Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 128 of 129
Found at i:23468309 original size:17 final size:17
Alignment explanation
Indices: 23468282--23468321 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
23468272 ATCTAAGACT
23468282 TTATT-TATTATTTATTA
1 TTATTATATTA-TTATTA
23468299 TT-TTATATTATTATTA
1 TTATTATATTATTATTA
23468315 TTATTAT
1 TTATTAT
23468322 TTGTTACCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTATATTATTATTA
Found at i:23468315 original size:19 final size:19
Alignment explanation
Indices: 23468281--23468319 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
23468271 AATCTAAGAC
23468281 TTTATTTATTATTTATTAT
1 TTTATTTATTATTTATTAT
23468300 TTTATATTATTA-TTATTAT
1 TTTAT-TTATTATTTATTAT
23468319 T
1 T
23468320 ATTTGTTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTATTATTTATTAT
Found at i:23468380 original size:4 final size:4
Alignment explanation
Indices: 23468360--23468419 Score: 61
Period size: 4 Copynumber: 14.8 Consensus size: 4
23468350 TCAATCATGT
**
23468360 ATAA ATTAA ATTAA ATAA ATAA A-AA CATAA ATAA CCAA ATAA ATAA ATAA
1 ATAA A-TAA A-TAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA ATAA ATAA
23468410 A-AA ATAA ATA
1 ATAA ATAA ATA
23468420 CCAGAAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
3 5 0.10
4 32 0.67
5 11 0.23
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:23469498 original size:3 final size:3
Alignment explanation
Indices: 23469490--23469546 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
23469480 GAAATAGATG
23469490 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23469538 ATA ATA ATA
1 ATA ATA ATA
23469547 GTAGTAGTAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23469551 original size:3 final size:3
Alignment explanation
Indices: 23469545--23469571 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
23469535 ATAATAATAA
23469545 TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG
23469572 CAGCTGTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TAG
Found at i:23470398 original size:20 final size:20
Alignment explanation
Indices: 23470373--23470410 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23470363 TTTTTTTTTT
*
23470373 TTTTTTTCTCTTTCTTTGAA
1 TTTTTTTCTATTTCTTTGAA
*
23470393 TTTTTTTTTATTTCTTTG
1 TTTTTTTCTATTTCTTTG
23470411 TTTATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.11, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTTTTCTATTTCTTTGAA
Found at i:23470401 original size:24 final size:21
Alignment explanation
Indices: 23470369--23470425 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
23470359 GTTTTTTTTT
23470369 TTTTTTTTTTTCTCTTTCTTTGAA
1 TTTTTTTTTTT-TCTTTCTTT--A
*
23470393 TTTTTTTTTATTTCTTTGTTTA
1 TTTTTTTTT-TTTCTTTCTTTA
*
23470415 TTTTATTTTTT
1 TTTTTTTTTTT
23470426 ATTTATTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 2 0.07
22 9 0.30
24 17 0.57
25 2 0.07
ACGTcount: A:0.09, C:0.07, G:0.04, T:0.81
Consensus pattern (21 bp):
TTTTTTTTTTTTCTTTCTTTA
Found at i:23470426 original size:12 final size:12
Alignment explanation
Indices: 23470360--23470429 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 12
23470350 CCACTCCAGG
23470360 TTTTTTT-TTT-
1 TTTTTTTATTTC
23470370 TTTTTTT-TTTC
1 TTTTTTTATTTC
*
23470381 TCTTTCTTTGAATT-
1 T-TTT-TTT-ATTTC
23470395 TTTTTTTATTTC
1 TTTTTTTATTTC
*
23470407 TTTGTTTATTT-
1 TTTTTTTATTTC
23470418 TATTTTTTATTT
1 T-TTTTTTATTT
23470430 ATTAGATTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
10 10 0.20
11 5 0.10
12 25 0.51
13 6 0.12
14 1 0.02
15 2 0.04
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.83
Consensus pattern (12 bp):
TTTTTTTATTTC
Found at i:23470548 original size:27 final size:27
Alignment explanation
Indices: 23470518--23470606 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
23470508 CAAAAAAAAT
23470518 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * **
23470545 ATTTTCCTTAGGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
*
23470575 ATTTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
23470602 ATTTT
1 ATTTT
23470607 CCTCAGAAAT
Statistics
Matches: 44, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 5 0.11
26 5 0.11
27 11 0.25
28 3 0.07
29 3 0.07
30 7 0.16
31 5 0.11
32 5 0.11
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:23470660 original size:59 final size:57
Alignment explanation
Indices: 23470502--23470849 Score: 457
Period size: 59 Copynumber: 5.9 Consensus size: 57
23470492 TAAAAATAAA
*
23470502 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGGAAT
1 AAATTTC-AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* * *
23470560 AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*
23470617 AAATTTCGAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAACTTTCCTTAAAAGAAAAAT
1 AAATTTC--AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAAT
*
23470681 CAAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 --AAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
**
23470740 AAATTTTCAAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT
1 AAA-TTTCAAAAAAA-TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
*
23470799 CGAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 --AAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
23470850 CTACACAAGA
Statistics
Matches: 259, Mismatches: 15, Indels: 31
0.85 0.05 0.10
Matches are distributed among these distances:
57 56 0.22
58 20 0.08
59 112 0.43
60 11 0.04
61 5 0.02
62 2 0.01
64 46 0.18
66 7 0.03
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (57 bp):
AAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
Found at i:23470728 original size:123 final size:117
Alignment explanation
Indices: 23470502--23470849 Score: 515
Period size: 123 Copynumber: 2.9 Consensus size: 117
23470492 TAAAAATAAA
*
23470502 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-GAAT-AAATT
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATCAAATT
23470565 TCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
66 TCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
*
23470617 AAATTTCGAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAACTTTCCTTAAAAGAAAAATC
1 AAATTTC-AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG-AAAATC
* *
23470682 AAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
61 -AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
***
23470740 AAATTTTCAAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAA
1 AAA-TTTCAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATC-AA
*
23470803 ATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
63 ATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
23470850 CTACACAAGA
Statistics
Matches: 212, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
115 7 0.03
116 44 0.21
118 53 0.25
119 3 0.01
121 3 0.01
122 1 0.00
123 97 0.46
124 4 0.02
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (117 bp):
AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATCAAATT
TCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
Found at i:23470842 original size:182 final size:180
Alignment explanation
Indices: 23470501--23470849 Score: 544
Period size: 182 Copynumber: 1.9 Consensus size: 180
23470491 ATAAAAATAA
*
23470501 AAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGGAATAAATTT
1 AAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
*
23470566 CCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCGAAAAAA
66 CCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC-AAAAAA
23470631 AATATTTTTAGGGAAAAGTTGAAAGTATCAACTTTCCTTAAAAGAAAAATC
130 AATATTTTTAGGGAAAAGTTGAAAGTATCAACTTTCCTTAAAAGAAAAATC
*
23470682 AAAATTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
1 AAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
* *
23470746 TCAAAAAA-AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TGAAAATCGAAATTTC-
66 CCAAAAAATA---TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT--AAATTTCA
* *
23470808 CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
125 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAACTTTCC
23470850 CTACACAAGA
Statistics
Matches: 155, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
179 1 0.01
180 61 0.39
181 9 0.06
182 77 0.50
184 7 0.05
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (180 bp):
AAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
CCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAA
ATATTTTTAGGGAAAAGTTGAAAGTATCAACTTTCCTTAAAAGAAAAATC
Found at i:23474711 original size:12 final size:12
Alignment explanation
Indices: 23474678--23474714 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
23474668 GAAAAATGAG
23474678 AAAAGAGAAAAA
1 AAAAGAGAAAAA
*
23474690 AAAAAAGAAAAA
1 AAAAGAGAAAAA
*
23474702 AAAAGGGAAAAA
1 AAAAGAGAAAAA
23474714 A
1 A
23474715 TGAGAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAGAGAAAAA
Found at i:23475962 original size:40 final size:39
Alignment explanation
Indices: 23475918--23476237 Score: 532
Period size: 40 Copynumber: 8.0 Consensus size: 39
23475908 GTCTAGGAGT
23475918 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
23475958 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
23475997 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
*
23476037 ATTTACTTTTCAAAGTCGTGGTCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTG-CCTCTGTTTAGAGGAGCA
23476077 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
*
23476116 ATTTACTTTTCAAAGTCGTGGTCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTTG-CCTCTGTTTAGAGGAGCA
23476156 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCCA
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAG-CA
*
23476196 ATTTACTTTTCCAAAAAGTCGTGGTCCTCTGTTTAGAGGAGC
1 ATTTACTTTT-C--AAAGTCGTTG-CCTCTGTTTAGAGGAGC
23476238 TTTGGAAAAA
Statistics
Matches: 267, Mismatches: 5, Indels: 13
0.94 0.02 0.05
Matches are distributed among these distances:
39 98 0.37
40 142 0.53
41 1 0.00
43 10 0.04
44 16 0.06
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (39 bp):
ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:23476003 original size:79 final size:79
Alignment explanation
Indices: 23475918--23476237 Score: 570
Period size: 79 Copynumber: 4.0 Consensus size: 79
23475908 GTCTAGGAGT
*
23475918 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTG-CCT
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTCCT
23475982 CTGTTTAGAGGAGCA
65 CTGTTTAGAGGAGCA
23475997 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTCCT
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTCCT
23476062 CTGTTTAGAGGAGCA
65 CTGTTTAGAGGAGCA
23476077 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTCCTC
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTCCTC
23476142 TGTTTAGAGGAGCA
66 TGTTTAGAGGAGCA
23476156 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCCAATTTACTTTTCCAAAAAGTCGTGGT
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAG-CAATTTACTTTT-C--AAAGTCGTGGT
23476221 CCTCTGTTTAGAGGAGC
62 CCTCTGTTTAGAGGAGC
23476238 TTTGGAAAAA
Statistics
Matches: 235, Mismatches: 1, Indels: 6
0.97 0.00 0.02
Matches are distributed among these distances:
79 161 0.69
80 45 0.19
81 1 0.00
83 28 0.12
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (79 bp):
ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTCCTC
TGTTTAGAGGAGCA
Found at i:23476096 original size:119 final size:118
Alignment explanation
Indices: 23475918--23476237 Score: 534
Period size: 119 Copynumber: 2.7 Consensus size: 118
23475908 GTCTAGGAGT
23475918 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTC
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTC
*
23475983 TGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTG-CCTCTGTTTAGAGGAGCA
65 TGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTCCTCTGTTTAGAGGAGCA
*
23476037 ATTTACTTTTCAAAGTCGTGGTCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTC
1 ATTTACTTTTCAAAGTCGTTG-CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTC
23476102 TGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTCCTCTGTTTAGAGGAGCA
65 TGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTCCTCTGTTTAGAGGAGCA
*
23476156 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCCAATTTACTTTTCCAAAAAGTCGTGGT
1 ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAG-CAATTTACTTTT-C--AAAGTCGTTG-
23476221 CCTCTGTTTAGAGGAGC
61 CCTCTGTTTAGAGGAGC
23476238 TTTGGAAAAA
Statistics
Matches: 190, Mismatches: 4, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
118 26 0.14
119 137 0.72
120 1 0.01
122 9 0.05
123 17 0.09
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (118 bp):
ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCT
GTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTCCTCTGTTTAGAGGAGCA
Found at i:23476249 original size:1 final size:1
Alignment explanation
Indices: 23476243--23476344 Score: 195
Period size: 1 Copynumber: 102.0 Consensus size: 1
23476233 GGAGCTTTGG
*
23476243 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
23476308 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
23476345 TGTTGAGTTG
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
1 99 1.00
ACGTcount: A:0.99, C:0.01, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:23476567 original size:16 final size:16
Alignment explanation
Indices: 23476531--23476568 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
23476521 CTTCTTCTTT
23476531 TGTATTTTATTATTTA
1 TGTATTTTATTATTTA
23476547 T-TATTATTATTA-TTA
1 TGTATT-TTATTATTTA
23476562 TGTATTT
1 TGTATTT
23476569 AATAATATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
TGTATTTTATTATTTA
Found at i:23476567 original size:23 final size:21
Alignment explanation
Indices: 23476533--23476599 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 21
23476523 TCTTCTTTTG
23476533 TATT-TTATTATTTATTATTAT
1 TATTATTATTATTTA-TATTAT
*
23476554 TATTATTATGTATTTAATAATAT
1 TATTATTAT-TATTT-ATATTAT
23476577 GTA-TATTATTTATTTATATTAT
1 -TATTATTA-TTATTTATATTAT
23476599 T
1 T
23476600 TTTTTGTTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
21 5 0.13
22 10 0.26
23 20 0.51
24 4 0.10
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
TATTATTATTATTTATATTAT
Found at i:23477975 original size:3 final size:3
Alignment explanation
Indices: 23477967--23478001 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
23477957 TCCAACCTAC
23477967 ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
23478002 AAGAATAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:23477988 original size:16 final size:16
Alignment explanation
Indices: 23477967--23477998 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23477957 TCCAACCTAC
23477967 ATAATAATAATAATAA
1 ATAATAATAATAATAA
23477983 ATAATAATAATAATAA
1 ATAATAATAATAATAA
23477999 TAAAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATAATAATAATAA
Found at i:23480263 original size:39 final size:39
Alignment explanation
Indices: 23480213--23480295 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
23480203 CGGAGGATAG
*
23480213 TTTTTGAGTTTTTTAGTCATTTATAGTGATTTTTTTTTT
1 TTTTTGAGTTTTTTAGTCATCTATAGTGATTTTTTTTTT
* * * *
23480252 TTTTTGTGTTTTTTGGTTATCTATAGTGTTTTTTTTTTT
1 TTTTTGAGTTTTTTAGTCATCTATAGTGATTTTTTTTTT
23480291 TTTTT
1 TTTTT
23480296 TTTTTAGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.11, C:0.02, G:0.13, T:0.73
Consensus pattern (39 bp):
TTTTTGAGTTTTTTAGTCATCTATAGTGATTTTTTTTTT
Found at i:23480802 original size:22 final size:21
Alignment explanation
Indices: 23480777--23480818 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23480767 AGGCTCCTAT
*
23480777 TCTGGATCTTCGGGCCCAAATC
1 TCTGG-TCCTCGGGCCCAAATC
*
23480799 TCTGGTCCTCTGGCCCAAAT
1 TCTGGTCCTCGGGCCCAAAT
23480819 ATCCTGATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.33, G:0.21, T:0.29
Consensus pattern (21 bp):
TCTGGTCCTCGGGCCCAAATC
Found at i:23483254 original size:11 final size:11
Alignment explanation
Indices: 23483223--23483285 Score: 55
Period size: 11 Copynumber: 6.0 Consensus size: 11
23483213 TTTTCTTTGG
23483223 CACAAGATATA
1 CACAAGATATA
*
23483234 CAC--CATATA
1 CACAAGATATA
23483243 CACAAGATATA
1 CACAAGATATA
23483254 CA-AA-A-ATA
1 CACAAGATATA
*
23483262 CAAAAGATATAAA
1 CACAAGATAT--A
23483275 CACAAGATATA
1 CACAAGATATA
23483286 AATTATTGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
8 5 0.12
9 11 0.26
10 3 0.07
11 13 0.31
13 10 0.24
ACGTcount: A:0.59, C:0.17, G:0.06, T:0.17
Consensus pattern (11 bp):
CACAAGATATA
Found at i:23486031 original size:3 final size:3
Alignment explanation
Indices: 23486025--23486071 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
23486015 AAATGAAAAT
23486025 ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23486072 TTATTATTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:23486608 original size:34 final size:33
Alignment explanation
Indices: 23486564--23486696 Score: 124
Period size: 34 Copynumber: 3.9 Consensus size: 33
23486554 TGATGGAGTC
*
23486564 CTCTAACCAGAGGCTATGAAACTTTAAATGGCT
1 CTCTGACCAGAGGCTATGAAACTTTAAATGGCT
* * *
23486597 CATTTGGCCAGAGGCTATGACACTTTAAA-GAAAGCTT
1 C-TCTGACCAGAGGCTATGAAACTTTAAATG---GC-T
* *
23486634 CTCTGACCACAGGCAATGAAACTTTAAATGGCT
1 CTCTGACCAGAGGCTATGAAACTTTAAATGGCT
** *
23486667 CCTCTGATTAGAGGCTATGAGACTTTAAAT
1 -CTCTGACCAGAGGCTATGAAACTTTAAAT
23486697 TTAAAAAGTT
Statistics
Matches: 79, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
33 3 0.04
34 49 0.62
36 24 0.30
37 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (33 bp):
CTCTGACCAGAGGCTATGAAACTTTAAATGGCT
Found at i:23486692 original size:70 final size:72
Alignment explanation
Indices: 23486564--23486736 Score: 206
Period size: 70 Copynumber: 2.4 Consensus size: 72
23486554 TGATGGAGTC
* * * * *
23486564 CTCTAACCAGAGGCTATGAAACTTTAAATGGCTCATTTGGCCAGAGGCTATGACACTTT-AA-AG
1 CTCTGACCAGAGGCAATGAAACTTTAAATGGCTCATCTGACCAGAGGCTATGACACTTTAAATAA
23486627 AAAGCTT
66 AAAGCTT
* * ** *
23486634 CTCTGACCACAGGCAATGAAACTTTAAATGGCTCCTCTGATTAGAGGCTATGAGACTTTAAATTT
1 CTCTGACCAGAGGCAATGAAACTTTAAATGGCTCATCTGACCAGAGGCTATGACACTTTAAA--T
*
23486699 AAAAAGTTT
64 AAAAAGCTT
*
23486708 CTCTGACCAGAGGTAATGAAACTTTAAAT
1 CTCTGACCAGAGGCAATGAAACTTTAAAT
23486737 TTAAAGGTCT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
70 50 0.58
71 2 0.02
74 34 0.40
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (72 bp):
CTCTGACCAGAGGCAATGAAACTTTAAATGGCTCATCTGACCAGAGGCTATGACACTTTAAATAA
AAAGCTT
Found at i:23486875 original size:241 final size:241
Alignment explanation
Indices: 23486407--23486902 Score: 644
Period size: 241 Copynumber: 2.1 Consensus size: 241
23486397 GACCTGAGGT
** *
23486407 AATGAAACTTTAAATGGCTTTTCTGACCATAGGCTATGAAACTTTAAATTTAAAAGGCTCATCTG
1 AATGAAACTTTAAATGGCTCCTCTGACCAGAGGCTATGAAACTTTAAATTTAAAAGGCTCATCTG
* * * *
23486472 ACTAGAGGCAACGAAACTTTAAAATTAAAATTTTGAGAAGACTTATAGATAATGTCCTAGTCTTG
66 ACCAGAGGCAACGAAACTTTAAAATTAAAAGTCTGAGAAGACTTATAGATAATGTCCTAGTCTTA
* * *
23486537 CAAATCATTCCTAACTTTGATGGAGTCCTCTAACCAGAGGCTATGAAACTTTAAATGGCTCATTT
131 CAAATCATGCCTAACTTTGATGGAGTCCTCTAACCAGAGGCTATAAAACTTTAAATGGCTCATCT
* * * *
23486602 GGCCAGAGGCTATGACACTTTAAAGAAAGCTTCTCTGACCACAGGC
196 GACCAAAGGCTATGACACTTTAAAGAAAGCTTCTATGACCACAGAC
** * **
23486648 AATGAAACTTTAAATGGCTCCTCTGATTAGAGGCTATGAGACTTTAAATTTAAAAAGTTTC-TCT
1 AATGAAACTTTAAATGGCTCCTCTGACCAGAGGCTATGAAACTTTAAATTT-AAAAGGCTCATCT
* * * * * *
23486712 GACCAGAGGTAATGAAACTTTAAATTTAAAGGTCTGAG-AGCATTTATAGATTATG-CCATTTAG
65 GACCAGAGGCAACGAAACTTTAAAATTAAAAGTCTGAGAAG-ACTTATAGATAATGTCC---TAG
* *
23486775 TCTTACAAATCATGCCTAA-TTTGATGGAGTCTTCTGACCAGAGGCTATAAAACTTTAAATGGCT
126 TCTTACAAATCATGCCTAACTTTGATGGAGTCCTCTAACCAGAGGCTATAAAACTTTAAATGGCT
* *
23486839 CATCTGACTAAAGGCTATGACACTTTAAAG-AAGCTTCTATGACCAGAGAC
191 CATCTGACCAAAGGCTATGACACTTTAAAGAAAGCTTCTATGACCACAGAC
23486889 AATGAAAC-TTAAAT
1 AATGAAACTTTAAAT
23486903 TTAAAAGTCC
Statistics
Matches: 221, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
240 10 0.05
241 116 0.52
242 75 0.34
243 20 0.09
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (241 bp):
AATGAAACTTTAAATGGCTCCTCTGACCAGAGGCTATGAAACTTTAAATTTAAAAGGCTCATCTG
ACCAGAGGCAACGAAACTTTAAAATTAAAAGTCTGAGAAGACTTATAGATAATGTCCTAGTCTTA
CAAATCATGCCTAACTTTGATGGAGTCCTCTAACCAGAGGCTATAAAACTTTAAATGGCTCATCT
GACCAAAGGCTATGACACTTTAAAGAAAGCTTCTATGACCACAGAC
Found at i:23500500 original size:3 final size:3
Alignment explanation
Indices: 23500487--23500548 Score: 74
Period size: 3 Copynumber: 21.3 Consensus size: 3
23500477 TAAAAGAATG
* * *
23500487 AAT ATT AAT AAT AA- CAT AA- AAT AAC AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
23500533 AAT AAT AAC AAT AAT A
1 AAT AAT AAT AAT AAT A
23500549 CCATAAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 3 0.06
3 46 0.94
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:23500587 original size:26 final size:26
Alignment explanation
Indices: 23500555--23500622 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
23500545 AATACCATAA
**
23500555 AAAACATAAAAAATACGATAAAAATC
1 AAAACATAAAAAATAAAATAAAAATC
* * *
23500581 AACACATGATAAATAAAATAAAAATC
1 AAAACATAAAAAATAAAATAAAAATC
23500607 AAAAC--AAAAAATAAAA
1 AAAACATAAAAAATAAAA
23500623 AGAAAAAAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
24 9 0.26
26 25 0.74
ACGTcount: A:0.72, C:0.10, G:0.03, T:0.15
Consensus pattern (26 bp):
AAAACATAAAAAATAAAATAAAAATC
Found at i:23504860 original size:16 final size:16
Alignment explanation
Indices: 23504841--23504871 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23504831 AATGATAATA
23504841 ATGATTTATGATGATG
1 ATGATTTATGATGATG
23504857 ATGATTTATGATGAT
1 ATGATTTATGATGAT
23504872 TTTAAAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (16 bp):
ATGATTTATGATGATG
Found at i:23505015 original size:28 final size:28
Alignment explanation
Indices: 23504979--23505042 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
23504969 CTACGAAATG
23504979 TTTGACATAATGATGATTTTTAAAATAT
1 TTTGACATAATGATGATTTTTAAAATAT
23505007 TTTGACATAATGATGATTTTTAAAATAT
1 TTTGACATAATGATGATTTTTAAAATAT
23505035 TTTGACAT
1 TTTGACAT
23505043 TATAAATTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.47
Consensus pattern (28 bp):
TTTGACATAATGATGATTTTTAAAATAT
Found at i:23506255 original size:13 final size:13
Alignment explanation
Indices: 23506236--23506267 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
23506226 CTTATAAATC
23506236 AATGTGTATATAA
1 AATGTGTATATAA
*
23506249 TATGTGTATATAA
1 AATGTGTATATAA
23506262 AATGTG
1 AATGTG
23506268 GTTCATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (13 bp):
AATGTGTATATAA
Found at i:23508517 original size:28 final size:26
Alignment explanation
Indices: 23508460--23508519 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
23508450 TTTAAACATT
**
23508460 TTTG-GAATATTTTTAAAAAAATTTC
1 TTTGTGAATATTTTTAAAAAAATACC
*
23508485 TTTGTGAATATTTTTAATAAAATCACC
1 TTTGTGAATATTTTTAAAAAAAT-ACC
23508512 ATTTGTGA
1 -TTTGTGA
23508520 CTTTATTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 4 0.14
26 17 0.59
27 1 0.03
28 7 0.24
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (26 bp):
TTTGTGAATATTTTTAAAAAAATACC
Found at i:23508548 original size:12 final size:12
Alignment explanation
Indices: 23508531--23508557 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23508521 TTTATTGTTT
23508531 TTTATTATTTTA
1 TTTATTATTTTA
23508543 TTTATTATTTTA
1 TTTATTATTTTA
23508555 TTT
1 TTT
23508558 GTCTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:23509020 original size:19 final size:19
Alignment explanation
Indices: 23508995--23509034 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
23508985 CCCAAATCTT
* *
23508995 TTTTTTTTTTCATTTTTCTC
1 TTTTTTCTTTC-TTTCTCTC
23509015 TTTTTTCTTTCTTTCTCTC
1 TTTTTTCTTTCTTTCTCTC
23509034 T
1 T
23509035 CTCTTCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTCTTTCTTTCTCTC
Found at i:23509029 original size:17 final size:16
Alignment explanation
Indices: 23508999--23509032 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23508989 AATCTTTTTT
23508999 TTTTTTCATTTTTCTC
1 TTTTTTCATTTTTCTC
*
23509015 TTTTTTCTTTCTTTCTC
1 TTTTTTCATT-TTTCTC
23509032 T
1 T
23509033 CTCTCTTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTCATTTTTCTC
Found at i:23509791 original size:3 final size:3
Alignment explanation
Indices: 23509785--23509822 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
23509775 CTTTTTTTAT
23509785 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 AT
23509823 TGAACTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:23512501 original size:20 final size:20
Alignment explanation
Indices: 23512458--23512502 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
23512448 TTTTATCACA
* *
23512458 TTTTTTTTATCATTTTTTTG
1 TTTTTTTTATCATTTCTATG
23512478 TTTTTTTTATCATGTTCTAT-
1 TTTTTTTTATCAT-TTCTATG
23512498 TTTTT
1 TTTTT
23512503 AGATCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTTTTATCATTTCTATG
Found at i:23520857 original size:16 final size:16
Alignment explanation
Indices: 23520832--23520871 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
23520822 ATCATTAAAA
*
23520832 ATCATTATAAATCATC
1 ATCATCATAAATCATC
23520848 ATCATCATAAATCATC
1 ATCATCATAAATCATC
*
23520864 ATTATCAT
1 ATCATCAT
23520872 TCGTTTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:23525036 original size:52 final size:51
Alignment explanation
Indices: 23524920--23525063 Score: 146
Period size: 52 Copynumber: 2.8 Consensus size: 51
23524910 TTGATAGACA
* * *
23524920 AAAAGAATTTAAAA-AAAAAAAATTCTCAATAGATAAGTTTGACTTATAAG
1 AAAAGAATTTAAAAGAAAAAAAATTCTTAATAGGTAAGTTTCACTTATAAG
* * * * *
23524970 AAAAAAATTTTAAAAGAAAAAATATTCTTAATAGGTAAGTTTCATTTGTAGG
1 AAAAGAA-TTTAAAAGAAAAAAAATTCTTAATAGGTAAGTTTCACTTATAAG
* * * * *
23525022 AGAAGAATTCTAAAAGGAAAAAGATTATTAATATGTAAGTTT
1 AAAAGAATT-TAAAAGAAAAAAAATTCTTAATAGGTAAGTTT
23525064 GTATAATTAT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
50 6 0.08
51 9 0.12
52 62 0.81
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.31
Consensus pattern (51 bp):
AAAAGAATTTAAAAGAAAAAAAATTCTTAATAGGTAAGTTTCACTTATAAG
Found at i:23525724 original size:257 final size:257
Alignment explanation
Indices: 23525253--23525762 Score: 643
Period size: 257 Copynumber: 2.0 Consensus size: 257
23525243 TGTATGCGTA
* * * *
23525253 CATATGAGTATGTATTTGGTTGTGTTGAAAAAGTGCGCAAGGGTTTGTGTTTGTTTGAGTTAAGA
1 CATATGAGTATGTATTTGGTTGTGTTGAAAAAGTGCACAAAGATTTATGTTTGTTTGAGTTAAGA
* * *
23525318 ATACTCCATAGGACTAGAGTAGATTGAATGAATCTATGAGTATTAATTGTTGAGTGGTTGATATG
66 ATACTCCATAAGACTAGAGTAGATTGAAAGAATCTATGAATATTAATTGTTGAGTGGTTGATATG
* ** * * * * *
23525383 CTTGATTTATATTTGTAATTATTTACAACTAGTGGATCTTGTTTATTATCCATGGATGTAGATCA
131 CTTGATGTATATTTGTAATTATTTACAACTAACGAATCTTGTTTATCATCCATGAACGTAAATCA
* *
23525448 GTTAGACTGAATCACGTTAAATTATTATATCTTATGTGTTTAATTCATTATTTGATTTCATG
196 ATTAGACTGAATCACGTTAAATTATTATATCTTATGTATTTAATTCATTATTTGATTTCATG
* * **
23525510 CATATGGGTATGTGTTTGGTTGTGTTGAAAGGGTGCACAAAGATTTATGTTTGTTT-AGATTGAA
1 CATATGAGTATGTATTTGGTTGTGTTGAAAAAGTGCACAAAGATTTATGTTTGTTTGAG-TT-AA
* * *
23525574 -AATACTCCATAAGATTATAGTAGATTGAGAAG-ATCTATGAATATTAATTGTTTAGTGGTTGAT
64 GAATACTCCATAAGACTAGAGTAGATTGA-AAGAATCTATGAATATTAATTGTTGAGTGGTTGAT
* * * *
23525637 ATGTTTGATGTATATTTGTAATTTTTTATAACTAACGAATCTTGTTTATCATCCGTGAACGTAAA
128 ATGCTTGATGTATATTTGTAATTATTTACAACTAACGAATCTTGTTTATCATCCATGAACGTAAA
* * * * *
23525702 TCAATT-GAACTGAA-CTACGTTAAATTATTGTCTCTTTTGTATTTGATTCATTGTTTGATTT
193 TCAATTAG-ACTGAATC-ACGTTAAATTATTATATCTTATGTATTTAATTCATTATTTGATTT
23525763 TACTTTTGTT
Statistics
Matches: 215, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
256 4 0.02
257 207 0.96
258 4 0.02
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (257 bp):
CATATGAGTATGTATTTGGTTGTGTTGAAAAAGTGCACAAAGATTTATGTTTGTTTGAGTTAAGA
ATACTCCATAAGACTAGAGTAGATTGAAAGAATCTATGAATATTAATTGTTGAGTGGTTGATATG
CTTGATGTATATTTGTAATTATTTACAACTAACGAATCTTGTTTATCATCCATGAACGTAAATCA
ATTAGACTGAATCACGTTAAATTATTATATCTTATGTATTTAATTCATTATTTGATTTCATG
Found at i:23534503 original size:13 final size:14
Alignment explanation
Indices: 23534474--23534503 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23534464 ATTCATTAAC
23534474 ATTTAATTTTCATT
1 ATTTAATTTTCATT
23534488 ATTTAATTTT-ATT
1 ATTTAATTTTCATT
23534501 ATT
1 ATT
23534504 ATTTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTAATTTTCATT
Found at i:23535736 original size:3 final size:3
Alignment explanation
Indices: 23535726--23535755 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
23535716 TTTGTATGAT
23535726 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
23535756 TGAACCTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:23538782 original size:43 final size:43
Alignment explanation
Indices: 23538667--23538783 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 43
23538657 TCTCTTAAAT
* * ** * *
23538667 AAAGGCTCAATAATTTTAAAAACTAAATAAGGCTTTTCTAAGT
1 AAAGGCTCAACAATTTTGAAAACTAAATAAAACTCTTCTAAGC
* * * *
23538710 AGAGGCTCAATGACTTTTGAAAAGTAAATAAAACTCCTT-TAAGC
1 AAAGGCTCAA-CAATTTTGAAAACTAAATAAAACT-CTTCTAAGC
23538754 AAAGGCTCAACAATTTTGAAAACTAAATAA
1 AAAGGCTCAACAATTTTGAAAACTAAATAA
23538784 GGTTCTCTAA
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
43 26 0.44
44 31 0.53
45 2 0.03
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (43 bp):
AAAGGCTCAACAATTTTGAAAACTAAATAAAACTCTTCTAAGC
Found at i:23538824 original size:86 final size:86
Alignment explanation
Indices: 23538643--23538939 Score: 266
Period size: 86 Copynumber: 3.5 Consensus size: 86
23538633 CCATGATTTA
* * * * *
23538643 AAAAATAAATAAG-CT-CTCTTAAATAAAGGCTCAATAATTTTAAAAACTAAATAAGGCTTTTCT
1 AAAAATAAATAAGAATCCTC-TAAACAAAGGCTCAACAATTTTGAAAACTAAATAAGG-TTCTCT
*
23538706 AAGTAGAGGCTCAATGACTTTTG
64 AAGTAGAGGCTCAACGACTTTTG
* * *
23538729 AAAAGTAAATAA-AACTCCTTTAAGCAAAGGCTCAACAATTTTGAAAACTAAATAAGGTTCTCTA
1 AAAAATAAATAAGAA-TCCTCTAAACAAAGGCTCAACAATTTTGAAAACTAAATAAGGTTCTCTA
* * *
23538793 AGTAGAGGTTTAACGATTTTTG
65 AGTAGAGGCTCAACGACTTTTG
* * * * * *
23538815 AAAAATAAATAAGGATCCTCTAAACAGAGGCTTAACGACTTTTGAAAAGTAAATAAAGCTTCTCT
1 AAAAATAAATAAGAATCCTCTAAACAAAGGCTCAAC-AATTTTGAAAACTAAAT-AAGGTTCTCT
** * * *
23538880 AAACAAAAGCTTAACGAC--TTG
64 AAGTAGAGGCTCAACGACTTTTG
** *
23538901 AAAAA-AAATAAGGCTCCTCCAAAC-AAGGCTCAACAATTT
1 AAAAATAAATAAGAATCCTCTAAACAAAGGCTCAACAATTT
23538940 CAAAAAGTAA
Statistics
Matches: 173, Mismatches: 32, Indels: 15
0.79 0.15 0.07
Matches are distributed among these distances:
83 4 0.02
84 8 0.05
85 17 0.10
86 71 0.41
87 50 0.29
88 23 0.13
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.27
Consensus pattern (86 bp):
AAAAATAAATAAGAATCCTCTAAACAAAGGCTCAACAATTTTGAAAACTAAATAAGGTTCTCTAA
GTAGAGGCTCAACGACTTTTG
Found at i:23538880 original size:44 final size:44
Alignment explanation
Indices: 23538680--23539088 Score: 254
Period size: 43 Copynumber: 9.5 Consensus size: 44
23538670 GGCTCAATAA
* ** * *
23538680 TTTT-AAAAACTAAATAAGGCTTTTCTAAGTAGAGGCTCAATGAC
1 TTTTGAAAAA-TAAATAAGGCTTCTCTAAACAGAGGCTTAACGAC
* ** * * * * * *
23538724 TTTTGAAAAGTAAATAAAACTCCTTTAAGCAAAGGCTCAAC-AA
1 TTTTGAAAAATAAATAAGGCTTCTCTAAACAGAGGCTTAACGAC
* ** * *
23538767 TTTTGAAAACTAAATAAGG-TTCTCTAAGTAGAGGTTTAACGAT
1 TTTTGAAAAATAAATAAGGCTTCTCTAAACAGAGGCTTAACGAC
* *
23538810 TTTTGAAAAATAAATAAGGATCCTCTAAACAGAGGCTTAACGAC
1 TTTTGAAAAATAAATAAGGCTTCTCTAAACAGAGGCTTAACGAC
* * * *
23538854 TTTTGAAAAGTAAATAAAGCTTCTCTAAACAAAAGCTTAACGAC
1 TTTTGAAAAATAAATAAGGCTTCTCTAAACAGAGGCTTAACGAC
* * *
23538898 --TTGAAAAA-AAATAAGGCTCCTCCAAACA-AGGCTCAAC-A-
1 TTTTGAAAAATAAATAAGGCTTCTCTAAACAGAGGCTTAACGAC
* * * * * *
23538936 ATTTCAAAAAGTAAA-ACAGGACTCCTTTAAACAAAGGCTTAATTG-C
1 TTTTGAAAAA-TAAATA-AGG-CTTCTCTAAACAGAGGCTTAA-CGAC
* * * * *
23538982 -TTTGATAAATAAATAAGGC-TCTTATAAATAGAGGCTCAATGAC
1 TTTTGAAAAATAAATAAGGCTTC-TCTAAACAGAGGCTTAACGAC
** * *
23539025 -TTCAAAAAATAAATAAGGCTTCCCTAAACAGAGGCTT-ACAAC
1 TTTTGAAAAATAAATAAGGCTTCTCTAAACAGAGGCTTAACGAC
* *
23539067 TTTTAAAAAATAAATAACGCTT
1 TTTTGAAAAATAAATAAGGCTT
23539089 TTAAAAAAGC
Statistics
Matches: 286, Mismatches: 61, Indels: 37
0.74 0.16 0.10
Matches are distributed among these distances:
39 1 0.00
40 14 0.05
41 18 0.06
42 34 0.12
43 107 0.37
44 100 0.35
45 12 0.04
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.27
Consensus pattern (44 bp):
TTTTGAAAAATAAATAAGGCTTCTCTAAACAGAGGCTTAACGAC
Found at i:23539058 original size:43 final size:43
Alignment explanation
Indices: 23538684--23539062 Score: 207
Period size: 44 Copynumber: 8.8 Consensus size: 43
23538674 CAATAATTTT
** ** * * *
23538684 AAAAACTAAATAAGGCTTTTCTAAGTAGAGGCTCAATGACTTTTG
1 AAAAA-TAAATAAGGCTCCTCTAAACAGAGGCTTAACGAC-TTCG
* ** * * * * * * *
23538729 AAAAGTAAATAAAACTCCTTTAAGCAAAGGCTCAACAATTTTG
1 AAAAATAAATAAGGCTCCTCTAAACAGAGGCTTAACGACTTCG
* * ** * * *
23538772 AAAACTAAATAAGG-TTCTCTAAGTAGAGGTTTAACGATTTTTG
1 AAAAATAAATAAGGCTCCTCTAAACAGAGGCTTAACGA-CTTCG
* *
23538815 AAAAATAAATAAGGATCCTCTAAACAGAGGCTTAACGACTTTTG
1 AAAAATAAATAAGGCTCCTCTAAACAGAGGCTTAACGAC-TTCG
* * * * *
23538859 AAAAGTAAATAAAGCTTCTCTAAACAAAAGCTTAACGACTT-G
1 AAAAATAAATAAGGCTCCTCTAAACAGAGGCTTAACGACTTCG
* * * *
23538901 AAAAA-AAATAAGGCTCCTCCAAACA-AGGCTCAACAATTTC-
1 AAAAATAAATAAGGCTCCTCTAAACAGAGGCTTAACGACTTCG
* * * *
23538941 AAAAAGTAAA-ACAGGACTCCTTTAAACAAAGGCTTAATTG-CTTTG
1 AAAAA-TAAATA-AGG-CTCCTCTAAACAGAGGCTTAA-CGACTTCG
* * * * * * *
23538986 ATAAATAAATAAGGCTCTTATAAATAGAGGCTCAATGACTTCA
1 AAAAATAAATAAGGCTCCTCTAAACAGAGGCTTAACGACTTCG
23539029 AAAAATAAATAAGGCTTCC-CTAAACAGAGGCTTA
1 AAAAATAAATAAGGC-TCCTCTAAACAGAGGCTTA
23539063 CAACTTTTAA
Statistics
Matches: 259, Mismatches: 61, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
40 15 0.06
41 18 0.07
42 29 0.11
43 90 0.35
44 98 0.38
45 9 0.03
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.26
Consensus pattern (43 bp):
AAAAATAAATAAGGCTCCTCTAAACAGAGGCTTAACGACTTCG
Found at i:23540223 original size:9 final size:9
Alignment explanation
Indices: 23540209--23540241 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
23540199 AAAAGGTCTC
23540209 AAAAAATAA-
1 AAAAAA-AAT
23540218 AAAAAAAAT
1 AAAAAAAAT
23540227 AAAAAAAAT
1 AAAAAAAAT
23540236 AAAAAA
1 AAAAAA
23540242 TGCCACACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 2 0.09
9 21 0.91
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:23540241 original size:11 final size:11
Alignment explanation
Indices: 23540209--23540234 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23540199 AAAAGGTCTC
23540209 AAAAAATAAAA
1 AAAAAATAAAA
23540220 AAAAAATAAAA
1 AAAAAATAAAA
23540231 AAAA
1 AAAA
23540235 TAAAAAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:23540574 original size:8 final size:8
Alignment explanation
Indices: 23540553--23540630 Score: 60
Period size: 8 Copynumber: 10.2 Consensus size: 8
23540543 AACACTGGAT
23540553 GAAAAATGA
1 GAAAAA-GA
23540562 G-AAAAGA
1 GAAAAAGA
23540569 GAAAAA-A
1 GAAAAAGA
23540576 -AAAAA-A
1 GAAAAAGA
23540582 GAAAAA-A
1 GAAAAAGA
* *
23540589 AAAAAAGG
1 GAAAAAGA
23540597 GAAAAATGA
1 GAAAAA-GA
*
23540606 GAAAATGA
1 GAAAAAGA
*
23540614 GAAAATGA
1 GAAAAAGA
23540622 -AAAAAGA
1 GAAAAAGA
23540629 GA
1 GA
23540631 TCCAAATTGA
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
6 6 0.10
7 21 0.36
8 24 0.41
9 7 0.12
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (8 bp):
GAAAAAGA
Found at i:23540581 original size:15 final size:15
Alignment explanation
Indices: 23540563--23540630 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 15
23540553 GAAAAATGAG
23540563 AAAAGAG-AAAAAAA
1 AAAAGAGAAAAAAAA
23540577 AAAA-AGAAAAAAAA
1 AAAAGAGAAAAAAAA
* *
23540591 AAAAGGGAAAAATGAGA
1 AAAAGAGAAAAA--AAA
* **
23540608 AAATGAGAAAATGAA
1 AAAAGAGAAAAAAAA
23540623 AAAAGAGA
1 AAAAGAGA
23540631 TCCAAATTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
13 2 0.05
14 15 0.36
15 14 0.33
17 11 0.26
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.04
Consensus pattern (15 bp):
AAAAGAGAAAAAAAA
Found at i:23540602 original size:13 final size:13
Alignment explanation
Indices: 23540563--23540595 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
23540553 GAAAAATGAG
*
23540563 AAAAGAGAAAAAA
1 AAAAAAGAAAAAA
23540576 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
23540589 AAAAAAG
1 AAAAAAG
23540596 GGAAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:23541857 original size:40 final size:40
Alignment explanation
Indices: 23541813--23541920 Score: 164
Period size: 42 Copynumber: 2.6 Consensus size: 40
23541803 GTCTAGGAGT
*
23541813 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGAAGCA
*
23541853 ATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGAAGCA
1 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGAAGCA
23541895 ATTTACTTTTCAAAGTTCGTTGCCTC
1 ATTTACTTTTCAAAGTTCGTTGCCTC
23541921 CAAAGTCGTG
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
40 19 0.31
41 10 0.16
42 32 0.52
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGAAGCA
Found at i:23541965 original size:56 final size:56
Alignment explanation
Indices: 23541862--23541976 Score: 171
Period size: 56 Copynumber: 2.0 Consensus size: 56
23541852 AATTTACTTT
*
23541862 TCCAAAGTCGTGGTACCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTTCGTTGCC
1 TCCAAAGTCGTGGTACCTCTG-TTAGAGAAGCAATTTACTTTTCAAAGTTCGTCGCC
*
23541919 TCCAAAGTCGTGGTACCGTCTG-TAGAGGAGCAA-TTACTTTTACAAAGTTCGTCGCC
1 TCCAAAGTCGTGGTACC-TCTGTTAGAGAAGCAATTTACTTTT-CAAAGTTCGTCGCC
23541975 TC
1 TC
23541977 TGTTTAGAGA
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
55 8 0.15
56 25 0.46
57 17 0.31
58 4 0.07
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (56 bp):
TCCAAAGTCGTGGTACCTCTGTTAGAGAAGCAATTTACTTTTCAAAGTTCGTCGCC
Found at i:23541985 original size:40 final size:38
Alignment explanation
Indices: 23541941--23542079 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 38
23541931 GTACCGTCTG
23541941 TAGAGGAGCAATTACTTTTACAAAGTTCGTCGCCTCTGTT
1 TAGAGGAGCAATTAC-TTT-CAAAGTTCGTCGCCTCTGTT
23541981 TAGA-GAGC-ATTACTTTCCAAAG-TCGTCGTACCTCTGTT
1 TAGAGGAGCAATTACTTT-CAAAGTTCGTCG--CCTCTGTT
* *
23542019 TAAGAGGAGCCAATTTACTATC-AAGTTCGTTGCCTCATGTT
1 T-AGAGGAG-CAA-TTACTTTCAAAGTTCGTCGCCTC-TGTT
23542060 TAGAGGAAGCAATTACTTTC
1 TAGAGG-AGCAATTACTTTC
23542080 CAAAAGTGTG
Statistics
Matches: 85, Mismatches: 4, Indels: 21
0.77 0.04 0.19
Matches are distributed among these distances:
36 6 0.07
37 8 0.09
38 14 0.16
39 14 0.16
40 19 0.22
41 11 0.13
42 7 0.08
43 6 0.07
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (38 bp):
TAGAGGAGCAATTACTTTCAAAGTTCGTCGCCTCTGTT
Found at i:23542101 original size:42 final size:37
Alignment explanation
Indices: 23541941--23542079 Score: 131
Period size: 39 Copynumber: 3.5 Consensus size: 37
23541931 GTACCGTCTG
23541941 TAGAGGAGCAATTACTTTTACAAAGTTCGTCGCCTCTGTT
1 TAGAGGAGCAATTAC-TTT-CAAAGTTCGT-GCCTCTGTT
*
23541981 TAGA-GAGC-ATTACTTTCCAAAGTCGTCGTACCTCTGTT
1 TAGAGGAGCAATTACTTT-CAAAGT--TCGTGCCTCTGTT
*
23542019 TAAGAGGAGCCAATTTACTATC-AAGTTCGTTGCCTCATGTT
1 T-AGAGGAG-CAA-TTACTTTCAAAGTTCG-TGCCTC-TGTT
23542060 TAGAGGAAGCAATTACTTTC
1 TAGAGG-AGCAATTACTTTC
23542080 CAAAAGTGTG
Statistics
Matches: 84, Mismatches: 5, Indels: 21
0.76 0.05 0.19
Matches are distributed among these distances:
37 9 0.11
38 14 0.17
39 21 0.25
40 20 0.24
41 12 0.14
42 2 0.02
43 6 0.07
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (37 bp):
TAGAGGAGCAATTACTTTCAAAGTTCGTGCCTCTGTT
Found at i:23542131 original size:9 final size:9
Alignment explanation
Indices: 23542117--23542207 Score: 127
Period size: 9 Copynumber: 10.6 Consensus size: 9
23542107 GCGGTTGGTA
*
23542117 AAAAAAAAT
1 AAAAAAAAC
23542126 AAAAAAAAC
1 AAAAAAAAC
*
23542135 --AAAAAAT
1 AAAAAAAAC
23542142 AAAAAAAAC
1 AAAAAAAAC
*
23542151 CAAAAAAAC
1 AAAAAAAAC
23542160 -AAAAAAAC
1 AAAAAAAAC
23542168 AAAAAAAAC
1 AAAAAAAAC
23542177 AAAAAAAAC
1 AAAAAAAAC
23542186 -AAAAAAAC
1 AAAAAAAAC
23542194 AAAAAAAAC
1 AAAAAAAAC
23542203 AAAAA
1 AAAAA
23542208 CCAAAAAATG
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
7 6 0.08
8 16 0.22
9 52 0.70
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:23542140 original size:17 final size:17
Alignment explanation
Indices: 23542118--23542207 Score: 130
Period size: 17 Copynumber: 5.3 Consensus size: 17
23542108 CGGTTGGTAA
*
23542118 AAAAAAATAAAAAAAAC
1 AAAAAAACAAAAAAAAC
*
23542135 AAAAAATA-AAAAAAACC
1 AAAAAA-ACAAAAAAAAC
23542152 AAAAAAAC-AAAAAAAC
1 AAAAAAACAAAAAAAAC
23542168 AAAAAAAACAAAAAAAAC
1 -AAAAAAACAAAAAAAAC
23542186 AAAAAAACAAAAAAAAC
1 AAAAAAACAAAAAAAAC
23542203 AAAAA
1 AAAAA
23542208 CCAAAAAATG
Statistics
Matches: 67, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.12
17 50 0.75
18 9 0.13
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAAAACAAAAAAAAC
Found at i:23542155 original size:26 final size:26
Alignment explanation
Indices: 23542117--23542207 Score: 148
Period size: 26 Copynumber: 3.5 Consensus size: 26
23542107 GCGGTTGGTA
* *
23542117 AAAAAAAATAAAAAAAAC-AAAAAAT
1 AAAAAAAACAAAAAAAACAAAAAAAC
*
23542142 AAAAAAAACCAAAAAAACAAAAAAAC
1 AAAAAAAACAAAAAAAACAAAAAAAC
23542168 AAAAAAAACAAAAAAAACAAAAAAAC
1 AAAAAAAACAAAAAAAACAAAAAAAC
23542194 AAAAAAAACAAAAA
1 AAAAAAAACAAAAA
23542208 CCAAAAAATG
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
25 16 0.26
26 45 0.74
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.02
Consensus pattern (26 bp):
AAAAAAAACAAAAAAAACAAAAAAAC
Found at i:23542215 original size:1 final size:1
Alignment explanation
Indices: 23542116--23542207 Score: 85
Period size: 1 Copynumber: 92.0 Consensus size: 1
23542106 AGCGGTTGGT
* * * ** * * *
23542116 AAAAAAAAATAAAAAAAACAAAAAATAAAAAAAACCAAAAAAACAAAAAAACAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
23542181 AAAACAAAAAAACAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
23542208 CCAAAAAATG
Statistics
Matches: 71, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:23542215 original size:9 final size:8
Alignment explanation
Indices: 23542127--23542207 Score: 110
Period size: 8 Copynumber: 9.6 Consensus size: 8
23542117 AAAAAAAATA
23542127 AAAAAAAC
1 AAAAAAAC
23542135 AAAAAATA-
1 AAAAAA-AC
23542143 AAAAAAACC
1 AAAAAAA-C
23542152 AAAAAAAC
1 AAAAAAAC
23542160 AAAAAAAC
1 AAAAAAAC
23542168 AAAAAAAAC
1 -AAAAAAAC
23542177 AAAAAAAAC
1 -AAAAAAAC
23542186 AAAAAAAC
1 AAAAAAAC
23542194 AAAAAAAAC
1 -AAAAAAAC
23542203 AAAAA
1 AAAAA
23542208 CCAAAAAATG
Statistics
Matches: 68, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
7 1 0.01
8 34 0.50
9 33 0.49
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:23542424 original size:10 final size:11
Alignment explanation
Indices: 23542407--23542497 Score: 59
Period size: 12 Copynumber: 8.5 Consensus size: 11
23542397 TTTTATGTAT
23542407 TGTATTATTTA
1 TGTATTATTTA
23542418 T-TATTA-TTA
1 TGTATTATTTA
*
23542427 TGTATTAATATA
1 TGTATT-ATTTA
23542439 TGTATATATTTA
1 TGTAT-TATTTA
* *
23542451 TTTATTATTTTT
1 TGTATTA-TTTA
*
23542463 TGTTAGTATTTA
1 TG-TATTATTTA
*
23542475 TGT-GTA-TT-
1 TGTATTATTTA
23542483 T-TATTATTTA
1 TGTATTATTTA
23542493 TGTAT
1 TGTAT
23542498 ATATATATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
7 1 0.02
8 3 0.05
9 8 0.13
10 13 0.21
11 8 0.13
12 24 0.39
13 5 0.08
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (11 bp):
TGTATTATTTA
Found at i:23543117 original size:19 final size:20
Alignment explanation
Indices: 23543093--23543136 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
23543083 TCCGGCCAAC
23543093 TTCCGGCGA-AATTTCCAGA
1 TTCCGGCGACAATTTCCAGA
* *
23543112 TTCCGGTGACATTTTCCAGA
1 TTCCGGCGACAATTTCCAGA
*
23543132 ATCCG
1 TTCCG
23543137 ACATCAGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (20 bp):
TTCCGGCGACAATTTCCAGA
Found at i:23543833 original size:59 final size:58
Alignment explanation
Indices: 23543578--23543851 Score: 346
Period size: 58 Copynumber: 4.7 Consensus size: 58
23543568 AAAATTCTAA
* * *
23543578 AAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTGT-CTTTAGAAATAAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAATAAATTTC
* *
23543634 CAAAAAATATTTTTGGTGGAAGAAG-TGAAAGTATCAATTTTCC-TCAGAAATAAATTTC
1 AAAAAAATATTTTTGG-GGAA-AAGTTGAAAGTATCAATTTTCCTTGAGAAATAAATTTC
* * * *
23543692 AAAAAAAAATATTTTAGAGAAAAG-TGAAAGTATCAATTTTTCTTGA-AAATCAAATTTC
1 AAAAAAATAT-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAAT-AAATTTC
23543750 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCGAAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAAT--AAATTTC
*
23543809 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTTATCAATTTTCC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAG-TATCAATTTTCC
23543852 CTACAAAAAA
Statistics
Matches: 192, Mismatches: 16, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
56 13 0.07
57 35 0.18
58 87 0.45
59 45 0.23
60 12 0.06
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (58 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAATAAATTTC
Found at i:23546154 original size:2 final size:2
Alignment explanation
Indices: 23546147--23546173 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23546137 TACTATTGAA
23546147 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
23546174 CACGTACGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23547145 original size:3 final size:3
Alignment explanation
Indices: 23547137--23547164 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23547127 TCCAACCTAC
23547137 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23547165 AAGGAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:23549422 original size:39 final size:39
Alignment explanation
Indices: 23549372--23549454 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
23549362 CGGAGGATAG
*
23549372 TTTTTGAGTTTTTTAGTCATTTATAGTGATTTTTTTTTT
1 TTTTTGAGTTTTTTAGTCATCTATAGTGATTTTTTTTTT
* * * *
23549411 TTTTTGTGTTTTTTGGTTATCTATAGTGTTTTTTTTTTT
1 TTTTTGAGTTTTTTAGTCATCTATAGTGATTTTTTTTTT
23549450 TTTTT
1 TTTTT
23549455 TTTTTAGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.11, C:0.02, G:0.13, T:0.73
Consensus pattern (39 bp):
TTTTTGAGTTTTTTAGTCATCTATAGTGATTTTTTTTTT
Found at i:23549962 original size:22 final size:21
Alignment explanation
Indices: 23549937--23549978 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23549927 AGGCTCCTAT
*
23549937 TCTGGATCTTCGGGCCCAAATC
1 TCTGG-TCCTCGGGCCCAAATC
*
23549959 TCTGGTCCTCTGGCCCAAAT
1 TCTGGTCCTCGGGCCCAAAT
23549979 ATCCTGATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.33, G:0.21, T:0.29
Consensus pattern (21 bp):
TCTGGTCCTCGGGCCCAAATC
Found at i:23552406 original size:11 final size:11
Alignment explanation
Indices: 23552375--23552437 Score: 55
Period size: 11 Copynumber: 6.0 Consensus size: 11
23552365 TTTTTCTTTG
23552375 CACAAGATATA
1 CACAAGATATA
*
23552386 CAC--CATATA
1 CACAAGATATA
23552395 CACAAGATATA
1 CACAAGATATA
23552406 CA-AA-A-ATA
1 CACAAGATATA
*
23552414 CAAAAGATATAAA
1 CACAAGATAT--A
23552427 CACAAGATATA
1 CACAAGATATA
23552438 AATTATTGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
8 5 0.12
9 11 0.26
10 3 0.07
11 13 0.31
13 10 0.24
ACGTcount: A:0.59, C:0.17, G:0.06, T:0.17
Consensus pattern (11 bp):
CACAAGATATA
Found at i:23553582 original size:50 final size:51
Alignment explanation
Indices: 23553497--23553630 Score: 121
Period size: 50 Copynumber: 2.6 Consensus size: 51
23553487 TTATTTATTT
* * * *
23553497 ATTTATTAAA-AATGATTTTAAGAACATCTCAACTCTTTGGCGAAAT-ATAAA
1 ATTTATTAAACAA--ATTTTAAGAATATCCCAACTCTTTAGCAAAATCATAAA
* * * *
23553548 ATTTATTAAACAAATTTTAAGATTATCCCGACTCTTTAGTAAAATCTTAAA
1 ATTTATTAAACAAATTTTAAGAATATCCCAACTCTTTAGCAAAATCATAAA
* * * *
23553599 AATT-TTAATCAAATTTTAAGACTATCTCAACT
1 ATTTATTAAACAAATTTTAAGAATATCCCAACT
23553631 TTCTAATGAG
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
50 49 0.72
51 17 0.25
52 2 0.03
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (51 bp):
ATTTATTAAACAAATTTTAAGAATATCCCAACTCTTTAGCAAAATCATAAA
Found at i:23555174 original size:3 final size:3
Alignment explanation
Indices: 23555168--23555210 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
23555158 AAATGAAAAT
23555168 ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
23555211 TATTATTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23555817 original size:70 final size:72
Alignment explanation
Indices: 23555701--23555873 Score: 206
Period size: 70 Copynumber: 2.4 Consensus size: 72
23555691 TGATGGAGTC
* * * *
23555701 CTCTAACCAGAGGCTATGAAACTTTAAATGGCTCATTTGGCCAGAGGCTATGACACTTT-AA-AG
1 CTCTAACCAGAGGCAATGAAACTTTAAATGGCTCATCTGACCAGAGGCTATGACACTTTAAATAA
23555764 AAAGCTT
66 AAAGCTT
* * ** *
23555771 CTCTAACCACAGGCAATGAAACTTTAAATGGCTCCTCTGATTAGAGGCTATGAGACTTTAAATTT
1 CTCTAACCAGAGGCAATGAAACTTTAAATGGCTCATCTGACCAGAGGCTATGACACTTTAAA--T
*
23555836 AAAAAGTTT
64 AAAAAGCTT
* *
23555845 CTCTGACCAGAGGTAATGAAACTTTAAAT
1 CTCTAACCAGAGGCAATGAAACTTTAAAT
23555874 TTAAAGGTCT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
70 51 0.59
71 2 0.02
74 33 0.38
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (72 bp):
CTCTAACCAGAGGCAATGAAACTTTAAATGGCTCATCTGACCAGAGGCTATGACACTTTAAATAA
AAAGCTT
Found at i:23555832 original size:34 final size:34
Alignment explanation
Indices: 23555699--23555833 Score: 128
Period size: 34 Copynumber: 3.9 Consensus size: 34
23555689 TTTGATGGAG
*
23555699 TCCTCTAACCAGAGGCTATGAAACTTTAAATGGC
1 TCCTCTGACCAGAGGCTATGAAACTTTAAATGGC
* * * *
23555733 TCATTTGGCCAGAGGCTATGACACTTTAAA-GAAAGC
1 TCCTCTGACCAGAGGCTATGAAACTTTAAATG---GC
* * * *
23555769 TTCTCTAACCACAGGCAATGAAACTTTAAATGGC
1 TCCTCTGACCAGAGGCTATGAAACTTTAAATGGC
** *
23555803 TCCTCTGATTAGAGGCTATGAGACTTTAAAT
1 TCCTCTGACCAGAGGCTATGAAACTTTAAAT
23555834 TTAAAAAGTT
Statistics
Matches: 77, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
33 1 0.01
34 51 0.66
36 24 0.31
37 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (34 bp):
TCCTCTGACCAGAGGCTATGAAACTTTAAATGGC
Found at i:23556072 original size:168 final size:171
Alignment explanation
Indices: 23555789--23556118 Score: 470
Period size: 168 Copynumber: 1.9 Consensus size: 171
23555779 ACAGGCAATG
* * * * *
23555789 AAACTTTAAATGGCTCCTCTGATTAGAGGCTATGAGACTTTAAATTTAAAAAGTTTCTCTGACCA
1 AAACTTTAAATGGCTCATCTGATCAAAGGCTATGACACTTTAAA--TAAAAAGCTTCTCTGACCA
** * * *
23555854 GAGGTAATGAAACTTTAAATTTAAAGGTCTGAGAGCATTTATAGATTATGCCATTTAGTCTTACA
64 GAGACAATGAAACTTTAAATTTAAAAGTCCGAGAGCACTTATAGATTATGCCATTTAGTCTTACA
*
23555919 AATCATG-CCTAATTTTGATGGAGTCTTCTGACCAGAGGCTATA
129 AATCATGTCC-AATTTTGATGGAATCTTCTGACCAGAGGCTATA
*
23555962 AAACTTTAAATGGCTCATCTGA-CAAAGGCTATGACACTTT-AA-AGAAAGCTTCTCTGACCAGA
1 AAACTTTAAATGGCTCATCTGATCAAAGGCTATGACACTTTAAATAAAAAGCTTCTCTGACCAGA
* * *
23556024 GACAATGAAACTTTAAATTTAAAAGTCCGAGAGGACTTATAGATTATGCCATTTGGTCTTAGAAA
66 GACAATGAAACTTTAAATTTAAAAGTCCGAGAGCACTTATAGATTATGCCATTTAGTCTTACAAA
23556089 TCATGTCCAATTTTGATGGAATCTTCTGAC
131 TCATGTCCAATTTTGATGGAATCTTCTGAC
23556119 TAGAAGCTCT
Statistics
Matches: 141, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
168 101 0.72
169 2 0.01
171 2 0.01
172 15 0.11
173 21 0.15
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (171 bp):
AAACTTTAAATGGCTCATCTGATCAAAGGCTATGACACTTTAAATAAAAAGCTTCTCTGACCAGA
GACAATGAAACTTTAAATTTAAAAGTCCGAGAGCACTTATAGATTATGCCATTTAGTCTTACAAA
TCATGTCCAATTTTGATGGAATCTTCTGACCAGAGGCTATA
Found at i:23556163 original size:168 final size:168
Alignment explanation
Indices: 23555838--23556172 Score: 444
Period size: 168 Copynumber: 2.0 Consensus size: 168
23555828 TTAAATTTAA
* ** * * *
23555838 AAAGTTTCTCTGACCAGAGGTAATGAAACTTTAAATTTAAAGGTCTGAGAGCATTTATAGATTAT
1 AAAGCTTCTCTGACCAGAGACAATGAAACTTTAAATTTAAAAGTCCGAGAGCACTTATAGATTAT
* *
23555903 GCCATTTAGTCTTACAAATCATGCCTAATTTTGATGGAGTCTTCTGACCAGAGGCTATAAAACTT
66 GCCATTTAGTCTTACAAATCATGCCTAATTTTGATGGAATCTTCTGACCAGAAGCTATAAAACTT
* * *
23555968 TAAATGGCTCATCTGACAAAGGCTATGACACTTTAAAG
131 AAAAAGGCTCATCTGACAAAGGCTATGAAACTTTAAAG
*
23556006 AAAGCTTCTCTGACCAGAGACAATGAAACTTTAAATTTAAAAGTCCGAGAGGACTTATAGATTAT
1 AAAGCTTCTCTGACCAGAGACAATGAAACTTTAAATTTAAAAGTCCGAGAGCACTTATAGATTAT
* * * *
23556071 GCCATTTGGTCTTAGAAATCATGTCC-AATTTTGATGGAATCTTCTGACTAGAAGCTCTTAAAA-
66 GCCATTTAGTCTTACAAATCATG-CCTAATTTTGATGGAATCTTCTGACCAGAAGCT-ATAAAAC
* *
23556134 TTAAAAAGG-T-ATTCTGACTAGATGCTATGAAACTTTAAA
129 TTAAAAAGGCTCA-TCTGAC-AAAGGCTATGAAACTTTAAA
23556173 TGGCTCTTCT
Statistics
Matches: 145, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
166 1 0.01
167 7 0.05
168 130 0.90
169 7 0.05
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (168 bp):
AAAGCTTCTCTGACCAGAGACAATGAAACTTTAAATTTAAAAGTCCGAGAGCACTTATAGATTAT
GCCATTTAGTCTTACAAATCATGCCTAATTTTGATGGAATCTTCTGACCAGAAGCTATAAAACTT
AAAAAGGCTCATCTGACAAAGGCTATGAAACTTTAAAG
Found at i:23556254 original size:34 final size:34
Alignment explanation
Indices: 23556160--23556277 Score: 94
Period size: 34 Copynumber: 3.4 Consensus size: 34
23556150 ACTAGATGCT
* * * * *
23556160 ATGAAACTTTAAATGGCTCTTCTAACTAGAGACT-
1 ATGAAACTTTAAATAGCTCTTTTGACTAAAG-GTA
* * * *
23556194 ATGACACTTTAAAGAAAGCTCCTTTGACTATAGGTA
1 ATGAAACTTT-AA-ATAGCTCTTTTGACTAAAGGTA
* *
23556230 ATGAAACTTTAAATAGCTCTTTTGACCAAAGGCA
1 ATGAAACTTTAAATAGCTCTTTTGACTAAAGGTA
*
23556264 TTGAAACTTTAAAT
1 ATGAAACTTTAAAT
23556278 TTAAAAATTT
Statistics
Matches: 66, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
34 39 0.59
35 5 0.08
36 22 0.33
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (34 bp):
ATGAAACTTTAAATAGCTCTTTTGACTAAAGGTA
Found at i:23559323 original size:445 final size:444
Alignment explanation
Indices: 23558495--23559390 Score: 1549
Period size: 445 Copynumber: 2.0 Consensus size: 444
23558485 GACTTTAGCA
*
23558495 TTTTCATTTAGCTTGAACATTACTGCCAATGTAGCCAAAGTATCAACCATCTGATTTTTTTCTCG
1 TTTTCATTTAGCTTGAACATTACTGCCAATGTAGCCAAAGCATCAACCATCTGATTTTTTTCTCG
*
23558560 GGGTAAATGATAAAATCAAATATTCTTAAATTTTTTGATCAATTTTGATTTGTACTTTTAATATA
66 GGGTAAATGATAAAATCAAATATTCTTAAATTTTTTGATCAATTTTGATATGTACTTTTAATATA
*
23558625 GAACCAACTTCGAATATTTGGTTTCTCATTCTTCTCGCAATTGGTATATGATCAGGGTAAAGTCT
131 GAACCAACTTCGAATATTTGGTTTCTCATTCTTCTCGCAATTGGTATATGATCAAGGTAAAGTCT
* *
23558690 CTATAAAATTTTAATGTATGGGCCTTCCTTTAAAAAATAACTTAAAGACCTATAACACATACTTC
196 CCATAAAATTTTAATGTATGGGCCTTCCTTTAAAAAATAACTTAAAGACCCATAACACATACTTC
* * * *
23558755 ATATTTTGTCATATTATTGGTGTAATCAAAGCTTAATTTTACAGTGGTTAGGTAGTAATCTCCTT
261 ATATTTTGTCATATTATTGGTGTAATCAAAGCTTAATTTTACAATGATTAGGCAGTAATATCCTT
* *
23558820 TTGGAGATATCAAAACTACTTCTATACCATACCCCAAAGCATTCAATATGCCATCAAAATACATC
326 TTAGAGATATCAAAACTACTCCTATACCATACCCCAAAGCATTCAATATGCCATCAAAATACATC
*
23558885 TTCCATGTATCATCATTAGGCTCTTCTTCATTTATATGTAATATAGACATTAAG
391 TTCCATGTATCATCATTAGGCTCTTCTTCATTTATATGTAATATAAACATTAAG
* *
23558939 TTTTCATTTAGCTTGAACATTACTGCCAATGTAGCCAAAGCATCAACCATCTGATTTTTTTTTTT
1 TTTTCATTTAGCTTGAACATTACTGCCAATGTAGCCAAAGCATCAACCATCTGA-TTTTTTTCTC
*
23559004 GGGGTAAATGATAAAATCAAATATTCTTAAATTTTTTGATCAATTTTGATATGTACTTTTGATAT
65 GGGGTAAATGATAAAATCAAATATTCTTAAATTTTTTGATCAATTTTGATATGTACTTTTAATAT
* *
23559069 AGAACCAACTTCGAATCTTTGGTTTCTCATTCTTCTCGCAATTGGTATATGATCAAGGTAGAGTC
130 AGAACCAACTTCGAATATTTGGTTTCTCATTCTTCTCGCAATTGGTATATGATCAAGGTAAAGTC
* * * * *
23559134 TCCATAAAATTTTAATGTATGGGCTTTCTTTTCAAAAGTAACTTGAAGACCCATAACACATACTT
195 TCCATAAAATTTTAATGTATGGGCCTTCCTTTAAAAAATAACTTAAAGACCCATAACACATACTT
*
23559199 CATATTTTGTCATATTATTGGTGTAATCAAAGCTTAATTTTACAATGATTAGGCAGTAATATCTT
260 CATATTTTGTCATATTATTGGTGTAATCAAAGCTTAATTTTACAATGATTAGGCAGTAATATCCT
* *
23559264 TTTAGAGATATCAAAACTACTCCTATACCATACCCCAAAGCATTTAATGTGCCATCAAAATACAT
325 TTTAGAGATATCAAAACTACTCCTATACCATACCCCAAAGCATTCAATATGCCATCAAAATACAT
*
23559329 CTTCCATGTATCATCATTAGGCTCTTCTTCATTTCTATGTAATATAAACATTAAG
390 CTTCCATGTATCATCATTAGGCTCTTCTTCATTTATATGTAATATAAACATTAAG
23559384 TTTTCAT
1 TTTTCAT
23559391 CTAAAAAACT
Statistics
Matches: 425, Mismatches: 26, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
444 53 0.12
445 372 0.88
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (444 bp):
TTTTCATTTAGCTTGAACATTACTGCCAATGTAGCCAAAGCATCAACCATCTGATTTTTTTCTCG
GGGTAAATGATAAAATCAAATATTCTTAAATTTTTTGATCAATTTTGATATGTACTTTTAATATA
GAACCAACTTCGAATATTTGGTTTCTCATTCTTCTCGCAATTGGTATATGATCAAGGTAAAGTCT
CCATAAAATTTTAATGTATGGGCCTTCCTTTAAAAAATAACTTAAAGACCCATAACACATACTTC
ATATTTTGTCATATTATTGGTGTAATCAAAGCTTAATTTTACAATGATTAGGCAGTAATATCCTT
TTAGAGATATCAAAACTACTCCTATACCATACCCCAAAGCATTCAATATGCCATCAAAATACATC
TTCCATGTATCATCATTAGGCTCTTCTTCATTTATATGTAATATAAACATTAAG
Found at i:23565920 original size:14 final size:15
Alignment explanation
Indices: 23565892--23565921 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23565882 CAAACAAAGA
23565892 AAAGTTCATGCCATT
1 AAAGTTCATGCCATT
23565907 AAAGTTCA-GCCATT
1 AAAGTTCATGCCATT
23565921 A
1 A
23565922 TATGCAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (15 bp):
AAAGTTCATGCCATT
Found at i:23566317 original size:12 final size:12
Alignment explanation
Indices: 23566285--23566317 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23566275 ACATTCTTGG
23566285 GAATATCTTGTA
1 GAATATCTTGTA
23566297 GAACT-TCTTGTA
1 GAA-TATCTTGTA
23566309 GAATATCTT
1 GAATATCTT
23566318 AAATCTCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (12 bp):
GAATATCTTGTA
Found at i:23567852 original size:11 final size:12
Alignment explanation
Indices: 23567834--23567858 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23567824 TAGCAAAAAT
23567834 ATTTTTTTTAAA
1 ATTTTTTTTAAA
23567846 ATTTTTTTTAAA
1 ATTTTTTTTAAA
23567858 A
1 A
23567859 ACATGCAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTTTTTTAAA
Found at i:23579146 original size:3 final size:3
Alignment explanation
Indices: 23579133--23579188 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
23579123 TAAAAGAATG
* * *
23579133 AAT ATT AAT AAT AA- CAT AA- AAT AAC AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
23579179 AAC AAT AAT A
1 AAT AAT AAT A
23579189 CCATAAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:23579227 original size:26 final size:26
Alignment explanation
Indices: 23579195--23579262 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
23579185 AATACCATAA
**
23579195 AAAACATAAAAAATACGATAAAAATC
1 AAAACATAAAAAATAAAATAAAAATC
* * *
23579221 AACACATGATAAATAAAATAAAAATC
1 AAAACATAAAAAATAAAATAAAAATC
23579247 AAAAC--AAAAAATAAAA
1 AAAACATAAAAAATAAAA
23579263 AGAAAAAAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
24 9 0.26
26 25 0.74
ACGTcount: A:0.72, C:0.10, G:0.03, T:0.15
Consensus pattern (26 bp):
AAAACATAAAAAATAAAATAAAAATC
Found at i:23580123 original size:3 final size:3
Alignment explanation
Indices: 23580115--23580157 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
23580105 AAATGAAAAG
23580115 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23580158 ATTATTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23580456 original size:22 final size:21
Alignment explanation
Indices: 23580405--23580457 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
23580395 AAAATTTTAA
*
23580405 TATATAAAATGATTATTAGAT
1 TATATAAAAAGATTATTAGAT
* * **
23580426 AATAAAAAAAGATTATTTATTT
1 TATATAAAAAGATTA-TTAGAT
23580448 TATATAAAAA
1 TATATAAAAA
23580458 AATTTTAAAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (21 bp):
TATATAAAAAGATTATTAGAT
Found at i:23583509 original size:16 final size:16
Alignment explanation
Indices: 23583490--23583520 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23583480 AATGATAATA
23583490 ATGATTTATGATGATG
1 ATGATTTATGATGATG
23583506 ATGATTTATGATGAT
1 ATGATTTATGATGAT
23583521 TTTAAAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (16 bp):
ATGATTTATGATGATG
Found at i:23584869 original size:13 final size:13
Alignment explanation
Indices: 23584850--23584881 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
23584840 CTTATAAATC
23584850 AATGTGTATATAA
1 AATGTGTATATAA
*
23584863 TATGTGTATATAA
1 AATGTGTATATAA
23584876 AATGTG
1 AATGTG
23584882 GTTCATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (13 bp):
AATGTGTATATAA
Found at i:23586921 original size:3 final size:3
Alignment explanation
Indices: 23586913--23586950 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
23586903 ACTCGAAGTG
23586913 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
23586951 GAAAAATTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:23587177 original size:12 final size:12
Alignment explanation
Indices: 23587150--23587186 Score: 56
Period size: 12 Copynumber: 2.9 Consensus size: 12
23587140 ATTTGTGACT
23587150 TTATTGTTATTTTA
1 TTATT-TTA-TTTA
23587164 TTATTTTATTTA
1 TTATTTTATTTA
23587176 TTATTTTATTT
1 TTATTTTATTT
23587187 GTCTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 15 0.65
13 3 0.13
14 5 0.22
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (12 bp):
TTATTTTATTTA
Found at i:23587650 original size:19 final size:19
Alignment explanation
Indices: 23587625--23587664 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
23587615 CCAAATCTTT
* *
23587625 TTTTTTTTTTCATTTTTCTC
1 TTTTTTCTTTC-TTTCTCTC
23587645 TTTTTTCTTTCTTTCTCTC
1 TTTTTTCTTTCTTTCTCTC
23587664 T
1 T
23587665 CTCTTCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTCTTTCTTTCTCTC
Found at i:23587659 original size:17 final size:16
Alignment explanation
Indices: 23587629--23587662 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23587619 ATCTTTTTTT
23587629 TTTTTTCATTTTTCTC
1 TTTTTTCATTTTTCTC
*
23587645 TTTTTTCTTTCTTTCTC
1 TTTTTTCATT-TTTCTC
23587662 T
1 T
23587663 CTCTCTTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTCATTTTTCTC
Found at i:23588441 original size:3 final size:3
Alignment explanation
Indices: 23588433--23588482 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
23588423 GACTTTTTAT
23588433 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23588481 AT
1 AT
23588483 TGAACTCAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:23591193 original size:20 final size:20
Alignment explanation
Indices: 23591151--23591193 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
23591141 TTTTATCACA
* *
23591151 TTTTTTTATCATTTTTTTGT
1 TTTTTTTATCATTTCTATGT
23591171 TTTTTTTATCATGTTCTAT-T
1 TTTTTTTATCAT-TTCTATGT
23591191 TTT
1 TTT
23591194 GAGATCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTTTTATCATTTCTATGT
Found at i:23599441 original size:28 final size:27
Alignment explanation
Indices: 23599410--23599463 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
23599400 ACATTTTGCA
23599410 AATTCATAAATCAATGTCAAAACATGTC
1 AATTCATAAATCAATG-CAAAACATGTC
* * *
23599438 AATTTATAAATCATTGCAAAATATGT
1 AATTCATAAATCAATGCAAAACATGT
23599464 AATCATTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTCATAAATCAATGCAAAACATGTC
Found at i:23599482 original size:17 final size:18
Alignment explanation
Indices: 23599446--23599485 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
23599436 TCAATTTATA
23599446 AATCATTGCAAAATATGT
1 AATCATTGCAAAATATGT
23599464 AATCATT-C-AAATATCGT
1 AATCATTGCAAAATAT-GT
23599481 AATCA
1 AATCA
23599486 AACCAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.29
17 8 0.38
18 7 0.33
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (18 bp):
AATCATTGCAAAATATGT
Found at i:23600545 original size:34 final size:31
Alignment explanation
Indices: 23600501--23600564 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
23600491 TTAAACAACT
*
23600501 TTTCATAGAAAACTTAGATTCGACTTCTGTTTG
1 TTTCATAG-AAA-GTAGATTCGACTTCTGTTTG
23600534 TTTCATTAGAAAGTAGATTCGACTTCTGTTT
1 TTTCA-TAGAAAGTAGATTCGACTTCTGTTT
23600565 TCCAACTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 18 0.62
33 8 0.28
34 3 0.10
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (31 bp):
TTTCATAGAAAGTAGATTCGACTTCTGTTTG
Found at i:23603671 original size:52 final size:52
Alignment explanation
Indices: 23603566--23603705 Score: 129
Period size: 52 Copynumber: 2.7 Consensus size: 52
23603556 GATAGACAAA
* * * * *
23603566 AAAAATTTAAAAAAAAAAAAGATT-TTCAATAGATAAGTTTGACTTACAAGAG
1 AAAAATTTTAAAAGAAAAAAGATTCTT-AATAGGTAAATTTCACTTACAAGAG
* ** *
23603618 AAAAATTTTAAAAGAAAAAATATTCTTAATAGGTAAATTTCACTTGTAGGAG
1 AAAAATTTTAAAAGAAAAAAGATTCTTAATAGGTAAATTTCACTTACAAGAG
* * * * * *
23603670 AAGAATTCTAAGAGGAAAGAGATTCTTAATATGTAA
1 AAAAATTTTAAAAGAAAAAAGATTCTTAATAGGTAA
23603706 GTTTGTATAA
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
52 69 0.97
53 2 0.03
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (52 bp):
AAAAATTTTAAAAGAAAAAAGATTCTTAATAGGTAAATTTCACTTACAAGAG
Found at i:23603877 original size:45 final size:44
Alignment explanation
Indices: 23603826--23603918 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 44
23603816 TACGTCTTAT
23603826 GGATGTGTGTATATTTGTTTGTGAATGGACTAGAAGAAACTGAGA
1 GGATGTGTGTATATTTGTTTGTGAATGGACTAGAAGAAA-TGAGA
* *
23603871 GGATGTGTGTATATTTGTTTGTGAATTGACTAGAGGAAATGAGA
1 GGATGTGTGTATATTTGTTTGTGAATGGACTAGAAGAAATGAGA
23603915 GGAT
1 GGAT
23603919 CCACATAGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 9 0.20
45 37 0.80
ACGTcount: A:0.30, C:0.03, G:0.32, T:0.34
Consensus pattern (44 bp):
GGATGTGTGTATATTTGTTTGTGAATGGACTAGAAGAAATGAGA
Found at i:23604439 original size:257 final size:257
Alignment explanation
Indices: 23603943--23604454 Score: 686
Period size: 257 Copynumber: 2.0 Consensus size: 257
23603933 TGTATGCGTA
** *
23603943 CATATGAGTATGTATTTGATTGTATTGAAAAAGTGCGTAAGGGTTTGTGTTTGTTTGAGTTGAGA
1 CATATGAGTATGTATTTGATTGTATTGAAAAAGTGCACAAGGGTTTGTGTTTATTTGAGTTGAGA
* * * *
23604008 ATACTCTATAGGACTAGAGTAGATTGAGTGAATCTATGAGTATTAATTGTTGAGTGGTTGATATG
66 ATACTCCATAAGACTAGAGTAGATTGAGAGAATCTATGAATATTAATTGTTGAGTGGTTGATATG
* *** * *
23604073 CTTGATTTATATTTGTAATTATTTACAACTAGTGAATCTTGTTTATTATCCATGGATGTAGATCA
131 CTTGATGTATATTTGTAATTATTTACAACTAACAAATCTTGTTTATTATCCATGAATGTAAATCA
* *
23604138 GTTAGATTGAATCACGTTAAATTATTATATCTTATGTGTTTGATTCATTATTTGATTTCATG
196 GTTAGATTAAATCACGTTAAATTATTATATCTTATGTATTTGATTCATTATTTGATTTCATG
* * * * **
23604200 CATATGGGTATGTGTTTGGTTGTGTTGAAAGGGTGCACAAGGGTTTGTGTTTATTT-AGATTGAG
1 CATATGAGTATGTATTTGATTGTATTGAAAAAGTGCACAAGGGTTTGTGTTTATTTGAG-TTGAG
* *
23604264 AATACTCCATAAGACTAGAGTAGATTGAGAGGATCTATGAATATTAATTGTTTAGTGGTTGATAT
65 AATACTCCATAAGACTAGAGTAGATTGAGAGAATCTATGAATATTAATTGTTGAGTGGTTGATAT
* * * ***
23604329 GTTTGATGTATATTTGTAATTTTTTATAACTAACAAATCTTGTTTATTATTTGTGAATGTAAATC
130 GCTTGATGTATATTTGTAATTATTTACAACTAACAAATCTTGTTTATTATCCATGAATGTAAATC
* * * * *
23604394 AGTT-GAATTAAATTACGTTAAATTATTGTCTCTTTTGTATTTGATTCATTGTTTGATTTCA
195 AGTTAG-ATTAAATCACGTTAAATTATTATATCTTATGTATTTGATTCATTATTTGATTTCA
23604455 CTTTTGTTAG
Statistics
Matches: 219, Mismatches: 34, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
256 3 0.01
257 216 0.99
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (257 bp):
CATATGAGTATGTATTTGATTGTATTGAAAAAGTGCACAAGGGTTTGTGTTTATTTGAGTTGAGA
ATACTCCATAAGACTAGAGTAGATTGAGAGAATCTATGAATATTAATTGTTGAGTGGTTGATATG
CTTGATGTATATTTGTAATTATTTACAACTAACAAATCTTGTTTATTATCCATGAATGTAAATCA
GTTAGATTAAATCACGTTAAATTATTATATCTTATGTATTTGATTCATTATTTGATTTCATG
Found at i:23612995 original size:3 final size:3
Alignment explanation
Indices: 23612987--23613023 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
23612977 TTATTCTAAG
23612987 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23613024 GAAAAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23613244 original size:12 final size:13
Alignment explanation
Indices: 23613217--23613249 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
23613207 ACTTGTGACT
23613217 TTATTGTTATTTTA
1 TTATT-TTATTTTA
23613231 TTATTTTA-TTTA
1 TTATTTTATTTTA
23613243 TTATTTT
1 TTATTTT
23613250 TTTGTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 3 0.16
14 5 0.26
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:23613319 original size:13 final size:14
Alignment explanation
Indices: 23613291--23613319 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23613281 TCATTAACAT
23613291 TTTAATTTTCATTA
1 TTTAATTTTCATTA
23613305 TTTAATTTT-ATTA
1 TTTAATTTTCATTA
23613318 TT
1 TT
23613320 ATTTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTAATTTTCATTA
Found at i:23614551 original size:3 final size:3
Alignment explanation
Indices: 23614545--23614581 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
23614535 TTTGTATGAT
23614545 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
23614582 TGAACCCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:23617567 original size:44 final size:43
Alignment explanation
Indices: 23617517--23617988 Score: 210
Period size: 43 Copynumber: 10.9 Consensus size: 43
23617507 GGCTCCATGA
* * *
23617517 TTTAAAAAATAAATAAGGCTCTCTTAAATAAAGGCTCAATAAT
1 TTTAAAAAATAAATAAGGCTCTCTTAAACAGAGGCTCAACAAT
* * ** * *
23617560 GTTTAAAAACTAAATAAGGCT-TTTCTAAGTAGAGGCTCAATGACT
1 -TTTAAAAAATAAATAAGGCTCTCT-TAAACAGAGGCTCAA-CAAT
* * ** * *
23617605 TTTGAAAAGTAAATAAAACTC-CTTTAAGCAAAGGCTCAACAAT
1 TTTAAAAAATAAATAAGGCTCTC-TTAAACAGAGGCTCAACAAT
* * * ** * * *
23617648 TTTGAAAACTAAATAAGGTTCTC-TAAGTAGAGGTTTAACGATT
1 TTTAAAAAATAAATAAGGCTCTCTTAAACAGAGGCTCAAC-AAT
* * * *
23617691 TTTGAAAAATAAATAAGGATC-CTCTAAACAGAGGCTTAACGACT
1 TTTAAAAAATAAATAAGGCTCTCT-TAAACAGAGGCTCAAC-AAT
* * * * * * * *
23617735 TTTGAAAAGTAAATAAAGCT-TCTCTAAACAAAAGCTTAACGAC
1 TTTAAAAAATAAATAAGGCTCTCT-TAAACAGAGGCTCAACAAT
* *
23617778 TTGAAAAAATAAATAAGGCTC-CTCCAAACAGAGGCTCAACAAT
1 TTTAAAAAATAAATAAGGCTCTCT-TAAACAGAGGCTCAACAAT
* * * * ****
23617821 TTCAAAAAGTAAA-ACAGGACTC-CTTTAAACAAAGGCTTAATTGC
1 TTTAAAAAATAAATA-AGG-CTCTC-TTAAACAGAGGCTCAACAAT
* * * ** *
23617865 TTTGATAAATAAATAAGGCTCT-TATAAATAGAGGCTCAATGAC
1 TTTAAAAAATAAATAAGGCTCTCT-TAAACAGAGGCTCAACAAT
* * *
23617908 TTCAAAAAATAAATAAGGCT-TCCCTAAACAGAGGCT-TACAACT
1 TTTAAAAAATAAATAAGGCTCT-CTTAAACAGAGGCTCAACAA-T
* * * *
23617951 TTTAAAAAATAAATAACGCTTTTTTAAATAGAGGCTCA
1 TTTAAAAAATAAATAAGGCTCTCTTAAACAGAGGCTCA
23617989 CGACTTTGGA
Statistics
Matches: 326, Mismatches: 81, Indels: 42
0.73 0.18 0.09
Matches are distributed among these distances:
42 18 0.06
43 162 0.50
44 141 0.43
45 5 0.02
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.28
Consensus pattern (43 bp):
TTTAAAAAATAAATAAGGCTCTCTTAAACAGAGGCTCAACAAT
Found at i:23617662 original size:43 final size:43
Alignment explanation
Indices: 23617546--23617663 Score: 112
Period size: 44 Copynumber: 2.7 Consensus size: 43
23617536 TCTCTTAAAT
* * ** * *
23617546 AAAGGCTCAATAATGTTTAAAAACTAAATAAGGCTTTTCTAAGT
1 AAAGGCTCAACAAT-TTTGAAAACTAAATAAAACTCTTCTAAGC
* * * *
23617590 AGAGGCTCAATGACTTTTGAAAAGTAAATAAAACTCCTT-TAAGC
1 AAAGGCTCAA-CAATTTTGAAAACTAAATAAAACT-CTTCTAAGC
23617634 AAAGGCTCAACAATTTTGAAAACTAAATAA
1 AAAGGCTCAACAATTTTGAAAACTAAATAA
23617664 GGTTCTCTAA
Statistics
Matches: 59, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
43 17 0.29
44 38 0.64
45 4 0.07
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (43 bp):
AAAGGCTCAACAATTTTGAAAACTAAATAAAACTCTTCTAAGC
Found at i:23617679 original size:86 final size:86
Alignment explanation
Indices: 23617521--23617822 Score: 261
Period size: 87 Copynumber: 3.5 Consensus size: 86
23617511 CCATGATTTA
** * * * *
23617521 AAAAATAAATAAGGCT-CTCTTAAATAAAGGCTCAATAATGTTTAAAAACTAAATAAGGCTTTTC
1 AAAAATAAATAAGAATCCTC-TAAACAAAGGCTCAACAAT-TTTGAAAACTAAATAAGG-TTCTC
*
23617585 TAAGTAGAGGCTCAATGACTTTTG
63 TAAGTAGAGGCTCAACGACTTTTG
* * *
23617609 AAAAGTAAATAA-AACTCCTTTAAGCAAAGGCTCAACAATTTTGAAAACTAAATAAGGTTCTCTA
1 AAAAATAAATAAGAA-TCCTCTAAACAAAGGCTCAACAATTTTGAAAACTAAATAAGGTTCTCTA
* * *
23617673 AGTAGAGGTTTAACGATTTTTG
65 AGTAGAGGCTCAACGACTTTTG
* * * * * *
23617695 AAAAATAAATAAGGATCCTCTAAACAGAGGCTTAACGACTTTTGAAAAGTAAATAAAGCTTCTCT
1 AAAAATAAATAAGAATCCTCTAAACAAAGGCTCAAC-AATTTTGAAAACTAAAT-AAGGTTCTCT
** * * *
23617760 AAACAAAAGCTTAACGAC--TTG
64 AAGTAGAGGCTCAACGACTTTTG
** * *
23617781 AAAAAATAAATAAGGCTCCTCCAAACAGAGGCTCAACAATTT
1 -AAAAATAAATAAGAATCCTCTAAACAAAGGCTCAACAATTT
23617823 CAAAAAGTAA
Statistics
Matches: 176, Mismatches: 32, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
86 59 0.34
87 66 0.38
88 49 0.28
89 2 0.01
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (86 bp):
AAAAATAAATAAGAATCCTCTAAACAAAGGCTCAACAATTTTGAAAACTAAATAAGGTTCTCTAA
GTAGAGGCTCAACGACTTTTG
Found at i:23617850 original size:87 final size:87
Alignment explanation
Indices: 23617691--23618015 Score: 236
Period size: 87 Copynumber: 3.8 Consensus size: 87
23617681 TTTAACGATT
* * * ** *
23617691 TTTGAAAAATAAATAAGGATCCTCTAAACAGAGGCTTAACGACTTTTGAAAAGTAAATAAAGCTT
1 TTTGAAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACGAATTTCAAAAAGTAAATAAAGCTC
23617756 CTCTAAACAAAAGCTTAA-CGAC
66 CTCTAAACAAAAGCTTAATCG-C
* *
23617778 -TTGAAAAAATAAATAAGGCTCCTCCAAACAGAGGCTCAAC-AATTTCAAAAAGTAAA-ACAGGA
1 TTTG-AAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACGAATTTCAAAAAGTAAATA-AAG-
* * *
23617840 CTCCTTTAAACAAAGGCTTAATTGC
63 CTCCTCTAAACAAAAGCTTAATCGC
* * * * * * * *
23617865 TTTGATAAATAAATAAGGCTCTTATAAATAGAGGCTCAATG-ACTTCAAAAAATAAATAAGGCTT
1 TTTGAAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACGAATTTCAAAAAGTAAATAAAGC-T
* * * *
23617929 CC-CTAAACAGAGGCTTACAAC-T
65 CCTCTAAACAAAAGCTTA-ATCGC
* * ** * * * ** *
23617951 TTTAAAAAATAAATAACGCTTTTTTAAATAGAGGCTC-ACGACTTTGGAAAA-TAAATAAAGTTC
1 TTTGAAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACGAATTTCAAAAAGTAAATAAAGCTC
23618014 CT
66 CT
23618016 TGACAATCAT
Statistics
Matches: 191, Mismatches: 36, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
84 3 0.02
85 11 0.06
86 70 0.37
87 102 0.53
88 5 0.03
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (87 bp):
TTTGAAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACGAATTTCAAAAAGTAAATAAAGCTC
CTCTAAACAAAAGCTTAATCGC
Found at i:23617984 original size:43 final size:42
Alignment explanation
Indices: 23617871--23618008 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 42
23617861 TTGCTTTGAT
* *
23617871 AAATAAATAAGGCTCTTATAAATAGAGGCTCA-ATGACTTCAAA
1 AAATAAATAAGGCTTTTATAAATAGAGGCTCACA--ACTTTAAA
*** * *
23617914 AAATAAATAAGGCTTCCCTAAACAGAGGCTTACAACTTTTAAA
1 AAATAAATAAGGCTTTTATAAATAGAGGCTCACAAC-TTTAAA
* * * **
23617957 AAATAAATAACGCTTTTTTAAATAGAGGCTCACGACTTTGGA
1 AAATAAATAAGGCTTTTATAAATAGAGGCTCACAACTTTAAA
23617999 AAATAAATAA
1 AAATAAATAA
23618009 AGTTCCTTGA
Statistics
Matches: 77, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 16 0.21
43 60 0.78
44 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (42 bp):
AAATAAATAAGGCTTTTATAAATAGAGGCTCACAACTTTAAA
Found at i:23618321 original size:8 final size:8
Alignment explanation
Indices: 23618299--23618336 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
23618289 GCACTAGACA
*
23618299 TTTTTCTT
1 TTTTTATT
*
23618307 TTCTTATT
1 TTTTTATT
23618315 TTTTTA-T
1 TTTTTATT
23618322 TTTTTATT
1 TTTTTATT
23618330 TTTTTAT
1 TTTTTAT
23618337 GCATTATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTATT
Found at i:23618328 original size:15 final size:16
Alignment explanation
Indices: 23618299--23618336 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
23618289 GCACTAGACA
*
23618299 TTTTTCTTTTCTTATT
1 TTTTTATTTTCTTATT
23618315 TTTTTATTTT-TTATT
1 TTTTTATTTTCTTATT
23618330 TTTTTAT
1 TTTTTAT
23618337 GCATTATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTATTTTCTTATT
Found at i:23625822 original size:8 final size:8
Alignment explanation
Indices: 23625809--23625837 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
23625799 CCTGTTAGAT
23625809 TTTTTTTA
1 TTTTTTTA
23625817 TTTTTTTA
1 TTTTTTTA
23625825 TTTTTTTA
1 TTTTTTTA
23625833 TTTTT
1 TTTTT
23625838 ATTAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:23626397 original size:27 final size:27
Alignment explanation
Indices: 23626366--23626419 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
23626356 TCTAGCCTCA
23626366 GTGATATGTCTCATGCCACCAAGAACT
1 GTGATATGTCTCATGCCACCAAGAACT
* *
23626393 GTGATATGTCTTATGCCTCCAAGAACT
1 GTGATATGTCTCATGCCACCAAGAACT
23626420 TACTTTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (27 bp):
GTGATATGTCTCATGCCACCAAGAACT
Found at i:23628292 original size:24 final size:23
Alignment explanation
Indices: 23628238--23628296 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
23628228 GATAAGTCTG
*
23628238 TTCAAAATAAACAGTTTTAACCA
1 TTCAAAATAAACAGTTTTAACAA
* **
23628261 TTCAAAAATAAACAATTTTTTTCAA
1 TTC-AAAATAAAC-AGTTTTAACAA
23628286 TTCAAAATAAA
1 TTCAAAATAAA
23628297 TAATCATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 3 0.10
24 17 0.57
25 10 0.33
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.34
Consensus pattern (23 bp):
TTCAAAATAAACAGTTTTAACAA
Found at i:23632855 original size:758 final size:757
Alignment explanation
Indices: 23631400--23632916 Score: 2685
Period size: 758 Copynumber: 2.0 Consensus size: 757
23631390 CACTTGGCTC
* *
23631400 GATTTATAATTTGATTATACATCAAACGGATGTAAAGATGGCATTTTTAAATAGTGAATTGGAAT
1 GATTTATAATTTGATTATAAATCAAACGGATGTAAAGATGGCATTTTTAAATAGTGAATTAGAAT
* *
23631465 AAAAAGTATATATGGAACAACTAGAAGGATTTATCATTCCAAGTCAAAAGCATAAGGTTTGTGAG
66 AAAAAGTATATATGAAACAACCAGAAGGATTTATCATTCCAAGTCAAAAGCATAAGGTTTGTGAG
23631530 CTTGAAAATCCTAGTAAGGACTTAAGCAAGCACCAAAACAATGGCACCAAAAGTTTGACGAAATC
131 CTTGAAAATCCTAGTAAGGACTTAAGCAAGCACCAAAACAATGGCACCAAAAGTTTGACGAAATC
* * *
23631595 ATTCTTGCTAATGGTTTTAGAATTAATGATTTCGATAAGTGAATATATAGCAAATTTGAAAATGG
196 ATTCTTGCTAATGGTTTTAGAATTAATGAGTTAGATAAGTGAATATAAAGCAAATTTGAAAATGG
*
23631660 AAAATGAGTCATAATTTGCTTATATGTGGATAATATGCTAATATTTGGCACTGATTCAAAACAAG
261 AAAATGAGTCATAATTTGCTTATATGTGGATAATATGCTAATATTTGGCACTAATTCAAAACAAG
*
23631725 TTAAGGAAACAAAGAAAATTTATCAAATAACTTTTCAATGAAAGATATAGATATAGCATATGTTA
326 TTAAGGAAACAAAGAAAATTTATCAAATAACTTTTCAATGAAAGATATAGATATAGCAGATGTTA
* *
23631790 TTCTTGGAATTAGAATAATCTAGAATGATAGTAGCATAACCTTGTCACAATCTCATTATATTTAA
391 TTCTTGAAATTAGAATAATCTAGAATGATAGTAGCATAACATTGTCACAATCTCATTATATTTAA
* *
23631855 AAAGTATTTTAAAAGTTTGATCTTTTCGATTATATTCCAGTATCTACACCCATGAATTTTTTACT
456 AAAGTACTTTAAAAGTTTGATCTTTTCGATTATATTCCAGTATCTACACCCATGAATTTTTAACT
*
23631920 AAAATTATTATCTAATACTGATAAAACAATTGATCAATTGCAATATACAAGAGTAATTAGTTGTC
521 AAAATTATTATCTAATACTGATAAAACAATCGATCAATTGCAATATACAAGAGTAATTAGTTGTC
* * *
23631985 TGATATATATAATGACATGTACAATGCCAGACATAGCATTTGCTATTGGAAAGTTAAGTAGGTAC
586 TGATATATACAATGACATGTACAATGCCAAACATAGCATTTGCTATTGGAAAGTTAAGTAAGTAC
* *
23632050 ACAAGTAATCCAGATAACTTGCATTGGCAAGCAATTAAAAGAGTATTTTAATATTTAAAGAAAAT
651 ACAAGTAATCCAAATAACTTGCATTGGCAAGCAATTAAAAGAGTATTTCAATATTTAAAGAAAAT
23632115 AATCAATTATGGATTGTGTTATAATAGATATCATTCAATTATA
716 AATCAATTATGGATTGTG-TATAATAGATATCATTCAATTATA
* *
23632158 GATTTATAATTTGATTATAAATCAAATGGATGTAAATATGGCATTTTTAAATAGTGAATTAGAAT
1 GATTTATAATTTGATTATAAATCAAACGGATGTAAAGATGGCATTTTTAAATAGTGAATTAGAAT
*
23632223 AAAAAGTATATATGAAACAACCAGAAGGATTTATCATTCCAAGTTAAAAGCATAAGGTTTGTGAG
66 AAAAAGTATATATGAAACAACCAGAAGGATTTATCATTCCAAGTCAAAAGCATAAGGTTTGTGAG
*
23632288 CTTGAAAATCCTTGTAAGGACTTAAGCAAGCACCAAAACAATGGCACCAAAAGTTTGACGAAATC
131 CTTGAAAATCCTAGTAAGGACTTAAGCAAGCACCAAAACAATGGCACCAAAAGTTTGACGAAATC
*
23632353 ATTCTTGCTAATGGTTTTAGAATTAATGAGTTAGATAAGTGAATATAAAGCAAATTTGAGAATGG
196 ATTCTTGCTAATGGTTTTAGAATTAATGAGTTAGATAAGTGAATATAAAGCAAATTTGAAAATGG
*
23632418 CAAATGAGTCATAATTTGCTTATATGTGGATAATATGCTAATATTTGGCACTAATTCAAAACAAG
261 AAAATGAGTCATAATTTGCTTATATGTGGATAATATGCTAATATTTGGCACTAATTCAAAACAAG
* * * *
23632483 TTAAGGAAACAAAGAAAATTTTATCAAATAACTTTTCAATGAAAGATATGGGTGTAGTAGATGTT
326 TTAAGGAAACAAAGAAAA-TTTATCAAATAACTTTTCAATGAAAGATATAGATATAGCAGATGTT
23632548 ATTCTTGAAATTAGAATAATCTAGAATGAT-GTAGCATAACATTGTCACAATCTCATTATATTTA
390 ATTCTTGAAATTAGAATAATCTAGAATGATAGTAGCATAACATTGTCACAATCTCATTATATTTA
*
23632612 AAAAGTACTTTAAAAGTTTGATCTTTTCGATTATATTCCAGTATCTACACCCATGGATTTTTAAC
455 AAAAGTACTTTAAAAGTTTGATCTTTTCGATTATATTCCAGTATCTACACCCATGAATTTTTAAC
23632677 TAAAATTATTATCTAATACTGATAAAACAATCGATCAATTGCAATATACAAGAGTAATTAGTTGT
520 TAAAATTATTATCTAATACTGATAAAACAATCGATCAATTGCAATATACAAGAGTAATTAGTTGT
* *
23632742 CTGATGTATACAATGACTTGTACAATGCCAAACATAGCATTTGCTATTGGAAAGTTAAGTAAGTA
585 CTGATATATACAATGACATGTACAATGCCAAACATAGCATTTGCTATTGGAAAGTTAAGTAAGTA
*
23632807 CACAAGTAATCCAAATAACTTGCATTGGCAAGCAGTTAAAAGAGTATTTCAATATTTAAAGAAAA
650 CACAAGTAATCCAAATAACTTGCATTGGCAAGCAATTAAAAGAGTATTTCAATATTTAAAGAAAA
* * *
23632872 TAATCAATTATGGATTGTGTATAATGGATATCCTTCAGTTATA
715 TAATCAATTATGGATTGTGTATAATAGATATCATTCAATTATA
23632915 GA
1 GA
23632917 AGGATATTCT
Statistics
Matches: 722, Mismatches: 36, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
757 23 0.03
758 629 0.87
759 70 0.10
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (757 bp):
GATTTATAATTTGATTATAAATCAAACGGATGTAAAGATGGCATTTTTAAATAGTGAATTAGAAT
AAAAAGTATATATGAAACAACCAGAAGGATTTATCATTCCAAGTCAAAAGCATAAGGTTTGTGAG
CTTGAAAATCCTAGTAAGGACTTAAGCAAGCACCAAAACAATGGCACCAAAAGTTTGACGAAATC
ATTCTTGCTAATGGTTTTAGAATTAATGAGTTAGATAAGTGAATATAAAGCAAATTTGAAAATGG
AAAATGAGTCATAATTTGCTTATATGTGGATAATATGCTAATATTTGGCACTAATTCAAAACAAG
TTAAGGAAACAAAGAAAATTTATCAAATAACTTTTCAATGAAAGATATAGATATAGCAGATGTTA
TTCTTGAAATTAGAATAATCTAGAATGATAGTAGCATAACATTGTCACAATCTCATTATATTTAA
AAAGTACTTTAAAAGTTTGATCTTTTCGATTATATTCCAGTATCTACACCCATGAATTTTTAACT
AAAATTATTATCTAATACTGATAAAACAATCGATCAATTGCAATATACAAGAGTAATTAGTTGTC
TGATATATACAATGACATGTACAATGCCAAACATAGCATTTGCTATTGGAAAGTTAAGTAAGTAC
ACAAGTAATCCAAATAACTTGCATTGGCAAGCAATTAAAAGAGTATTTCAATATTTAAAGAAAAT
AATCAATTATGGATTGTGTATAATAGATATCATTCAATTATA
Found at i:23634088 original size:25 final size:24
Alignment explanation
Indices: 23634040--23634102 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
23634030 AATAAGTTTG
*
23634040 TTCAAAATAAACAG-TTTTAACTA
1 TTCAAAATAGACAGTTTTTAACTA
**
23634063 TTCAAAAATAGACAGTTTTTGTCTA
1 TTC-AAAATAGACAGTTTTTAACTA
23634088 TTCAAAATAGACAGT
1 TTCAAAATAGACAGT
23634103 CATGTCTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.09
24 22 0.63
25 10 0.29
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.35
Consensus pattern (24 bp):
TTCAAAATAGACAGTTTTTAACTA
Found at i:23637509 original size:20 final size:19
Alignment explanation
Indices: 23637472--23637510 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
23637462 TTAATTTATC
*
23637472 AATTTTAATTTTTAAATTT
1 AATTTTAATTTTGAAATTT
*
23637491 AATTTTTATTTTGATAATTT
1 AATTTTAATTTTGA-AATTT
23637511 TTAATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
AATTTTAATTTTGAAATTT
Found at i:23638004 original size:18 final size:18
Alignment explanation
Indices: 23637981--23638016 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23637971 TCATACGAAT
23637981 ACATATTTAATATATTTA
1 ACATATTTAATATATTTA
**
23637999 ACATATTTTTTATATTTA
1 ACATATTTAATATATTTA
23638017 TTTTAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
ACATATTTAATATATTTA
Found at i:23638065 original size:45 final size:41
Alignment explanation
Indices: 23638018--23638140 Score: 106
Period size: 43 Copynumber: 2.9 Consensus size: 41
23638008 TTATATTTAT
23638018 TTTAATTTAATATAAACATATAAAGATTGTTTTAATTTTTAAAAT
1 TTTAATTTAATATAAACATATAAAGATT-TTTTAATTTTT---AT
* * * * * * *
23638063 TTTAATAT-GT-TTAACATATTTAACATTTTGTTTATATTTAT
1 TTTAATTTAATATAAACATA-TAAAGATTTT-TTAATTTTTAT
23638104 TTTAATTTAATATAAACATATAAAGATTATTTTAATT
1 TTTAATTTAATATAAACATATAAAGATT-TTTTAATT
23638141 AGCTATTTAA
Statistics
Matches: 59, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
41 9 0.15
42 11 0.19
43 18 0.31
44 14 0.24
45 7 0.12
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (41 bp):
TTTAATTTAATATAAACATATAAAGATTTTTTAATTTTTAT
Found at i:23638169 original size:86 final size:84
Alignment explanation
Indices: 23637983--23638140 Score: 228
Period size: 86 Copynumber: 1.9 Consensus size: 84
23637973 ATACGAATAC
* * *
23637983 ATATTTAATATATTTAACATATTTTTTATATTTATTTTAATTTAATATAAACATATAAAGATTGT
1 ATATTAAAAATATTTAACATATTTTTTATATTTATTTTAATTTAATATAAACATATAAAGATTAT
23638048 TTTAATTTTTAAAATTTTAAT
66 TTTAA--TTTAAAATTTTAAT
* * *
23638069 ATGTTTAACATATTTAACAT-TTTGTTTATATTTATTTTAATTTAATATAAACATATAAAGATTA
1 ATATTAAAAATATTTAACATATTT-TTTATATTTATTTTAATTTAATATAAACATATAAAGATTA
23638133 TTTTAATT
65 TTTTAATT
23638141 AGCTATTTAA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
84 2 0.03
85 3 0.04
86 63 0.93
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (84 bp):
ATATTAAAAATATTTAACATATTTTTTATATTTATTTTAATTTAATATAAACATATAAAGATTAT
TTTAATTTAAAATTTTAAT
Found at i:23638178 original size:30 final size:32
Alignment explanation
Indices: 23638120--23638181 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
23638110 TTAATATAAA
*
23638120 CATATAAAGATTATTTTAATTAGCTATTTAATAT
1 CATATAAAAATTATTTTAA-TA-CTATTTAATAT
23638154 CATATAAAAATTATTTTAA-A-TATTTAAT
1 CATATAAAAATTATTTTAATACTATTTAAT
23638182 TATGATACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 8 0.30
32 1 0.04
34 18 0.67
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (32 bp):
CATATAAAAATTATTTTAATACTATTTAATAT
Done.