTT
*
12859368 CTTTTGCTTTTC-TTCTTTTTTTT
1 CTTTT-CTTTTCTTTC-TCTTTTT
* *
12859391 CTTTTCCTTTCTTT-T-TTCTT
1 CTTTTCTTTTCTTTCTCTTTTT
*
12859411 CTTTT-TTTTCTTTCACTTT
1 CTTTTCTTTTCTTTCTCTTT
12859430 CTCATTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
19 7 0.14
20 9 0.18
21 3 0.06
22 13 0.25
23 19 0.37
ACGTcount: A:0.01, C:0.21, G:0.01, T:0.76
Consensus pattern (22 bp):
CTTTTCTTTTCTTTCTCTTTTT
Found at i:12859406 original size:28 final size:28
Alignment explanation
Indices: 12859337--12859431 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 28
12859327 CACTCATTCG
* *
12859337 TTTCCTTTAC-TTTTCTT-TTCTTTCTCT
1 TTTCCTTT-CTTTTTCTTCTTTTTTTTCT
*
12859364 TTTTCTTT-TGCTTTTCTTCTTTTTTTTCT
1 TTTCCTTTCT--TTTTCTTCTTTTTTTTCT
12859393 TTTCCTTTCTTTTTTCTTCTTTTTTTTC-
1 TTTCCTTTC-TTTTTCTTCTTTTTTTTCT
12859421 TTTCACTTTCT
1 TTTC-CTTTCT
12859432 CATTTTTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
27 7 0.12
28 12 0.21
29 37 0.65
31 1 0.02
ACGTcount: A:0.02, C:0.22, G:0.01, T:0.75
Consensus pattern (28 bp):
TTTCCTTTCTTTTTCTTCTTTTTTTTCT
Found at i:12859407 original size:29 final size:30
Alignment explanation
Indices: 12859349--12859431 Score: 100
Period size: 29 Copynumber: 2.8 Consensus size: 30
12859339 TCCTTTACTT
*
12859349 TTCTTTTCTTTCTCTTTTTCTTT-TGCTTTTC
1 TTCTTTT-TTT-TCTTTTCCTTTCTGCTTTTC
*
12859380 TTCTTTTTTTTCTTTTCCTTTCT-TTTTTC
1 TTCTTTTTTTTCTTTTCCTTTCTGCTTTTC
12859409 TTCTTTTTTTTC-TTTCACTTTCT
1 TTCTTTTTTTTCTTTTC-CTTTCT
12859432 CATTTTTTCA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
28 4 0.08
29 33 0.69
30 4 0.08
31 7 0.15
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.76
Consensus pattern (30 bp):
TTCTTTTTTTTCTTTTCCTTTCTGCTTTTC
Found at i:12859430 original size:22 final size:23
Alignment explanation
Indices: 12859346--12859431 Score: 85
Period size: 22 Copynumber: 4.0 Consensus size: 23
12859336 GTTTCCTTTA
12859346 CTTTTCTTTTCTTTCTCTTT-TT
1 CTTTTCTTTTCTTTCTCTTTCTT
* *
12859368 CTTTTGCTTTTC-TTCTTTTTTTT
1 CTTTT-CTTTTCTTTCTCTTTCTT
*
12859391 CTTTTCCTTTC-TT-T-TTTCTT
1 CTTTTCTTTTCTTTCTCTTTCTT
*
12859411 CTTTT-TTTTCTTTCACTTTCT
1 CTTTTCTTTTCTTTCTCTTTCT
12859432 CATTTTTTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
19 4 0.07
20 12 0.22
21 1 0.02
22 24 0.44
23 13 0.24
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.76
Consensus pattern (23 bp):
CTTTTCTTTTCTTTCTCTTTCTT
Found at i:12860602 original size:16 final size:16
Alignment explanation
Indices: 12860581--12860617 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
12860571 TGAAAGAAAA
12860581 TTTTTCTTTTTCTCTC
1 TTTTTCTTTTTCTCTC
* *
12860597 TTTTTCTTTTTTTTTC
1 TTTTTCTTTTTCTCTC
12860613 TTTTT
1 TTTTT
12860618 TTTCCTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTCTTTTTCTCTC
Found at i:12860607 original size:7 final size:7
Alignment explanation
Indices: 12860581--12860642 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
12860571 TGAAAGAAAA
12860581 TTTTTCT
1 TTTTTCT
12860588 TTTTCTCT
1 TTTT-TCT
12860596 CTTTTTCT
1 -TTTTTCT
12860604 TTTTT-T
1 TTTTTCT
12860610 TTCTTT-T
1 TT-TTTCT
*
12860617 TTTTCCT
1 TTTTTCT
*
12860624 TTTTCCT
1 TTTTTCT
*
12860631 TTTTCCT
1 TTTTTCT
12860638 TTTTT
1 TTTTT
12860643 TTCACTTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
6 5 0.10
7 34 0.69
8 6 0.12
9 4 0.08
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:12860615 original size:26 final size:27
Alignment explanation
Indices: 12860581--12860670 Score: 96
Period size: 27 Copynumber: 3.3 Consensus size: 27
12860571 TGAAAGAAAA
12860581 TTTTTCTTTTTCTCTCTTTTT-CTTTT
1 TTTTTCTTTTTCTCTCTTTTTCCTTTT
*
12860607 TTTTTCTTTTT-TTTCCTTTTTCCTTTT
1 TTTTTCTTTTTCTCT-CTTTTTCCTTTT
* * *
12860634 TCCTTT-TTTTTCACTTTTTTTCCCTTTT
1 T-TTTTCTTTTTCTCTCTTTTT-CCTTTT
12860662 TTTTTCTTT
1 TTTTTCTTT
12860671 CCAAATGTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
25 2 0.04
26 17 0.33
27 19 0.37
28 14 0.27
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTTCTTTTTCTCTCTTTTTCCTTTT
Found at i:12860626 original size:16 final size:17
Alignment explanation
Indices: 12860581--12860652 Score: 62
Period size: 17 Copynumber: 4.3 Consensus size: 17
12860571 TGAAAGAAAA
* *
12860581 TTTTTC-TTTTTCTCTC
1 TTTTTCTTTTTTTTCAC
*
12860597 TTTTTCTTTTTTTT-TC
1 TTTTTCTTTTTTTTCAC
12860613 TTTTT-TTTCCTTTTTC-C
1 TTTTTCTTT--TTTTTCAC
12860630 TTTTTCCTTTTTTTTCAC
1 TTTTT-CTTTTTTTTCAC
12860648 TTTTT
1 TTTTT
12860653 TTCCCTTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
15 3 0.06
16 13 0.27
17 23 0.48
18 6 0.12
19 3 0.06
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTTTTTCAC
Found at i:12860642 original size:24 final size:25
Alignment explanation
Indices: 12860606--12860652 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
12860596 CTTTTTCTTT
*
12860606 TTTTTTCTTTTTTTTC-CTTTTTCC
1 TTTTTCCTTTTTTTTCACTTTTTCC
12860630 TTTTTCCTTTTTTTTCACTTTTT
1 TTTTTCCTTTTTTTTCACTTTTT
12860653 TTCCCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTTTCCTTTTTTTTCACTTTTTCC
Found at i:12860643 original size:10 final size:10
Alignment explanation
Indices: 12860597--12860670 Score: 69
Period size: 10 Copynumber: 7.0 Consensus size: 10
12860587 TTTTTCTCTC
12860597 TTTTT-CTTT
1 TTTTTCCTTT
*
12860606 TTTTTTCTTT
1 TTTTTCCTTT
12860616 TTTTTCCTTTTT
1 TTTTTCC--TTT
12860628 CCTTTTTCCTTT
1 --TTTTTCCTTT
12860640 TTTTTCACTTT
1 TTTTTC-CTTT
*
12860651 TTTTCCCTTT
1 TTTTTCCTTT
*
12860661 TTTTTTCTTT
1 TTTTTCCTTT
12860671 CCAAATGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
9 5 0.09
10 28 0.51
11 9 0.16
12 6 0.11
14 7 0.13
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCCTTT
Found at i:12860656 original size:34 final size:34
Alignment explanation
Indices: 12860581--12860662 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 34
12860571 TGAAAGAAAA
* * *
12860581 TTTTTCTTTTTCTCTCTTTTTCTTTTTTTTTCTTT
1 TTTTTCCTTTT-TCTCTTTTTCCTTTTTTTTCCTT
12860616 TTTTTCCTTTTTC-CTTTTTCCTTTTTTTTCACTT
1 TTTTTCCTTTTTCTCTTTTTCCTTTTTTTTC-CTT
12860650 TTTTTCCCTTTTT
1 TTTTT-CCTTTTT
12860663 TTTTCTTTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
33 16 0.38
34 9 0.21
35 17 0.40
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (34 bp):
TTTTTCCTTTTTCTCTTTTTCCTTTTTTTTCCTT
Found at i:12863706 original size:14 final size:14
Alignment explanation
Indices: 12863681--12863722 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
12863671 ATTGGATGGA
12863681 CCTTTTTATTTTCCT
1 CCTTTTT-TTTTCCT
*
12863696 -CTTTCTTTTTTCAT
1 CCTTT-TTTTTTCCT
12863710 CCTTTTTTTTTCC
1 CCTTTTTTTTTCC
12863723 ATCTACTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (14 bp):
CCTTTTTTTTTCCT
Found at i:12865791 original size:15 final size:15
Alignment explanation
Indices: 12865773--12865810 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
12865763 GGGTTTTGAA
12865773 GTTTAAGGATTTAGG
1 GTTTAAGGATTTAGG
* *
12865788 GTTTAAGTATTTATG
1 GTTTAAGGATTTAGG
12865803 GTTTAAGG
1 GTTTAAGG
12865811 TTTCAAGGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
GTTTAAGGATTTAGG
Found at i:12866123 original size:3 final size:3
Alignment explanation
Indices: 12866117--12866180 Score: 92
Period size: 3 Copynumber: 21.0 Consensus size: 3
12866107 GATGATGATC
* * *
12866117 ATA ATA ATA GTA ATA ATA GTA ATA ATA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12866165 ATA ATA ATA ATGA ATA
1 ATA ATA ATA AT-A ATA
12866181 TGAAATAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12867786 original size:144 final size:143
Alignment explanation
Indices: 12867525--12868076 Score: 460
Period size: 144 Copynumber: 3.8 Consensus size: 143
12867515 GTTTTCGTAA
* * * * **
12867525 TTTTAATACACTAAAAATCATAAAATAATATGAAAACATGATCTCAAAGTTTTTGTGAAAAACCA
1 TTTTAATGCACCAAAAATCATAAAATAATATAAAAACATGATCTGAAAGTTTTCATGAAAAACCA
* * * * * *
12867590 ACTTGGGGAATGTCAAATTATGAAAATA-CTCATAAAAGGTATTTT-AGTAATTTCATAACTTTC
66 ACATCGAGAAAGTCAAATTATGAAAATATC-CTTAAAAGGTATTTTGA-TAATTTTATAACTTTC
*
12867653 AAGGTGCAATCATGAT
129 AA-GTGCAATCAAGAT
* * * * * **
12867669 ATTTAATGCACCAAAAATTATGAAATAATATAAAAACATAATCTGAAAGTTTTCGTGAAAAACTG
1 TTTTAATGCACCAAAAATCATAAAATAATATAAAAACATGATCTGAAAGTTTTCATGAAAAACCA
* * * * *
12867734 ACATCAAGAAAGTCAAATTATAAAAATATCTTTCAAAGGTATTTTGATAATTTTAT-ACTTTTTG
66 ACATCGAGAAAGTCAAATTATGAAAATATCCTTAAAAGGTATTTTGATAATTTTATAAC--TTTC
* * *
12867798 AAATGCAATTAAGGT
129 AAGTGCAATCAAGAT
* * * * * *
12867813 TTTTAATG-TCCATAAATTATAAAATAATATAAAAATATGATCT-AGAGTTTTTCATGAAAATCC
1 TTTTAATGCACCAAAAATCATAAAATAATATAAAAACATGATCTGAAAG-TTTTCATGAAAAACC
* * * * *
12867876 -A-ATCTTAGAAAGATCAAATTACGAAAATATCCCTAAATGGTATTTTGGTAATTTTATATA-TT
65 AACATC-GAGAAAG-TCAAATTATGAAAATATCCTTAAAAGGTATTTTGATAATTTTATA-ACTT
*
12867938 TCAAAGTGCGATCAAGAT
127 TC-AAGTGCAATCAAGAT
* * * * *
12867956 TTTTAAAGCA-TAGAAAATCATGAAAA-AATATAAAAATATGATGTG-AAGTCTTTCATGAAAAT
1 TTTTAATGCACCA-AAAATCAT-AAAATAATATAAAAACATGATCTGAAAGT-TTTCATGAAAAA
* * * *
12868018 CCAACATTGAGAAAATTAAAATTATGAAAATATCCTTAAAAGGTATTTTGGTAATTTTA
63 CCAACATCGAG-AAAGTCAAATTATGAAAATATCCTTAAAAGGTATTTTGATAATTTTA
12868077 CCATTTTGAG
Statistics
Matches: 327, Mismatches: 63, Indels: 35
0.77 0.15 0.08
Matches are distributed among these distances:
141 3 0.01
142 13 0.04
143 101 0.31
144 151 0.46
145 54 0.17
146 5 0.02
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (143 bp):
TTTTAATGCACCAAAAATCATAAAATAATATAAAAACATGATCTGAAAGTTTTCATGAAAAACCA
ACATCGAGAAAGTCAAATTATGAAAATATCCTTAAAAGGTATTTTGATAATTTTATAACTTTCAA
GTGCAATCAAGAT
Found at i:12868101 original size:287 final size:286
Alignment explanation
Indices: 12867539--12868104 Score: 624
Period size: 287 Copynumber: 2.0 Consensus size: 286
12867529 AATACACTAA
* * * *
12867539 AAATCATAAAATAATATGAAAACATGATCTCAAAGTTTTTGTGAAAAACCAACTTGGGGAATGTC
1 AAATCATAAAATAATATAAAAACATGATCTCAAAGTTTTTATGAAAAACCAACTT-GAGAAAGTC
* * *
12867604 AAATTATGAAAATACTCATAAAAGGTATTTTAGTAATTTCATAACTTTCAAGGTGCAATCATGAT
65 AAATTACGAAAATACTCATAAAAGGTATTTTAGTAATTTCATAACTTTCAAAGTGCAATCAAGAT
* * * * **
12867669 ATTTAATGCACCAAAAATTATGAAATAATATAAAAACATAATCTGAAAGTTTTCGTGAAAAACTG
130 ATTTAAAGCACCAAAAATCATGAAAAAATATAAAAACATAATCTGAAAGTTTTCATGAAAAACCA
* * * *
12867734 ACATCAAGAAAGTCAAATTATAAAAATATCTTTCAAAGGTATTTTGATAATTTTATACTTTTTGA
195 ACATCAAGAAAGTAAAATTATAAAAATATCCTTAAAAGGTATTTTGATAATTTTATACATTTTGA
* *
12867799 AATGCAATTAAGGTTTTTAATGTCCAT
260 AATACAATCAAGGTTTTTAATGTCCAT
* * * *
12867826 AAATTATAAAATAATATAAAAATATGATCT-AGAGTTTTTCATGAAAATCCAATCTT-AGAAAGA
1 AAATCATAAAATAATATAAAAACATGATCTCAAAGTTTTT-ATGAAAAACCAA-CTTGAGAAAG-
* * * * *
12867889 TCAAATTACGAAAATA-TCCCTAAATGGTATTTTGGTAATTTTATATA-TTTCAAAGTGCGATCA
63 TCAAATTACGAAAATACT-CATAAAAGGTATTTTAGTAATTTCATA-ACTTTCAAAGTGCAATCA
* * * * *
12867952 AGATTTTTAAAGCA-TAGAAAATCATGAAAAAATATAAAAATATGATGTG-AAGTCTTTCATGAA
126 AGATATTTAAAGCACCA-AAAATCATGAAAAAATATAAAAACATAATCTGAAAGT-TTTCATGAA
* ** * * * *
12868015 AATCCAACATTGAGAAAATTAAAATTATGAAAATATCCTTAAAAGGTATTTTGGTAATTTTA-CC
189 AAACCAACATCAAG-AAAGTAAAATTATAAAAATATCCTTAAAAGGTATTTTGATAATTTTATAC
**
12868079 ATTTTGAGGTACAATCAAGGTTTTTA
253 ATTTTGAAATACAATCAAGGTTTTTA
12868105 GCGCATCAAA
Statistics
Matches: 229, Mismatches: 42, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
286 18 0.08
287 166 0.72
288 45 0.20
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (286 bp):
AAATCATAAAATAATATAAAAACATGATCTCAAAGTTTTTATGAAAAACCAACTTGAGAAAGTCA
AATTACGAAAATACTCATAAAAGGTATTTTAGTAATTTCATAACTTTCAAAGTGCAATCAAGATA
TTTAAAGCACCAAAAATCATGAAAAAATATAAAAACATAATCTGAAAGTTTTCATGAAAAACCAA
CATCAAGAAAGTAAAATTATAAAAATATCCTTAAAAGGTATTTTGATAATTTTATACATTTTGAA
ATACAATCAAGGTTTTTAATGTCCAT
Found at i:12868124 original size:145 final size:145
Alignment explanation
Indices: 12867833--12868118 Score: 343
Period size: 144 Copynumber: 2.0 Consensus size: 145
12867823 CATAAATTAT
* *
12867833 AAAATAATATAAAAATATGATCTAGAGTTTTTCATGAAAATCCAATCTTAGAAAGATCAAATTAC
1 AAAATAATATAAAAATATGATCTAGAGTCTTTCATGAAAATCCAATCTTAGAAAGATAAAATTAC
* * * *
12867898 GAAAATATCCCTAAATGGTATTTTGGTAATTTTATATATTTCAAAGTGCGATCAAGATTTTTAAA
66 GAAAATATCCCTAAAAGGTATTTTGGTAATTTTACATATTTCAAAGTACAATCAAGATTTTTAAA
*
12867963 GCATAGAAAATCATG
131 GCATACAAAATCATG
*
12867978 AAAA-AATATAAAAATATGATGT-GAAGTCTTTCATGAAAATCCAA-CATTGAGAAA-ATTAAAA
1 AAAATAATATAAAAATATGATCTAG-AGTCTTTCATGAAAATCCAATC-TT-AGAAAGA-TAAAA
* * * * *
12868039 TTATGAAAATATCCTTAAAAGGTATTTTGGTAATTTTACCAT-TTT-GAGGTACAATCAAGGTTT
62 TTACGAAAATATCCCTAAAAGGTATTTTGGTAATTTTA-CATATTTCAAAGTACAATCAAGATTT
**
12868102 TTAGCGCAT-CAAAATCA
126 TTAAAGCATACAAAATCA
12868119 CATGAATATT
Statistics
Matches: 121, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
143 9 0.07
144 59 0.49
145 51 0.42
146 2 0.02
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (145 bp):
AAAATAATATAAAAATATGATCTAGAGTCTTTCATGAAAATCCAATCTTAGAAAGATAAAATTAC
GAAAATATCCCTAAAAGGTATTTTGGTAATTTTACATATTTCAAAGTACAATCAAGATTTTTAAA
GCATACAAAATCATG
Found at i:12868406 original size:10 final size:12
Alignment explanation
Indices: 12868366--12868405 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
12868356 TAAGTGTCTA
12868366 CAATTAAAGCTT
1 CAATTAAAGCTT
*
12868378 GAATTAAAG-TT
1 CAATTAAAGCTT
12868389 CAATT-AAGCTT
1 CAATTAAAGCTT
12868400 -AATTAA
1 CAATTAA
12868406 GTAAAGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
10 7 0.29
11 9 0.38
12 8 0.33
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (12 bp):
CAATTAAAGCTT
Found at i:12870721 original size:20 final size:20
Alignment explanation
Indices: 12870698--12870757 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 20
12870688 TTTGAAAAAA
12870698 ATAAAATTATTTCAAAGATG
1 ATAAAATTATTTCAAAGATG
* * *
12870718 ATAACA-T-TTTGAAA-ATAA
1 ATAAAATTATTTCAAAGAT-G
12870736 ATAAAAATTATTTCAAAGATG
1 AT-AAAATTATTTCAAAGATG
12870757 A
1 A
12870758 AATTCATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 9
0.66 0.14 0.20
Matches are distributed among these distances:
17 2 0.07
18 8 0.28
19 4 0.14
20 6 0.21
21 7 0.24
22 2 0.07
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.33
Consensus pattern (20 bp):
ATAAAATTATTTCAAAGATG
Found at i:12878409 original size:21 final size:22
Alignment explanation
Indices: 12878385--12878425 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
12878375 CAGAATAAAT
*
12878385 TGCTTTGAAT-TGAATCTAACA
1 TGCTTTGAATGTAAATCTAACA
12878406 TGCTTTGAATGTAAATCTAA
1 TGCTTTGAATGTAAATCTAA
12878426 ACTAAGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (22 bp):
TGCTTTGAATGTAAATCTAACA
Found at i:12881336 original size:37 final size:37
Alignment explanation
Indices: 12881295--12881369 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
12881285 AACATGACCC
* * *
12881295 TTAAGATGTGCATGAGATGAAATGCATGTATTATCTA
1 TTAAGATGTGCATAAGATGAAATACATGTACTATCTA
* *
12881332 TTAAGGTGTGCATAAGATGGAATACATGTACTATCTA
1 TTAAGATGTGCATAAGATGAAATACATGTACTATCTA
12881369 T
1 T
12881370 GTGCATGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (37 bp):
TTAAGATGTGCATAAGATGAAATACATGTACTATCTA
Found at i:12883867 original size:23 final size:23
Alignment explanation
Indices: 12883841--12883919 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
12883831 GTTAGGGCAA
*
12883841 TTTAGTGTTTT-GGAGTTTAAGGT
1 TTTAGGGTTTTAGGA-TTTAAGGT
*
12883864 TTTAGGGTTTTAGGATTTATGG-
1 TTTAGGGTTTTAGGATTTAAGGT
* *
12883886 TTTAAGGTTTCAAGG-TTTAAGGGT
1 TTTAGGGTTT-TAGGATTTAA-GGT
*
12883910 TTCAGGGTTT
1 TTTAGGGTTT
12883920 AGATTTTTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
22 13 0.29
23 21 0.47
24 11 0.24
ACGTcount: A:0.19, C:0.03, G:0.30, T:0.48
Consensus pattern (23 bp):
TTTAGGGTTTTAGGATTTAAGGT
Found at i:12883902 original size:15 final size:15
Alignment explanation
Indices: 12883855--12883920 Score: 71
Period size: 15 Copynumber: 4.3 Consensus size: 15
12883845 GTGTTTTGGA
*
12883855 GTTTAAGGTTTTAGG
1 GTTTAAGGTTTCAGG
* *
12883870 GTTTTAGGATTT-ATG
1 GTTTAAGG-TTTCAGG
*
12883885 GTTTAAGGTTTCAAG
1 GTTTAAGGTTTCAGG
12883900 GTTTAAGGGTTTCAGG
1 GTTTAA-GGTTTCAGG
12883916 GTTTA
1 GTTTA
12883921 GATTTTTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
14 3 0.07
15 24 0.56
16 16 0.37
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.45
Consensus pattern (15 bp):
GTTTAAGGTTTCAGG
Found at i:12883910 original size:8 final size:8
Alignment explanation
Indices: 12883855--12883920 Score: 50
Period size: 8 Copynumber: 8.6 Consensus size: 8
12883845 GTGTTTTGGA
12883855 GTTTAA-G
1 GTTTAAGG
*
12883862 GTTTTAGG
1 GTTTAAGG
*
12883870 GTTTTAGG
1 GTTTAAGG
* *
12883878 ATTT-ATG
1 GTTTAAGG
12883885 GTTTAA-G
1 GTTTAAGG
12883892 GTTTCAA-G
1 GTTT-AAGG
12883900 GTTTAAGG
1 GTTTAAGG
*
12883908 GTTTCAGG
1 GTTTAAGG
12883916 GTTTA
1 GTTTA
12883921 GATTTTTTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
7 17 0.35
8 32 0.65
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.45
Consensus pattern (8 bp):
GTTTAAGG
Found at i:12884328 original size:16 final size:16
Alignment explanation
Indices: 12884296--12884325 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12884286 ATACAACTAA
12884296 ATGTAAACTATAGAAC
1 ATGTAAACTATAGAAC
12884312 ATGTAAACTA-AGAA
1 ATGTAAACTATAGAA
12884326 ACAAATCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.10, G:0.13, T:0.23
Consensus pattern (16 bp):
ATGTAAACTATAGAAC
Found at i:12885185 original size:12 final size:11
Alignment explanation
Indices: 12885165--12885213 Score: 57
Period size: 10 Copynumber: 4.5 Consensus size: 11
12885155 TTTCACCTCA
12885165 TTTTTTCCCTT
1 TTTTTTCCCTT
12885176 TTTATTTCCCTT
1 TTT-TTTCCCTT
12885188 TTTTTT-CCTT
1 TTTTTTCCCTT
**
12885198 TTCCTT-CCTT
1 TTTTTTCCCTT
12885208 TTTTTT
1 TTTTTT
12885214 TTTGCTCCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 16 0.48
11 6 0.18
12 11 0.33
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTTCCCTT
Found at i:12885190 original size:13 final size:12
Alignment explanation
Indices: 12885168--12885199 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12885158 CACCTCATTT
12885168 TTTCCCTTTTTA
1 TTTCCCTTTTTA
12885180 TTTCCCTTTTT-
1 TTTCCCTTTTTA
12885191 TTT-CCTTTT
1 TTTCCCTTTT
12885200 CCTTCCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.30
11 3 0.15
12 11 0.55
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTCCCTTTTTA
Found at i:12885199 original size:21 final size:22
Alignment explanation
Indices: 12885165--12885214 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
12885155 TTTCACCTCA
* *
12885165 TTTTTTCCCTTTTTATTTCCCT
1 TTTTTTTCCTTTTTACTTCCCT
* *
12885187 TTTTTTTCC-TTTTCCTTCCTT
1 TTTTTTTCCTTTTTACTTCCCT
12885208 TTTTTTT
1 TTTTTTT
12885215 TTGCTCCCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTTTCCTTTTTACTTCCCT
Found at i:12886090 original size:288 final size:288
Alignment explanation
Indices: 12885560--12886098 Score: 614
Period size: 288 Copynumber: 1.9 Consensus size: 288
12885550 AATACACCAA
12885560 AAATAATAAAATAATATGAAATCATGATATGAAAGTTTTCATGAAAAATCAACCTTGGAAAGGTC
1 AAATAATAAAATAATATGAAATCATGATATGAAAGTTTTCATGAAAAATCAACCTTGGAAAGGTC
* * * * * *
12885625 AAATTACGAAAATACATTTAAAAAGGCATTTTAGTAATTTCACACCTTTCAAGGTGCAATTATGA
66 AAATTACGAAAATACACTTAAAAAGACATTTTAGTAATTTCACACATTTCAAAGTGCAATAAAGA
* * * *
12885690 TTTTCAATGCACCAAAAATCATGAAATAATATAAAAACATGATCTGAAAGTTTTCGTAAAAAATT
131 TTTTAAATGCACCAAAAATCATGAAATAATATAAAAACATGATATGAAAGTTTTCATAAAAAATC
* * * * *
12885755 GATATCGAAAAGGTCAAATTATGGAAATATCCTTAAAGGGTATTTTGATAATTTTATACTTCTTA
196 AACATCGAAAAGGTCAAATTATGGAAATATACTTAAAGAGCATTTTGATAATTTTATACTTCTTA
12885820 AGATGCGATTAAGGTTTTTAATGTCCAT
261 AGATGCGATTAAGGTTTTTAATGTCCAT
* * * * *
12885848 AAATTATAAAATAATATGAAAAT-ATGATCT-AGAGTTTTTCAT-AAAAATCCAATCTTGGGAAG
1 AAATAATAAAATAATATG-AAATCATGATATGAAAG-TTTTCATGAAAAAT-CAACCTTGGAAAG
* * * * *
12885910 GTCAAATTA-TAAAGATACACTT-AAACGATATTTTTGTAATTTTACACATTTCAAAGTGCAATC
63 GTCAAATTACGAAA-ATACACTTAAAAAGACATTTTAGTAATTTCACACATTTCAAAGTGCAAT-
* * * * * *
12885973 AAAGTTTTTAAAT-TATCAAAAATCATGAAATAATATAAAAATATGATATG-GAGTCTTTCAT-G
126 AAAGATTTTAAATGCACCAAAAATCATGAAATAATATAAAAACATGATATGAAAGT-TTTCATAA
*
12886035 AAAATCCAACATTGAGAAA-GTCAAAATTAT-GAAA-ATACTTCAAAAGAGCATTTTGATAATTT
190 AAAAT-CAACATCGA-AAAGGTC-AAATTATGGAAATATACTT--AAAGAGCATTTTGATAATTT
12886097 TA
250 TA
12886099 CCATTTTTGA
Statistics
Matches: 208, Mismatches: 32, Indels: 22
0.79 0.12 0.08
Matches are distributed among these distances:
286 13 0.06
287 95 0.46
288 96 0.46
289 4 0.02
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (288 bp):
AAATAATAAAATAATATGAAATCATGATATGAAAGTTTTCATGAAAAATCAACCTTGGAAAGGTC
AAATTACGAAAATACACTTAAAAAGACATTTTAGTAATTTCACACATTTCAAAGTGCAATAAAGA
TTTTAAATGCACCAAAAATCATGAAATAATATAAAAACATGATATGAAAGTTTTCATAAAAAATC
AACATCGAAAAGGTCAAATTATGGAAATATACTTAAAGAGCATTTTGATAATTTTATACTTCTTA
AGATGCGATTAAGGTTTTTAATGTCCAT
Found at i:12886429 original size:10 final size:12
Alignment explanation
Indices: 12886389--12886428 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
12886379 TAAGTATTTA
12886389 CAATTAAAGCTT
1 CAATTAAAGCTT
*
12886401 GAATTAAAG-TT
1 CAATTAAAGCTT
12886412 CAATT-AAGCTT
1 CAATTAAAGCTT
12886423 -AATTAA
1 CAATTAA
12886429 GTAAAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
10 7 0.29
11 9 0.38
12 8 0.33
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (12 bp):
CAATTAAAGCTT
Found at i:12887771 original size:3 final size:3
Alignment explanation
Indices: 12887763--12887796 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
12887753 TGAGCACTAT
*
12887763 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
12887797 CAATGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:12891345 original size:29 final size:28
Alignment explanation
Indices: 12891291--12891344 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
12891281 GATTTCTCAT
* *
12891291 AAATATCTTGTTTGTAATTTAGTTTTAC
1 AAATATCTAGTTTGCAATTTAGTTTTAC
12891319 AAATATCTAGATTTGCAA-TTAGTTTT
1 AAATATCTAG-TTTGCAATTTAGTTTT
12891345 TTTCCCTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.50
Consensus pattern (28 bp):
AAATATCTAGTTTGCAATTTAGTTTTAC
Found at i:12891404 original size:17 final size:17
Alignment explanation
Indices: 12891382--12891441 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
12891372 AAGCATAATT
*
12891382 CCATGAAATCGCAAATC
1 CCATGAAATCCCAAATC
12891399 CCATGAAATCCCAAATC
1 CCATGAAATCCCAAATC
* * *
12891416 CTATTAAACCCCAAATTC
1 CCATGAAATCCCAAA-TC
12891434 CCATGAAA
1 CCATGAAA
12891442 CCCTTGACTC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
17 28 0.78
18 8 0.22
ACGTcount: A:0.42, C:0.32, G:0.07, T:0.20
Consensus pattern (17 bp):
CCATGAAATCCCAAATC
Found at i:12891472 original size:15 final size:15
Alignment explanation
Indices: 12891452--12891481 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12891442 CCCTTGACTC
*
12891452 TAAACCTTAAAACCA
1 TAAACCCTAAAACCA
12891467 TAAACCCTAAAACCA
1 TAAACCCTAAAACCA
12891482 ATCCTTACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAACCCTAAAACCA
Found at i:12891882 original size:20 final size:20
Alignment explanation
Indices: 12891852--12891897 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
12891842 CTTTGATCCA
*
12891852 AAAATAAATTGCTTTACTTTT
1 AAAA-AAATTGATTTACTTTT
**
12891873 AAAAAAATTGATTTGTTTTT
1 AAAAAAATTGATTTACTTTT
12891893 AAAAA
1 AAAAA
12891898 GAAAAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (20 bp):
AAAAAAATTGATTTACTTTT
Found at i:12892566 original size:33 final size:34
Alignment explanation
Indices: 12892528--12892592 Score: 91
Period size: 33 Copynumber: 1.9 Consensus size: 34
12892518 TATTCATTTC
12892528 TTTTCTT-TTCTTCTTTTCCTCTT-TTT-TTTTTGT
1 TTTTCTTATT-TTCTTTT-CTCTTCTTTCTTTTTGT
12892561 TTTTCTTATTTTCTTTTCTCTTCTTTCTTTTT
1 TTTTCTTATTTTCTTTTCTCTTCTTTCTTTTT
12892593 CTTTCACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 5 0.17
33 17 0.59
34 7 0.24
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (34 bp):
TTTTCTTATTTTCTTTTCTCTTCTTTCTTTTTGT
Found at i:12893058 original size:12 final size:12
Alignment explanation
Indices: 12893041--12893118 Score: 58
Period size: 12 Copynumber: 6.7 Consensus size: 12
12893031 TAATGAAGAA
12893041 TTTCTTTTCTTT
1 TTTCTTTTCTTT
*
12893053 TTTCTTTTCAATT
1 TTTCTTTTC-TTT
* *
12893066 TTTCATTTC--A
1 TTTCTTTTCTTT
12893076 TTTCTTTT-TGTT
1 TTTCTTTTCT-TT
*
12893088 TTTC-TCTCTTT
1 TTTCTTTTCTTT
12893099 TTTCTCTTT-TTT
1 TTTCT-TTTCTTT
12893111 TTTCTTTT
1 TTTCTTTT
12893119 ATGCCCTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
10 7 0.13
11 11 0.21
12 22 0.42
13 12 0.23
ACGTcount: A:0.05, C:0.17, G:0.01, T:0.77
Consensus pattern (12 bp):
TTTCTTTTCTTT
Found at i:12896940 original size:13 final size:13
Alignment explanation
Indices: 12896922--12896954 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
12896912 TTTGAACAAC
12896922 TTCATTC-TTTCTA
1 TTCATTCTTTTC-A
12896935 TTCATTCTTTTCA
1 TTCATTCTTTTCA
12896948 TTCATTC
1 TTCATTC
12896955 ATTGTTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (13 bp):
TTCATTCTTTTCA
Found at i:12898717 original size:15 final size:15
Alignment explanation
Indices: 12898697--12898781 Score: 59
Period size: 15 Copynumber: 5.7 Consensus size: 15
12898687 GTTTAGGCAA
12898697 TTTAAGGTTTTAGAG
1 TTTAAGGTTTTAGAG
*
12898712 TTTAAGGTTTTAGGG
1 TTTAAGGTTTTAGAG
*
12898727 TTTCAA-GATTTATGA-
1 TTT-AAGGTTTTA-GAG
* *
12898742 TTTAAGGATTGA-AGG
1 TTTAAGGTTTTAGA-G
* *
12898757 TTTAGGGTTTTAGGG
1 TTTAAGGTTTTAGAG
*
12898772 TTTAGGGTTT
1 TTTAAGGTTT
12898782 GAAGGTTTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
13 1 0.02
14 2 0.04
15 50 0.89
16 3 0.05
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (15 bp):
TTTAAGGTTTTAGAG
Found at i:12898788 original size:15 final size:15
Alignment explanation
Indices: 12898750--12898789 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
12898740 GATTTAAGGA
12898750 TTGAAGGTTTAGGGT
1 TTGAAGGTTTAGGGT
* *
12898765 TTTAGGGTTTAGGGT
1 TTGAAGGTTTAGGGT
12898780 TTGAAGGTTT
1 TTGAAGGTTT
12898790 GAAGGTTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (15 bp):
TTGAAGGTTTAGGGT
Found at i:12899255 original size:17 final size:19
Alignment explanation
Indices: 12899233--12899269 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
12899223 GAAAATCCCA
12899233 TTTTTTGT-TTTT-AACAC
1 TTTTTTGTCTTTTAAACAC
12899250 TTTTTTGTCTTTTAAACAC
1 TTTTTTGTCTTTTAAACAC
12899269 T
1 T
12899270 CTCATCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 4 0.22
19 6 0.33
ACGTcount: A:0.19, C:0.14, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTTTGTCTTTTAAACAC
Found at i:12900609 original size:145 final size:143
Alignment explanation
Indices: 12900375--12900643 Score: 342
Period size: 145 Copynumber: 1.9 Consensus size: 143
12900365 ATCATTGTTT
* * *
12900375 TCATGATTTTAATACACCAAAAATAATAAAATAATATAAAAACACGATATGAAGGTTTTCGTGGA
1 TCATGATTTTAATACACCAAAAATAATAAAATAATATAAAAACACGATATGAAAGTTTTCATGAA
* * *
12900440 AAATCAACCTCAAAAAGGTTAAATTACAAAAATACCCTTAAAAAGG-TATTTTAATAATTTCACA
66 AAAACAACATCAAAAAGGTCAAATTACAAAAATACCCTT--AAAGGATATTTTAATAATTTCACA
12900504 CATTTCGGGGTGCGA
129 CATTTCGGGGTGCGA
* * * * *
12900519 TCATGGTTTTCAATACGCCAAAAATCATAAAATAATATAAAAACATGATCTGAAAGTTTTCATGA
1 TCATGATTTT-AATACACCAAAAATAATAAAATAATATAAAAACACGATATGAAAGTTTTCATGA
** * ** * *
12900584 AAAAACAACATTGAGAAGGTCAAATTATGAAAATATCCTTAAAGGATATTTTGATAATTT
65 AAAAACAACATCAAAAAGGTCAAATTACAAAAATACCCTTAAAGGATATTTTAATAATTT
12900644 TATACTTTTC
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
143 5 0.05
144 22 0.21
145 78 0.74
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (143 bp):
TCATGATTTTAATACACCAAAAATAATAAAATAATATAAAAACACGATATGAAAGTTTTCATGAA
AAAACAACATCAAAAAGGTCAAATTACAAAAATACCCTTAAAGGATATTTTAATAATTTCACACA
TTTCGGGGTGCGA
Found at i:12900930 original size:144 final size:142
Alignment explanation
Indices: 12900538--12900939 Score: 361
Period size: 143 Copynumber: 2.8 Consensus size: 142
12900528 TCAATACGCC
* * * *
12900538 AAAAATCATAAAATAATATAAAAACATGATCTGAAAGTTTTCATGAAAAAACAACAT-TGAGAAG
1 AAAAATCATAAAATAATATAAAAATATGATCTGGAA-TTTTCACG-AAAATCAACATCTGAGAAG
* * * *
12900602 GTCAAATTATGAAAATATCCTTAAAGGATATTTTGATAATTTTATACTTTTCAAGGTGTAATCAA
64 ATCAAATTATGAAAATACCCCTAAAGG-TATTTTGATAATTTT-TACATTTCAAGGTGTAATCAA
12900667 GATTTTTAATATCCAT
127 GATTTTTAATATCCAT
* * * * * *** *
12900683 --AAATTATAAAATAATTTAAAAATATGATCTAGAGTTTTTCACAAAAAT-TTGATCTTAAGAAG
1 AAAAATCATAAAATAATATAAAAATATGATCTGGA-ATTTTCACGAAAATCAACATC-TGAGAAG
* * * * *
12900745 ATCAAATTACGAAAATACCACGAAATGGTATTTTGGTAATTTTTACATTTCAAGGTGTGATCAAG
64 ATCAAATTATGAAAATACCCCTAAA-GGTATTTTGATAATTTTTACATTTCAAGGTGTAATCAAG
* *
12900810 GTTTTTAA-A-GCAT
128 ATTTTTAATATCCAT
* *
12900823 AAAAAATCATGAAATAATATAAAAATATGATCTGGAATCTCTCACGAAAATCCAACATCATGA-A
1 -AAAAATCATAAAATAATATAAAAATATGATCTGGAAT-TTTCACGAAAAT-CAACATC-TGAGA
* * * *
12900887 AGTTAAAATTATGAAAATACCCCTAACAGGCATTTTAATAA-TTTTACCATTTC
62 AGATCAAATTATGAAAATACCCCTAA-AGGTATTTTGATAATTTTTA-CATTTC
12900940 TGAGGTACAG
Statistics
Matches: 201, Mismatches: 44, Indels: 25
0.74 0.16 0.09
Matches are distributed among these distances:
140 3 0.01
141 3 0.01
142 32 0.16
143 117 0.58
144 40 0.20
145 6 0.03
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (142 bp):
AAAAATCATAAAATAATATAAAAATATGATCTGGAATTTTCACGAAAATCAACATCTGAGAAGAT
CAAATTATGAAAATACCCCTAAAGGTATTTTGATAATTTTTACATTTCAAGGTGTAATCAAGATT
TTTAATATCCAT
Found at i:12908037 original size:49 final size:50
Alignment explanation
Indices: 12907980--12908076 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 50
12907970 CTTAAGTAAA
* *
12907980 ACCCTTTATTATTATTTATAATAGAAT-TAAAAAATTAAAAAATTGAGTT
1 ACCCTTTATTATTATTTATAATAAAATAAAAAAAATTAAAAAATTGAGTT
12908029 ACCCTTTATTATTATTTATAATAAAATAAAAAAAATTAAAAAATTGAG
1 ACCCTTTATTATTATTTATAATAAAATAAAAAAAATTAAAAAATTGAG
12908077 CTGTGTGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 26 0.58
50 19 0.42
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.38
Consensus pattern (50 bp):
ACCCTTTATTATTATTTATAATAAAATAAAAAAAATTAAAAAATTGAGTT
Found at i:12909366 original size:2 final size:2
Alignment explanation
Indices: 12909354--12909392 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
12909344 ATTCCTCTTT
* *
12909354 TA TA TA AA TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12909393 TAGACTTGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12909416 original size:23 final size:23
Alignment explanation
Indices: 12909386--12909432 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
12909376 TATATATATA
12909386 TATATATTAGACTTGGGTTTAGG
1 TATATATTAGACTTGGGTTTAGG
12909409 TATATATTAGACTTGGGTTTAGG
1 TATATATTAGACTTGGGTTTAGG
12909432 T
1 T
12909433 GGTTTTCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.45
Consensus pattern (23 bp):
TATATATTAGACTTGGGTTTAGG
Found at i:12910312 original size:17 final size:17
Alignment explanation
Indices: 12910292--12910325 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12910282 TTGGTGTTAG
*
12910292 TTTTATTGGTAATATAA
1 TTTTATCGGTAATATAA
*
12910309 TTTTATCGGTATTATAA
1 TTTTATCGGTAATATAA
12910326 AATTCCATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (17 bp):
TTTTATCGGTAATATAA
Found at i:12910365 original size:16 final size:18
Alignment explanation
Indices: 12910344--12910384 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
12910334 TAGTAATTTT
*
12910344 TCGATAGAA-TTTTTC-A
1 TCGATAAAATTTTTTCTA
12910360 TCGATAAAAATTTTTTCTA
1 TCGAT-AAAATTTTTTCTA
12910379 TCGATA
1 TCGATA
12910385 TATTATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 3 0.14
18 7 0.33
19 6 0.29
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (18 bp):
TCGATAAAATTTTTTCTA
Done.