Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, 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: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 43
Found at i:3722734 original size:3 final size:3
Alignment explanation
Indices: 3722726--3722760 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
3722716 GATCTTTTAT
3722726 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3722761 TATGGACATT
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):
TAA
Found at i:3726182 original size:15 final size:15
Alignment explanation
Indices: 3726162--3726201 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
3726152 CTTGAAGTCT
3726162 CATATCTTCTTATCA
1 CATATCTTCTTATCA
*
3726177 CATATC-TCATATCA
1 CATATCTTCTTATCA
3726191 CA-AT-TTCTTAT
1 CATATCTTCTTAT
3726202 ATTTATATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 7 0.32
14 9 0.41
15 6 0.27
ACGTcount: A:0.30, C:0.25, G:0.00, T:0.45
Consensus pattern (15 bp):
CATATCTTCTTATCA
Found at i:3726385 original size:16 final size:16
Alignment explanation
Indices: 3726364--3726405 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
3726354 ATACAAGGCA
3726364 TATTCACACATATATG
1 TATTCACACATATATG
3726380 TATTCACACATATATG
1 TATTCACACATATATG
3726396 TATTCACACA
1 TATTCACACA
3726406 GTACACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (16 bp):
TATTCACACATATATG
Found at i:3729398 original size:255 final size:249
Alignment explanation
Indices: 3728952--3729560 Score: 888
Period size: 255 Copynumber: 2.4 Consensus size: 249
3728942 CTTATTCATA
*
3728952 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGCGT
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGGGT
* *
3729017 CGGGTGAAACTTTATTTTGGTCGGGTCCGATCGGACTTTTAAGTGTGATATTCGGGTCGGGTCGA
66 CGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGACTTTTAAGTGTGATATT---GTCGGGTCGA
* *
3729082 GTTCGGGTTTAGGGTGAAAAATACCTGACCCGAAAATATATATAATTTTACCATATATATTTAGG
128 GTTCGGGTTTAGGGTGAAAAATACCTAACCCGAAAAAATATATAATTTTACCATATATATTTAGG
*
3729147 AATAATTACAATAATACCCCTCTATATATAA-TTTTTT-CAATTAAGTCACTGTTTT
193 AATAATTACAATAATACCCCTCTATATATAATTTTTTTCCAATTAAGTCACTATTTT
3729202 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGT
1 TATTGAATAAAAATATTTTTTTATTA-TT----TCGGGTCGGGTTTCTAATTCATATATTCGGGT
* **
3729267 CGGGTCGGGTGAAACTTTATTTTGGTTGGG-CGGGTCGGTTTTTGTTTAAGTGTGATA-T-TCGG
61 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGG--ACT-TTTAAGTGTGATATTGTCGG
*
3729329 GTCG-GTTCGGGTTTAGGGTGAAAAATACCTAACCCGACCTAAAAAATATATAATTTTACCTTAT
123 GTCGAGTTCGGGTTTAGGGTGAAAAATACCTAACCCG----AAAAAATATATAATTTTACCATAT
3729393 ATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCCAATTAAGTCACTATTT
184 ATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCCAATTAAGTCACTATTT
3729458 T
249 T
* *
3729459 TATTGAATAAAAATAATTTTTTATTATTTCGGGTCGAGTTTCTAATTCATATATTCGGGTCGGGT
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGGGT
3729524 CGGGTTGGGTGAAACTTTATTTTGGTCGGGTCGGGTC
66 C-----GGGTGAAACTTTATTTTGGTCGGGTCGGGTC
3729561 TCGGATGGAG
Statistics
Matches: 326, Mismatches: 13, Indels: 32
0.88 0.04 0.09
Matches are distributed among these distances:
250 26 0.08
251 33 0.10
252 45 0.14
254 6 0.02
255 122 0.37
256 10 0.03
257 78 0.24
258 6 0.02
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.40
Consensus pattern (249 bp):
TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGGGT
CGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGACTTTTAAGTGTGATATTGTCGGGTCGAGTT
CGGGTTTAGGGTGAAAAATACCTAACCCGAAAAAATATATAATTTTACCATATATATTTAGGAAT
AATTACAATAATACCCCTCTATATATAATTTTTTTCCAATTAAGTCACTATTTT
Found at i:3729935 original size:17 final size:18
Alignment explanation
Indices: 3729913--3729953 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
3729903 TATGGAATTG
*
3729913 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
3729930 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
3729948 GATTCC
1 GATTCC
3729954 TCCCTCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:3731275 original size:13 final size:14
Alignment explanation
Indices: 3731245--3731277 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3731235 TCATCAATGT
*
3731245 TCATTTTAACATTA
1 TCATTCTAACATTA
3731259 TCATTCTAACA-TA
1 TCATTCTAACATTA
3731272 TCATTC
1 TCATTC
3731278 ATCGCATCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.45
Consensus pattern (14 bp):
TCATTCTAACATTA
Found at i:3731581 original size:2 final size:2
Alignment explanation
Indices: 3731574--3731598 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3731564 TTTAAAACAT
3731574 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3731599 TCTACTCATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3751336 original size:5 final size:5
Alignment explanation
Indices: 3751326--3751360 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
3751316 GGAGGGGAAT
3751326 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA
3751361 GATAAGCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:3752759 original size:20 final size:21
Alignment explanation
Indices: 3752736--3752828 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
3752726 ATTTCCCAAT
*
3752736 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
3752756 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
3752777 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
3752797 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
3752818 TCGCAATGCGA
1 TCGCAATGCGA
3752829 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:3752781 original size:41 final size:41
Alignment explanation
Indices: 3752736--3752828 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
3752726 ATTTCCCAAT
3752736 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
3752777 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
3752818 TCGCAATGCGA
1 TCGCAATGCGA
3752829 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:3752841 original size:41 final size:41
Alignment explanation
Indices: 3752755--3752889 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
3752745 GAATAAGTAA
** *
3752755 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
3752796 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
3752837 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
3752878 TTCGCAACGCGA
1 ATCGCAACGCGA
3752890 TACTGACTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:3752842 original size:20 final size:20
Alignment explanation
Indices: 3752817--3752910 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
3752807 AATTGGGAAA
*
3752817 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * * **
3752837 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-TACT
*
3752858 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
3752878 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
3752898 TTCGCAACGCGAT
1 ATCGCAACGCGAT
3752911 TTACATAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:3753525 original size:19 final size:19
Alignment explanation
Indices: 3753484--3753666 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
3753474 GAAACCAAAA
*
3753484 TCGCATTGCGATTTTCA-T
1 TCGCGTTGCGATTTTCATT
3753502 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
3753521 TCGCGTTGCGATTTTTA-T
1 TCGCGTTGCGATTTTCATT
3753539 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
3753559 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
3753575 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
3753592 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
3753606 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
3753625 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
3753645 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
3753665 TC
1 TC
3753667 AACCAAAAGA
Statistics
Matches: 135, Mismatches: 15, Indels: 29
0.75 0.08 0.16
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 22 0.16
19 49 0.36
20 36 0.27
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3753557 original size:38 final size:37
Alignment explanation
Indices: 3753484--3753666 Score: 175
Period size: 33 Copynumber: 5.1 Consensus size: 37
3753474 GAAACCAAAA
*
3753484 TCGCATTGCGATTTTCATTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTCGCGTTGCGATTTTCATT
*
3753521 TCGCGTTGCGATTTTTATTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTCGC-GTTGCGATTTTCATT
* * **
3753559 TCGCGTTGCGATTGTC--T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTCGCGTTGCGATTTTCATT
* **
3753592 TCGCGTTGCGA--TTC--TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTCGCGTTGCGATTTTCATT
* *
3753625 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCA-T-TCGCGTTGCGATTTTCATT
3753665 TC
1 TC
3753667 AACCAAAAGA
Statistics
Matches: 123, Mismatches: 13, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
31 3 0.02
33 38 0.31
34 10 0.08
35 1 0.01
36 3 0.02
37 20 0.16
38 29 0.24
39 1 0.01
40 18 0.15
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (37 bp):
TCGCGTTGCGATTTTCATTCGCGTTGCGATTTTCATT
Found at i:3753643 original size:20 final size:20
Alignment explanation
Indices: 3753609--3753666 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
3753599 GCGATTCTCT
**
3753609 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
3753629 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
3753649 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
3753667 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:3755728 original size:42 final size:42
Alignment explanation
Indices: 3755669--3755789 Score: 111
Period size: 42 Copynumber: 2.9 Consensus size: 42
3755659 CCGACTCGCG
* * *
3755669 TATCATCCCTCAAGAGTC-CACTCCTATCGTTGAAGAGGCCCC
1 TATCATCCCTCAAGAGTCTC-CTCCCACCGTTCAAGAGGCCCC
* * *
3755711 TATCATTCCTCGAGAGTCTCCTCCCACCGTTCAAGAGGCCAC
1 TATCATCCCTCAAGAGTCTCCTCCCACCGTTCAAGAGGCCCC
* ** * *
3755753 TGTCATCGTTGAAGAGGTC-CCTCCCACCATTCAAGAG
1 TATCATCCCTCAAGA-GTCTCCTCCCACCGTTCAAGAG
3755790 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 60 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
TATCATCCCTCAAGAGTCTCCTCCCACCGTTCAAGAGGCCCC
Found at i:3757166 original size:14 final size:14
Alignment explanation
Indices: 3757147--3757182 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3757137 ATTGTTTAAT
3757147 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
3757161 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
3757175 TGATTTGT
1 TGATTTGT
3757183 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:3757407 original size:33 final size:32
Alignment explanation
Indices: 3757365--3757489 Score: 157
Period size: 33 Copynumber: 3.9 Consensus size: 32
3757355 ATTAAATTCG
3757365 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
3757398 CGTTGCGATTTTCATTTCGCATTGCAAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGC--GATTCCT
*
3757431 CATTGCGA-TTTCA-TTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
3757462 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
3757490 AGTAATTTCA
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
29 3 0.04
31 17 0.22
32 10 0.13
33 45 0.58
35 3 0.04
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:3757464 original size:64 final size:66
Alignment explanation
Indices: 3757358--3757486 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 66
3757348 ACGCGAAATT
* *
3757358 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
3757423 A
66 A
*
3757424 AAATTAGCATTGCGA-TTTCA-TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
3757487 GATAGTAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 42 0.70
65 5 0.08
66 13 0.22
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (66 bp):
AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
A
Found at i:3759782 original size:12 final size:12
Alignment explanation
Indices: 3759765--3759789 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3759755 TCTTCGGGGA
3759765 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3759777 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3759789 C
1 C
3759790 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:3759995 original size:24 final size:24
Alignment explanation
Indices: 3759961--3760014 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3759951 CTGAAACATC
* *
3759961 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
3759985 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
3760009 ATCAAA
1 ATCAAA
3760015 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:3761031 original size:20 final size:20
Alignment explanation
Indices: 3761006--3761063 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
3760996 ATTCATTTGA
*
3761006 CTATCGCAATGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
3761026 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
3761046 -TAATCGCAACGAGAAAAT
1 CT-ATCGCAACGCGAAAAT
3761064 CGCAATGCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 1 0.03
20 34 0.97
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:3763126 original size:19 final size:19
Alignment explanation
Indices: 3763083--3763199 Score: 75
Period size: 20 Copynumber: 6.4 Consensus size: 19
3763073 TAGTTTACTT
*
3763083 TCGCAACACGAAACTTAAAA
1 TCGCAACACGAAA-TGAAAA
**
3763103 TCGCAACACGAAATGACTA
1 TCGCAACACGAAATGAAAA
* ***
3763122 TCGCAACGCGGAAATGGCTA
1 TCGCAACAC-GAAATGAAAA
**
3763142 TCGCAATGCGAAATGAAAA
1 TCGCAACACGAAATGAAAA
*
3763161 TCGC-A-ACG--A-CAAAA
1 TCGCAACACGAAATGAAAA
*
3763175 TCGCAACGCGAAATG-AAA
1 TCGCAACACGAAATGAAAA
3763193 TCGCAAC
1 TCGCAAC
3763200 GACAAAATCG
Statistics
Matches: 78, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
14 8 0.10
15 2 0.03
16 2 0.03
17 2 0.03
18 12 0.15
19 22 0.28
20 30 0.38
ACGTcount: A:0.43, C:0.25, G:0.19, T:0.14
Consensus pattern (19 bp):
TCGCAACACGAAATGAAAA
Found at i:3763137 original size:20 final size:19
Alignment explanation
Indices: 3763102--3763168 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
3763092 GAAACTTAAA
*
3763102 ATCGCAACACGAAATGACT
1 ATCGCAACGCGAAATGACT
*
3763121 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
3763141 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
3763160 ATCGCAACG
1 ATCGCAACG
3763169 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 23 0.57
20 17 0.43
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:3763176 original size:14 final size:14
Alignment explanation
Indices: 3763157--3763214 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
3763147 ATGCGAAATG
3763157 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
3763171 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
3763187 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
3763203 AAAATCGCAACG
1 AAAATCGCAACG
3763215 CGAAATTTGC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:3763199 original size:32 final size:33
Alignment explanation
Indices: 3763141--3763220 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 33
3763131 GGAAATGGCT
*
3763141 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
3763174 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
3763206 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
3763221 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 31 0.67
33 15 0.33
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:3763245 original size:19 final size:19
Alignment explanation
Indices: 3763221--3763318 Score: 71
Period size: 20 Copynumber: 5.3 Consensus size: 19
3763211 AACGCGAAAT
3763221 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
3763240 TTGCGA-TTT--TGT--CG
1 TTGCGATTTTCATTTCGCG
*
3763254 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
***
3763273 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTT-CGCG
** *
3763293 TTGCGATAGTCATTTTCGTG
1 TTGCGATTTTCA-TTTCGCG
3763313 TTGCGA
1 TTGCGA
3763319 AAGTAAACTA
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
14 8 0.13
15 3 0.05
16 2 0.03
17 2 0.03
18 3 0.05
19 19 0.30
20 23 0.37
21 3 0.05
ACGTcount: A:0.13, C:0.20, G:0.23, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:3763816 original size:18 final size:18
Alignment explanation
Indices: 3763790--3763834 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
3763780 GTCGATCAGA
3763790 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGTGAGG
*
3763808 TGATAGCTCTGGGTGAGG
1 TGATGGCTCTGGGTGAGG
3763826 TGATGGCTC
1 TGATGGCTC
3763835 CCGAAGTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.44, T:0.29
Consensus pattern (18 bp):
TGATGGCTCTGGGTGAGG
Found at i:3765463 original size:22 final size:22
Alignment explanation
Indices: 3765438--3765481 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3765428 GATTTAGATA
3765438 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
3765460 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
3765482 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:3765694 original size:20 final size:20
Alignment explanation
Indices: 3765669--3765721 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
3765659 GATTATATAT
*
3765669 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
3765689 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
3765709 TATCTCGTTGCGA
1 TATCGCGTTGCGA
3765722 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:3765758 original size:20 final size:20
Alignment explanation
Indices: 3765669--3765763 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
3765659 GATTATATAT
*
3765669 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
3765689 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGATAGTCAG
* ** * *
3765709 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-TAGTCAG
* *
3765730 TATCACATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
3765750 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
3765764 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:3765781 original size:21 final size:21
Alignment explanation
Indices: 3765752--3765844 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
3765742 ATAGTCAGTA
3765752 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
3765773 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
3765793 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
3765814 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
3765834 TCGCATTGCGA
1 TCGCATTGCGA
3765845 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:3765782 original size:41 final size:41
Alignment explanation
Indices: 3765752--3765844 Score: 150
Period size: 41 Copynumber: 2.3 Consensus size: 41
3765742 ATAGTCAGTA
* *
3765752 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* *
3765793 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
3765834 TCGCATTGCGA
1 TCGCATTGCGA
3765845 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:3767550 original size:2 final size:2
Alignment explanation
Indices: 3767545--3767597 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
3767535 CTCCATCAAG
3767545 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
3767587 TC TT TC TC TC T
1 TC TC TC TC TC T
3767598 TCTTTTTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:3771524 original size:34 final size:34
Alignment explanation
Indices: 3771481--3771546 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
3771471 TTCGTCGAGC
3771481 GCCTTACGGCCGGAGATCAACTCCATGAGGATGT
1 GCCTTACGGCCGGAGATCAACTCCATGAGGATGT
*
3771515 GCCTTACGGCCGGAGATCAACTTCATGAGGAT
1 GCCTTACGGCCGGAGATCAACTCCATGAGGAT
3771547 TACGCCAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (34 bp):
GCCTTACGGCCGGAGATCAACTCCATGAGGATGT
Found at i:3777299 original size:20 final size:20
Alignment explanation
Indices: 3777274--3777345 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
3777264 ACATACTAAA
3777274 AGTATCGATACTAGCCCAAG
1 AGTATCGATACTAGCCCAAG
3777294 AGTATCGATACTAGCCCAAG
1 AGTATCGATACTAGCCCAAG
3777314 AGTATCGATACT-GCCACAAG
1 AGTATCGATACTAGCC-CAAG
*
3777334 AGTTTCGATACT
1 AGTATCGATACT
3777346 TTATATAAGT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 3 0.06
20 47 0.94
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (20 bp):
AGTATCGATACTAGCCCAAG
Found at i:3778844 original size:16 final size:16
Alignment explanation
Indices: 3778823--3778853 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3778813 TGATTGTTGG
3778823 TATATTCTATATATTT
1 TATATTCTATATATTT
*
3778839 TATATTTTATATATT
1 TATATTCTATATATT
3778854 ATTAGCTTAT
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:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TATATTCTATATATTT
Found at i:3784812 original size:4 final size:4
Alignment explanation
Indices: 3784805--3784829 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
3784795 TATATATATA
3784805 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
3784830 GAGTATAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:3795370 original size:47 final size:48
Alignment explanation
Indices: 3795313--3795409 Score: 142
Period size: 47 Copynumber: 2.0 Consensus size: 48
3795303 TGAAGTTAAA
*
3795313 ATTTTAAACTTTTAGATTATTTGTTTTACTCG-AAGTTCAAACACAAT
1 ATTTTAAACTTTTAGATTATTTGTTTTACGCGTAAGTTCAAACACAAT
* * * *
3795360 ATTTTGAACTTTTATATTATTTGTTTTACGGGTAAGTTTAAACACAAT
1 ATTTTAAACTTTTAGATTATTTGTTTTACGCGTAAGTTCAAACACAAT
3795408 AT
1 AT
3795410 GTTTTGCACC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 28 0.64
48 16 0.36
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (48 bp):
ATTTTAAACTTTTAGATTATTTGTTTTACGCGTAAGTTCAAACACAAT
Found at i:3799026 original size:19 final size:19
Alignment explanation
Indices: 3798999--3799037 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
3798989 AAAATGGAAT
*
3798999 TTTTAGGAATTTATATGTA
1 TTTTAGGAAGTTATATGTA
*
3799018 TTTTCGGAAGTTATATGTA
1 TTTTAGGAAGTTATATGTA
3799037 T
1 T
3799038 GTAATCAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTTAGGAAGTTATATGTA
Found at i:3800747 original size:114 final size:111
Alignment explanation
Indices: 3800560--3800938 Score: 334
Period size: 112 Copynumber: 3.4 Consensus size: 111
3800550 TCAATCCAGT
* * * ** * * *
3800560 ACAATAATAATTTCAAGTGACATAG--TCTTAACTATTCATGTCATT-TTATACGTAGTGAAATA
1 ACAATAATAATTTCAAATGATAGAGAATCTTAACTATTCA---CATTATTATGTGCAGGGAAACA
* * *
3800622 TCACCTCAAATCAGAATTTCCTTCATACTACAAGAAAATGGTAATCCGGG
63 TCACATCAAATCAGAATTT-CTTCATACTACAAGAAAATGATGATCCGGG
* * * * *
3800672 ACAATAATAATTTTAAATGATAGAGAATCTTAATTATTCACACTTTATTCTTTGCGGGGAAACAT
1 ACAATAATAATTTCAAATGATAGAGAATCTTAACTATTCACA--TTATTATGTGCAGGGAAACAT
* * * * *
3800737 CACATTAAATCAGAACTTTCTTCAAACTGCAAGAAAATGATGATCTGGT
64 CACATCAAATCAGAA-TTTCTTCATACTACAAGAAAATGATGATCCGGG
* * * * * * * *
3800786 ACAATAATGATTTCAAATGACA-ACGAACCATAACTATTCATATTCTTATGTGTAGTGAAACATC
1 ACAATAATAATTTCAAATGATAGA-GAATCTTAACTATTCACATTATTATGTGCAGGGAAACATC
* * * *
3800850 ACCTCAAATCAAAAATTTCTTCATACTACAAGAAAATGATGATTCGAG
65 ACATCAAATC-AGAATTTCTTCATACTACAAGAAAATGATGATCCGGG
* *
3800898 ATAATAATAATTTCAAATGATAGAGGATCTTAACTATTCAC
1 ACAATAATAATTTCAAATGATAGAGAATCTTAACTATTCAC
3800939 TTTTTTTCTT
Statistics
Matches: 209, Mismatches: 49, Indels: 18
0.76 0.18 0.07
Matches are distributed among these distances:
111 2 0.01
112 104 0.50
113 7 0.03
114 93 0.44
115 3 0.01
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (111 bp):
ACAATAATAATTTCAAATGATAGAGAATCTTAACTATTCACATTATTATGTGCAGGGAAACATCA
CATCAAATCAGAATTTCTTCATACTACAAGAAAATGATGATCCGGG
Found at i:3806404 original size:20 final size:19
Alignment explanation
Indices: 3806373--3806425 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
3806363 CTGAGGGTTA
3806373 GGGGTGTGGGTTGAAGAAT
1 GGGGTGTGGGTTGAAGAAT
*
3806392 GGGGTGTTGGGTTGGAGAAT
1 GGGGTG-TGGGTTGAAGAAT
3806412 GGGGTGCTGGGTTG
1 GGGGTG-TGGGTTG
3806426 CTGGGGCTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.13, C:0.02, G:0.57, T:0.28
Consensus pattern (19 bp):
GGGGTGTGGGTTGAAGAAT
Found at i:3810006 original size:45 final size:45
Alignment explanation
Indices: 3809955--3810046 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
3809945 ATAAAATTTC
* *
3809955 TTACCAATATATTTTCCATTTATCCCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATT
3810000 TTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATT
1 TTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATT
3810045 TT
1 TT
3810047 CATGGTTACC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (45 bp):
TTACCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATT
Found at i:3810045 original size:25 final size:25
Alignment explanation
Indices: 3809972--3810045 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
3809962 TATATTTTCC
3809972 ATTTATCCCATAAGCTCGTAAGCTT
1 ATTTATCCCATAAGCTCGTAAGCTT
* *
3809997 ATTT-TACCAATATA-CT--T-A-C-C
1 ATTTAT-CCCATA-AGCTCGTAAGCTT
3810017 ATTTATCCCATAAGCTCGTAAGCTT
1 ATTTATCCCATAAGCTCGTAAGCTT
3810042 ATTT
1 ATTT
3810046 TCATGGTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 18
0.62 0.07 0.31
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 2 0.06
22 2 0.06
23 2 0.06
24 2 0.06
25 15 0.42
26 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (25 bp):
ATTTATCCCATAAGCTCGTAAGCTT
Found at i:3810057 original size:40 final size:42
Alignment explanation
Indices: 3809970--3810062 Score: 127
Period size: 45 Copynumber: 2.2 Consensus size: 42
3809960 AATATATTTT
3809970 CCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTA
1 CCATTTATCCCATAAGCTCGTAAGCTTATTTTA-C-A-ATACTTA
**
3810015 CCATTTATCCCATAAGCTCGTAAGCTTATTTT-C-ATGGTTA
1 CCATTTATCCCATAAGCTCGTAAGCTTATTTTACAATACTTA
3810055 CCATTTAT
1 CCATTTAT
3810063 TAACCAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
40 13 0.28
43 1 0.02
45 32 0.70
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (42 bp):
CCATTTATCCCATAAGCTCGTAAGCTTATTTTACAATACTTA
Found at i:3814502 original size:26 final size:26
Alignment explanation
Indices: 3814473--3814537 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
3814463 AAAAATGATT
3814473 AAATAAATAATAAA-AACAAAA-AACAA
1 AAATAAATAATAAATAA-AAAAGAA-AA
* *
3814499 AAATAAATAGTAAATAAAAAAGAATA
1 AAATAAATAATAAATAAAAAAGAAAA
3814525 AAATAAAATAATA
1 AAAT-AAATAATA
3814538 TACTATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 22 0.67
27 11 0.33
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (26 bp):
AAATAAATAATAAATAAAAAAGAAAA
Found at i:3814728 original size:38 final size:37
Alignment explanation
Indices: 3814552--3814903 Score: 278
Period size: 36 Copynumber: 9.8 Consensus size: 37
3814542 ATATAATATA
* *
3814552 AAAAAT-TGTTTTAAAACTATATATAATATA-TATTTC
1 AAAAATGTTTTTTAAAACTATATATTATATAGT-TTTC
* * * * * *
3814588 AAAGAT-ATTTTCAAAGCCATATATTATATAATTTT-
1 AAAAATGTTTTTTAAAACTATATATTATATAGTTTTC
*
3814623 AAAAATG--TTTTCAAACTATATA-T-TATAGTTTTC
1 AAAAATGTTTTTTAAAACTATATATTATATAGTTTTC
* *
3814656 AAAAACG--TTTTAAAAC--TATGTTATAT-GTTTTC
1 AAAAATGTTTTTTAAAACTATATATTATATAGTTTTC
* *
3814688 AAAAATGTTTTCTTTAAACTATATATTATATAGATTTC
1 AAAAATGTTTT-TTAAAACTATATATTATATAGTTTTC
*
3814726 -AAAATG-ATTTTAAAACTATATATTATATAAGTTTTC
1 AAAAATGTTTTTTAAAACTATATATTATAT-AGTTTTC
* *
3814762 -AAAATG-ATTTTAAAACTATATATTATTTATGTTTTC
1 AAAAATGTTTTTTAAAACTATATATTATATA-GTTTTC
*
3814798 TAAAAATG-TTTTAAAAACTATATATTATATAGTTTTC
1 -AAAAATGTTTTTTAAAACTATATATTATATAGTTTTC
** * *
3814835 AAAGGTATTTTTTAAAA--ACTATATTATATACATTTTC
1 AAAAATGTTTTTTAAAACTA-TATATTATATA-GTTTTC
*
3814872 -AAAATGTATTTTTAAAAATCATATATTATATA
1 AAAAATGT-TTTTTAAAACT-ATATATTATATA
3814904 TGTATTTTTC
Statistics
Matches: 259, Mismatches: 35, Indels: 41
0.77 0.10 0.12
Matches are distributed among these distances:
31 3 0.01
32 21 0.08
33 18 0.07
34 13 0.05
35 31 0.12
36 86 0.33
37 44 0.17
38 31 0.12
39 11 0.04
40 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (37 bp):
AAAAATGTTTTTTAAAACTATATATTATATAGTTTTC
Found at i:3814858 original size:74 final size:69
Alignment explanation
Indices: 3814560--3814903 Score: 251
Period size: 74 Copynumber: 4.8 Consensus size: 69
3814550 TAAAAAATTG
* * * *
3814560 TTTTAAAACTATATATAATATA-TATTTCAAAGAT-ATTTTCAAAGCCATATATTATATAATTTT
1 TTTTAAAACTATATAT-TTATAGT-TTTCAAA-ATGATTTT-AAAACTATATATTATATAGTTTT
* *
3814623 -AAAAATG
62 CAAATATT
* * *
3814630 TTTTCAAACTATATA-TTATAGTTTTCAAAAACG-TTTTAAAAC--TATGTTATAT-GTTTTCAA
1 TTTTAAAACTATATATTTATAGTTTTC-AAAATGATTTTAAAACTATATATTATATAGTTTTC--
*
3814690 AAATGTT
63 AAATATT
* *
3814697 TTCTTTAAACTATATATTATATAGATTTCAAAATGATTTTAAAACTATATATTATATAAGTTTTC
1 TT-TTAAAACTATATATT-TATAGTTTTCAAAATGATTTTAAAACTATATATTATAT-AGTTTTC
*
3814762 AAA-ATGA
63 AAATAT-T
*
3814769 TTTTAAAACTATATATTATTTATGTTTTCTAAAAATG-TTTTAAAAACTATATATTATATAGTTT
1 TTTTAAAACTATATATT-TATA-GTTTTC--AAAATGATTTT-AAAACTATATATTATATAGTTT
3814833 TCAAAGGTATT
61 TCAAA--TATT
* * *
3814844 TTTTAAAAACTATAT-TATATACATTTTCAAAATGTATTTTTAAAAATCATATATTATATA
1 TTTT-AAAACTATATATTTATA-GTTTTCAAAATG-A-TTTTAAAACT-ATATATTATATA
3814904 TGTATTTTTC
Statistics
Matches: 223, Mismatches: 24, Indels: 49
0.75 0.08 0.17
Matches are distributed among these distances:
64 4 0.02
65 9 0.04
67 10 0.04
68 25 0.11
69 10 0.04
70 32 0.14
71 19 0.09
72 25 0.11
73 14 0.06
74 42 0.19
75 21 0.09
76 12 0.05
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (69 bp):
TTTTAAAACTATATATTTATAGTTTTCAAAATGATTTTAAAACTATATATTATATAGTTTTCAAA
TATT
Found at i:3815711 original size:84 final size:83
Alignment explanation
Indices: 3815583--3816566 Score: 759
Period size: 84 Copynumber: 11.9 Consensus size: 83
3815573 ACTTGCCTCT
* * * *
3815583 GAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAGCCCTTCTCAACTTAATCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAT-TATG
*
3815644 CTGCAAATGATGTTCCTAG
65 CTGCAAATGATGTGCCTAG
* * *
3815663 GAGTTGAGCGTAGTCAAACTCGAAGGTCTTTTATTGGCAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAA-TTATG
* *
3815728 CTACAAATGATATGCCTTA-
65 CTGCAAATGATGTGCC-TAG
* * *
3815747 GAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAA-TTATG
* * *
3815812 TTGTAAATGATGTGCCCTCG
65 CTGCAAATGATGTG-CCTAG
* * * * * * *
3815832 AAGCTGAGTGTAATCGAACTCGAGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAA-TTATG
** * * *
3815893 CTAAAAATTATGTGACTTG
65 CTGCAAATGATGTGCCTAG
* * * *
3815912 GAGCTGAGCGTAGTCGAACTCAAAAGTCTTTGGTTGGAAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAA-TTATG
*
3815977 CTGCAAATGATATGCCTTA-
65 CTGCAAATGATGTGCC-TAG
** * * * *
3815996 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGAGACAGATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTT-AATTATG
** *
3816061 CTATAAATGATGTGCCCTCG
65 CTGCAAATGATGTG-CCTAG
* * * * * * * * * * * * *
3816081 AAACTGAGTGTAATCAAACTTG-AGGGC--CT-TTGGAAAATAGCCCTTCTTGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAA-TTATG
*
3816142 CTGCAAATGATGTGCCTTG
65 CTGCAAATGATGTGCCTAG
** * * ** * * *
3816161 GAGCTGAATGTAGTCGAACTCAAAGGTCTTTTGGTGATAGATAACCTTTCTAGCCTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAA-TTATG
* * *
3816226 TTGTAAATGATGTGTCCTCG
65 CTGCAAATGATGTG-CCTAG
* * * * * * *
3816246 AAGCTGAGTGTAATCGAACTTGAGGGTC---T-TTGGCAGATAGCCCTTCTCAACTTAATCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAT-TATG
* *
3816307 CTACAAATGATGTGCCTTG
65 CTGCAAATGATGTGCCTAG
** * *
3816326 GAGCTGAAAGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCAACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAA-TTATG
* *
3816391 CTGCAAATGATATGACTTA-
65 CTGCAAATGATGTG-CCTAG
** * * * * * *
3816410 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGAGACAAATAACCCTTTTTGCCTTGAGCTT-T
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTT-A-ATTAT
* *
3816474 GTTGCAAATGATGTGCCTTG
64 GCTGCAAATGATGTGCCTAG
* * * * * *
3816494 GAGATGAGCGTAGTCAAACTCGAAGGTC-TTTGTTGGTAGATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTT-AATTATG
3816558 CTGCAAATG
65 CTGCAAATG
3816567 TTGTCTTAAA
Statistics
Matches: 705, Mismatches: 166, Indels: 63
0.75 0.18 0.07
Matches are distributed among these distances:
80 96 0.14
81 106 0.15
82 5 0.01
83 37 0.05
84 381 0.54
85 80 0.11
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (83 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAATTATGC
TGCAAATGATGTGCCTAG
Found at i:3815862 original size:249 final size:248
Alignment explanation
Indices: 3815584--3816566 Score: 1052
Period size: 249 Copynumber: 4.0 Consensus size: 248
3815574 CTTGCCTCTG
*
3815584 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCAACTTAATCTATGCTGCA
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATGCTGCA
* * * * ** *
3815649 AATGATGTTCCTAGGAGTTGAGCGTAGTCAAACTCGAAGGTCTTTTATTGGCAGATAACCCTTCT
66 AATGATGTGCCTAGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGACAGATAACCCTTCT
* *
3815714 CGACTTAAGTTATGCTACAAATGATATGCCTTAGAGCTGAGCATAGTCGAACTCGAAGGTCTTTT
131 CGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTT
* * **
3815779 GGTGACAGATAACCCTTCTCGACTTAAGTTATGTTGTAAATGATGTGCCCTCGA
195 GGTGACAGATAACCCTTCTAGACTTAAGTTATGCTACAAATGATGTGCCCTCGA
* * * **
3815833 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTAAA
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATGCTGCA
* * * *
3815898 AATTATGTGACTTGGAGCTGAGCGTAGTCGAACTCAAAAGTC-TTTGGTTGGA-AGATAACCCTT
66 AATGATGTGCCTAGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGG-T-GACAGATAACCCTT
3815961 CTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
129 CTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTC-T
* * * *
3816026 TTGGAGACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGA
193 TTGGTGACAGATAACCCTTCTAGACTTAAGTTATGCTACAAATGATGTGCCCTCGA
* * * * * * * **
3816082 AACTGAGTGTAATCAAACTTGAGGGCCTTTGGAAAATAGCCCTTCTTGACTTAAGCTATGCTGCA
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATGCTGCA
* ** * *
3816147 AATGATGTGCCTTGGAGCTGAATGTAGTCGAACTCAAAGGTCTTTTGGTGATAGATAACCTTTCT
66 AATGATGTGCCTAGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGACAGATAACCCTTCT
* * * * * * * * * *
3816212 AGCCTTAAGTTATGTTGTAAATGATGTGTCC-TCGAAGCTGAGTGTAATCGAACTTGAGGGTCTT
131 CGACTTAAGTTATGCTGCAAATGATATG-CCTTAG-AGCTGAGCGTAGTCGAACTCGAAGGTCTT
* * *
3816276 T-G-G-CAGATAGCCCTTCTCA-ACTTAA-TCTATGCTACAAATGATGTG-CCTTGG
194 TGGTGACAGATAACCCTTCT-AGACTTAAGT-TATGCTACAAATGATGTGCCCTCGA
** * * *
3816327 AGCTGAAAGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCAACTTAAGTTATGC
1 AGCTGAGTGTAATCGAACTCGAAGGTC--T--TTGGCAGATAGCCCTTCTCAACTTAAGCTATGC
* * * * *
3816392 TGCAAATGATATGACTTA-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGAGACAAATAACC
62 TGCAAATGATGTG-CCTAGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGACAGATAACC
* * * * * * * * *
3816456 CTTTTTGCCTTGAGCTT-TGTTGCAAATGATGTGCCTTGGAGATGAGCGTAGTCAAACTCGAAGG
126 CTTCTCGACTTAAG-TTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGG
* ** * * *
3816520 TCTTTGTTGGTAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATG
190 TCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGCTACAAATG
3816567 TTGTCTTAAA
Statistics
Matches: 616, Mismatches: 98, Indels: 38
0.82 0.13 0.05
Matches are distributed among these distances:
245 24 0.04
246 34 0.06
247 3 0.00
248 32 0.05
249 457 0.74
250 37 0.06
251 28 0.05
252 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (248 bp):
AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATGCTGCA
AATGATGTGCCTAGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGACAGATAACCCTTCT
CGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG
GTGACAGATAACCCTTCTAGACTTAAGTTATGCTACAAATGATGTGCCCTCGA
Found at i:3815887 original size:165 final size:163
Alignment explanation
Indices: 3815583--3816566 Score: 887
Period size: 165 Copynumber: 5.9 Consensus size: 163
3815573 ACTTGCCTCT
* * * *
3815583 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG-CAGATAGCCCTTCTCAACTTAA-TCTATGCT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGACAGATAACCCTTCTCGACTTAAGT-TATGCT
* * * * *
3815646 GCAAATGATGTTCCTAGGAGTTGAGCGTAGTCAAACTCGAAGGTCTTTTATTGGCAGATAACCCT
65 GCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC--TTGTTGGCAGATAACCCT
* *
3815711 TCTCGACTTAAGTTATGCTACAAATGATATGCCTTA
128 TCTAGACTTAAGTTATGCTACAAATGATGTGCCTTA
*
3815747 GAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTT-G-GACAGATAACCCTTCTCGACTTAAGTTATG
* * * * * * * *
3815812 TTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-T-TTGGCAGATAGCCC
63 CTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGTTGGCAGATAACCC
* * * * * * *
3815875 TTCTCGACTTAAGCTATACTAAAAATTATGTGACTTG
127 TTCTAGACTTAAGTTATGCTACAAATGATGTGCCTTA
* *
3815912 GAGCTGAGCGTAGTCGAACTCAAAAGTCTTTGGTTGGA-AGATAACCCTTCTCGACTTAAGTTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC--T--TTGGACAGATAACCCTTCTCGACTTAAGTTAT
* *
3815976 GCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-TTGGAGACAGATAA
62 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGTT-G-G-CAGATAA
* * * * *
3816040 CCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTC
124 CCCTTCTAGACTTAAGTTATGCTACAAATGATGTGCCTTA
* * * * * * * * * * *
3816080 GAAACTGAGTGTAATCAAACTTGAGGGCCTTTGGA-AAATAGCCCTTCTTGACTTAAGCTATGCT
1 G-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGACAGATAACCCTTCTCGACTTAAGTTATGCT
** * * *
3816144 GCAAATGATGTGCCTTGGAGCTGAATGTAGTCGAACTCAAAGGTCTT-TTGGTGATAGATAACCT
65 GCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGTT-G-G-CAGATAACCC
* * ** *
3816208 TTCTAGCCTTAAGTTATGTTGTAAATGATGTGTCC-TC
127 TTCTAGACTTAAGTTATGCTACAAATGATGTG-CCTTA
* * * * * *
3816245 GAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGG-CAGATAGCCCTTCTCAACTTAA-TCTATGC
1 G-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGACAGATAACCCTTCTCGACTTAAGT-TATGC
* **
3816308 TACAAATGATGTGCCTTGGAGCTGAAAGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCC
64 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT-GTTGGCAGATAACCC
* * *
3816373 TTCTCA-ACTTAAGTTATGCTGCAAATGATATGACTTA
127 TTCT-AGACTTAAGTTATGCTACAAATGATGTGCCTTA
* * * * *
3816410 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGAGACAAATAACCCTTTTTGCCTTGAGCTT-T
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTT-G-GACAGATAACCCTTCTCGACTTAAG-TTAT
* * * *
3816474 GTTGCAAATGATGTGCCTTGGAGATGAGCGTAGTCAAACTCGAAGGTCTTTGTTGGTAGATAACC
62 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGTTGGCAGATAACC
* * *
3816539 CTTCTAGCCTTGAGTTATGCTGCAAATG
126 CTTCTAGACTTAAGTTATGCTACAAATG
3816567 TTGTCTTAAA
Statistics
Matches: 683, Mismatches: 108, Indels: 55
0.81 0.13 0.07
Matches are distributed among these distances:
164 76 0.11
165 365 0.53
166 15 0.02
167 43 0.06
168 137 0.20
169 46 0.07
170 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (163 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGACAGATAACCCTTCTCGACTTAAGTTATGCTG
CAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCT
AGACTTAAGTTATGCTACAAATGATGTGCCTTA
Found at i:3816191 original size:414 final size:414
Alignment explanation
Indices: 3815707--3816469 Score: 1247
Period size: 414 Copynumber: 1.8 Consensus size: 414
3815697 TGGCAGATAA
* * *
3815707 CCCTTCTCGACTTAAGTTATGCTACAAATGATATGCCTTAGAGCTGAGCATAGTCGAACTCGAAG
1 CCCTTCTCGACTTAAGCTATGCTACAAATGATATGCCTTAGAGCTGAACATAGTCGAACTCAAAG
*
3815772 GTCTTTTGGTGACAGATAACCCTTCTCGACTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCT
66 GTCTTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCT
* *
3815837 GAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTAAAAATT
131 GAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATACTAAAAATG
** *
3815902 ATGTGACTTGGAGCTGAGCGTAGTCGAACTCAAAAGTCTTTGGTTGGAAGATAACCCTTCTCGAC
196 ATGTGACTTGGAGCTGAAAGTAGTCGAACTCAAAAGTCTTTGGTTGGAAGATAACCCTTCTCAAC
*
3815967 TTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGAG
261 TTAAGTTATGCTGCAAATGATATGACTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGAG
*
3816032 ACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAACTGAGTGTAATCA
326 ACAAATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAACTGAGTGTAATCA
3816097 AACTTGAGGGCCTTTGGAAAATAG
391 AACTTGAGGGCCTTTGGAAAATAG
* * * * **
3816121 CCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAATGTAGTCGAACTCAAAG
1 CCCTTCTCGACTTAAGCTATGCTACAAATGATATGCCTTAGAGCTGAACATAGTCGAACTCAAAG
* * * *
3816186 GTCTTTTGGTGATAGATAACCTTTCTAGCCTTAAGTTATGTTGTAAATGATGTGTCCTCGAAGCT
66 GTCTTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCT
* * * *
3816251 GAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAATCTATGCTACAAATG
131 GAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATACTAAAAATG
* * * *
3816316 ATGTGCCTTGGAGCTGAAAGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCAAC
196 ATGTGACTTGGAGCTGAAAGTAGTCGAACTCAAAAGTCTTTGGTTGGAAGATAACCCTTCTCAAC
3816381 TTAAGTTATGCTGCAAATGATATGACTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGAG
261 TTAAGTTATGCTGCAAATGATATGACTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGAG
* *
3816446 ACAAATAACCCTTTTTGCCTTGAG
326 ACAAATAACCCTTCTAGCCTTGAG
3816470 CTTTGTTGCA
Statistics
Matches: 318, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
414 318 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (414 bp):
CCCTTCTCGACTTAAGCTATGCTACAAATGATATGCCTTAGAGCTGAACATAGTCGAACTCAAAG
GTCTTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCT
GAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATACTAAAAATG
ATGTGACTTGGAGCTGAAAGTAGTCGAACTCAAAAGTCTTTGGTTGGAAGATAACCCTTCTCAAC
TTAAGTTATGCTGCAAATGATATGACTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGAG
ACAAATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAACTGAGTGTAATCA
AACTTGAGGGCCTTTGGAAAATAG
Found at i:3823073 original size:511 final size:512
Alignment explanation
Indices: 3822111--3823113 Score: 1882
Period size: 511 Copynumber: 2.0 Consensus size: 512
3822101 GAAAAAGAAA
**
3822111 AAATGTGTTGAATTTAAAAGAAAGAACAAAGTTAAAATTAAATATAAAACCCAGAAAATAACTTA
1 AAATGTGCCGAATTTAAAAGAAAGAACAAAGTTAAAATTAAATATAAAACCCAGAAAATAACTTA
3822176 CAACCAATACAGGGACAAAGGCTATAGTTAGCCCTAAATCATATTAGGGGATCCGGTTCGGGTTA
66 CAACCAATACAGGGACAAAGGCTATAGTTAGCCCTAAATCATATTAGGGGATCCGGTTCGGGTTA
3822241 TTGGGCCAAATGGGTATGCTATATAAACCCAAAAAAACCAGAAAACTCTCATTTTCCCCTCTTCT
131 TTGGGCCAAATGGGTATGCTATATAAACCCAAAAAAACCAGAAAACTCTCATTTTCCCCTCTTCT
*
3822306 CTCAAAACCAAGAGAGAGATTCTCTCTCAAACTTTCTCGCCCCGATTATCTTCCTCGATGAAACT
196 CTCAAAACCAAGAGAGAGATTCTCTCTCAAACTTTCTCGCCCCGATTATCTTCCCCGATGAAACT
3822371 TCACCGACAACCGTCGCCTAGAAAACCCTCCGACCACCGTACACAATGCTCGGTTCCCAACGAAA
261 TCACCGACAACCGTCGCCTAGAAAACCCTCCGACCACCGTACACAATGCTCGGTTCCCAACGAAA
*
3822436 CCTACCCTTCGAAAGCCCTCAACACCCTCAGCCTAACCTCGAGCCCCGATTGCGCAGAACCATTC
326 CCTACCCTTCGAAAGCCCTCAACACCCTCAGCCTAACCTCGAGCCCCGATTGCACAGAACCATTC
3822501 TTAAATGGCGTAGATCTAGGTTTCCAACCCTCGACTTTTACCTTTCTTCATGAAAACCGTTTGCT
391 TTAAATGGCGTAGATCTAGGTTTCCAACCCTCGACTTTTACCTTTCTTCATGAAAACCGTTTGCT
3822566 TCCTCGGTGTTCTTGCTTTTTTGTTTTGCTTATTGGTCGACTTTTACCTTTCTTCTT
456 TCCTCGGTGTTCTTGCTTTTTTGTTTTGCTTATTGGTCGACTTTTACCTTTCTTCTT
3822623 AAATGTGCCGAATTTAAAAGAAAGAACAAAGTTAAAATTAAATATAAAACCCAGAAAATAACTTA
1 AAATGTGCCGAATTTAAAAGAAAGAACAAAGTTAAAATTAAATATAAAACCCAGAAAATAACTTA
*
3822688 CAACCAATACA-GGACAAAGGCTATAGTTATCCCTAAATCATATTAGGGGATCCGGTTCGGGTTA
66 CAACCAATACAGGGACAAAGGCTATAGTTAGCCCTAAATCATATTAGGGGATCCGGTTCGGGTTA
3822752 TTGGGCCAAATGGGTATGCTATATAAACCCAAAAAAACCAGAAAACTCTCATTTTCCCCTCTTCT
131 TTGGGCCAAATGGGTATGCTATATAAACCCAAAAAAACCAGAAAACTCTCATTTTCCCCTCTTCT
*
3822817 CTCAAAACCAAGAGAGAGATTCTCTCTCAAACTTTCTCGCCCCGGTTATCTTCCCCGATGAAACT
196 CTCAAAACCAAGAGAGAGATTCTCTCTCAAACTTTCTCGCCCCGATTATCTTCCCCGATGAAACT
* * * *
3822882 TCGCCGACAACCGTCGCCTAGAAAACCCTCCGACCACCGTGCACAGTGGTCGGTTCCCAACGAAA
261 TCACCGACAACCGTCGCCTAGAAAACCCTCCGACCACCGTACACAATGCTCGGTTCCCAACGAAA
* *
3822947 CCTACCCTTTGAAAGCCCTCAACACCCTCAGCCTAACCTCGAGCCCCGATTGCACAGAACCGTTC
326 CCTACCCTTCGAAAGCCCTCAACACCCTCAGCCTAACCTCGAGCCCCGATTGCACAGAACCATTC
*
3823012 TTAAATGGTGTAGATCTAGGTTTCCAACCCTCGACTTTTACCTTTCTTCATGAAAACCGTTTGCT
391 TTAAATGGCGTAGATCTAGGTTTCCAACCCTCGACTTTTACCTTTCTTCATGAAAACCGTTTGCT
3823077 TCCTCGGTGTTCTTGCTTTTTTGTTTTGCTTATTGGT
456 TCCTCGGTGTTCTTGCTTTTTTGTTTTGCTTATTGGT
3823114 TGATGTTTGT
Statistics
Matches: 478, Mismatches: 13, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
511 404 0.85
512 74 0.15
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (512 bp):
AAATGTGCCGAATTTAAAAGAAAGAACAAAGTTAAAATTAAATATAAAACCCAGAAAATAACTTA
CAACCAATACAGGGACAAAGGCTATAGTTAGCCCTAAATCATATTAGGGGATCCGGTTCGGGTTA
TTGGGCCAAATGGGTATGCTATATAAACCCAAAAAAACCAGAAAACTCTCATTTTCCCCTCTTCT
CTCAAAACCAAGAGAGAGATTCTCTCTCAAACTTTCTCGCCCCGATTATCTTCCCCGATGAAACT
TCACCGACAACCGTCGCCTAGAAAACCCTCCGACCACCGTACACAATGCTCGGTTCCCAACGAAA
CCTACCCTTCGAAAGCCCTCAACACCCTCAGCCTAACCTCGAGCCCCGATTGCACAGAACCATTC
TTAAATGGCGTAGATCTAGGTTTCCAACCCTCGACTTTTACCTTTCTTCATGAAAACCGTTTGCT
TCCTCGGTGTTCTTGCTTTTTTGTTTTGCTTATTGGTCGACTTTTACCTTTCTTCTT
Found at i:3823759 original size:26 final size:26
Alignment explanation
Indices: 3823713--3823777 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
3823703 AAAAATGATT
*
3823713 AAATAAATAATAAAAACAAAA-AACAA
1 AAATAAATAGTAAAAACAAAAGAA-AA
*
3823739 AAATAAATAGTAAATAA-AAAAGAATA
1 AAATAAATAGTAAA-AACAAAAGAAAA
3823765 AAATAAAATAGTA
1 AAAT-AAATAGTA
3823778 TACTATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 22 0.65
27 12 0.35
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (26 bp):
AAATAAATAGTAAAAACAAAAGAAAA
Found at i:3826210 original size:16 final size:16
Alignment explanation
Indices: 3826189--3826222 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3826179 GTACTATTCA
*
3826189 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
3826205 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
3826221 CG
1 CG
3826223 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:3834314 original size:20 final size:20
Alignment explanation
Indices: 3834291--3834362 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
3834281 GTTTCCAGAT
*
3834291 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTATGACTA
* * *
3834311 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTATG-ACTA
* *
3834331 TCGTAACGCGATTCTGACTA
1 TCGCAACGCGATTATGACTA
3834351 TCGCAACGCGAT
1 TCGCAACGCGAT
3834363 AATACAAAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTATGACTA
Found at i:3835154 original size:20 final size:20
Alignment explanation
Indices: 3835131--3835169 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3835121 GCGTTACGAT
3835131 AGTCAGAATCACGTTGCGAC
1 AGTCAGAATCACGTTGCGAC
*
3835151 AGTCAGAATCGCGTTGCGA
1 AGTCAGAATCACGTTGCGA
3835170 TTTACATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (20 bp):
AGTCAGAATCACGTTGCGAC
Found at i:3835214 original size:59 final size:59
Alignment explanation
Indices: 3835145--3835287 Score: 259
Period size: 59 Copynumber: 2.4 Consensus size: 59
3835135 AGAATCACGT
* * *
3835145 TGCGACAGTCAGAATCGCGTTGCGATTTACATATTCGCAGCGATTTTCTAAAATCGCAA
1 TGCGATAGTCAAAATCACGTTGCGATTTACATATTCGCAGCGATTTTCTAAAATCGCAA
3835204 TGCGATAGTCAAAATCACGTTGCGATTTACATATTCGCAGCGATTTTCTAAAATCGCAA
1 TGCGATAGTCAAAATCACGTTGCGATTTACATATTCGCAGCGATTTTCTAAAATCGCAA
3835263 TGCGATAGTCAAAATCACGTTGCGA
1 TGCGATAGTCAAAATCACGTTGCGA
3835288 ATCTGGAAAC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 81 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (59 bp):
TGCGATAGTCAAAATCACGTTGCGATTTACATATTCGCAGCGATTTTCTAAAATCGCAA
Found at i:3835219 original size:20 final size:20
Alignment explanation
Indices: 3835194--3835278 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
3835184 GCGATTTTCT
3835194 AAAATCGCAATGCGATAGTC
1 AAAATCGCAATGCGATAGTC
* ** *
3835214 AAAATCACGTTGCGAT-TTAC
1 AAAATCGCAATGCGATAGT-C
* * **
3835234 ATATTCGC-A-GCGATTTTC
1 AAAATCGCAATGCGATAGTC
3835252 TAAAATCGCAATGCGATAGTC
1 -AAAATCGCAATGCGATAGTC
3835273 AAAATC
1 AAAATC
3835279 ACGTTGCGAA
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
18 6 0.12
19 9 0.19
20 26 0.54
21 7 0.15
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (20 bp):
AAAATCGCAATGCGATAGTC
Found at i:3835337 original size:19 final size:19
Alignment explanation
Indices: 3835313--3835368 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
3835303 TGCGATACTG
3835313 GAGATCGCGTTGCGATTTA
1 GAGATCGCGTTGCGATTTA
3835332 GAGATCGCGTTGCGATTTA
1 GAGATCGCGTTGCGATTTA
*
3835351 GAGATCGCATTGCGATTT
1 GAGATCGCGTTGCGATTT
3835369 TGTTGGTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCGTTGCGATTTA
Found at i:3836578 original size:505 final size:490
Alignment explanation
Indices: 3835606--3836594 Score: 1665
Period size: 505 Copynumber: 2.0 Consensus size: 490
3835596 TAATGTCATT
3835606 TACAAATAGTCGTAGGATAAAAATTTGTCATGCAAACTTTATATGCATAGACTAATCAACTATAT
1 TACAAATAGTCGTAGGATAAAAATTTGTCATGCAAACTTTATATGCATAGACTAATCAACTATAT
3835671 TTTCCCTAAAACCAAAAGAGATTATGGTACCATGGGATACTTCTAAGAACCATAAATGAAATTTC
66 TTTCCCTAAAACCAAAAGAGATTATGGTACCATGGGATACTTCTAAGAACCATAAATGAAATTTC
3835736 TAGTATAATTTTTGTCTTGTTATAAATATAGAATATGTTGTAACTTTTAAAATTAAAGATTTGAG
131 TAGTATAATTTTTGTCTTGTTATAAATATAGAATATGTTGTAACTTTTAAAATTAAAGATTTGAG
*
3835801 AGTTAAGTTTATCTCAATTTATTCATATTAGGACTAAATTGATAGAATATATAAGTAATTGTGAC
196 AGTTAAGTTTATCTCAATTTATTCATATTAGGACTAAATTGATAGAATATATAAGTAAATGTGAC
* **
3835866 CAAATGTATAATTATACCAAATACTTTAACTTCCACATCATCTTCTCCGTTAAATATTAACGGCA
261 CAAATGTATAATTATACCAAATAATTTAACTTCCACATCATCTTCTCCGTTAAATATTAACGAAA
* *
3835931 AATGGCTTAATTGATTGCATTTAAATATTTGAGTGACCTAATTGACAAAATTTCAAAAATATTGG
326 AATGGCTTAATTGAATGCATTTAAATAGTTGAGTGACCTAATTGACAAAATTTCAAAAATATTGG
* *
3835996 TCAAAATTAAAAGGGGGAATAGTTAAGTGGTCAATGATATAGTTTCCCTTTATTTTAAATAATTT
391 TCAAAATGAAAAGGGGGAATAGTTAAGTGGTCAATGATATAGTTTCCATTTATTTTAAATAATTT
3836061 ATCTTTAAATTTTTAACTAATTTATAAATAGACATA
456 ATCTTTAAA-TTTTAACTAATTTATAAATAGACATA
**
3836097 TACAAATAGTCGTAGGATAAAAATTTGTCATGTGAACTTTATATGCATAGACTAATCAACTATAT
1 TACAAATAGTCGTAGGATAAAAATTTGTCATGCAAACTTTATATGCATAGACTAATCAACTATAT
3836162 TTTCCCTAAAACCAAAAGAGATTATGGTACCATTGATGGAATACTTCTAAGAACCATAAATGAAA
66 TTTCCCTAAAACCAAAAGAGATTATGGTACCA-TG--GG-ATACTTCTAAGAACCATAAATGAAA
3836227 TTTCTAGTATAATTTTTGTCTTGTTATAAATATAGAATATGTTGTAACTTTTAAAATCTTTTAAA
127 TTTCTAGTATAATTTTTGTCTTGTTATAAATATAGAATATGTTG-------T--AA-CTTTTAAA
*
3836292 ATTAAAGATTTGAGGGTTAAGTTTATCTCAATTTATTCATATTAGGACTAAATTGATAGAATATA
182 ATTAAAGATTTGAGAGTTAAGTTTATCTCAATTTATTCATATTAGGACTAAATTGATAGAATATA
* *
3836357 TAAGTAAATGTGATCAAATGTGTAATTATACCAAATAATTTAACTTCCACATCATCTTCTCCGTT
247 TAAGTAAATGTGACCAAATGTATAATTATACCAAATAATTTAACTTCCACATCATCTTCTCCGTT
*
3836422 AAATATTAACGAAAAATGGCTTAATTGAATGCATTTAAATAGTTGAGTGACCTGATTGACAAAAT
312 AAATATTAACGAAAAATGGCTTAATTGAATGCATTTAAATAGTTGAGTGACCTAATTGACAAAAT
* * * *
3836487 TTCAAAAATATTGGTCAAAATGAAAA-GGGGAATAGTTAGGTGGTTACTGGTATAGTTTCCATTT
377 TTCAAAAATATTGGTCAAAATGAAAAGGGGGAATAGTTAAGTGGTCAATGATATAGTTTCCATTT
3836551 ATTTTAAATAATTTATCTTTAAAATTTTAACTAATTTATAAATA
442 ATTTTAAATAATTTATCTTT-AAATTTTAACTAATTTATAAATA
3836595 TACGTTGAGT
Statistics
Matches: 465, Mismatches: 18, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
491 95 0.20
492 2 0.00
494 2 0.00
495 69 0.15
502 1 0.00
504 75 0.16
505 221 0.48
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (490 bp):
TACAAATAGTCGTAGGATAAAAATTTGTCATGCAAACTTTATATGCATAGACTAATCAACTATAT
TTTCCCTAAAACCAAAAGAGATTATGGTACCATGGGATACTTCTAAGAACCATAAATGAAATTTC
TAGTATAATTTTTGTCTTGTTATAAATATAGAATATGTTGTAACTTTTAAAATTAAAGATTTGAG
AGTTAAGTTTATCTCAATTTATTCATATTAGGACTAAATTGATAGAATATATAAGTAAATGTGAC
CAAATGTATAATTATACCAAATAATTTAACTTCCACATCATCTTCTCCGTTAAATATTAACGAAA
AATGGCTTAATTGAATGCATTTAAATAGTTGAGTGACCTAATTGACAAAATTTCAAAAATATTGG
TCAAAATGAAAAGGGGGAATAGTTAAGTGGTCAATGATATAGTTTCCATTTATTTTAAATAATTT
ATCTTTAAATTTTAACTAATTTATAAATAGACATA
Found at i:3844047 original size:8 final size:10
Alignment explanation
Indices: 3844023--3844061 Score: 69
Period size: 10 Copynumber: 3.9 Consensus size: 10
3844013 TCACACCAAA
*
3844023 TTCTCTCAAT
1 TTCTCTCAAC
3844033 TTCTCTCAAC
1 TTCTCTCAAC
3844043 TTCTCTCAAC
1 TTCTCTCAAC
3844053 TTCTCTCAA
1 TTCTCTCAA
3844062 ATACTCTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.44
Consensus pattern (10 bp):
TTCTCTCAAC
Found at i:3844068 original size:10 final size:10
Alignment explanation
Indices: 3844019--3844068 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
3844009 TTCATCACAC
3844019 CAAATTCTCT
1 CAAATTCTCT
*
3844029 CAATTTCTCT
1 CAAATTCTCT
*
3844039 CAACTTCTCT
1 CAAATTCTCT
*
3844049 CAACTTCTCT
1 CAAATTCTCT
*
3844059 CAAATACTCT
1 CAAATTCTCT
3844069 TATAATCTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 36 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:3844068 original size:20 final size:20
Alignment explanation
Indices: 3844019--3844068 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
3844009 TTCATCACAC
*
3844019 CAAATTCTCTCAATTTCTCT
1 CAAATTCTCTCAACTTCTCT
*
3844039 CAACTTCTCTCAACTTCTCT
1 CAAATTCTCTCAACTTCTCT
*
3844059 CAAATACTCT
1 CAAATTCTCT
3844069 TATAATCTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (20 bp):
CAAATTCTCTCAACTTCTCT
Found at i:3844126 original size:9 final size:9
Alignment explanation
Indices: 3844114--3844165 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
3844104 TAATATTTTG
3844114 TATTTAATT
1 TATTTAATT
*
3844123 TATTTAA-G
1 TATTTAATT
3844131 TATTTAATT
1 TATTTAATT
3844140 TATTTAA--
1 TATTTAATT
* *
3844147 TATTTTACT
1 TATTTAATT
3844156 TATTTAATT
1 TATTTAATT
3844165 T
1 T
3844166 TTTTGCAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 6 0.17
8 7 0.20
9 22 0.63
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TATTTAATT
Found at i:3844135 original size:17 final size:17
Alignment explanation
Indices: 3844113--3844162 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
3844103 TTAATATTTT
3844113 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
3844130 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
* *
3844147 -TATTTTACTTATTTAA
1 GTATTTAATTTATTTAA
3844163 TTTTTTTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:3844158 original size:16 final size:16
Alignment explanation
Indices: 3844122--3844167 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
3844112 TGTATTTAAT
* *
3844122 TTATTTAAGTATTTAAT
1 TTATTTAA-TATTTTAC
3844139 TTATTTAATATTTTAC
1 TTATTTAATATTTTAC
3844155 TTATTTAAT-TTTT
1 TTATTTAATATTTT
3844168 TTGCAGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 4 0.15
16 15 0.56
17 8 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATTTAATATTTTAC
Found at i:3851670 original size:19 final size:20
Alignment explanation
Indices: 3851646--3851688 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
3851636 TAAGTTACAA
*
3851646 TTGATGAAATTA-TGAGGTT
1 TTGATGAAATTAGTGAGATT
*
3851665 TTGATGAAGTTAGTGAGATT
1 TTGATGAAATTAGTGAGATT
3851685 TTGA
1 TTGA
3851689 ATTTATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (20 bp):
TTGATGAAATTAGTGAGATT
Found at i:3852150 original size:20 final size:19
Alignment explanation
Indices: 3852108--3852147 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
3852098 ATGAACTAAA
3852108 TATAATTTAATTTAAATGTT
1 TATAATTTAATTT-AATGTT
3852128 TATAAGTTTAATTT-ATGTT
1 TATAA-TTTAATTTAATGTT
3852147 T
1 T
3852148 TATGTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 5 0.26
21 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
TATAATTTAATTTAATGTT
Found at i:3852314 original size:48 final size:49
Alignment explanation
Indices: 3852261--3852362 Score: 179
Period size: 48 Copynumber: 2.1 Consensus size: 49
3852251 TTCGCTCTAG
*
3852261 TTTGCTTTTGATTTTTAAAAGTTAAAAATTT-TCCCATAGTTTCATCAC
1 TTTGCTTTTGATTTTTAAAAGTTAAAAATTTAACCCATAGTTTCATCAC
*
3852309 TTTGCTTTTGATTTTTAAAAGTTAAAAATTTAACCCCTAGTTTCATCAC
1 TTTGCTTTTGATTTTTAAAAGTTAAAAATTTAACCCATAGTTTCATCAC
3852358 TTTGC
1 TTTGC
3852363 CGTGGGTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 31 0.61
49 20 0.39
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (49 bp):
TTTGCTTTTGATTTTTAAAAGTTAAAAATTTAACCCATAGTTTCATCAC
Found at i:3852827 original size:22 final size:23
Alignment explanation
Indices: 3852802--3852852 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
3852792 ACGACTCAAT
*
3852802 TATAGAAAATAA-GGTTTCAAAA
1 TATACAAAATAAGGGTTTCAAAA
3852824 TATACAAAATAAGGGTTTCAAAA
1 TATACAAAATAAGGGTTTCAAAA
3852847 TATACA
1 TATACA
3852853 TTCCCTCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (23 bp):
TATACAAAATAAGGGTTTCAAAA
Found at i:3861629 original size:46 final size:46
Alignment explanation
Indices: 3861559--3862092 Score: 807
Period size: 46 Copynumber: 11.6 Consensus size: 46
3861549 TATAGCCTCT
* * * * *
3861559 TTTCATGCATTAATACATCTGTTCATACATTTTAGTTATGGCATCA
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
3861605 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
* *
3861651 TTTCATGCCTTAATGCATCTGTTCATGCATTGTAGTTATGGCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
* * *
3861697 TTTAATGCCTTAATGCATCCGTTCATGCATTTTTGTTATGGCATTC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
* *
3861743 TTTCATGCCTTAATGCATCCGTTCATGTATTTTAGTTATGTCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
*
3861789 TTTTATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
* * * * *
3861835 TTTCATGCTTTAGTGTATCCGTTCATGTATTTTAGTTATGGTATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
* *
3861881 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGACATAC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
*
3861927 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGAATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
** *
3861973 TTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGACATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
* ** *
3862019 TTTCATGCCTTAATACATTTGTTCATGCATTTTAGTTATGACATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
*
3862065 TTTCATGCCTTAATGCATCCATTCATGC
1 TTTCATGCCTTAATGCATCCGTTCATGC
3862093 CTTAATGCAT
Statistics
Matches: 440, Mismatches: 48, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 440 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.44
Consensus pattern (46 bp):
TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCC
Found at i:3862653 original size:94 final size:95
Alignment explanation
Indices: 3862490--3862675 Score: 202
Period size: 94 Copynumber: 2.0 Consensus size: 95
3862480 TGATACTTCA
* * * *** *
3862490 ATACTATGGTATCGATACCCCCTTTCATTATCAGTACCATTTCTATATTCTTGTTGCATAGTATT
1 ATACTATGGTATCGATACCCCCTTTCAGTATCAGTACCATTTCTACATTCTGGAACCATAGTATC
3862555 GATAC-CCTTCTC-TCAGTATCGATACTATT
66 GATACTCCTT-TCGTCAGTATCGATACTATT
* *
3862584 ATACTATGGTA-CTGATACTCCCTTTCAGTATC-GATACCATTT-TGACATTCTGGAACCATGGT
1 ATACTATGGTATC-GATACCCCCTTTCAGTATCAG-TACCATTTCT-ACATTCTGGAACCATAGT
*
3862646 ATCGATACTTCCTTTCGTTAGTATCGATAC
63 ATCGATAC-TCCTTTCGTCAGTATCGATAC
3862676 CCCATCAGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
93 3 0.04
94 55 0.72
95 2 0.03
96 16 0.21
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (95 bp):
ATACTATGGTATCGATACCCCCTTTCAGTATCAGTACCATTTCTACATTCTGGAACCATAGTATC
GATACTCCTTTCGTCAGTATCGATACTATT
Found at i:3864823 original size:13 final size:13
Alignment explanation
Indices: 3864805--3864858 Score: 69
Period size: 13 Copynumber: 4.4 Consensus size: 13
3864795 ACCGGTCACA
3864805 ACCCGACCCGTTG
1 ACCCGACCCGTTG
3864818 ACCCGACCC---G
1 ACCCGACCCGTTG
* *
3864828 AACCGACCCGTTT
1 ACCCGACCCGTTG
3864841 ACCCGACCCGTTG
1 ACCCGACCCGTTG
3864854 ACCCG
1 ACCCG
3864859 TTGACCGTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 9 0.26
13 25 0.74
ACGTcount: A:0.19, C:0.48, G:0.20, T:0.13
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:3864833 original size:23 final size:23
Alignment explanation
Indices: 3864807--3864850 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
3864797 CGGTCACAAC
3864807 CCGACCCGTTGACCCGACCCGAA
1 CCGACCCGTTGACCCGACCCGAA
*
3864830 CCGACCCGTTTACCCGACCCG
1 CCGACCCGTTGACCCGACCCG
3864851 TTGACCCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.50, G:0.20, T:0.11
Consensus pattern (23 bp):
CCGACCCGTTGACCCGACCCGAA
Found at i:3866276 original size:18 final size:18
Alignment explanation
Indices: 3866250--3866284 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3866240 TTTGAAGGAC
*
3866250 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
3866268 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
3866285 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:3874322 original size:25 final size:25
Alignment explanation
Indices: 3874294--3874350 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
3874284 AGATTAATTG
*
3874294 AGACTTACAAAATTTAAATTATTCA
1 AGACTTACAAAATTTAAATTAATCA
* *
3874319 AGACTTACAAATTTTAGATTAATCA
1 AGACTTACAAAATTTAAATTAATCA
*
3874344 AAACTTA
1 AGACTTA
3874351 ATATGTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (25 bp):
AGACTTACAAAATTTAAATTAATCA
Found at i:3874455 original size:27 final size:24
Alignment explanation
Indices: 3874423--3874480 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 24
3874413 TTATAAAAAT
*
3874423 ATAATTAGAAAATATAATAAGTTTTGA
1 ATAATTA-AAAAT-T-ATAAGTCTTGA
*
3874450 CTAATTTAAAAATTATAAGTCTTGA
1 ATAA-TTAAAAATTATAAGTCTTGA
3874475 ATAATT
1 ATAATT
3874481 TAAATTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 2 0.07
25 13 0.48
26 1 0.04
27 8 0.30
28 3 0.11
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (24 bp):
ATAATTAAAAATTATAAGTCTTGA
Found at i:3874682 original size:2 final size:2
Alignment explanation
Indices: 3874675--3874700 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3874665 TAGTGTTTTA
3874675 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
3874701 TTAATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3874756 original size:24 final size:23
Alignment explanation
Indices: 3874719--3874778 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
3874709 TATTATTTTT
* *
3874719 ATATTTAATTTTTAAATATTT-AA
1 ATATTTTATATTTAAA-ATTTAAA
*
3874742 ATAATTTTATATTTATAATTTAAA
1 AT-ATTTTATATTTAAAATTTAAA
*
3874766 ATATTTTTTATTT
1 ATATTTTATATTT
3874779 TATTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 16 0.52
24 15 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATATTTTATATTTAAAATTTAAA
Found at i:3876114 original size:17 final size:18
Alignment explanation
Indices: 3876094--3876130 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
3876084 TGATATTCAA
3876094 ATAA-TTGAATCGAATAT
1 ATAATTTGAATCGAATAT
3876111 ATAATTTTGAATCGAATAT
1 ATAA-TTTGAATCGAATAT
3876130 A
1 A
3876131 AAATCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (18 bp):
ATAATTTGAATCGAATAT
Found at i:3876257 original size:13 final size:15
Alignment explanation
Indices: 3876240--3876271 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
3876230 TAAGATTTTC
3876240 TTTTTTGAAAAT-AA
1 TTTTTTGAAAATCAA
3876254 TTTTTTG-AAATCAA
1 TTTTTTGAAAATCAA
3876268 TTTT
1 TTTT
3876272 GAAAAATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (15 bp):
TTTTTTGAAAATCAA
Found at i:3878116 original size:19 final size:21
Alignment explanation
Indices: 3878079--3878124 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
3878069 TATATAGTTT
3878079 TCAAAAACAACATAATT-AAA
1 TCAAAAACAACATAATTAAAA
*
3878099 TCAAAAACAACA-ATTTAAAA
1 TCAAAAACAACATAATTAAAA
3878119 TCAAAA
1 TCAAAA
3878125 CATTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.20
Consensus pattern (21 bp):
TCAAAAACAACATAATTAAAA
Found at i:3878600 original size:21 final size:22
Alignment explanation
Indices: 3878547--3878600 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
3878537 CTGTGATGGA
3878547 TATCGATACACATTCAAGGAATG
1 TATCGATACACATTCAAGG-ATG
* * *
3878570 TATTGGTACACGTTCAAGG-TG
1 TATCGATACACATTCAAGGATG
3878591 TATCGATACA
1 TATCGATACA
3878601 TAGCAAAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 10 0.38
23 16 0.62
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (22 bp):
TATCGATACACATTCAAGGATG
Found at i:3885088 original size:12 final size:12
Alignment explanation
Indices: 3885073--3885098 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3885063 AATTTAGATT
3885073 AAAATATAAAAA
1 AAAATATAAAAA
3885085 AAAATATAAAAA
1 AAAATATAAAAA
3885097 AA
1 AA
3885099 CCTAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATATAAAAA
Found at i:3887413 original size:2 final size:2
Alignment explanation
Indices: 3887406--3887478 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
3887396 TAACTTAACA
3887406 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
3887448 AT AT 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 A
3887479 CTGTGGTGCT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3890273 original size:59 final size:59
Alignment explanation
Indices: 3890181--3890294 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
3890171 CGTCACTGAA
*
3890181 CATTTAAAACCATCTTAGTTAAATTTATAGCGAACTTTTTATTCATTACTGCTATGTAT
1 CATTTAAAACCATATTAGTTAAATTTATAGCGAACTTTTTATTCATTACTGCTATGTAT
*
3890240 CATTTAAAACCATATTGGTTAAATTTATAGCGAACTTTTTATTCATTACTGCTAT
1 CATTTAAAACCATATTAGTTAAATTTATAGCGAACTTTTTATTCATTACTGCTAT
3890295 TCTTGTGCGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (59 bp):
CATTTAAAACCATATTAGTTAAATTTATAGCGAACTTTTTATTCATTACTGCTATGTAT
Found at i:3891262 original size:43 final size:42
Alignment explanation
Indices: 3891152--3891500 Score: 304
Period size: 43 Copynumber: 8.1 Consensus size: 42
3891142 TAATTAGCGA
* * *
3891152 CGTTTGATCCAAAAACGCCGCTATAGATATGACCTTTTGCGG
1 CGTTTGTTCCAAAAACGTCGCTATAGATCTGACCTTTTGCGG
* * * * *
3891194 TGTTTGTTCCAAAAACATCGTTACAGATCTGACCTTTTGCAG
1 CGTTTGTTCCAAAAACGTCGCTATAGATCTGACCTTTTGCGG
* * *
3891236 CGTTTGTATCCAAAAACATCGCTACAGATCTGACCTTTTGCGA
1 CGTTTGT-TCCAAAAACGTCGCTATAGATCTGACCTTTTGCGG
* * * * *
3891279 CGTTTGTTCAAAAAACGCCGCCGCTACAGATCTGACGTTTTGCGA
1 CGTTTGTTCCAAAAA---CGTCGCTATAGATCTGACCTTTTGCGG
* * * * ** ***
3891324 TGTTTGTATACAAAATCGTCGCTATAGATATGATTTTTTATAG
1 CGTTTGT-TCCAAAAACGTCGCTATAGATCTGACCTTTTGCGG
** * *
3891367 CGTTTGTTCCAAAAACACCGCTATGGATCTTGATCTTTTGCGG
1 CGTTTGTTCCAAAAACGTCGCTATAGATC-TGACCTTTTGCGG
* *
3891410 CGTTTGTATACAAAAACG-CTGCTATAGATCTGATCTTTTGCGG
1 CGTTTGT-TCCAAAAACGTC-GCTATAGATCTGACCTTTTGCGG
* * *
3891453 CATTTGTTTCAAAAACGTCGCTATAGATCTTGACTTTTTGCGG
1 CGTTTGTTCCAAAAACGTCGCTATAGATC-TGACCTTTTGCGG
3891496 CGTTT
1 CGTTT
3891501 TTATTTCACT
Statistics
Matches: 249, Mismatches: 48, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
42 82 0.33
43 115 0.46
44 17 0.07
45 30 0.12
46 5 0.02
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (42 bp):
CGTTTGTTCCAAAAACGTCGCTATAGATCTGACCTTTTGCGG
Found at i:3891378 original size:130 final size:133
Alignment explanation
Indices: 3891167--3891425 Score: 310
Period size: 131 Copynumber: 2.0 Consensus size: 133
3891157 GATCCAAAAA
* * * * *
3891167 CGCCGCTATAGATATGACCTTTTGCGGTGTTTGTTCCAAAAACATCGTTACAGATCTGACCTTTT
1 CGCCGCTACAGATATGACCTTTTGCGATGTTTGTTACAAAAACATCGCTACAGATATGACCTTTT
* *
3891232 GCAGCGTTTGTATCCAAAAACATCGCTACAGATC-TGACCTTTTGCGACGTTTGT-T-CAAAAAA
66 ACAGCGTTTGTATCCAAAAACACCGCTACAGATCTTGACCTTTTGCGACGTTTGTATACAAAAAA
3891294 CGC
131 CGC
* * * * * **
3891297 CGCCGCTACAGATCTGACGTTTTGCGATGTTTGTATACAAAATCGTCGCTATAGATATGATTTTT
1 CGCCGCTACAGATATGACCTTTTGCGATGTTTGT-TACAAAAACATCGCTACAGATATGACCTTT
* ** * *
3891362 TATAGCGTTTGT-TCCAAAAACACCGCTATGGATCTTGATCTTTTGCGGCGTTTGTATACAAAAA
65 TACAGCGTTTGTATCCAAAAACACCGCTACAGATCTTGACCTTTTGCGACGTTTGTATACAAAAA
3891426 CGCTGCTATA
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
130 49 0.46
131 50 0.47
132 1 0.01
133 6 0.06
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (133 bp):
CGCCGCTACAGATATGACCTTTTGCGATGTTTGTTACAAAAACATCGCTACAGATATGACCTTTT
ACAGCGTTTGTATCCAAAAACACCGCTACAGATCTTGACCTTTTGCGACGTTTGTATACAAAAAA
CGC
Found at i:3892006 original size:20 final size:20
Alignment explanation
Indices: 3891983--3892021 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3891973 ATGAAAATAT
3891983 TTAAAATAATAAAAAATTAC
1 TTAAAATAATAAAAAATTAC
* *
3892003 TTAAAATTATTAAAAATTA
1 TTAAAATAATAAAAAATTA
3892022 AGTAAACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
TTAAAATAATAAAAAATTAC
Found at i:3892008 original size:29 final size:30
Alignment explanation
Indices: 3891963--3892019 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
3891953 TGTTAGAATT
*
3891963 TAAAAAATATATGAAAA-TATTTAAAATAA
1 TAAAAAATATATGAAAATTATTAAAAATAA
*
3891992 TAAAAAAT-TACTTAAAATTATTAAAAAT
1 TAAAAAATATA-TGAAAATTATTAAAAAT
3892020 TAAGTAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 13 0.54
30 9 0.38
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (30 bp):
TAAAAAATATATGAAAATTATTAAAAATAA
Found at i:3892037 original size:20 final size:20
Alignment explanation
Indices: 3891984--3892038 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
3891974 TGAAAATATT
* **
3891984 TAAAATAATAAAAAATTACT
1 TAAAATTATAAAAAATTAAG
*
3892004 TAAAATTATTAAAAATTAAG
1 TAAAATTATAAAAAATTAAG
3892024 TAAACATT-TAAAAAA
1 TAAA-ATTATAAAAAA
3892039 ACTATGAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
TAAAATTATAAAAAATTAAG
Found at i:3897781 original size:86 final size:86
Alignment explanation
Indices: 3897662--3897874 Score: 318
Period size: 86 Copynumber: 2.5 Consensus size: 86
3897652 CGACAATTTT
* * * *
3897662 GTTGACAGATAGCCCTTCTAGCCTTGAGCTATGCTGTAAATTTGGTTTGCCTCTGAGCTAAATAT
1 GTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATTTGGTTTGCCTCTGAGCTAAATAT
3897727 AATCGAACTCGAAGGTCCTCG
66 AATCGAACTCGAAGGTCCTCG
* * * * *
3897748 GTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATTTGTTTTGCCTTTGAGCTGAATGT
1 GTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATTTGGTTTGCCTCTGAGCTAAATAT
*
3897813 AATCGAACTCGAAGGTCTTCG
66 AATCGAACTCGAAGGTCCTCG
* *
3897834 GTTGACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
1 GTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
3897875 GATATGCTTT
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 114 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (86 bp):
GTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATTTGGTTTGCCTCTGAGCTAAATAT
AATCGAACTCGAAGGTCCTCG
Found at i:3897930 original size:84 final size:85
Alignment explanation
Indices: 3897662--3897936 Score: 259
Period size: 86 Copynumber: 3.2 Consensus size: 85
3897652 CGACAATTTT
* * * * * * * * * **
3897662 GTTGACAGATAGCCCTTCTAGCCTTGAGCTATGCTGTAAATTTGGTTTGCCTCTGAGCTAAATAT
1 GTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAA-TTGATATGCCTTTGAGCTGAACGT
* * *
3897727 AATCGAACTCGAAGGTCCTCG
65 AATCGAACTCAAAGGTCTTCA
* * * * *
3897748 GTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATTTGTTTTGCCTTTGAGCTGAATGT
1 GTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAA-TTGATATGCCTTTGAGCTGAACGT
* *
3897813 AATCGAACTCGAAGGTCTTCG
65 AATCGAACTCAAAGGTCTTCA
* *
3897834 GTTGACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAA-TGATATG-CTTTAGAGCTGAGCGT
1 GTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATTGATATGCCTTT-GAGCTGAACGT
* * *
3897897 AGTCGAACTTAAAGGTCTTTTA
65 AATCGAACTCAAAGGTC-TTCA
3897919 GTT-ACAGATAACCCTTCT
1 GTTGACAGATAACCCTTCT
3897937 TTGAGTTGGA
Statistics
Matches: 165, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
83 4 0.02
84 43 0.26
85 5 0.03
86 113 0.68
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (85 bp):
GTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATTGATATGCCTTTGAGCTGAACGTA
ATCGAACTCAAAGGTCTTCA
Found at i:3898276 original size:106 final size:106
Alignment explanation
Indices: 3898087--3899696 Score: 2680
Period size: 106 Copynumber: 15.3 Consensus size: 106
3898077 TTGTTCCGAT
* * * *
3898087 TCCAATATCC-TCTG-TCGTGAAGTTGAAATTGGCTATGGAATCGGGAAATTGTTTGTTGACAAC
1 TCCAATATCCTTC-GCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * * *
3898150 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
3898193 TCCAATATCCTTTGCTGTGAAGTTGAAATTTGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
3898258 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
*
3898299 TCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA-CA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
*
3898363 GCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
3898404 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
*
3898469 GCGGTCACTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* * *
3898510 TCCAATATCCTTCGTTTTGAAGTTGAAATTGGCTCTGAAATTGGGATGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
3898575 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
3898616 TCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
*
3898681 GCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
3898722 TCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
3898787 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
** * *
3898828 TCCAATATCCTTCTTTGTGAAATTGAAATTGTCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
3898893 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
3898934 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
3898999 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
3899040 TCCAATATCCTTCG-T-T---G-CG-AA---G-T-TGAAATTGGGAAGTTGTTTATTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
*
3899093 GCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
3899134 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTTTTTATTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
3899198 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
*
3899239 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
3899304 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
*
3899345 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
3899410 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
3899451 TCCAATATCCTTCGC--TGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTTTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
* *
3899514 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTTTCTTGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* * *
3899555 TCCAATATCCTTCGCTGTGAAGTTTAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
3899620 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
*
3899661 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
3899697 CGAGCAATAT
Statistics
Matches: 1425, Mismatches: 61, Indels: 36
0.94 0.04 0.02
Matches are distributed among these distances:
94 82 0.06
95 2 0.00
96 2 0.00
99 3 0.00
100 2 0.00
101 3 0.00
104 101 0.07
105 205 0.14
106 1023 0.72
107 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
Found at i:3907614 original size:27 final size:24
Alignment explanation
Indices: 3907571--3907656 Score: 95
Period size: 27 Copynumber: 3.5 Consensus size: 24
3907561 AAATTGAATG
*
3907571 ACCGGTTTTTTTACCGGATTAAAA
1 ACCGGTTTTTTTACCGGATAAAAA
3907595 ACCGGTTTTTTTCAAACCGGATAAAAA
1 ACCGGTTTTTTT---ACCGGATAAAAA
*
3907622 ACCGGTTTTTTAACC-GA-AAAAA
1 ACCGGTTTTTTTACCGGATAAAAA
*
3907644 TCCGGGTTTTTTT
1 ACC-GGTTTTTTT
3907657 TAAAACCGGT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
22 7 0.13
23 10 0.19
24 15 0.28
27 22 0.41
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (24 bp):
ACCGGTTTTTTTACCGGATAAAAA
Found at i:3908711 original size:43 final size:45
Alignment explanation
Indices: 3908663--3908750 Score: 126
Period size: 43 Copynumber: 2.0 Consensus size: 45
3908653 GCTTGAAAGT
*
3908663 ATGAATATAAGAAGTTTCT-CAATTTCTA-GTTTTTTCTTGTTCG
1 ATGAATATAAGAAGTTTATACAATTTCTATGTTTTTTCTTGTTCG
* *
3908706 ATGAATATAAGATGTTTATACAATTTCTATTTTTTTTTCTTGTTC
1 ATGAATATAAGAAGTTTATACAATTTCTA-TGTTTTTTCTTGTTC
3908751 TAATTGTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 17 0.44
44 9 0.23
46 13 0.33
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.52
Consensus pattern (45 bp):
ATGAATATAAGAAGTTTATACAATTTCTATGTTTTTTCTTGTTCG
Found at i:3915592 original size:82 final size:84
Alignment explanation
Indices: 3915488--3915663 Score: 225
Period size: 82 Copynumber: 2.1 Consensus size: 84
3915478 TTTAATAAAT
* * * * * * *
3915488 GCCGTAATAGAGTGGTAGATTAGCGGTGTTTATACCATAAACGCCATAGTAGATTA-ATATATAG
1 GCCGCAATAGAGTGGTAAATTAGCGGCGTTTATACCACAAACACCATAATAGATTACACATATAG
3915552 TGGCGTTT-TAGCC-AAAAC
66 TGGCGTTTAT-GCCTAAAAC
*
3915570 GCCGCAATAGA-TCGGTAAATTAGCGGCGTTTATACCACAAACACCGTAATAGATTACACATATA
1 GCCGCAATAGAGT-GGTAAATTAGCGGCGTTTATACCACAAACACCATAATAGATTACACATATA
*
3915634 GTGGCGTTTATTCCTAAAAC
65 GTGGCGTTTATGCCTAAAAC
3915654 GCCGCAATAG
1 GCCGCAATAG
3915664 TGATAATCAA
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
81 1 0.01
82 47 0.58
83 17 0.21
84 16 0.20
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (84 bp):
GCCGCAATAGAGTGGTAAATTAGCGGCGTTTATACCACAAACACCATAATAGATTACACATATAG
TGGCGTTTATGCCTAAAAC
Found at i:3915623 original size:42 final size:40
Alignment explanation
Indices: 3915488--3915663 Score: 128
Period size: 42 Copynumber: 4.2 Consensus size: 40
3915478 TTTAATAAAT
* *
3915488 GCCGTAATAGAGTGGTAGATTAGCGGTGTTTATACCATAAAC
1 GCCGTAATAGA-TGGTAAATTAGCGGCGTTTATACCA-AAAC
* * *
3915530 GCCATAGTAGAT--TAATATATAGTGGCGTTT-TAGCCAAAAC
1 GCCGTAATAGATGGTAA-AT-TAGCGGCGTTTATA-CCAAAAC
*
3915570 GCCGCAATAGATCGGTAAATTAGCGGCGTTTATACCACAAAC
1 GCCGTAATAGAT-GGTAAATTAGCGGCGTTTATACCA-AAAC
* * *
3915612 ACCGTAATAGAT--TACACATATAGTGGCGTTTATTCCTAAAAC
1 GCCGTAATAGATGGTA-A-AT-TAGCGGCGTTTATACC-AAAAC
*
3915654 GCCGCAATAG
1 GCCGTAATAG
3915664 TGATAATCAA
Statistics
Matches: 107, Mismatches: 15, Indels: 24
0.73 0.10 0.16
Matches are distributed among these distances:
39 4 0.04
40 18 0.17
41 28 0.26
42 53 0.50
43 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCGTAATAGATGGTAAATTAGCGGCGTTTATACCAAAAC
Found at i:3915677 original size:42 final size:39
Alignment explanation
Indices: 3915631--3915782 Score: 126
Period size: 41 Copynumber: 3.7 Consensus size: 39
3915621 GATTACACAT
3915631 ATAGTGGCGTTTATTCCTA-AAACGCCGCAATAGTGATAATCA
1 ATAGTGGCGTTT-TT--TACAAACGCCGCAATAGTG-TAATCA
* * * * *
3915673 ATAGTGACGTTTTTAGACAAATGCCGCAATAATGTTAATTA
1 ATAGTGGCGTTTTT-TACAAACGCCGCAATAGTG-TAATCA
*
3915714 ATAGTGGCGTTGTTTTAACAAACGCCACAATAGTGTAATCA
1 ATAGTGGCGTT-TTTT-ACAAACGCCGCAATAGTGTAATCA
** * * *
3915755 ATTTTGTCTTTTTTTATAAACGCCGCAA
1 ATAGTGGCGTTTTTTACAAACGCCGCAA
3915783 AATGTTAAAT
Statistics
Matches: 88, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
39 11 0.12
40 5 0.06
41 43 0.49
42 29 0.33
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (39 bp):
ATAGTGGCGTTTTTTACAAACGCCGCAATAGTGTAATCA
Found at i:3915684 original size:84 final size:82
Alignment explanation
Indices: 3915515--3915684 Score: 184
Period size: 82 Copynumber: 2.0 Consensus size: 82
3915505 GATTAGCGGT
* * * *
3915515 GTTTATACCATAAACGCCATAGTAGATTAATATATAGTGGCGTTTTAGCCAAAACGCCGCAATAG
1 GTTTATACCACAAACACCATAATAGATTAACATATAGTGGCGTTTTAGCCAAAACGCCGCAATAG
* * *
3915580 ATCGGTAAATTAGCGGC
66 ATCGATAAAATAGCGAC
* *
3915597 GTTTATACCACAAACACCGTAATAGATTACACATATAGTGGCG-TTTATTCCTAAAACGCCGCAA
1 GTTTATACCACAAACACCATAATAGATTA-ACATATAGTGGCGTTTTA-GCC-AAAACGCCGCAA
*
3915661 TAG-T-GATAATCAATAGTGAC
63 TAGATCGATAA--AATAGCGAC
3915681 GTTT
1 GTTT
3915685 TTAGACAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
82 33 0.45
83 15 0.21
84 25 0.34
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (82 bp):
GTTTATACCACAAACACCATAATAGATTAACATATAGTGGCGTTTTAGCCAAAACGCCGCAATAG
ATCGATAAAATAGCGAC
Found at i:3916833 original size:42 final size:42
Alignment explanation
Indices: 3916787--3916868 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
3916777 CGCTAAAAAA
* *
3916787 TTGTACTTTAGTGGCGTTTTTG-ACATAAACGCCACAATAGAG
1 TTGTAATTTAGTGGCGTTTTTGTA-ATAAACACCACAATAGAG
*
3916829 TTGTAATTTAGTGGCGTTTTTGTAATAAACACCGCAATAG
1 TTGTAATTTAGTGGCGTTTTTGTAATAAACACCACAATAG
3916869 TATGTCCCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (42 bp):
TTGTAATTTAGTGGCGTTTTTGTAATAAACACCACAATAGAG
Found at i:3925145 original size:21 final size:21
Alignment explanation
Indices: 3925113--3925179 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
3925103 AGCGGAAAAT
3925113 GAAGCTAG-GGAAGCAGAGAGA
1 GAAGC-AGCGGAAGCAGAGAGA
* * *
3925134 GCAGCAGCGGAAGTAGAGAAA
1 GAAGCAGCGGAAGCAGAGAGA
* * *
3925155 GAAGCAGCTGCAGCATAGAGA
1 GAAGCAGCGGAAGCAGAGAGA
3925176 GAAG
1 GAAG
3925180 TAACATATCA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 2 0.06
21 34 0.94
ACGTcount: A:0.42, C:0.13, G:0.39, T:0.06
Consensus pattern (21 bp):
GAAGCAGCGGAAGCAGAGAGA
Found at i:3925590 original size:43 final size:43
Alignment explanation
Indices: 3925543--3925676 Score: 112
Period size: 43 Copynumber: 3.1 Consensus size: 43
3925533 CATTTAGCGG
* *
3925543 CGTTT-TAGAGAAAAATGCCACTAAACATCATA-ACCTATTGCGA
1 CGTTTGTAGA-AAAAACGCCACAAAACATCA-ACACCTATTGCGA
** *
3925586 CGTTTGTCTAAAAAACGCCGCAAAACATCAACACCTATTGCGA
1 CGTTTGTAGAAAAAACGCCACAAAACATCAACACCTATTGCGA
* * * * * * *
3925629 CGTTTGTCA-CACAAACGCCGCTAAATATCAATACCTATTGCGG
1 CGTTTGT-AGAAAAAACGCCACAAAACATCAACACCTATTGCGA
3925672 CGTTT
1 CGTTT
3925677 TTTGTTAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.01
43 73 0.96
44 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
CGTTTGTAGAAAAAACGCCACAAAACATCAACACCTATTGCGA
Found at i:3944423 original size:2 final size:2
Alignment explanation
Indices: 3944416--3944481 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
3944406 TAATAATTAA
3944416 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
3944458 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
3944482 TGATACAACA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3947699 original size:692 final size:691
Alignment explanation
Indices: 3946347--3947733 Score: 2621
Period size: 692 Copynumber: 2.0 Consensus size: 691
3946337 TACTTCCAGA
3946347 TCTCCTCTATAACCCACAAAATCATAGATCAATGATAATGATGTTTGCATTTCAGTGAAGTAGCT
1 TCTCCTCTATAACCCACAAAATCATAGATCAATGATAATGATGTTTGCATTTCAGTGAAGTAGCT
*
3946412 TGCTCCTAGAACTGACTGAAAGAAGTTTTTGGAGCACTTACTAACTAGAAAGTTGTTGATATGAA
66 TGCTCCTAGAACTGACTGAAAGAAGTTTTTGGAGCACTTACTAACAAGAAAGTTGTTGATATGAA
3946477 TAAAAAAAGGATGGGAAGACATAAAGAAGCTTAAAATGTGTATGTGGAGTTGAAAGAAAGAAGGC
131 TAAAAAAAGGATGGGAAGACATAAAGAAGCTTAAAATGTGTATGTGGAGTTGAAAGAAAGAAGGC
*
3946542 TCCATATTTGATCAGCTCCTTAACTGAAGTGATAAGAATAAAGTAATAATGAGAAGTACAAAGCT
196 TCCATATTTGATCAGCTCCTTAACCGAAGTGATAAGAATAAAGTAATAATGAGAAGTACAAAGCT
* * *
3946607 ATAATTAGTTGTAAAAATGTTTATAATCATGCCATTATAAGGTGTCATAGAATTGCTTGCCTTAT
261 ATAATTAGTTGTAAAAATGTTTATAATCATGCCATTATAAGGTGTCACAGAATTGATTGCCTTAG
*
3946672 CATATACATTTACAAGTGATCAAGTTTTTGGCGCCATTGTCGGGGATTGGCAACTGACGAAATTT
326 CATATACATTTACAAGTGATCAAGTTTTTGGCGCCATTGTCGGGGATTAGCAACTGACGAAATTT
3946737 TTATTCGCCATAACAAGTTTTTCTTGTCACCTTATATTTATCTAGTCTAACGTGGTTTACTATTT
391 TTATTCGCCATAACAAGTTTTTCTTGTCACCTTATATTTATCTAGTCTAACGTGGTTTACTATTT
*
3946802 TCTTTTGTAGGTTTTTATTATTGCATGACCCTGAGATCTGCTGGTAAACCTTTGGAACCATTCGA
456 TCTTTTATAGGTTTTTATTATTGCATGACCCTGAGATCTGCTGGTAAACCTTTGGAACCATTCGA
3946867 CCCTGAAGTTGAACAATCATTCAGACAAAGGCTCCGTACCCAAAGAACCAGAGAACATTTAAACC
521 CCCTGAAGTTGAACAATCATTCAGACAAAGGCTCCGTACCCAAAGAACCAGAGAACATTTAAACC
*
3946932 AACTTCAAATGCAAGACAACAACATGGGAGATCTAGGAGATCCTGATGAACCAATTAATCTTCCA
586 AACTTCAAATGCAAGACAACAACATGGGAGATCTAGGAGATCCTGATGAACCAATTAATCTTCAA
*
3946997 GTTACAAGACCAAGAGCGATACAAGATCATTTGAACCCAAT
651 GTTACAAGACCAAGAGCGATACAAGATCATTTGAACACAAT
3947038 TCTCCTCTATAACCCACAAAATCATTAGATCAATGATAATGATGTTTGCATTTCAGTGAAGTAGC
1 TCTCCTCTATAACCCACAAAATCA-TAGATCAATGATAATGATGTTTGCATTTCAGTGAAGTAGC
3947103 TTGCTCCTAGAACTGACTGAAAGAAGTTTTTGGAGCACTTACTAACAAGAAAGTTGTTGATATGA
65 TTGCTCCTAGAACTGACTGAAAGAAGTTTTTGGAGCACTTACTAACAAGAAAGTTGTTGATATGA
3947168 ATAAAAAAAGGATGGGAAGACATAAAGAAGCTTAAAATGTGTATGTGGAGTTGAAAGAAAGAAGG
130 ATAAAAAAAGGATGGGAAGACATAAAGAAGCTTAAAATGTGTATGTGGAGTTGAAAGAAAGAAGG
3947233 CTCCATATTTGATCAGCTCCTTAACCGAAGTGATAAGAATAAAGTAATAATGAGAAGTACAAAGC
195 CTCCATATTTGATCAGCTCCTTAACCGAAGTGATAAGAATAAAGTAATAATGAGAAGTACAAAGC
*
3947298 TATAATTAGTTGTAAAAATGTTTATAATCATGCCATTATAAGGTGTCACAGAATTGATTTCCTTA
260 TATAATTAGTTGTAAAAATGTTTATAATCATGCCATTATAAGGTGTCACAGAATTGATTGCCTTA
3947363 GCATATACATTTACAAGTGATCAAGTTTTTGGCGCCATTGTCGGGGATTAGCAACTGACGAAATT
325 GCATATACATTTACAAGTGATCAAGTTTTTGGCGCCATTGTCGGGGATTAGCAACTGACGAAATT
3947428 TTTATTCGCCATAACAAGTTTTTCTTGTCACCTTATATTTATCTAGTCTAACGTGGTTTACTATT
390 TTTATTCGCCATAACAAGTTTTTCTTGTCACCTTATATTTATCTAGTCTAACGTGGTTTACTATT
3947493 TTCTTTTATAGGTTTTTATTATTGCATGACCCTGAGATCTGCTGGTAAACCTTTGGAACCATTCG
455 TTCTTTTATAGGTTTTTATTATTGCATGACCCTGAGATCTGCTGGTAAACCTTTGGAACCATTCG
3947558 ACCCTGAAGTTGAACAATCATTCAGACAAAGGCTCCGTACCCAAAGAACCAGAGAACATTTAAAC
520 ACCCTGAAGTTGAACAATCATTCAGACAAAGGCTCCGTACCCAAAGAACCAGAGAACATTTAAAC
* **
3947623 CAACTTCAAATGCAAGACAACAACATGGGATATCTAGGAGATCCTGATGAAGTAATTAATCTTCA
585 CAACTTCAAATGCAAGACAACAACATGGGAGATCTAGGAGATCCTGATGAACCAATTAATCTTCA
* * *
3947688 AGTTGCAAGACCAAGAGCGATACGAGATCATTTGAACATAAT
650 AGTTACAAGACCAAGAGCGATACAAGATCATTTGAACACAAT
3947730 TCTC
1 TCTC
3947734 AATGACCTCA
Statistics
Matches: 679, Mismatches: 16, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
691 24 0.04
692 655 0.96
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (691 bp):
TCTCCTCTATAACCCACAAAATCATAGATCAATGATAATGATGTTTGCATTTCAGTGAAGTAGCT
TGCTCCTAGAACTGACTGAAAGAAGTTTTTGGAGCACTTACTAACAAGAAAGTTGTTGATATGAA
TAAAAAAAGGATGGGAAGACATAAAGAAGCTTAAAATGTGTATGTGGAGTTGAAAGAAAGAAGGC
TCCATATTTGATCAGCTCCTTAACCGAAGTGATAAGAATAAAGTAATAATGAGAAGTACAAAGCT
ATAATTAGTTGTAAAAATGTTTATAATCATGCCATTATAAGGTGTCACAGAATTGATTGCCTTAG
CATATACATTTACAAGTGATCAAGTTTTTGGCGCCATTGTCGGGGATTAGCAACTGACGAAATTT
TTATTCGCCATAACAAGTTTTTCTTGTCACCTTATATTTATCTAGTCTAACGTGGTTTACTATTT
TCTTTTATAGGTTTTTATTATTGCATGACCCTGAGATCTGCTGGTAAACCTTTGGAACCATTCGA
CCCTGAAGTTGAACAATCATTCAGACAAAGGCTCCGTACCCAAAGAACCAGAGAACATTTAAACC
AACTTCAAATGCAAGACAACAACATGGGAGATCTAGGAGATCCTGATGAACCAATTAATCTTCAA
GTTACAAGACCAAGAGCGATACAAGATCATTTGAACACAAT
Found at i:3961122 original size:13 final size:13
Alignment explanation
Indices: 3961066--3961116 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
3961056 ATTAGTCCAT
3961066 ATAATCAATATTC
1 ATAATCAATATTC
*
3961079 ATAAACAATATTC
1 ATAATCAATATTC
*
3961092 ATAAACAATATTC
1 ATAATCAATATTC
3961105 ATAATCAATATT
1 ATAATCAATATT
3961117 TCTAATATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (13 bp):
ATAATCAATATTC
Found at i:3961158 original size:16 final size:16
Alignment explanation
Indices: 3961137--3961185 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
3961127 AAAATTAAAC
3961137 ATCCAAAACACAAAAT
1 ATCCAAAACACAAAAT
**
3961153 ATCCAAATA-ACCTAAT
1 ATCCAAA-ACACAAAAT
3961169 ATCCAAAACACATAAAT
1 ATCCAAAACACA-AAAT
3961186 CCATCAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 1 0.04
16 21 0.81
17 4 0.15
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.18
Consensus pattern (16 bp):
ATCCAAAACACAAAAT
Found at i:3961732 original size:27 final size:27
Alignment explanation
Indices: 3961691--3961753 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
3961681 ACCTTATTTG
*
3961691 ATAAAC-AAATTGCTTAGTGGACAACA
1 ATAAACTAAGTTGCTTAGTGGACAACA
*
3961717 ATAAACTAAGTTGCTTAGTGGACAACC
1 ATAAACTAAGTTGCTTAGTGGACAACA
3961744 ATAAACTAAG
1 ATAAACTAAG
3961754 GTTTCAACTC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (27 bp):
ATAAACTAAGTTGCTTAGTGGACAACA
Found at i:3973131 original size:21 final size:20
Alignment explanation
Indices: 3973087--3973132 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
3973077 GTTGTGGCCG
*
3973087 TTTCTAGCCGTTGGGGATGA
1 TTTCTAGCCGTTGAGGATGA
* *
3973107 TTTCTAGCCTTTTGAGGATGT
1 TTTCTAGCC-GTTGAGGATGA
3973128 TTTCT
1 TTTCT
3973133 CTGCAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.13, C:0.15, G:0.26, T:0.46
Consensus pattern (20 bp):
TTTCTAGCCGTTGAGGATGA
Found at i:3977876 original size:18 final size:18
Alignment explanation
Indices: 3977853--3977888 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3977843 AATCTAGTAG
3977853 AAAATCATGTTTTTAATT
1 AAAATCATGTTTTTAATT
3977871 AAAATCATGTTTTTAATT
1 AAAATCATGTTTTTAATT
3977889 TGTTATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
AAAATCATGTTTTTAATT
Found at i:3978956 original size:41 final size:40
Alignment explanation
Indices: 3978911--3979055 Score: 100
Period size: 41 Copynumber: 3.6 Consensus size: 40
3978901 TATATGAACC
3978911 CTATTACAATGTTTGTATAAAAACACCGCTAAAGTGCTACT
1 CTATTACAATGTTTGTATAAAAACACCGCTAAAGT-CTACT
* * * * *
3978952 CTATTGCGACAT-TTT-TAAAAAAACTCCACTATAGAT-TAACT
1 CTATTAC-A-ATGTTTGTATAAAAACACCGCTAAAG-TCT-ACT
* ** **
3978993 ATATTACGGTGTTTGTATAAAAACATTGCTAAAGTACTACT
1 CTATTACAATGTTTGTATAAAAACACCGCTAAAGT-CTACT
**
3979034 CTATTACAGCGTTTGT-TAAAAA
1 CTATTACAATGTTTGTATAAAAA
3979056 AATGCCACTA
Statistics
Matches: 78, Mismatches: 18, Indels: 17
0.69 0.16 0.15
Matches are distributed among these distances:
39 1 0.01
40 11 0.14
41 58 0.74
42 6 0.08
43 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (40 bp):
CTATTACAATGTTTGTATAAAAACACCGCTAAAGTCTACT
Found at i:3979107 original size:83 final size:83
Alignment explanation
Indices: 3978843--3979139 Score: 325
Period size: 83 Copynumber: 3.6 Consensus size: 83
3978833 TTACAACATC
** **
3978843 TGTATAAAAATGCCGCTAAAGTACTACTCTATTGTGACGTTTGTT--AAAAATGCCACTATATAT
1 TGTATAAAAACACCGCTAAAGTACTACTCTATTACGACGTTTGTTAAAAAAATGCCACTATATAT
* **
3978906 GAACCCTATTACAATGTT
66 AAACCCTATTACGGTGTT
* * * *
3978924 TGTATAAAAACACCGCTAAAGTGCTACTCTATTGCGACATTT-TTAAAAAAACT-CCACTATAGA
1 TGTATAAAAACACCGCTAAAGTACTACTCTATTACGACGTTTGTTAAAAAAA-TGCCACTATATA
* **
3978987 TTAACTATATTACGGTGTT
65 TAAACCCTATTACGGTGTT
** *
3979006 TGTATAAAAACATTGCTAAAGTACTACTCTATTAC-AGCGTTTGTTAAAAAAATGCCACTATCTA
1 TGTATAAAAACACCGCTAAAGTACTACTCTATTACGA-CGTTTGTTAAAAAAATGCCACTATATA
* *
3979070 TAAACCCTATTATGGTATT
65 TAAACCCTATTACGGTGTT
* ** *
3979089 TGTATAACAATGCCGCTAAAGTACTACTCTGTTACGACGTTTGTATAAAAA
1 TGTATAAAAACACCGCTAAAGTACTACTCTATTACGACGTTTGT-TAAAAA
3979140 TGCTGCTAAA
Statistics
Matches: 179, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
80 2 0.01
81 38 0.21
82 64 0.36
83 68 0.38
84 7 0.04
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.34
Consensus pattern (83 bp):
TGTATAAAAACACCGCTAAAGTACTACTCTATTACGACGTTTGTTAAAAAAATGCCACTATATAT
AAACCCTATTACGGTGTT
Found at i:3988857 original size:85 final size:85
Alignment explanation
Indices: 3988709--3988874 Score: 203
Period size: 85 Copynumber: 2.0 Consensus size: 85
3988699 ATACAATCAC
* * * *
3988709 GACACAAGAATGTGTGTCATCTTTTTTAATGATGTGTGCTTCAATGACACGCAATGTAAGTCATA
1 GACACAAGAATGTGTGTCATCTTATTTAATGACGGGAGCTTCAATGACACGCAATGTAAGTCATA
* *
3988774 CATGTGTGTCATAAATTTAT
66 AATGCGTGTCATAAATTTAT
* * *
3988794 GACACATA-AATGTGTGTCATCTTCATTT-ATGACGGGAGCTTCAATGACGCGTAATG-AGCGTC
1 GACACA-AGAATGTGTGTCATCTT-ATTTAATGACGGGAGCTTCAATGACACGCAATGTA-AGTC
3988856 ATAAATGCGTGTCATAAAT
63 ATAAATGCGTGTCATAAAT
3988875 GCGCGTCATA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
84 1 0.01
85 64 0.93
86 4 0.06
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (85 bp):
GACACAAGAATGTGTGTCATCTTATTTAATGACGGGAGCTTCAATGACACGCAATGTAAGTCATA
AATGCGTGTCATAAATTTAT
Found at i:3988869 original size:13 final size:13
Alignment explanation
Indices: 3988846--3988884 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
3988836 AATGACGCGT
*
3988846 AATGAGCGTCATA
1 AATGCGCGTCATA
*
3988859 AATGCGTGTCATA
1 AATGCGCGTCATA
3988872 AATGCGCGTCATA
1 AATGCGCGTCATA
3988885 GATTTATGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:3989889 original size:16 final size:16
Alignment explanation
Indices: 3989868--3989914 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
3989858 GAAAGTTGTC
3989868 ACTAACTAAATCTAAA
1 ACTAACTAAATCTAAA
*
3989884 ACTAACTAAATATAAA
1 ACTAACTAAATCTAAA
*
3989900 ACTAACTATATCTAA
1 ACTAACTAAATCTAA
3989915 GTATATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (16 bp):
ACTAACTAAATCTAAA
Found at i:3990722 original size:18 final size:18
Alignment explanation
Indices: 3990683--3990722 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
3990673 TTGACCGGTC
**
3990683 TGACCCGACCCGACCCGT
1 TGACCCGACCCGACCCAA
3990701 TGACCCGACCCGACCCAA
1 TGACCCGACCCGACCCAA
3990719 TGAC
1 TGAC
3990723 ATTTTGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.47, G:0.20, T:0.10
Consensus pattern (18 bp):
TGACCCGACCCGACCCAA
Found at i:3990913 original size:30 final size:29
Alignment explanation
Indices: 3990723--3990906 Score: 188
Period size: 29 Copynumber: 6.2 Consensus size: 29
3990713 ACCCAATGAC
* * * *
3990723 ATTTTGGAAATTATTTTGAAAAATGTGAC
1 ATTTTGGGAATTATTTTTAAAAAGGTGAT
*
3990752 ATTTTGGGAATTATTTTTGAAAAAGGTGAC
1 ATTTTGGGAATTATTTTT-AAAAAGGTGAT
* * *
3990782 ATTTTGGGATTTTTTTTTAAAAAAATAGTGAT
1 ATTTTGGGAATTATTTTT--AAAAA-GGTGAT
* * *
3990814 ATTTTGGTAATTATTTTTAAAACGATGAT
1 ATTTTGGGAATTATTTTTAAAAAGGTGAT
* * *
3990843 ATTTTGGGAATTATTTGTAAAACGGTGGT
1 ATTTTGGGAATTATTTTTAAAAAGGTGAT
*
3990872 ATTTTGGTAATTATTTTTAATAAAGGTGAT
1 ATTTTGGGAATTATTTTTAA-AAAGGTGAT
3990902 ATTTT
1 ATTTT
3990907 TGTAATTTTC
Statistics
Matches: 129, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
29 63 0.49
30 42 0.33
31 5 0.04
32 19 0.15
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.46
Consensus pattern (29 bp):
ATTTTGGGAATTATTTTTAAAAAGGTGAT
Found at i:3993830 original size:33 final size:33
Alignment explanation
Indices: 3993788--3993857 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
3993778 GTCGATATGA
3993788 TTGCCTTATTGGTTTATGTCGAGAACATAATTC
1 TTGCCTTATTGGTTTATGTCGAGAACATAATTC
*
3993821 TTGCCTTATTGGTTTATGTCGATAACATAATTC
1 TTGCCTTATTGGTTTATGTCGAGAACATAATTC
3993854 TTGC
1 TTGC
3993858 TGGAAAGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.44
Consensus pattern (33 bp):
TTGCCTTATTGGTTTATGTCGAGAACATAATTC
Found at i:3994848 original size:18 final size:17
Alignment explanation
Indices: 3994821--3994854 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3994811 AAGGATGGTT
3994821 GTTGTTAAGTTAGTTAA
1 GTTGTTAAGTTAGTTAA
*
3994838 GTTGTTTAAGTTGGTTA
1 GTTG-TTAAGTTAGTTA
3994855 TTCATTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (17 bp):
GTTGTTAAGTTAGTTAA
Done.