Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 99 of 105
Found at i:17898560 original size:162 final size:164
Alignment explanation
Indices: 17898361--17898662 Score: 493
Period size: 162 Copynumber: 1.9 Consensus size: 164
17898351 CTTAATTTTT
17898361 TTAATAGAATTAGAAAAAATATGCACCTAATTGATTTTATAATTTGAAATTAAAAATTTTC-AGT
1 TTAATAGAATTAGAAAAAATATGCACCTAATTGATTTTATAATTTGAAATTAAAAATTTTCAAG-
17898425 AAAAATGTAATAATTAATT-A-ATAATATTTTATATTTTTCATTTTTAATTAATTATTTGAAGTC
65 AAAAATGTAATAATTAATTAATATAATATTTTATATTTTTCATTTTTAATTAATTATTTGAAGTC
17898488 AATATTTATTTTTTTGAAGTTAATGTAAAATATTA
130 AATATTTATTTTTTTGAAGTTAATGTAAAATATTA
* ** * * * *
17898523 TTAATAGAATTTGAAAGTATATGTATCTAATTGATTTTATAATTTGGAATTAAAATTTTTCAAGA
1 TTAATAGAATTAGAAAAAATATGCACCTAATTGATTTTATAATTTGAAATTAAAAATTTTCAAGA
**
17898588 AAAATGTAATAATTAATTAATATAATATTTTATATTTTTCATTTTTGGTTAATTATTTGAAGTCA
66 AAAATGTAATAATTAATTAATATAATATTTTATATTTTTCATTTTTAATTAATTATTTGAAGTCA
17898653 ATATTTATTT
131 ATATTTATTT
17898663 AATAAAATTT
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
162 73 0.57
163 3 0.02
164 52 0.41
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (164 bp):
TTAATAGAATTAGAAAAAATATGCACCTAATTGATTTTATAATTTGAAATTAAAAATTTTCAAGA
AAAATGTAATAATTAATTAATATAATATTTTATATTTTTCATTTTTAATTAATTATTTGAAGTCA
ATATTTATTTTTTTGAAGTTAATGTAAAATATTA
Found at i:17906303 original size:3 final size:3
Alignment explanation
Indices: 17906295--17906320 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17906285 ATCTTTCTTG
17906295 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
17906321 TTCCTTCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:17916510 original size:41 final size:41
Alignment explanation
Indices: 17916458--17916547 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 41
17916448 TGTATAAAGC
* *
17916458 ATTATAAGCATCAAATATGAGCAAAAGCTTCAAGATAATATG
1 ATTAT-AGCATCAAATATGAGCAAAAGCCTCAAGATAAGATG
*
17916500 ATTATAGCATCAAATATGAGCAACAGCCTCAAGATAAGATG
1 ATTATAGCATCAAATATGAGCAAAAGCCTCAAGATAAGATG
*
17916541 AATATAG
1 ATTATAG
17916548 ATTCTGTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 39 0.89
42 5 0.11
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (41 bp):
ATTATAGCATCAAATATGAGCAAAAGCCTCAAGATAAGATG
Found at i:17934855 original size:21 final size:22
Alignment explanation
Indices: 17934816--17934869 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
17934806 ATCCGAAATT
17934816 AATAAAATATTACTTTTTAAAA
1 AATAAAATATTACTTTTTAAAA
*
17934838 TATAAAATATTA-TTTTTAAAA
1 AATAAAATATTACTTTTTAAAA
17934859 AATAAATATAT
1 AATAAA-ATAT
17934870 AAATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AATAAAATATTACTTTTTAAAA
Found at i:17936599 original size:19 final size:19
Alignment explanation
Indices: 17936575--17936612 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17936565 CATAGAAATT
17936575 ATGTTTTTTTTATTGAACA
1 ATGTTTTTTTTATTGAACA
17936594 ATGTTTTTTTTATTGAACA
1 ATGTTTTTTTTATTGAACA
17936613 TTCTTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (19 bp):
ATGTTTTTTTTATTGAACA
Found at i:17941784 original size:31 final size:31
Alignment explanation
Indices: 17941749--17941811 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
17941739 ACATGAAATT
17941749 AAATATTAAGTATTTATCAATAATAAATCAA
1 AAATATTAAGTATTTATCAATAATAAATCAA
17941780 AAATATTAAGTATTTATCAATAATAAATCAA
1 AAATATTAAGTATTTATCAATAATAAATCAA
17941811 A
1 A
17941812 CTTACTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (31 bp):
AAATATTAAGTATTTATCAATAATAAATCAA
Found at i:17950319 original size:20 final size:20
Alignment explanation
Indices: 17950296--17950334 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17950286 ATTAAATAAA
*
17950296 ATTTTAAATTAAAAATCATC
1 ATTTTAAATCAAAAATCATC
* *
17950316 ATTTTGAATCCAAAATCAT
1 ATTTTAAATCAAAAATCAT
17950335 ACATATGGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (20 bp):
ATTTTAAATCAAAAATCATC
Found at i:17951047 original size:48 final size:48
Alignment explanation
Indices: 17950992--17951089 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
17950982 TTGTAATAAC
17950992 TATAGAAAAAGATAGGGATGAACCGACTTGGTCCTACTCTTTACTTTA
1 TATAGAAAAAGATAGGGATGAACCGACTTGGTCCTACTCTTTACTTTA
17951040 TATAGAAAAAGATAGGGATGAACCGACTTGGTCCTACTCTTTACTTTA
1 TATAGAAAAAGATAGGGATGAACCGACTTGGTCCTACTCTTTACTTTA
17951088 TA
1 TA
17951090 ATCATTTTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (48 bp):
TATAGAAAAAGATAGGGATGAACCGACTTGGTCCTACTCTTTACTTTA
Found at i:17952878 original size:2 final size:2
Alignment explanation
Indices: 17952871--17952898 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17952861 ATCACATGAG
17952871 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17952899 GAGCAATCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17960975 original size:6 final size:6
Alignment explanation
Indices: 17960960--17960991 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
17960950 AAAAAAGGTT
*
17960960 GACGAA GACGAG GACGAA GACGAA GACGAA GA
1 GACGAA GACGAA GACGAA GACGAA GACGAA GA
17960992 AGAGTGAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.38, T:0.00
Consensus pattern (6 bp):
GACGAA
Found at i:17965570 original size:2 final size:2
Alignment explanation
Indices: 17965565--17965602 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
17965555 TCCTTCTGGG
*
17965565 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17965603 TGTTTTGGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17970427 original size:2 final size:2
Alignment explanation
Indices: 17970420--17970540 Score: 124
Period size: 2 Copynumber: 61.5 Consensus size: 2
17970410 CATGAGTAGA
* * *
17970420 AT AT AT AT AT AT AT AT AT AT GT AT TT AT AT AT CT AT A- AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * *
17970462 -T A- AT AT AT AT AT AT GT AT AT ACT -T AT AG AT AT AT AA AT AC
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
*
17970502 AT AT AT AT AT GT 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 AT AT AT AT AT AT A
17970541 AGTAGAATTA
Statistics
Matches: 97, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
1 4 0.04
2 91 0.94
3 2 0.02
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17971005 original size:2 final size:2
Alignment explanation
Indices: 17970998--17971029 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
17970988 CACGGGATAA
*
17970998 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17971030 GTTTTAGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17971009 original size:10 final size:10
Alignment explanation
Indices: 17970994--17971026 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
17970984 CATTCACGGG
17970994 ATAAATATAT
1 ATAAATATAT
17971004 ATAAATATAT
1 ATAAATATAT
*
17971014 ATATATATAT
1 ATAAATATAT
17971024 ATA
1 ATA
17971027 TATGTTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATAAATATAT
Found at i:17979003 original size:18 final size:16
Alignment explanation
Indices: 17978972--17979007 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
17978962 TTTGGGTCCA
17978972 TTATTTCGATTTTATT
1 TTATTTCGATTTTATT
17978988 TTATTTCGTTATTTTATT
1 TTATTTCG--ATTTTATT
17979006 TT
1 TT
17979008 TTGAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.72
Consensus pattern (16 bp):
TTATTTCGATTTTATT
Found at i:17981701 original size:16 final size:16
Alignment explanation
Indices: 17981682--17981712 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17981672 ATTCATTAAT
*
17981682 TTAATTATTTATGAAC
1 TTAAGTATTTATGAAC
17981698 TTAAGTATTTATGAA
1 TTAAGTATTTATGAA
17981713 TCTATGATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (16 bp):
TTAAGTATTTATGAAC
Found at i:17983313 original size:18 final size:19
Alignment explanation
Indices: 17983272--17983313 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
17983262 CTTTTTATCA
*
17983272 TTTAAAATTAATTAAATAT
1 TTTAAAATTAATTAAAAAT
* *
17983291 ATTAAAA-TAGTTAAAAAT
1 TTTAAAATTAATTAAAAAT
17983309 TTTAA
1 TTTAA
17983314 GTTATCCAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TTTAAAATTAATTAAAAAT
Found at i:17983401 original size:282 final size:281
Alignment explanation
Indices: 17982957--17983474 Score: 928
Period size: 282 Copynumber: 1.8 Consensus size: 281
17982947 TTTCTAATAA
*
17982957 TTTATATATACAATTTAAATATATCTTTTTATCTTTTAAAATTAATCAAATAAATAAAAATAGTT
1 TTTATATATACAATTTAAATATATCTTTTTATCATTTAAAATTAATCAAATAAATAAAAATAGTT
17983022 AAAAATTTTAAGTTATCCAAAAATAATTTCTAATAATATATAATTTAAACATATATCTTTTTATC
66 AAAAATTTTAAGTTATCCAAAAATAATTTCTAATAATATATAATTTAAACATATATCTTTTTATC
*
17983087 TTCTAAAATTAATTTACTAATAATTCTATGATATTTATCAAATAAATAAAAGTATTAAAAAATTA
131 TTCTAAAATTAATTTACTAATAATTCTATGATATTTATCAAATAAATAAAAGCATTAAAAAATTA
*
17983152 TTAGTTATCCAACATTAATTTTCTAATAATTTAAATATATATCTTTTACCTTTAAAATTAATTTT
196 TTAGTTATCCAACATTAATTTTCTAATAATTTAAACATATATCTTTTACCTTTAAAATTAATTTT
17983217 TTAATAATTAGATATCTATTT
261 TTAATAATTAGATATCTATTT
* * *
17983238 TTTATATATACAATTTAAATATATCTTTTTATCATTTAAAATTAATTAAATATATTAAAATAGTT
1 TTTATATATACAATTTAAATATATCTTTTTATCATTTAAAATTAATCAAATAAATAAAAATAGTT
* *
17983303 AAAAATTTTAAGTTATCCAAAATTAATTTTCTAATAATATATAATTTAAATATATATCTTTTTAT
66 AAAAATTTTAAGTTATCCAAAAATAA-TTTCTAATAATATATAATTTAAACATATATCTTTTTAT
* * *
17983368 CTTTTAAAATTAATTTACTAATAATTTTATGATATTTATCAAATACATAAAAGCATTAAAAAATT
130 CTTCTAAAATTAATTTACTAATAATTCTATGATATTTATCAAATAAATAAAAGCATTAAAAAATT
17983433 ATTAGTTATCCAACATTAATTTTCTAATAATTTAAACATATA
195 ATTAGTTATCCAACATTAATTTTCTAATAATTTAAACATATA
17983475 ATTTAAATAT
Statistics
Matches: 225, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
281 86 0.38
282 139 0.62
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.46
Consensus pattern (281 bp):
TTTATATATACAATTTAAATATATCTTTTTATCATTTAAAATTAATCAAATAAATAAAAATAGTT
AAAAATTTTAAGTTATCCAAAAATAATTTCTAATAATATATAATTTAAACATATATCTTTTTATC
TTCTAAAATTAATTTACTAATAATTCTATGATATTTATCAAATAAATAAAAGCATTAAAAAATTA
TTAGTTATCCAACATTAATTTTCTAATAATTTAAACATATATCTTTTACCTTTAAAATTAATTTT
TTAATAATTAGATATCTATTT
Found at i:17983523 original size:22 final size:21
Alignment explanation
Indices: 17983498--17983548 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
17983488 TCTTTTATCT
17983498 TTTAAAATCAATTTTTCAATAA
1 TTTAAAATCAATTTTTCAA-AA
* * *
17983520 TTTAGATATCTATTTTTTAAAA
1 TTTA-AAATCAATTTTTCAAAA
17983542 TTTAAAA
1 TTTAAAA
17983549 ATATCAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.08
22 10 0.42
23 12 0.50
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAAAATCAATTTTTCAAAA
Found at i:17984503 original size:127 final size:128
Alignment explanation
Indices: 17984273--17984503 Score: 304
Period size: 127 Copynumber: 1.8 Consensus size: 128
17984263 GGAAAATTTC
* * ** *
17984273 TAATTTTATAGTATTTATCAACTAAATAAAAATATTTAAAAATTATTAGTTATTTAAAATTAATT
1 TAATTTTATAGTATTTATCAAATAAATAAAAATATTTAAAAATTATTAGCTATCCAAAATTAATC
* * **
17984338 TTTTTACTAATTTACATATACAATATAATATGTATTTTTTATCGCATAAAATTAATTTTCTAA
66 TTTCTAATAATTTACATATACAATATAATACATATTTTTTATCGCATAAAATTAATTTTCTAA
* * *
17984401 TAATTTTATGGTATTTGTCAAATAAAT-AAAGTATTTAAAAATTATTAGCTATCCAAAATTAA-C
1 TAATTTTATAGTATTTATCAAATAAATAAAAATATTTAAAAATTATTAGCTATCCAAAATTAATC
* * *
17984464 TTTCTAATAATTTATATATACAATTTAAATACATCTTTTT
66 TTTCTAATAATTTACATATACAATAT-AATACATATTTTT
17984504 ATCTTTTAAA
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
126 22 0.25
127 41 0.47
128 24 0.28
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.46
Consensus pattern (128 bp):
TAATTTTATAGTATTTATCAAATAAATAAAAATATTTAAAAATTATTAGCTATCCAAAATTAATC
TTTCTAATAATTTACATATACAATATAATACATATTTTTTATCGCATAAAATTAATTTTCTAA
Found at i:17984519 original size:126 final size:128
Alignment explanation
Indices: 17984273--17984506 Score: 312
Period size: 126 Copynumber: 1.8 Consensus size: 128
17984263 GGAAAATTTC
* * ** *
17984273 TAATTTTATAGTATTTATCAACTAAATAAAAATATTTAAAAATTATTAGTTATTTAAAATTAATT
1 TAATTTTATAGTATTTATCAAATAAATAAAAATATTTAAAAATTATTAGCTATCCAAAATTAATC
* * **
17984338 TTTTTACTAATTTACATATACAATATAATATGTATTTTTTATCGCATAAAATTAATTTTCTAA
66 TTTCTAATAATTTACATATACAATATAATATACATTTTTTATCGCATAAAATTAATTTTCTAA
* * *
17984401 TAATTTTATGGTATTTGTCAAATAAAT-AAAGTATTTAAAAATTATTAGCTATCCAAAATTAA-C
1 TAATTTTATAGTATTTATCAAATAAATAAAAATATTTAAAAATTATTAGCTATCCAAAATTAATC
* *
17984464 TTTCTAATAATTTATATATACAATTTAA-ATACATCTTTTTATC
66 TTTCTAATAATTTACATATACAATATAATATACAT-TTTTTATC
17984507 TTTTAAAATT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
125 4 0.04
126 32 0.35
127 31 0.34
128 24 0.26
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (128 bp):
TAATTTTATAGTATTTATCAAATAAATAAAAATATTTAAAAATTATTAGCTATCCAAAATTAATC
TTTCTAATAATTTACATATACAATATAATATACATTTTTTATCGCATAAAATTAATTTTCTAA
Found at i:17984823 original size:27 final size:28
Alignment explanation
Indices: 17984757--17984823 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 28
17984747 TAAAAATAAT
*
17984757 TTTTTAATAATTTAGATATCTATTTTTTA
1 TTTTTAA-AATTTAGATATATATTTTTTA
* * *
17984786 TGTATAGAATTTA-A-ATATATCTTTTTA
1 TTTTTAAAATTTAGATATATAT-TTTTTA
17984813 TTTTTAAAATT
1 TTTTTAAAATT
17984824 AATTAAATAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
26 5 0.17
27 15 0.50
28 6 0.20
29 4 0.13
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.58
Consensus pattern (28 bp):
TTTTTAAAATTTAGATATATATTTTTTA
Found at i:17984958 original size:127 final size:123
Alignment explanation
Indices: 17984828--17985063 Score: 307
Period size: 127 Copynumber: 1.9 Consensus size: 123
17984818 AAAATTAATT
* *
17984828 AAATAAATAAAAATAGTT-AAAAATTTTAATTTATCCAAAATTAATTTTCTAATAA-T-ATATAA
1 AAATAAATAAAAATA-TTAAAAAATATT-AGTTATCCAAAATTAATTTTCTAATAATTAATATAA
*
17984890 TTTAAATATATATCATTTTATATTTTAAAATTAATTTACTAATAATTCCATGATATTTATC
64 TTTAAAAATATATC-TTTTATATTTTAAAATTAATTTACTAATAATTCCATGATATTTATC
** *
17984951 AAATAAATAAAAATATTAAAAAATATTAGTTATTTAACATTAATTTTCTAATAATTTAAACATAT
1 AAATAAATAAAAATATTAAAAAATATTAGTTATCCAAAATTAATTTTCTAATAA-TT--A-ATAT
* **
17985016 AATTTAAAAATATATCTTTTATCTTTTAAAATTAATTTTTTAATAATT
62 AATTTAAAAATATATCTTTTATATTTTAAAATTAATTTACTAATAATT
17985064 TAGATATCTA
Statistics
Matches: 97, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
122 25 0.26
123 23 0.24
124 1 0.01
127 29 0.30
128 19 0.20
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (123 bp):
AAATAAATAAAAATATTAAAAAATATTAGTTATCCAAAATTAATTTTCTAATAATTAATATAATT
TAAAAATATATCTTTTATATTTTAAAATTAATTTACTAATAATTCCATGATATTTATC
Found at i:17985065 original size:22 final size:22
Alignment explanation
Indices: 17985014--17985090 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
17985004 ATTTAAACAT
* *
17985014 ATAATTTAAAAATATATCTTTT-
1 ATAATTTAAAATTA-ATTTTTTA
**
17985036 ATCTTTTAAAATTAATTTTTTA
1 ATAATTTAAAATTAATTTTTTA
*
17985058 ATAATTTAGATATCT-ATTTTTTA
1 ATAATTTA-AAAT-TAATTTTTTA
17985081 A-AATTTAAAA
1 ATAATTTAAAA
17985091 ATATCAAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
21 8 0.18
22 23 0.52
23 12 0.27
24 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (22 bp):
ATAATTTAAAATTAATTTTTTA
Found at i:17986400 original size:16 final size:15
Alignment explanation
Indices: 17986375--17986410 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
17986365 AATATTCAAC
17986375 AAAA-ATAAATAAATT
1 AAAATATAAATAAA-T
17986390 AAAATATAAATAAAT
1 AAAATATAAATAAAT
17986405 AAAATA
1 AAAATA
17986411 AAAAATTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATATAAATAAAT
Found at i:17986416 original size:16 final size:16
Alignment explanation
Indices: 17986381--17986414 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
17986371 CAACAAAAAT
*
17986381 AAATAAATTAAAATAT
1 AAATAAATTAAAATAA
17986397 AAATAAA-TAAAATAA
1 AAATAAATTAAAATAA
17986412 AAA
1 AAA
17986415 ATTAGGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAAATTAAAATAA
Found at i:17993783 original size:51 final size:51
Alignment explanation
Indices: 17993719--17993821 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 51
17993709 CATAAACCTA
17993719 AATAAAGGTAAGGACAAAAACTTTTGATTTAATTTGATATATGTAATTATT
1 AATAAAGGTAAGGACAAAAACTTTTGATTTAATTTGATATATGTAATTATT
* ** * *
17993770 AATAAA-GTCAAGGATAAAATTTTTTTATTTGATTTGATATATGTAATTATT
1 AATAAAGGT-AAGGACAAAAACTTTTGATTTAATTTGATATATGTAATTATT
17993821 A
1 A
17993822 GATGGTAACT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 2 0.04
51 44 0.96
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.43
Consensus pattern (51 bp):
AATAAAGGTAAGGACAAAAACTTTTGATTTAATTTGATATATGTAATTATT
Found at i:17995940 original size:3 final size:3
Alignment explanation
Indices: 17995932--17995976 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
17995922 TACATTAGTT
17995932 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17995977 ATCACATACT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17998047 original size:35 final size:35
Alignment explanation
Indices: 17998001--17998071 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
17997991 TTATATATGC
17998001 GAAGTCAGTTGT-GTATTTATGCCAAGAAAACATTT
1 GAAGTCAGTTGTAG-ATTTATGCCAAGAAAACATTT
* * *
17998036 GAAGTCAGTTGTAGGTTTATGCCTAGATAACATTT
1 GAAGTCAGTTGTAGATTTATGCCAAGAAAACATTT
17998071 G
1 G
17998072 GTTTATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 31 0.97
36 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (35 bp):
GAAGTCAGTTGTAGATTTATGCCAAGAAAACATTT
Found at i:17999046 original size:3 final size:3
Alignment explanation
Indices: 17999038--17999078 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
17999028 TCTTATGAGA
17999038 ATT 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 ATT AT
17999079 ATCACATACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18000860 original size:14 final size:15
Alignment explanation
Indices: 18000834--18000865 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
18000824 CTTTTTTTGG
18000834 ATTTGTGAAGGGATT
1 ATTTGTGAAGGGATT
18000849 ATTTGT-AAGGGATT
1 ATTTGTGAAGGGATT
18000863 ATT
1 ATT
18000866 CTAGGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (15 bp):
ATTTGTGAAGGGATT
Found at i:18001365 original size:22 final size:22
Alignment explanation
Indices: 18001324--18001365 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18001314 ATAATATATA
**
18001324 CCAATAATATTAAACTAATACC
1 CCAATAATATTAAAAAAATACC
*
18001346 CCAATAATTTTAAAAAAATA
1 CCAATAATATTAAAAAAATA
18001366 TTCATATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.29
Consensus pattern (22 bp):
CCAATAATATTAAAAAAATACC
Found at i:18001780 original size:21 final size:21
Alignment explanation
Indices: 18001741--18001780 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18001731 TACATTAGTT
***
18001741 ACAAATATAAAATGCATTCAA
1 ACAAATATAAAAAAAATTCAA
18001762 ACAAATATAAAAAAAATTC
1 ACAAATATAAAAAAAATTC
18001781 GAATTGAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (21 bp):
ACAAATATAAAAAAAATTCAA
Found at i:18001931 original size:20 final size:20
Alignment explanation
Indices: 18001908--18001948 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
18001898 AAACCATTAA
18001908 AATT-ATATTAAAATCTAATT
1 AATTAATATTAAAAT-TAATT
*
18001928 AATTAATTTTAAAATTAATT
1 AATTAATATTAAAATTAATT
18001948 A
1 A
18001949 GAATCTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTAATATTAAAATTAATT
Found at i:18002998 original size:20 final size:20
Alignment explanation
Indices: 18002975--18003018 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
18002965 ATTTTTTTTT
*
18002975 TTGAAAAATTTGCTTTTTAA
1 TTGAAAAATTTGCATTTTAA
*
18002995 TTG-AAATTTTGCATTTTAA
1 TTGAAAAATTTGCATTTTAA
18003014 TTGAA
1 TTGAA
18003019 TCGATTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (20 bp):
TTGAAAAATTTGCATTTTAA
Found at i:18004738 original size:7 final size:7
Alignment explanation
Indices: 18004726--18004764 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
18004716 TGTATTCTTC
18004726 TTTGTTT
1 TTTGTTT
18004733 TTTGTTT
1 TTTGTTT
18004740 GTTTGTTT
1 -TTTGTTT
18004748 TTT-TTT
1 TTTGTTT
*
18004754 TTTTTTT
1 TTTGTTT
18004761 TTTG
1 TTTG
18004765 CAAAACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (7 bp):
TTTGTTT
Found at i:18004746 original size:15 final size:14
Alignment explanation
Indices: 18004726--18004764 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
18004716 TGTATTCTTC
18004726 TTTGTTTTTTGTTT
1 TTTGTTTTTTGTTT
18004740 GTTTGTTTTTT-TTT
1 -TTTGTTTTTTGTTT
*
18004754 TTTTTTTTTTG
1 TTTGTTTTTTG
18004765 CAAAACTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 9 0.41
14 3 0.14
15 10 0.45
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (14 bp):
TTTGTTTTTTGTTT
Found at i:18005298 original size:15 final size:15
Alignment explanation
Indices: 18005265--18005306 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
18005255 ATAATATATA
18005265 ATAATATTAATAT-AAT
1 ATAATATT--TATGAAT
*
18005281 ATATTATTTATGAAT
1 ATAATATTTATGAAT
18005296 ATAATATTTAT
1 ATAATATTTAT
18005307 ATAGTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 3 0.13
15 13 0.57
16 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATAATATTTATGAAT
Found at i:18005337 original size:19 final size:19
Alignment explanation
Indices: 18005249--18005337 Score: 51
Period size: 19 Copynumber: 4.7 Consensus size: 19
18005239 ACTCAGCTTG
* * *
18005249 TTATTAATAATATATAATA
1 TTATTAATAAAATATTATT
*
18005268 ATATTAATATAATATATTA-T
1 TTATTAATA-AA-ATATTATT
* *
18005288 TTATGAATATAATA-T-TT
1 TTATTAATAAAATATTATT
* *
18005305 ATA-TAGTAAAAATATTATT
1 TTATTAAT-AAAATATTATT
18005324 TTATTAATAAAATA
1 TTATTAATAAAATA
18005338 ATTGTAGCAT
Statistics
Matches: 50, Mismatches: 13, Indels: 14
0.65 0.17 0.18
Matches are distributed among these distances:
16 2 0.04
17 9 0.18
18 4 0.08
19 19 0.38
20 11 0.22
21 5 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TTATTAATAAAATATTATT
Found at i:18011163 original size:23 final size:23
Alignment explanation
Indices: 18011137--18011185 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
18011127 ATCAAAAAGC
18011137 TTAGAACAATGCTACTTCCTTAA
1 TTAGAACAATGCTACTTCCTTAA
18011160 TTAGAACAATGCTACTTCCTTAA
1 TTAGAACAATGCTACTTCCTTAA
18011183 TTA
1 TTA
18011186 TGAAATTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (23 bp):
TTAGAACAATGCTACTTCCTTAA
Found at i:18017071 original size:19 final size:18
Alignment explanation
Indices: 18017031--18017085 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
18017021 TAATAATTTT
18017031 AAATTAAATATAAAAAATAA
1 AAATT-AAT-TAAAAAATAA
*
18017051 AAATTAATTAAAAAGTAA
1 AAATTAATTAAAAAATAA
* * *
18017069 AAAATGATTTAAAAATA
1 AAATTAATTAAAAAATA
18017086 TTAATTATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 22 0.73
19 3 0.10
20 5 0.17
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATTAATTAAAAAATAA
Found at i:18017146 original size:26 final size:25
Alignment explanation
Indices: 18017105--18017156 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
18017095 GAGCTAATTA
18017105 AAAATATATTTATTA-TCTTTAAGT
1 AAAATATATTTATTATTCTTTAAGT
* *
18017129 AAAATCATAATTTTTTATTTTTTAAGT
1 AAAAT-AT-ATTTATTATTCTTTAAGT
18017156 A
1 A
18017157 GTAAAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.22
25 2 0.09
26 7 0.30
27 9 0.39
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (25 bp):
AAAATATATTTATTATTCTTTAAGT
Found at i:18019312 original size:16 final size:18
Alignment explanation
Indices: 18019281--18019316 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
18019271 AAAAAAATGG
18019281 ATAAATATTCAAAGATAA
1 ATAAATATTCAAAGATAA
18019299 ATAAA-ATT-AAAGATAA
1 ATAAATATTCAAAGATAA
18019315 AT
1 AT
18019317 CATAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 3 0.17
18 5 0.28
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.28
Consensus pattern (18 bp):
ATAAATATTCAAAGATAA
Found at i:18022374 original size:3 final size:3
Alignment explanation
Indices: 18022366--18022408 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
18022356 CAACTCCGAT
18022366 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
18022409 ATTTTTCAAG
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:18024173 original size:28 final size:29
Alignment explanation
Indices: 18024124--18024191 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 29
18024114 AATTTTAAAA
**
18024124 AATTAAAA-AAATATATTTTATAT-TTTT
1 AATTAAAATAAATATATGATATATATTTT
18024151 ATATTAAAATAAAT-TATGATATATAATTTT
1 A-ATTAAAATAAATATATGATATAT-ATTTT
18024181 AATATAAAATA
1 AAT-TAAAATA
18024192 TAAAATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 15 0.44
29 6 0.18
30 12 0.35
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
AATTAAAATAAATATATGATATATATTTT
Found at i:18024197 original size:62 final size:60
Alignment explanation
Indices: 18024095--18024218 Score: 137
Period size: 63 Copynumber: 2.0 Consensus size: 60
18024085 ACTTAAAATT
* * * *
18024095 TTAACAATAATTATATATAAATTTTAAAAAATTAAAAAAATATATTT-TATATTTTTATA
1 TTAACAATAATTATATATAAATTTTAAAAAAATAAAAAAATAAATTTATAAATTTTAATA
*
18024154 TTAA-AATAAATTATGATATATAATTTTAATATAAAAT-ATAAAATAAATTTATAAATTTTAATA
1 TTAACAAT-AATTAT-ATATA-AATTTTAA-A-AAAATAAAAAAATAAATTTATAAATTTTAATA
18024217 TT
1 TT
18024219 TTATATAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
58 3 0.06
59 10 0.19
60 5 0.09
61 8 0.15
62 12 0.22
63 16 0.30
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (60 bp):
TTAACAATAATTATATATAAATTTTAAAAAAATAAAAAAATAAATTTATAAATTTTAATA
Found at i:18024225 original size:32 final size:35
Alignment explanation
Indices: 18024134--18024234 Score: 95
Period size: 32 Copynumber: 2.9 Consensus size: 35
18024124 AATTAAAAAA
18024134 ATAT-ATTTT-ATATTTTTATATTAAAATAAATTATGAT
1 ATATAATTTTAATA-TTTTATA-TAAAATAAA-TAT-AT
***
18024171 ATATAATTTTAATATAAAATATAAAATAAAT-T-T
1 ATATAATTTTAATATTTTATATAAAATAAATATAT
*
18024204 ATA-AATTTTAATATTTTATATAATATAAATA
1 ATATAATTTTAATATTTTATATAAAATAAATA
18024235 CATAAATCAC
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
32 23 0.43
33 4 0.07
35 1 0.02
36 1 0.02
37 13 0.24
38 9 0.17
39 3 0.06
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (35 bp):
ATATAATTTTAATATTTTATATAAAATAAATATAT
Found at i:18024240 original size:32 final size:32
Alignment explanation
Indices: 18024175--18024241 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
18024165 TATGATATAT
**
18024175 AATTTTAATATAAAATATAAAATAAATTTATA
1 AATTTTAATATAAAATATAAAATAAATACATA
*** *
18024207 AATTTTAATATTTTATATAATATAAATACATA
1 AATTTTAATATAAAATATAAAATAAATACATA
18024239 AAT
1 AAT
18024242 CACCAAATGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
AATTTTAATATAAAATATAAAATAAATACATA
Found at i:18024527 original size:10 final size:10
Alignment explanation
Indices: 18024512--18024537 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18024502 ACTAGGTTTC
18024512 TATTTGTATA
1 TATTTGTATA
18024522 TATTTGTATA
1 TATTTGTATA
18024532 TATTTG
1 TATTTG
18024538 AATTTTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.62
Consensus pattern (10 bp):
TATTTGTATA
Found at i:18024919 original size:2 final size:2
Alignment explanation
Indices: 18024912--18024939 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18024902 ACGAATACAG
18024912 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18024940 TTATGGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18030375 original size:39 final size:37
Alignment explanation
Indices: 18030323--18030423 Score: 94
Period size: 39 Copynumber: 2.6 Consensus size: 37
18030313 TTTATTTAAA
* *
18030323 AATATTTTCATAAAATTAAAAAAAATTATTAAATCTTTT
1 AATAATTTAATAAAATTAAAAAAAA-T-TTAAATCTTTT
*** * *
18030362 AATAATTTAATAAAATTTAACTCGAGATTTAAATTTTTT
1 AATAATTTAATAAAA-TTAA-AAAAAATTTAAATCTTTT
*
18030401 AATCATTTAATAAAATTAAAAAA
1 AATAATTTAATAAAATTAAAAAA
18030424 TTATTTTTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
37 1 0.02
38 4 0.08
39 37 0.76
40 5 0.10
41 2 0.04
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (37 bp):
AATAATTTAATAAAATTAAAAAAAATTTAAATCTTTT
Found at i:18030989 original size:2 final size:2
Alignment explanation
Indices: 18030982--18031014 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18030972 ATCCCCTCAT
18030982 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
18031015 TTTGTTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18031747 original size:9 final size:9
Alignment explanation
Indices: 18031733--18031836 Score: 65
Period size: 10 Copynumber: 11.2 Consensus size: 9
18031723 AAAGTTTAAC
18031733 ATAAATAAA
1 ATAAATAAA
18031742 ATAAATAAAA
1 ATAAAT-AAA
18031752 ATAAAT-AA
1 ATAAATAAA
*
18031760 ATAGGAT-AA
1 ATA-AATAAA
*
18031769 ATAAGATAGAT
1 ATAA-ATA-AA
*
18031780 ATACATATAA
1 ATAAATA-AA
*
18031790 ATAAATACA
1 ATAAATAAA
18031799 ATAAAAGTAAA
1 AT-AAA-TAAA
18031810 AT--ATAAA
1 ATAAATAAA
18031817 ATAAATAAAA
1 ATAAAT-AAA
18031827 ATAAA-AAA
1 ATAAATAAA
18031835 AT
1 AT
18031837 TAGCAATTGG
Statistics
Matches: 76, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
7 6 0.08
8 11 0.14
9 20 0.26
10 30 0.39
11 9 0.12
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (9 bp):
ATAAATAAA
Found at i:18037196 original size:8 final size:8
Alignment explanation
Indices: 18037183--18037221 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
18037173 TAAATTACAT
18037183 ATAGATAA
1 ATAGATAA
18037191 ATAGATAA
1 ATAGATAA
*
18037199 ATAAATAA
1 ATAGATAA
*
18037207 ATAAATAA
1 ATAGATAA
18037215 ATAGATA
1 ATAGATA
18037222 GACTGTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (8 bp):
ATAGATAA
Found at i:18037204 original size:12 final size:12
Alignment explanation
Indices: 18037187--18037221 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
18037177 TTACATATAG
18037187 ATAAATAGATAA
1 ATAAATAGATAA
*
18037199 ATAAATAAATAA
1 ATAAATAGATAA
18037211 ATAAATAGATA
1 ATAAATAGATA
18037222 GACTGTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (12 bp):
ATAAATAGATAA
Found at i:18037223 original size:4 final size:4
Alignment explanation
Indices: 18037187--18037217 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
18037177 TTACATATAG
*
18037187 ATAA ATAG ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
18037218 GATAGACTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:18045037 original size:3 final size:3
Alignment explanation
Indices: 18045029--18045063 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18045019 AAATAACTCG
18045029 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
18045064 TTCTAGGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:18045868 original size:27 final size:27
Alignment explanation
Indices: 18045838--18045891 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
18045828 AGACCAACAG
*
18045838 TTGGATTTAGAATTTACCCAAATTATT
1 TTGGATTCAGAATTTACCCAAATTATT
*
18045865 TTGGATTCAGAATTTACTCAAATTATT
1 TTGGATTCAGAATTTACCCAAATTATT
18045892 ATATATTCTA
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:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (27 bp):
TTGGATTCAGAATTTACCCAAATTATT
Found at i:18045899 original size:27 final size:27
Alignment explanation
Indices: 18045841--18045899 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
18045831 CCAACAGTTG
* * *
18045841 GATTTAGAATTTACCCAAATTATTTTG
1 GATTCAGAATTTACCCAAATTATTATA
*
18045868 GATTCAGAATTTACTCAAATTATTATA
1 GATTCAGAATTTACCCAAATTATTATA
*
18045895 TATTC
1 GATTC
18045900 TAGATTAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (27 bp):
GATTCAGAATTTACCCAAATTATTATA
Found at i:18046039 original size:10 final size:11
Alignment explanation
Indices: 18046008--18046037 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
18045998 AAGCTTCAAA
18046008 TAAAATAAAAG
1 TAAAATAAAAG
18046019 -AAAATAAAAG
1 TAAAATAAAAG
18046029 TAAAATAAA
1 TAAAATAAA
18046038 GTTCTAGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (11 bp):
TAAAATAAAAG
Found at i:18047302 original size:57 final size:58
Alignment explanation
Indices: 18047239--18047676 Score: 256
Period size: 59 Copynumber: 7.5 Consensus size: 58
18047229 AAAAATGACC
** *
18047239 AATTTTCCTTGGATAAAAAATATTT-AAAATATCATTTTGAGAAAAAA-TTG-AAGTATT
1 AATTTTCCTTAAATAAAAAAT-TTTAAAAAAAT-ATTTTGAGAAAAAAGTTGAAAGTATT
* ***
18047296 AATTTTCTTTAAATAAAAAATTTTACAAAAAATATTTTTTTAAAAAAGTTGAAAGTATT
1 AATTTTCCTTAAATAAAAAATTTTA-AAAAAATATTTTGAGAAAAAAGTTGAAAGTATT
* * * * * *
18047355 AATTTTGCTTCAAAATAAAAATTTTTTAAAAATATTTTTTGAG-AAAAAGTTAAAAGTATC
1 AATTTTCCTT--AAATAAAAA-ATTTTAAAAAAATATTTTGAGAAAAAAGTTGAAAGTATT
** * ** * * * * *
18047415 AATTTTTTTTGAA-CGAAAA-TTTCAAAAAATATTTTGTGAGAAAAAAAATTAAAAGAATC
1 AATTTTCCTTAAATAAAAAATTTTAAAAAAATA-TTT-TGAG-AAAAAAGTTGAAAGTATT
* *
18047474 AATTTTTCTTAAA-AATAAAATATTT-TAAAAATATTTT-A-AAAAAAGTTGAAAGTATT
1 AATTTTCCTTAAATAA-AAAAT-TTTAAAAAAATATTTTGAGAAAAAAGTTGAAAGTATT
* * * * * *
18047530 AATTTTTCTTAAA-AATGAAATTTTCAAAAAATATATTTTTAG-GAAAAGTTAAAAGTATC
1 AATTTTCCTTAAATAA-AAAATTTT-AAAAAA-ATATTTTGAGAAAAAAGTTGAAAGTATT
* * * * * *
18047589 AATTTTTCTTAAAGATGAAATTTTTAAAAAAATTTTTTCGAG-AAAAAGTTGAGAGT-TT
1 AATTTTCCTTAAATA-AAAAATTTTAAAAAAATATTTT-GAGAAAAAAGTTGAAAGTATT
* *
18047647 CAATTTTTCTTAAAAATAAAAATTTCTAAA
1 -AATTTTCCTTAAATA-AAAAATTT-TAAA
18047677 GATGCTTTTA
Statistics
Matches: 303, Mismatches: 54, Indels: 45
0.75 0.13 0.11
Matches are distributed among these distances:
55 12 0.04
56 40 0.13
57 40 0.13
58 26 0.09
59 110 0.36
60 41 0.14
61 26 0.09
62 8 0.03
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (58 bp):
AATTTTCCTTAAATAAAAAATTTTAAAAAAATATTTTGAGAAAAAAGTTGAAAGTATT
Found at i:18047386 original size:59 final size:58
Alignment explanation
Indices: 18047280--18047672 Score: 331
Period size: 59 Copynumber: 6.7 Consensus size: 58
18047270 TCATTTTGAG
*
18047280 AAAAAA-TTG-AAGTATTAA-TTTTCTTTAAATAA-AAAATTTTACAAAAAATATTTTTTT
1 AAAAAAGTTGAAAGTATTAATTTTTC-TTAAA-AATAAAATTTT-CAAAAAATATTTTTTA
* * **
18047337 AAAAAAGTTGAAAGTATTAATTTTGCTTCAAAATAAAAATTTTTTAAAAATATTTTTTGA
1 AAAAAAGTTGAAAGTATTAATTTTTCTTAAAAAT-AAAATTTTCAAAAAATATTTTTT-A
* * * ** ** *
18047397 GAAAAAGTTAAAAGTATCAATTTTT-TTTGAACGAAAA-TTTCAAAAAATATTTTGTGAGA
1 AAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAATTTTCAAAAAATATTTT-T--TA
* * * * *
18047456 AAAAAAATTAAAAGAATCAATTTTTCTTAAAAATAAAATATTT-TAAAAATA--TTTTA
1 AAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAAT-TTTCAAAAAATATTTTTTA
*
18047512 AAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATGAAATTTTCAAAAAATATATTTTTA
1 AAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAATTTTCAAAAAATAT-TTTTTA
** * * * * *
18047571 GGAAAAGTTAAAAGTATCAATTTTTCTTAAAGATGAAATTTTTAAAAAA-ATTTTTTCGA
1 AAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAATTTTCAAAAAATATTTTTT--A
* * *
18047630 GAAAAAGTTGAGAGT-TTCAATTTTTCTTAAAAATAAAAATTTC
1 AAAAAAGTTGAAAGTATT-AATTTTTCTTAAAAATAAAATTTTC
18047673 TAAAGATGCT
Statistics
Matches: 272, Mismatches: 45, Indels: 36
0.77 0.13 0.10
Matches are distributed among these distances:
55 3 0.01
56 42 0.15
57 25 0.09
58 14 0.05
59 137 0.50
60 41 0.15
61 7 0.03
62 3 0.01
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.39
Consensus pattern (58 bp):
AAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAATTTTCAAAAAATATTTTTTA
Found at i:18047506 original size:11 final size:11
Alignment explanation
Indices: 18047490--18047515 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18047480 TCTTAAAAAT
18047490 AAAATATTTTA
1 AAAATATTTTA
18047501 AAAATATTTTA
1 AAAATATTTTA
18047512 AAAA
1 AAAA
18047516 AAGTTGAAAG
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATATTTTA
Found at i:18047581 original size:174 final size:175
Alignment explanation
Indices: 18047323--18047676 Score: 443
Period size: 174 Copynumber: 2.0 Consensus size: 175
18047313 AAATTTTACA
* * **
18047323 AAAAATATTTTTTTAAAAAAGTTGAAAGTATTAATTTTGCTTCAAAATAAAAATTTTTTAAAAAT
1 AAAAATA-TTTTTAAAAAAAGTTGAAAGTATTAATTTTGCTTAAAAATAAAAATTTTCAAAAAAT
* *
18047388 ATTTTTTGAGAAAAAGTTAAAAGTATCAATTTTTTTTGAACGA-AAA-TTTCAAAAAATATTTTG
65 ATTTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTT-AAAGAGAAATTTTCAAAAAA-ATTTTG
18047451 T-GAGAAAAAAAATTAAAAGAATCAATTTTTCTTAAAAATAAAATATTT-T
128 TCGAG--AAAAAATTAAAAGAATCAATTTTTCTTAAAAATAAAA-ATTTCT
* *
18047500 AAAAATA-TTTTAAAAAAAGTTGAAAGTATTAATTTTTCTTAAAAAT-GAAATTTTCAAAAAATA
1 AAAAATATTTTTAAAAAAAGTTGAAAGTATTAATTTTGCTTAAAAATAAAAATTTTCAAAAAATA
* * *
18047563 TATTTTT-AGGAAAAGTTAAAAGTATCAATTTTTCTTAAAGATGAAATTTTTAAAAAAATTTTTT
66 T-TTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTAAAGA-GAAATTTTCAAAAAAATTTTGT
* * * **
18047627 CGAGAAAAAGTTGAGAGTTTCAATTTTTCTTAAAAATAAAAATTTCT
129 CGAGAAAAAATTAAAAGAATCAATTTTTCTTAAAAATAAAAATTTCT
18047674 AAA
1 AAA
18047677 GATGCTTTTA
Statistics
Matches: 155, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
173 8 0.05
174 78 0.50
175 50 0.32
176 12 0.08
177 7 0.05
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.39
Consensus pattern (175 bp):
AAAAATATTTTTAAAAAAAGTTGAAAGTATTAATTTTGCTTAAAAATAAAAATTTTCAAAAAATA
TTTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTAAAGAGAAATTTTCAAAAAAATTTTGTCG
AGAAAAAATTAAAAGAATCAATTTTTCTTAAAAATAAAAATTTCT
Found at i:18047708 original size:118 final size:115
Alignment explanation
Indices: 18047255--18047693 Score: 319
Period size: 118 Copynumber: 3.8 Consensus size: 115
18047245 CCTTGGATAA
18047255 AAAATA-TTTAAAATATCATTTTGAGAAAAAA-TTG-AAGTATTAA-TTTTCTTTAAATAA-AAA
1 AAAATATTTTAAAA-AT-ATTTT-A-AAAAAAGTTGAAAGTATTAATTTTTC-TTAAA-AATAAA
* ** * * * *
18047315 ATTTTACAAAAAATATTTTTTTAA--AAAAGTTGAAAGTATTAATTTTGCTTCAAAAT
60 AATTT-CAAAAAATA-GATTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAAT
* * * * ** **
18047371 AAAAATTTTTTAAAAATATTTTTTGAGAAAAAGTTAAAAGTATCAATTTTT-TT-TGAACGAAAA
1 -AAAATATTTTAAAAATA--TTTT-AAAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAAA
* ** * *
18047434 TTTCAAAAAATA-TTTTGTGAGAAAAAAAATTAAAAGAATCAATTTTTCTTAAAAAT
62 TTTCAAAAAATAGATTT-T-A-AGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAAT
* *
18047490 AAAATATTTTAAAAATATTTTAAAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATGAAATTTTC
1 AAAATATTTTAAAAATATTTTAAAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAAATTTC
* * *
18047555 AAAAAATATATTTTTAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAGAT
66 AAAAAATAGATTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAAT
* * * *
18047605 GAAAT-TTTTAAAAAAATTTTTTCGAGAAAAAGTTGAGAGT-TTCAATTTTTCTTAAAAATAAAA
1 AAAATATTTT--AAAAATATTTT--AAAAAAAGTTGAAAGTATT-AATTTTTCTTAAAAATAAAA
* * *
18047668 ATTTCTAAAGAT-GCTTTTAAGGAAAA
61 ATTTCAAAAAATAGATTTTAAGGAAAA
18047694 ATTTGAAGGT
Statistics
Matches: 262, Mismatches: 40, Indels: 40
0.77 0.12 0.12
Matches are distributed among these distances:
114 8 0.03
115 58 0.22
116 29 0.11
117 51 0.19
118 78 0.30
119 34 0.13
120 4 0.02
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (115 bp):
AAAATATTTTAAAAATATTTTAAAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAAATTTC
AAAAAATAGATTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAAT
Found at i:18050619 original size:2 final size:2
Alignment explanation
Indices: 18050612--18050653 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
18050602 CTACCTATGG
* *
18050612 TA TA TA TA TA TA TA AA TA TA TA TA TT TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18050653 T
1 T
18050654 TTTTAATGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18051521 original size:17 final size:17
Alignment explanation
Indices: 18051471--18051524 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
18051461 TATTTATATT
* *
18051471 ATTAATATAAAAAATAA
1 ATTAATATAATAATTAA
* * *
18051488 TTTTATAATAATTATTAA
1 ATTAAT-ATAATAATTAA
18051506 ATTAATATAATAATTAA
1 ATTAATATAATAATTAA
18051523 AT
1 AT
18051525 GTTTAAAATA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTAATATAATAATTAA
Found at i:18053682 original size:18 final size:19
Alignment explanation
Indices: 18053645--18053683 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
18053635 CGTGAATTAT
18053645 ATATTTATTAATTAATATA
1 ATATTTATTAATTAATATA
*
18053664 ATATTTATT-TTTAATATA
1 ATATTTATTAATTAATATA
18053682 AT
1 AT
18053684 TAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATTTATTAATTAATATA
Found at i:18060571 original size:15 final size:18
Alignment explanation
Indices: 18060552--18060589 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
18060542 TTTGAATGCA
18060552 GCAGG-TTT-TTACTTAT
1 GCAGGATTTATTACTTAT
18060568 -CAGGATTTATTACTTAT
1 GCAGGATTTATTACTTAT
18060585 GCAGG
1 GCAGG
18060590 GTTAGCCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.21
16 3 0.16
17 8 0.42
18 4 0.21
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (18 bp):
GCAGGATTTATTACTTAT
Found at i:18066595 original size:43 final size:43
Alignment explanation
Indices: 18066534--18066617 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
18066524 TGACTTCCCT
* *
18066534 ATCAAAACGCTTACTAGTTGACTTTGCAAG-TTTAATTTTTTTA
1 ATCAAAACACTTACTAGTTGACTTTGC-AGCTTTAAATTTTTTA
18066577 ATCAAAACACTTACTAGTTGACTTTGCAGCTTTAAATTTTT
1 ATCAAAACACTTACTAGTTGACTTTGCAGCTTTAAATTTTT
18066618 AAGTAGCGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (43 bp):
ATCAAAACACTTACTAGTTGACTTTGCAGCTTTAAATTTTTTA
Found at i:18082162 original size:13 final size:13
Alignment explanation
Indices: 18082146--18082170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18082136 ATAAAATAAA
18082146 GGAAAAAAAAAGT
1 GGAAAAAAAAAGT
18082159 GGAAAAAAAAAG
1 GGAAAAAAAAAG
18082171 AGAGATTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (13 bp):
GGAAAAAAAAAGT
Found at i:18095830 original size:14 final size:15
Alignment explanation
Indices: 18095790--18095831 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
18095780 ATTTGTATTG
18095790 ATTTATTTATT-TAA
1 ATTTATTTATTATAA
18095804 ATTTATTTTATTAT-A
1 ATTTA-TTTATTATAA
18095819 ATTTATTTATTAT
1 ATTTATTTATTAT
18095832 TTAATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 13 0.50
15 12 0.46
16 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTATTTATTATAA
Found at i:18095839 original size:14 final size:15
Alignment explanation
Indices: 18095790--18095842 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 15
18095780 ATTTGTATTG
18095790 ATTTATTTATTTAA-
1 ATTTATTTATTTAAT
18095804 ATTTATTTTATTATAATTT
1 ATTTA-TTTATT-TAA--T
18095823 ATTTA-TTATTTAAT
1 ATTTATTTATTTAAT
18095837 ATTTAT
1 ATTTAT
18095843 AAATAAATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
14 11 0.33
15 6 0.18
16 6 0.18
17 5 0.15
19 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTATTTATTTAAT
Found at i:18107056 original size:66 final size:64
Alignment explanation
Indices: 18106965--18107147 Score: 183
Period size: 66 Copynumber: 2.8 Consensus size: 64
18106955 AAGATAATAA
* ** *
18106965 ATAATTTGTAAGGCCTCCAGATATAATTTGTAAAACCTCCAGACATAATTT-GTAAAACTTTCGA
1 ATAATTTGTAAGACCTCTGGGTATAATTTGTAAAACCT-CAGACATAATTTCG--AAACTTTCGA
18107029 GC
63 GC
** * *
18107031 ATAATTT-TCAAGATTTCAT-GGTATAATTTGTAAAACCTCTGAGCATAATTCTCGAAACTTTTG
1 ATAATTTGT-AAGACCTC-TGGGTATAATTTGTAAAACCTCAGA-CATAATT-TCGAAACTTTCG
18107094 AGC
62 AGC
* *
18107097 ATAATTTGTAAGACCTCTGGGTATAATTTGTAAGACTTTCAGACATAATTT
1 ATAATTTGTAAGACCTCTGGGTATAATTTGTAAAAC-CTCAGACATAATTT
18107148 TCATTACCTC
Statistics
Matches: 97, Mismatches: 12, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
65 6 0.06
66 84 0.87
67 6 0.06
68 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36
Consensus pattern (64 bp):
ATAATTTGTAAGACCTCTGGGTATAATTTGTAAAACCTCAGACATAATTTCGAAACTTTCGAGC
Found at i:18107135 original size:44 final size:44
Alignment explanation
Indices: 18107065--18107217 Score: 134
Period size: 44 Copynumber: 3.5 Consensus size: 44
18107055 AATTTGTAAA
*
18107065 ACCTCTGAGCATAATTCTCG-AA-ACTTTTGAGCATAATTTGT-AAG
1 ACCTCTGAACATAATT-T-GTAAGACTTTTGAGCATAATTT-TCAAG
*** * **
18107109 ACCTCTGGGTATAATTTGTAAGAC-TTTCAGACATAATTTTCATT
1 ACCTCTGAACATAATTTGTAAGACTTTTGAG-CATAATTTTCAAG
**
18107153 ACCTCTGAACATAATTTGTAAGACTTCCGAGCATAATTTTCAAG
1 ACCTCTGAACATAATTTGTAAGACTTTTGAGCATAATTTTCAAG
* * *
18107197 GCCTCTGAATATGATTTGTAA
1 ACCTCTGAACATAATTTGTAA
18107218 AGCCTCCATG
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
42 1 0.01
43 9 0.10
44 75 0.85
45 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (44 bp):
ACCTCTGAACATAATTTGTAAGACTTTTGAGCATAATTTTCAAG
Found at i:18107231 original size:44 final size:44
Alignment explanation
Indices: 18107093--18107299 Score: 140
Period size: 44 Copynumber: 4.7 Consensus size: 44
18107083 CGAAACTTTT
*** * *
18107093 GAGCATAATTTGT-AAGACCTCTGGGTATAATTTGTAAGACTTTC
1 GAGCATAATTT-TCAAGACCTCTGAACATAATTTGTAAGACCTCC
** *
18107137 -AGACATAATTTTCATTACCTCTGAACATAATTTGTAAGACTTCC
1 GAG-CATAATTTTCAAGACCTCTGAACATAATTTGTAAGACCTCC
* * *
18107181 GAGCATAATTTTCAAGGCCTCTGAATATGATTTGTAA-AGCCTCC
1 GAGCATAATTTTCAAGACCTCTGAACATAATTTGTAAGA-CCTCC
* * * * *
18107225 -ATGCATAA-TTTCTAAGGCATTTGAGCATAATTTATAAGACCTCC
1 GA-GCATAATTTTC-AAGACCTCTGAACATAATTTGTAAGACCTCC
* * *
18107269 GGGCAAAATTTGT-AAGACCTCCG-ACATAATT
1 GAGCATAATTT-TCAAGACCTCTGAACATAATT
18107300 CTCAAGACCT
Statistics
Matches: 128, Mismatches: 25, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
43 16 0.12
44 106 0.83
45 5 0.04
46 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (44 bp):
GAGCATAATTTTCAAGACCTCTGAACATAATTTGTAAGACCTCC
Found at i:18107327 original size:21 final size:21
Alignment explanation
Indices: 18106965--18107330 Score: 104
Period size: 22 Copynumber: 16.8 Consensus size: 21
18106955 AAGATAATAA
* *
18106965 ATAATTTGTAAGGCCTCCAGAT
1 ATAATTTGTAAGACCT-CAGAC
*
18106987 ATAATTTGTAAAACCTCCAGAC
1 ATAATTTGTAAGACCT-CAGAC
* *
18107009 ATAATTTGTAAAACTTTC-GAGC
1 ATAATTTGTAAGAC-CTCAGA-C
** **
18107031 ATAATTT-TCAAGATTTCATGGT
1 ATAATTTGT-AAGACCTCA-GAC
* *
18107053 ATAATTTGTAAAACCTCTGAGC
1 ATAATTTGTAAGACCTCAGA-C
* **
18107075 ATAATTCTCG-AA-ACTTTTGAGC
1 ATAATT-T-GTAAGACCTCAGA-C
* **
18107097 ATAATTTGTAAGACCTCTGGGT
1 ATAATTTGTAAGACCTC-AGAC
*
18107119 ATAATTTGTAAGACTTTCAGAC
1 ATAATTTGTAAGAC-CTCAGAC
** *
18107141 ATAATTT-TCATTACCTCTGAAC
1 ATAATTTGT-AAGACCTCAG-AC
* *
18107163 ATAATTTGTAAGACTTCCGAGC
1 ATAATTTGTAAGACCTCAGA-C
* *
18107185 ATAATTT-TCAAGGCCTCTGA-
1 ATAATTTGT-AAGACCTCAGAC
18107205 ATATGATTTGTAA-AGCCTCCATG-C
1 ATA--ATTTGTAAGA-CCT-CA-GAC
* * * **
18107229 ATAATTTCTAAGGCATTTGAGC
1 ATAATTTGTAAGACCTCAGA-C
* * *
18107251 ATAATTTATAAGACCTCCGGGC
1 ATAATTTGTAAGACCT-CAGAC
* *
18107273 AAAATTTGTAAGACCTCCGAC
1 ATAATTTGTAAGACCTCAGAC
* *
18107294 ATAATTCT-CAAGACCTCAGAT
1 ATAATT-TGTAAGACCTCAGAC
*
18107315 ATGATTTGTAAGACCT
1 ATAATTTGTAAGACCT
18107331 TCGGATATAA
Statistics
Matches: 254, Mismatches: 59, Indels: 63
0.68 0.16 0.17
Matches are distributed among these distances:
20 6 0.02
21 46 0.18
22 184 0.72
23 13 0.05
24 5 0.02
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (21 bp):
ATAATTTGTAAGACCTCAGAC
Found at i:18118700 original size:29 final size:29
Alignment explanation
Indices: 18118650--18118705 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
18118640 TTGTGATCCA
* *
18118650 AATTTTATGAATATGTTTATATATTTTTT
1 AATTTTATGAATAAGTTGATATATTTTTT
18118679 AATTTTATGAA-AAGATTGATATATTTT
1 AATTTTATGAATAAG-TTGATATATTTT
18118706 ATGATATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (29 bp):
AATTTTATGAATAAGTTGATATATTTTTT
Found at i:18130463 original size:23 final size:22
Alignment explanation
Indices: 18130415--18130463 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
18130405 GAAAAATGAG
* **
18130415 TAAATAAAAAATTATTATTTTT
1 TAAATAAAAAATTATTACTTGA
*
18130437 TAAATAAAAAATTAATTCCTTGA
1 TAAATAAAAAATT-ATTACTTGA
18130460 TAAA
1 TAAA
18130464 ACCTTTGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (22 bp):
TAAATAAAAAATTATTACTTGA
Found at i:18131483 original size:2 final size:2
Alignment explanation
Indices: 18131476--18131500 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18131466 CATATTAAAA
18131476 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
18131501 ATAATTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18135704 original size:22 final size:22
Alignment explanation
Indices: 18135679--18135722 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
18135669 TTACATAGCT
18135679 TGTTTTATATTCTTGAACTGCC
1 TGTTTTATATTCTTGAACTGCC
18135701 TGTTTTATATTCTTGAACTGCC
1 TGTTTTATATTCTTGAACTGCC
18135723 ATATTTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (22 bp):
TGTTTTATATTCTTGAACTGCC
Found at i:18139207 original size:13 final size:13
Alignment explanation
Indices: 18139189--18139214 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18139179 ACATGAAATT
18139189 AGAGAGAGAGAGA
1 AGAGAGAGAGAGA
18139202 AGAGAGAGAGAGA
1 AGAGAGAGAGAGA
18139215 TATCAATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (13 bp):
AGAGAGAGAGAGA
Found at i:18149601 original size:31 final size:31
Alignment explanation
Indices: 18149566--18149626 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
18149556 ATTCGATCGA
* *
18149566 TTTTAAAAAATTAATAATTTAATTAATTAAT
1 TTTTAAAAAATAAATAATTAAATTAATTAAT
***
18149597 TTTTATTTAATAAATAATTAAATTAATTAA
1 TTTTAAAAAATAAATAATTAAATTAATTAA
18149627 AAATTTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
TTTTAAAAAATAAATAATTAAATTAATTAAT
Found at i:18149623 original size:35 final size:34
Alignment explanation
Indices: 18149567--18149635 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
18149557 TTCGATCGAT
* *
18149567 TTTAAAAAATTAATAATTTAATTAATTAATTTTTA
1 TTTAAAAAATTAATAAATTAATTAA-AAATTTTTA
*
18149602 TTTAATAAA-TAATTAAATTAATTAAAAATTTTTA
1 TTTAAAAAATTAA-TAAATTAATTAAAAATTTTTA
18149636 AATAATAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 11 0.37
35 19 0.63
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
TTTAAAAAATTAATAAATTAATTAAAAATTTTTA
Found at i:18149640 original size:31 final size:31
Alignment explanation
Indices: 18149573--18149640 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
18149563 CGATTTTAAA
* * **
18149573 AAATTAATAATTTAATTAATTAATTTTTATT
1 AAATAAATAATTAAATTAATTAAAATTTATT
*
18149604 TAATAAATAATTAAATTAATTAAAAATTT-TT
1 AAATAAATAATTAAATTAATT-AAAATTTATT
18149635 AAATAA
1 AAATAA
18149641 TAGATTATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
AAATAAATAATTAAATTAATTAAAATTTATT
Found at i:18149724 original size:24 final size:23
Alignment explanation
Indices: 18149677--18149739 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
18149667 TGATTTTGTT
* *
18149677 TTATTAATTTATTAAATAATTAA
1 TTATTTATTTATTAAATAAATAA
* *
18149700 TTTTTTATTTTTTATAATAAATAA
1 TTATTTATTTATTA-AATAAATAA
*
18149724 TTATTTAATTA-TAAAT
1 TTATTTATTTATTAAAT
18149740 TTAATCTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 3 0.09
23 13 0.41
24 16 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATTTATTTATTAAATAAATAA
Found at i:18157835 original size:22 final size:21
Alignment explanation
Indices: 18157790--18157836 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
18157780 TATAAAAATT
*
18157790 TAATTTTATTAAATTTATATA
1 TAATTTTATTAAATTTATAAA
18157811 TAATTATTATTAAAATTT-TAAA
1 TAATT-TTATT-AAATTTATAAA
18157833 TAAT
1 TAAT
18157837 ATCACTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 12 0.52
23 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATTTTATTAAATTTATAAA
Found at i:18168110 original size:22 final size:24
Alignment explanation
Indices: 18168065--18168113 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
18168055 AATCTTTTTA
18168065 AATATATTAAAAATTTTATTAAAAT
1 AATATATTAAAAATTTTA-TAAAAT
18168090 AATATA-TAAAAATTTTA-AAAAT
1 AATATATTAAAAATTTTATAAAAT
18168112 AA
1 AA
18168114 AATGAACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 7 0.29
24 11 0.46
25 6 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AATATATTAAAAATTTTATAAAAT
Found at i:18172351 original size:56 final size:56
Alignment explanation
Indices: 18172289--18172394 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 56
18172279 AATTAAATTA
* ** **
18172289 AATTATATATTTTTATTAATTTTTATATTATTAAAATTTTTA-TAAAATAAAATAAT
1 AATTATATATATAAATTAATTTAAATA-TATTAAAATTTTTATTAAAATAAAATAAT
*
18172345 AATTATATATATAAATTTATTTAAATATATTAAAATTTTTATTAAAATAA
1 AATTATATATATAAATTAATTTAAATATATTAAAATTTTTATTAAAATAA
18172395 TATATAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 14 0.33
56 29 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (56 bp):
AATTATATATATAAATTAATTTAAATATATTAAAATTTTTATTAAAATAAAATAAT
Found at i:18172372 original size:20 final size:21
Alignment explanation
Indices: 18172349--18172402 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
18172339 AATAATAATT
*
18172349 ATATATATAAA-TTTATTTAA
1 ATATATATAAATTTTATTAAA
18172369 ATATAT-TAAAATTTTTATTAAA
1 ATATATAT-AAA-TTTTATTAAA
18172391 ATAATATATAAA
1 AT-ATATATAAA
18172403 AAATAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 9 0.32
22 10 0.36
23 7 0.25
24 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATATATAAATTTTATTAAA
Found at i:18172385 original size:22 final size:24
Alignment explanation
Indices: 18172360--18172403 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
18172350 TATATATAAA
*
18172360 TTTATTTAAAT-ATAT-TAAAATT
1 TTTATTAAAATAATATATAAAATT
18172382 TTTATTAAAATAATATATAAAA
1 TTTATTAAAATAATATATAAAA
18172404 AATAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 4 0.21
24 5 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATTAAAATAATATATAAAATT
Found at i:18172482 original size:32 final size:31
Alignment explanation
Indices: 18172436--18172495 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 31
18172426 AAATCGATAG
*
18172436 AATTCAGATTAAATTAATTTTTAAAAATATC
1 AATTCAGATTAAATTAAATTTTAAAAATATC
*
18172467 AATTTAGATTCAAATTAAATTTTAAAAAT
1 AATTCAGATT-AAATTAAATTTTAAAAAT
18172496 TTATAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (31 bp):
AATTCAGATTAAATTAAATTTTAAAAATATC
Found at i:18177300 original size:32 final size:32
Alignment explanation
Indices: 18177264--18177328 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
18177254 GGCATCAGGC
18177264 AAACCTGAGAGCTTTGGAGGAGACTTTCTTGT
1 AAACCTGAGAGCTTTGGAGGAGACTTTCTTGT
*
18177296 AAACCTGAGAGCTTTGGAGGAGATTTTCTTGT
1 AAACCTGAGAGCTTTGGAGGAGACTTTCTTGT
18177328 A
1 A
18177329 CCATCCTACC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (32 bp):
AAACCTGAGAGCTTTGGAGGAGACTTTCTTGT
Found at i:18178124 original size:20 final size:18
Alignment explanation
Indices: 18178099--18178143 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
18178089 GTAAAACGCC
18178099 AGGAAAACAAGAAACAATAA
1 AGGAAAAC-AGAAA-AATAA
*
18178119 AGGAAAGCAGAAAAATAA
1 AGGAAAACAGAAAAATAA
*
18178137 AAGAAAA
1 AGGAAAA
18178144 ACGAAGCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 10 0.45
19 5 0.23
20 7 0.32
ACGTcount: A:0.71, C:0.07, G:0.18, T:0.04
Consensus pattern (18 bp):
AGGAAAACAGAAAAATAA
Found at i:18219948 original size:22 final size:22
Alignment explanation
Indices: 18219916--18219963 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
18219906 CTAGGAAACT
*
18219916 AAAT-CTTAATTCTAGGGATAC
1 AAATACTTAATTCTAGAGATAC
18219937 AAATACTTAATTCTAGAGATAC
1 AAATACTTAATTCTAGAGATAC
18219959 AAATA
1 AAATA
18219964 TAAATATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.31
Consensus pattern (22 bp):
AAATACTTAATTCTAGAGATAC
Found at i:18223644 original size:25 final size:23
Alignment explanation
Indices: 18223610--18223704 Score: 111
Period size: 23 Copynumber: 4.1 Consensus size: 23
18223600 TTTGAAAAGG
*
18223610 TTCGGCAATGAAGGCCTAAACAGGA
1 TTCGGCAATGAAGGCCTAAA-A-AA
*
18223635 TTCGGCAATGAAAGCCTAAAAAA
1 TTCGGCAATGAAGGCCTAAAAAA
*
18223658 GTCGGCAATGAAGGCCTAAAAAA
1 TTCGGCAATGAAGGCCTAAAAAA
* * *
18223681 GTCAGCAATGAAGG-CTGAAAAA
1 TTCGGCAATGAAGGCCTAAAAAA
18223703 TT
1 TT
18223705 TTTCTTCCCA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
22 8 0.13
23 35 0.56
24 1 0.02
25 19 0.30
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (23 bp):
TTCGGCAATGAAGGCCTAAAAAA
Found at i:18223666 original size:23 final size:23
Alignment explanation
Indices: 18223611--18223695 Score: 116
Period size: 23 Copynumber: 3.6 Consensus size: 23
18223601 TTGAAAAGGT
* *
18223611 TCGGCAATGAAGGCCTAAACAGGAT
1 TCGGCAATGAAGGCCTAAA-A-AAG
*
18223636 TCGGCAATGAAAGCCTAAAAAAG
1 TCGGCAATGAAGGCCTAAAAAAG
18223659 TCGGCAATGAAGGCCTAAAAAAG
1 TCGGCAATGAAGGCCTAAAAAAG
*
18223682 TCAGCAATGAAGGC
1 TCGGCAATGAAGGC
18223696 TGAAAAATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
23 36 0.65
24 1 0.02
25 18 0.33
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.14
Consensus pattern (23 bp):
TCGGCAATGAAGGCCTAAAAAAG
Found at i:18223872 original size:22 final size:22
Alignment explanation
Indices: 18223844--18223887 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18223834 CTAAATCTTC
*
18223844 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
18223866 CTTAATTCTAGATATACAAATA
1 CTTAATTCTAGAGATACAAATA
18223888 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:18239453 original size:95 final size:97
Alignment explanation
Indices: 18239333--18239532 Score: 332
Period size: 95 Copynumber: 2.1 Consensus size: 97
18239323 TCAATTAAAT
* *
18239333 TTAAATTATAAATGATGTATTCAATTTTTTATATTTTATTAATTTTTTGTTAAATTCCATCAATC
1 TTAAATTATAAATGATATATTCAATTTTTTATATTTTATTAATTTTTTATTAAATTCCATCAATC
*
18239398 TATAAACTATAATTTTTT-ATTAAAATTTTAA
66 TATAAACTATAATTTTTTAAGTAAAATTTTAA
*
18239429 TTAAA-TATAAATGATATATTCAATTTTTTATATTTTATTAATTTTTTATTAAATTCTATCAATC
1 TTAAATTATAAATGATATATTCAATTTTTTATATTTTATTAATTTTTTATTAAATTCCATCAATC
*
18239493 TATAAATTATAATTTTTTAAGTAAAATTTTAA
66 TATAAACTATAATTTTTTAAGTAAAATTTTAA
*
18239525 TTCAATTA
1 TTAAATTA
18239533 CTTTAATTGA
Statistics
Matches: 96, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
95 73 0.76
96 21 0.22
97 2 0.02
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (97 bp):
TTAAATTATAAATGATATATTCAATTTTTTATATTTTATTAATTTTTTATTAAATTCCATCAATC
TATAAACTATAATTTTTTAAGTAAAATTTTAA
Found at i:18239559 original size:95 final size:95
Alignment explanation
Indices: 18239333--18239560 Score: 237
Period size: 95 Copynumber: 2.4 Consensus size: 95
18239323 TCAATTAAAT
* * * * * * *
18239333 TTAAATTATAAATGATGTATTCAATTTTTTATATTTTATTAATTTTTTGTTAAATTCCATCAATC
1 TTAAA-TATAAATAATATATTAAACTTTATAAATTTTATTAATTTTTTATTAAATTCCATCAATC
*
18239398 TATAAACTATAATTTTTTATTAAAATTTTAA
65 TATAAACTATAATTTTTTAGTAAAATTTTAA
* * * * * *
18239429 TTAAATATAAATGATATATTCAATTTTTTATATTTTATTAATTTTTTATTAAATTCTATCAATCT
1 TTAAATATAAATAATATATTAAACTTTATAAATTTTATTAATTTTTTATTAAATTCCATCAATCT
*
18239494 ATAAATTATAATTTTTTAAGTAAAATTTTAA
66 ATAAACTATAATTTTTT-AGTAAAATTTTAA
* **
18239525 TTCAAT-TACTTTAAT-TGA-TAAACTTTATAAATTTTA
1 TTAAATATA-AATAATAT-ATTAAACTTTATAAATTTTA
18239561 CCCAAAAAAT
Statistics
Matches: 116, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
95 90 0.78
96 26 0.22
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (95 bp):
TTAAATATAAATAATATATTAAACTTTATAAATTTTATTAATTTTTTATTAAATTCCATCAATCT
ATAAACTATAATTTTTTAGTAAAATTTTAA
Found at i:18244244 original size:5 final size:5
Alignment explanation
Indices: 18244236--18244270 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
18244226 CCTCCCTCTT
*
18244236 CTTTT CTTTC CTTTC CTTTC CTTTC CTTTC TCTTT
1 CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC -CTTT
18244271 GTATATGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (5 bp):
CTTTC
Found at i:18244312 original size:10 final size:10
Alignment explanation
Indices: 18244297--18244343 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
18244287 CTGTCTGTCG
18244297 TCTCTTTCTT
1 TCTCTTTCTT
*
18244307 TCTCTTTCTC
1 TCTCTTTCTT
18244317 TC-CTTTTCTT
1 TCTC-TTTCTT
*
18244327 TCTCTTTGTT
1 TCTCTTTCTT
*
18244337 GCTCTTT
1 TCTCTTT
18244344 GCTGTAGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 1 0.03
10 29 0.94
11 1 0.03
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.66
Consensus pattern (10 bp):
TCTCTTTCTT
Found at i:18245536 original size:14 final size:14
Alignment explanation
Indices: 18245519--18245555 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
18245509 AAATAATAAA
*
18245519 TTAATTATAATTTT
1 TTAATTATAATATT
*
18245533 TTAAATATAATATT
1 TTAATTATAATATT
18245547 TTAATTATA
1 TTAATTATA
18245556 TATCTTTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAATTATAATATT
Found at i:18246048 original size:18 final size:19
Alignment explanation
Indices: 18246025--18246104 Score: 64
Period size: 18 Copynumber: 4.4 Consensus size: 19
18246015 TATTTAATAT
18246025 TTTAATTTAAAATA-TAAA
1 TTTAATTTAAAATATTAAA
* **
18246043 TTTAA-TAAAAATATTTTA
1 TTTAATTTAAAATATTAAA
18246061 TTTAA-TTAAAATA-T-AA
1 TTTAATTTAAAATATTAAA
*
18246077 TTTATATTAAAAATTATTAAA
1 TTTA-ATTTAAAA-TATTAAA
18246098 -TTAATTT
1 TTTAATTT
18246105 TAGATCAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
16 5 0.10
17 9 0.18
18 24 0.49
19 5 0.10
20 4 0.08
21 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAATTTAAAATATTAAA
Found at i:18246102 original size:36 final size:35
Alignment explanation
Indices: 18246026--18246103 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 35
18246016 ATTTAATATT
* *
18246026 TTAATTTAAAATATAAATTTAATAAAAATATTTTAT
1 TTAA-TTAAAATATAAATTTAATAAAAATATTTAAA
18246062 TTAATTAAAATAT-AATTTATATTAAAAAT-TATTAAA
1 TTAATTAAAATATAAATTTA-A-TAAAAATAT-TTAAA
18246098 TTAATT
1 TTAATT
18246104 TTAGATCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
34 6 0.16
35 11 0.30
36 20 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (35 bp):
TTAATTAAAATATAAATTTAATAAAAATATTTAAA
Found at i:18250288 original size:2 final size:2
Alignment explanation
Indices: 18250283--18250307 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18250273 TTAAATGATC
18250283 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
18250308 ATAAGTTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18257908 original size:12 final size:12
Alignment explanation
Indices: 18257891--18257918 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
18257881 TATGTCGTTA
18257891 ATATAAATATAT
1 ATATAAATATAT
18257903 ATATAAATATAT
1 ATATAAATATAT
18257915 ATAT
1 ATAT
18257919 CTTTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:18259125 original size:16 final size:16
Alignment explanation
Indices: 18259104--18259136 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18259094 ATAAATATTA
18259104 ACTTTTACTATATCTC
1 ACTTTTACTATATCTC
18259120 ACTTTTACTATATCTC
1 ACTTTTACTATATCTC
18259136 A
1 A
18259137 TTCCATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.48
Consensus pattern (16 bp):
ACTTTTACTATATCTC
Found at i:18263993 original size:13 final size:13
Alignment explanation
Indices: 18263975--18264002 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18263965 ATAAACATAC
18263975 CAGACATACCAGA
1 CAGACATACCAGA
18263988 CAGACATACCAGA
1 CAGACATACCAGA
18264001 CA
1 CA
18264003 TACTTTCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.32, G:0.14, T:0.07
Consensus pattern (13 bp):
CAGACATACCAGA
Found at i:18267808 original size:36 final size:36
Alignment explanation
Indices: 18267761--18267869 Score: 114
Period size: 36 Copynumber: 3.0 Consensus size: 36
18267751 GAACAAGATA
* *
18267761 CTAAAGGTCATGTAGAGGATGAGGATGACCAATATG
1 CTAAAGCTCATGTAGAGGAAGAGGATGACCAATATG
* * * * *
18267797 CTGAATCTCATG-AGGAGCAGGAAGATGA-CAGATATG
1 CTAAAGCTCATGTA-GAGGAAGAGGATGACCA-ATATG
*
18267833 CTAAAGCTCATGTAGAAGAAGAGGATGACCAATATG
1 CTAAAGCTCATGTAGAGGAAGAGGATGACCAATATG
18267869 C
1 C
18267870 CATAGTTCAA
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
35 3 0.05
36 51 0.89
37 3 0.05
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (36 bp):
CTAAAGCTCATGTAGAGGAAGAGGATGACCAATATG
Found at i:18270693 original size:9 final size:9
Alignment explanation
Indices: 18270675--18270728 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
18270665 TGATGCTGCT
18270675 TCATCGTCA
1 TCATCGTCA
*
18270684 TCATCTTCA
1 TCATCGTCA
18270693 TCATCGTCA
1 TCATCGTCA
* *
18270702 TCAGCATCA
1 TCATCGTCA
* * *
18270711 TCCTCTTCC
1 TCATCGTCA
18270720 TCATCGTCA
1 TCATCGTCA
18270729 AAGAAAGGCA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.20, C:0.37, G:0.07, T:0.35
Consensus pattern (9 bp):
TCATCGTCA
Found at i:18275675 original size:11 final size:11
Alignment explanation
Indices: 18275659--18275689 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
18275649 AATAATATGA
18275659 AGAAACTGAGC
1 AGAAACTGAGC
*
18275670 AGAAACCGAGC
1 AGAAACTGAGC
18275681 AGAAACTGA
1 AGAAACTGA
18275690 TCCATAACAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.19, G:0.26, T:0.06
Consensus pattern (11 bp):
AGAAACTGAGC
Found at i:18277340 original size:17 final size:17
Alignment explanation
Indices: 18277318--18277352 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18277308 AACCCTGGAA
*
18277318 AGGTTTGAGGCAAAAAC
1 AGGTTTGAAGCAAAAAC
*
18277335 AGGTTTGAAGCAACAAC
1 AGGTTTGAAGCAAAAAC
18277352 A
1 A
18277353 AAAAATGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.17
Consensus pattern (17 bp):
AGGTTTGAAGCAAAAAC
Found at i:18279756 original size:11 final size:12
Alignment explanation
Indices: 18279742--18279780 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
18279732 ATTTTTAACA
18279742 AATTTATATT-T
1 AATTTATATTAT
18279753 AATTTATATTAT
1 AATTTATATTAT
*
18279765 AATTTTAAATTAT
1 AA-TTTATATTAT
18279778 AAT
1 AAT
18279781 AAATTTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 10 0.40
12 4 0.16
13 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTTATATTAT
Found at i:18279950 original size:17 final size:17
Alignment explanation
Indices: 18279924--18279957 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18279914 CCCTGGTGTC
*
18279924 TTTTTCTTTTTCTTTTT
1 TTTTTCTTTTGCTTTTT
*
18279941 TTTTTTTTTTGCTTTTT
1 TTTTTCTTTTGCTTTTT
18279958 GGCTCTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (17 bp):
TTTTTCTTTTGCTTTTT
Found at i:18281459 original size:30 final size:29
Alignment explanation
Indices: 18281423--18281496 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
18281413 CTTTAGGTAT
* *
18281423 AAATTAAAAGATAAAAACTTATTTGGATTC
1 AAATTAAAA-ATAAAAACTTATGTGGATGC
* *
18281453 AAATTAAAATTTAAGAACTTATGTGGATGC
1 AAATTAAAA-ATAAAAACTTATGTGGATGC
18281483 AAATTAAAAATAAA
1 AAATTAAAAATAAA
18281497 TGGTTTATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 3 0.08
30 34 0.92
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.31
Consensus pattern (29 bp):
AAATTAAAAATAAAAACTTATGTGGATGC
Found at i:18283978 original size:19 final size:19
Alignment explanation
Indices: 18283956--18284018 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
18283946 TAAATCGATT
18283956 TTAAAATCGACTTTATTTC
1 TTAAAATCGACTTTATTTC
* ** ***
18283975 TTAATATTTAACTTGTAAACC
1 TTAA-AATCGACTT-TATTTC
18283996 TTAAAATCGACTTTATTTC
1 TTAAAATCGACTTTATTTC
18284015 TTAA
1 TTAA
18284019 TATTTAACTT
Statistics
Matches: 30, Mismatches: 12, Indels: 4
0.65 0.26 0.09
Matches are distributed among these distances:
19 11 0.37
20 12 0.40
21 7 0.23
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (19 bp):
TTAAAATCGACTTTATTTC
Found at i:18284057 original size:2 final size:2
Alignment explanation
Indices: 18284052--18284092 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
18284042 TGTGTGTGTC
*
18284052 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18284093 TCTTTCAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18285220 original size:13 final size:13
Alignment explanation
Indices: 18285202--18285227 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18285192 GTCAAGAATT
18285202 GTTTTTACCATGA
1 GTTTTTACCATGA
18285215 GTTTTTACCATGA
1 GTTTTTACCATGA
18285228 AAAAGTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTTACCATGA
Found at i:18287491 original size:24 final size:21
Alignment explanation
Indices: 18287440--18287493 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
18287430 TGAATATAAA
*
18287440 AATAAAATAATTTAAAATTTT
1 AATAAAATAATTTAAAAATTT
* * *
18287461 AATAATAATTATATATAAATTT
1 AATAA-AATAATTTAAAAATTT
18287483 AATAAAATAAT
1 AATAAAATAAT
18287494 AAATCAGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAAAATAATTTAAAAATTT
Done.