Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008316.1 Hibiscus syriacus cultivar Beakdansim tig00111013_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: 2380696
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 12
Found at i:884635 original size:54 final size:55
Alignment explanation
Indices: 884575--884708 Score: 200
Period size: 54 Copynumber: 2.5 Consensus size: 55
884565 TAGAATTAAC
* * *
884575 GATTGAGCACCTCTGTGCTTCAATCGA-GAGCTGACACTTCTGTGTAGCTAA-GAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGGA-CTGACACCTCTGTGCAGCCAACGAT
*
884629 GATTGAGCACCTCTGTGCTTCAATCGAGGACTGACACCTCTGTGCAGCCAACTAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGGACTGACACCTCTGTGCAGCCAACGAT
*
884684 GACTGAGCACCTCTGTGCTTCAATC
1 GATTGAGCACCTCTGTGCTTCAATC
884709 TAAATTCTGG
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
54 45 0.62
55 28 0.38
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (55 bp):
GATTGAGCACCTCTGTGCTTCAATCGAGGACTGACACCTCTGTGCAGCCAACGAT
Found at i:884666 original size:27 final size:28
Alignment explanation
Indices: 884578--884708 Score: 114
Period size: 27 Copynumber: 4.8 Consensus size: 28
884568 AATTAACGAT
884578 TGAGCACCTCTGTGCTTCAATCGA-GAGC
1 TGAGCACCTCTGTGCTTCAATCGATGA-C
* * *
884606 TGA-CACTTCTGTG-TAGCTAA--GATGAT
1 TGAGCACCTCTGTGCT-TC-AATCGATGAC
*
884632 TGAGCACCTCTGTGCTTCAATCGAGGAC
1 TGAGCACCTCTGTGCTTCAATCGATGAC
** *
884660 TGA-CACCTCTGTGCAGCCAA-CTATGAC
1 TGAGCACCTCTGTGC-TTCAATCGATGAC
884687 TGAGCACCTCTGTGCTTCAATC
1 TGAGCACCTCTGTGCTTCAATC
884709 TAAATTCTGG
Statistics
Matches: 80, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
26 8 0.10
27 44 0.55
28 28 0.35
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (28 bp):
TGAGCACCTCTGTGCTTCAATCGATGAC
Found at i:887801 original size:14 final size:13
Alignment explanation
Indices: 887775--887799 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
887765 CTTATCATTT
887775 ATTAATTTTTTTA
1 ATTAATTTTTTTA
887788 ATTAATTTTTTT
1 ATTAATTTTTTT
887800 TACATAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTAATTTTTTTA
Found at i:890469 original size:65 final size:63
Alignment explanation
Indices: 890280--890480 Score: 196
Period size: 65 Copynumber: 3.1 Consensus size: 63
890270 GCACTAAGAG
* * * *
890280 TGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAGAGTTCATCGATGCATGGCTGGTGCATCG
1 TGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTTGGTGCATCG
890343 A
63 A
*
890344 TGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTAT-GTGCATCG
1 TGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-TGGTGCATCG
890408 A
63 A
* **
890409 TGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGATTGGTGCATC
1 TGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-TTGGTGCATC
*
890472 GG
62 GA
890474 TGCATCA
1 TGCATCA
890481 CTTTGATAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 40 0.34
65 64 0.55
66 5 0.04
67 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (63 bp):
TGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTGGTGCATCGA
Found at i:891163 original size:14 final size:15
Alignment explanation
Indices: 891144--891173 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
891134 TTCAAACATT
891144 AAACAATCCA-AAAC
1 AAACAATCCAGAAAC
891158 AAACAATCCAGAAAC
1 AAACAATCCAGAAAC
891173 A
1 A
891174 TCAAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.63, C:0.27, G:0.03, T:0.07
Consensus pattern (15 bp):
AAACAATCCAGAAAC
Found at i:899049 original size:65 final size:65
Alignment explanation
Indices: 898922--899072 Score: 191
Period size: 65 Copynumber: 2.3 Consensus size: 65
898912 GCACTAAGAG
* *
898922 TGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGAATGGCTGGTGCATCGA
1 TGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGAATGGCTGGTGCATCGA
* * * * *
898986 TGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-TATGTGCATC
1 TGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGAATGGCT-GGTGCATC
899049 GA
64 GA
*
899051 TGCATGAAATGCATTCGATGTT
1 TGCATCAAATGCATTCGATGTT
899073 CAATTTAATT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
64 20 0.26
65 53 0.70
66 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (65 bp):
TGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGAATGGCTGGTGCATCGA
Found at i:899111 original size:65 final size:63
Alignment explanation
Indices: 898922--899122 Score: 187
Period size: 65 Copynumber: 3.1 Consensus size: 63
898912 GCACTAAGAG
* * * *
898922 TGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAGAGTGCATCGATGAATGGCTGGTGCATCG
1 TGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTTGGTGCATCG
898985 A
63 A
*
898986 TGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTAT-GTGCATCG
1 TGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-TGGTGCATCG
899050 A
63 A
* ** *
899051 TGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCAATGCATGGATTGGTGCATC
1 TGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-TTGGTGCATC
*
899114 GG
62 GA
899116 TGCATCA
1 TGCATCA
899123 CTTGATAAAT
Statistics
Matches: 115, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 39 0.34
65 64 0.56
66 5 0.04
67 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (63 bp):
TGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTGGTGCATCGA
Found at i:899782 original size:14 final size:15
Alignment explanation
Indices: 899763--899792 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
899753 TTCAAACATT
899763 AAACAATCCA-AAAC
1 AAACAATCCAGAAAC
899777 AAACAATCCAGAAAC
1 AAACAATCCAGAAAC
899792 A
1 A
899793 TCAAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.63, C:0.27, G:0.03, T:0.07
Consensus pattern (15 bp):
AAACAATCCAGAAAC
Found at i:899854 original size:23 final size:23
Alignment explanation
Indices: 899824--899868 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
899814 AAAACAAGAA
899824 AGCATGGAAAAGGTCTAATCCAT
1 AGCATGGAAAAGGTCTAATCCAT
899847 AGCATGGAAAAGGTCTAATCCA
1 AGCATGGAAAAGGTCTAATCCA
899869 GAAACATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (23 bp):
AGCATGGAAAAGGTCTAATCCAT
Found at i:901220 original size:14 final size:14
Alignment explanation
Indices: 901143--901242 Score: 75
Period size: 14 Copynumber: 7.1 Consensus size: 14
901133 GATCCAGTCA
901143 CCGAGTCAACTCGAT
1 CCGAGTCAACTCG-T
*
901158 CAGAGTCAA-TC-T
1 CCGAGTCAACTCGT
901170 GCCTGAGTCAACTCGAT
1 -CC-GAGTCAACTCG-T
*
901187 CAGAGTCAA-TCCG-
1 CCGAGTCAACT-CGT
901200 CCTGAGTCAACTCGT
1 CC-GAGTCAACTCGT
*
901215 CCGAGTC-ACCCGT
1 CCGAGTCAACTCGT
*
901228 CTGAGTCAACTCGT
1 CCGAGTCAACTCGT
901242 C
1 C
901243 ATAGTCAAAC
Statistics
Matches: 68, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
12 1 0.01
13 13 0.19
14 30 0.44
15 22 0.32
16 1 0.01
17 1 0.01
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (14 bp):
CCGAGTCAACTCGT
Found at i:901239 original size:27 final size:29
Alignment explanation
Indices: 901145--901250 Score: 146
Period size: 29 Copynumber: 3.8 Consensus size: 29
901135 TCCAGTCACC
*
901145 GAGTCAACTCGATCAGAGTCAATCTGCCT
1 GAGTCAACTCGATCAGAGTCAATCCGCCT
901174 GAGTCAACTCGATCAGAGTCAATCCGCCT
1 GAGTCAACTCGATCAGAGTCAATCCGCCT
* * *
901203 GAGTCAACTCG-TCCGAGTC-ACCCGTCT
1 GAGTCAACTCGATCAGAGTCAATCCGCCT
*
901230 GAGTCAACTCG-TCATAGTCAA
1 GAGTCAACTCGATCAGAGTCAA
901251 ACCGTTGACT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
27 23 0.33
28 8 0.11
29 39 0.56
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (29 bp):
GAGTCAACTCGATCAGAGTCAATCCGCCT
Found at i:902965 original size:16 final size:16
Alignment explanation
Indices: 902930--902966 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
902920 GATAAATTGA
*
902930 CATGAATCTTAAATAC
1 CATGAATCTTAAACAC
*
902946 CATGAATCTTAAACAT
1 CATGAATCTTAAACAC
902962 CATGA
1 CATGA
902967 CTCATCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (16 bp):
CATGAATCTTAAACAC
Found at i:903521 original size:97 final size:97
Alignment explanation
Indices: 903398--903582 Score: 266
Period size: 97 Copynumber: 1.9 Consensus size: 97
903388 GATTTACTGG
* * * *
903398 TTTATGAACTATGGTTACTTGAAATATGTTCTCCGGTTATC-TGTTTTCACTGTAAAATA-TGAT
1 TTTATGAACTATGGTTACCTGAAATATGTTATCCGGAT-TCATGTTTTCACTGGAAAATACT-AT
* *
903461 CGTTCTTGATTTATGGATTATGAAACCTTTTAGT
64 CGTTCCTGATTTATGGATAATGAAACCTTTTAGT
* *
903495 TTTATGAACTATGGTTACCTGAAATATGTTATCGGGATTCATGTTTTCACTGGAAACTACTATCG
1 TTTATGAACTATGGTTACCTGAAATATGTTATCCGGATTCATGTTTTCACTGGAAAATACTATCG
903560 TTCCTGATTTATGGATAATGAAA
66 TTCCTGATTTATGGATAATGAAA
903583 ATACTGGTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
96 2 0.03
97 75 0.96
98 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (97 bp):
TTTATGAACTATGGTTACCTGAAATATGTTATCCGGATTCATGTTTTCACTGGAAAATACTATCG
TTCCTGATTTATGGATAATGAAACCTTTTAGT
Found at i:904147 original size:2 final size:2
Alignment explanation
Indices: 904140--904167 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
904130 TTTTAAAAAG
904140 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
904168 TCATTGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:905305 original size:20 final size:21
Alignment explanation
Indices: 905280--905372 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
905270 TTTTCCCAAT
*
905280 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
905300 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
905321 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
905341 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
905362 TCGCAATGCGA
1 TCGCAATGCGA
905373 TACTGACTAT
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:905325 original size:41 final size:41
Alignment explanation
Indices: 905280--905372 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
905270 TTTTCCCAAT
905280 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
905321 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
905362 TCGCAATGCGA
1 TCGCAATGCGA
905373 TACTGACTAT
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:905385 original size:41 final size:41
Alignment explanation
Indices: 905299--905433 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
905289 GAATAAGTAA
* *
905299 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
905340 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
905381 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
905422 TTCGCAACGCGA
1 ATCGCAACGCGA
905434 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:905386 original size:20 final size:20
Alignment explanation
Indices: 905361--905455 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
905351 AATTGGGAAA
*
905361 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
905381 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
905402 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
905422 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
905442 TTCGCAACGCGATA
1 ATCGCAACGCGATA
905456 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:905691 original size:20 final size:21
Alignment explanation
Indices: 905646--905693 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
905636 TCTCTCACCC
905646 ATCTCCGACGAAATCCGTCCCT
1 ATCTCCGACGAAATCCGT-CCT
*
905668 ATCTCCGGCGAAATCCGT-CT
1 ATCTCCGACGAAATCCGTCCT
905688 ATCTCC
1 ATCTCC
905694 ATCTCTCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 8 0.32
22 17 0.68
ACGTcount: A:0.21, C:0.40, G:0.15, T:0.25
Consensus pattern (21 bp):
ATCTCCGACGAAATCCGTCCT
Found at i:905975 original size:20 final size:20
Alignment explanation
Indices: 905950--905987 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
905940 CGATTCTCTC
905950 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
905970 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
905988 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:907366 original size:33 final size:31
Alignment explanation
Indices: 907278--907405 Score: 170
Period size: 33 Copynumber: 4.1 Consensus size: 31
907268 GGAAATTACT
*
907278 ATCGCAATGCGAAATGAAAATCGCAA-GAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGA
*
907308 ATCGCAATGCGAAATG-AAATCGCAACGCTA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGA
* *
907338 ATTTCGCAATACGAAATGAAAATCGCAACGAGGGA
1 A--TCGCAATGCGAAATGAAAATCGCAAC--GCGA
907373 ATCGCAATGCGAAATGAAAATCGCAACGCGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGA
907404 AT
1 AT
907406 TTAATTTCGC
Statistics
Matches: 85, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
29 9 0.11
30 19 0.22
31 5 0.06
32 14 0.16
33 35 0.41
35 3 0.04
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.16
Consensus pattern (31 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGA
Found at i:907422 original size:19 final size:20
Alignment explanation
Indices: 907400--907442 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
907390 AAATCGCAAC
907400 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
907419 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
907439 GCGA
1 GCGA
907443 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:907427 original size:14 final size:14
Alignment explanation
Indices: 907428--907461 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
907418 TGCGATTTTC
907428 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
907442 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
907456 ATTTTC
1 ATTTTC
907462 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:909068 original size:40 final size:41
Alignment explanation
Indices: 908979--909068 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
908969 CCTCTTCAAC
* * * * *
908979 GATGACAGTGGCCTCTTGAACGGTGGGAGGGACTCTCGAGG
1 GATGATAGGGGCCTCTTCAACGATAGGAGGGACTCTCGAGG
*
909020 AATGATAGGGGCCTCTTCAACGATAGGAGTGGACT-T-GAGG
1 GATGATAGGGGCCTCTTCAACGATAGGAG-GGACTCTCGAGG
909060 GATGATAGG
1 GATGATAGG
909069 CGAGTCGGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
40 12 0.29
41 24 0.59
42 5 0.12
ACGTcount: A:0.24, C:0.16, G:0.39, T:0.21
Consensus pattern (41 bp):
GATGATAGGGGCCTCTTCAACGATAGGAGGGACTCTCGAGG
Found at i:911136 original size:19 final size:19
Alignment explanation
Indices: 911052--911222 Score: 199
Period size: 19 Copynumber: 9.1 Consensus size: 19
911042 TCTTTTGGTT
*
911052 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
911071 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
911091 GGAAATGACTATCGCGAC-C
1 -GAAATGAAAATCGCAACGC
*
911110 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
911125 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
911145 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
911164 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
911183 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
911202 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
911221 GA
1 GA
911223 TTTTGGTTTC
Statistics
Matches: 131, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
14 10 0.08
15 2 0.02
18 1 0.01
19 71 0.54
20 45 0.34
21 2 0.02
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:911817 original size:20 final size:20
Alignment explanation
Indices: 911792--911844 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
911782 GAGCTATGTA
911792 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
911812 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
911832 TATCTCGTTGCGA
1 AATCGCGTTGCGA
911845 TTTTGTATTA
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:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:911878 original size:20 final size:20
Alignment explanation
Indices: 911853--911906 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
911843 GATTTTGTAT
911853 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
911873 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
911893 TATCGCATTGCGAT
1 TATCGCATTGCGAT
911907 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:911891 original size:61 final size:61
Alignment explanation
Indices: 911793--911909 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
911783 AGCTATGTAA
* * * * *
911793 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
911854 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
911910 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:911925 original size:61 final size:61
Alignment explanation
Indices: 911793--911927 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
911783 AGCTATGTAA
* * * * * ** *
911793 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
911854 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
911916 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
911928 TTACTTATTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 59 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:912017 original size:21 final size:21
Alignment explanation
Indices: 911977--912017 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
911967 ATTGTATACC
**
911977 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
911998 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
912018 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:912593 original size:26 final size:27
Alignment explanation
Indices: 912555--912615 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
912545 CGAATGCAAG
** *
912555 ATTTTATGTAAGAGGGTGAATTTATAAA
1 ATTTTA-GTAAGAAAGTGAAATTATAAA
912583 ATTTTAG-AAGAAAGTGAAATTATAAA
1 ATTTTAGTAAGAAAGTGAAATTATAAA
912609 ATTTTAG
1 ATTTTAG
912616 GAGACGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 23 0.77
27 1 0.03
28 6 0.20
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (27 bp):
ATTTTAGTAAGAAAGTGAAATTATAAA
Found at i:913031 original size:21 final size:21
Alignment explanation
Indices: 913005--913047 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
912995 CCGAGACGGC
913005 TCATAATCTAAAATACTTGTT
1 TCATAATCTAAAATACTTGTT
913026 TCATAATCTAAAATACTTGTT
1 TCATAATCTAAAATACTTGTT
913047 T
1 T
913048 ACATGCTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (21 bp):
TCATAATCTAAAATACTTGTT
Found at i:915079 original size:30 final size:30
Alignment explanation
Indices: 915038--915117 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
915028 TATTCGAGTG
*
915038 AAATTAATATTTTATATAAAGTTTAAGAGTT
1 AAATTTATATTTTATATAAAGTTTAAG-GTT
* * * *
915069 AAA-TTGTATTTTATGTACATTTTAAGGTT
1 AAATTTATATTTTATATAAAGTTTAAGGTT
*
915098 AAATTTATATTTTATCTAAA
1 AAATTTATATTTTATATAAA
915118 ATTTTGGAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 6 0.15
30 31 0.77
31 3 0.08
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (30 bp):
AAATTTATATTTTATATAAAGTTTAAGGTT
Found at i:928639 original size:11 final size:11
Alignment explanation
Indices: 928625--928649 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
928615 ATATAAAGAT
928625 AAATAAGATTA
1 AAATAAGATTA
928636 AAATAAGATTA
1 AAATAAGATTA
928647 AAA
1 AAA
928650 AACAAAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (11 bp):
AAATAAGATTA
Found at i:930453 original size:106 final size:106
Alignment explanation
Indices: 930280--931467 Score: 1800
Period size: 106 Copynumber: 11.4 Consensus size: 106
930270 TGTTCTGAGG
* * * *
930280 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGATTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
*
930345 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGC
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
930386 CCAATATCTTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
* * *
930451 CGGTCCCTTCTTCGTGAATTTGAACTTGCGTTGTCTAGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
** * *
930492 CCAATATCCTTCATTGTGAAGTTGCAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
930557 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
930598 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
* *
930663 TGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
930704 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGATGTTGTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
*
930769 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
930810 CCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
* * *
930875 CTGTCCCTTCATCATGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
930916 CCAATATTCTTCGCTGTGAAGTTAAAATTGG----GAAATT----A----TTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
**
930969 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAAAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
931010 CCAATA--C-T---TGTGAAGTTGAAATTGGCTCCGAAATTGGGCAGTTGTTTATCGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
931069 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
931110 CCGATATCCTTCGCTGTGAAGTTGAAATCGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
* *
931175 CGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTAGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * * *
931216 CCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAGTTGTTTATCGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
931281 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
931322 CCGATATCCTTCGCTGTGAAGTTGAAATCGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
*
931387 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
931428 CCGATATCCTTCGCTGTGATGTTGAAATTGGCTCCGAAAT
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAT
931468 CGTTGTTGAC
Statistics
Matches: 986, Mismatches: 78, Indels: 36
0.90 0.07 0.03
Matches are distributed among these distances:
88 16 0.02
91 1 0.00
92 7 0.01
94 57 0.06
96 1 0.00
98 1 0.00
100 58 0.06
102 7 0.01
103 1 0.00
106 837 0.85
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
Found at i:945299 original size:18 final size:20
Alignment explanation
Indices: 945276--945323 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
945266 ACAGTAATCC
945276 TATTCCC-C-AATAATCTTT
1 TATTCCCACTAATAATCTTT
*
945294 TATTCCCACTGATAATCTTT
1 TATTCCCACTAATAATCTTT
945314 TATTCCCACT
1 TATTCCCACT
945324 TAAACTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 7 0.26
19 1 0.04
20 19 0.70
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.44
Consensus pattern (20 bp):
TATTCCCACTAATAATCTTT
Found at i:945310 original size:20 final size:20
Alignment explanation
Indices: 945285--945323 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
945275 CTATTCCCCA
945285 ATAATCTTTTATTCCCACTG
1 ATAATCTTTTATTCCCACTG
945305 ATAATCTTTTATTCCCACT
1 ATAATCTTTTATTCCCACT
945324 TAAACTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.46
Consensus pattern (20 bp):
ATAATCTTTTATTCCCACTG
Found at i:947324 original size:18 final size:19
Alignment explanation
Indices: 947287--947333 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
947277 ACTATTAGAA
*
947287 ATTATAAAATGATATTTCG
1 ATTATAAAATGATATATCG
*
947306 ATTATAAAGT-ATATATCG
1 ATTATAAAATGATATATCG
947324 ATTATTAAAA
1 ATTA-TAAAA
947334 GTTACAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (19 bp):
ATTATAAAATGATATATCG
Found at i:947335 original size:20 final size:18
Alignment explanation
Indices: 947287--947328 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
947277 ACTATTAGAA
* *
947287 ATTATAAAATGATATTTCG
1 ATTATAAAGT-ATATATCG
947306 ATTATAAAGTATATATCG
1 ATTATAAAGTATATATCG
947324 ATTAT
1 ATTAT
947329 TAAAAGTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (18 bp):
ATTATAAAGTATATATCG
Found at i:949999 original size:40 final size:40
Alignment explanation
Indices: 949944--950020 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
949934 ACGTGTCGAA
*
949944 GACACGTATTACCACGACCACCCGACC-CGACC-CGACCTTC
1 GACACGCATTACCACGACCA--CGACCACGACCACGACCTTC
949984 GACACGCATTACCACGACCACGACCACGACCACGACC
1 GACACGCATTACCACGACCACGACCACGACCACGACC
950021 CGACCCGACC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 5 0.15
39 5 0.15
40 24 0.71
ACGTcount: A:0.29, C:0.47, G:0.16, T:0.09
Consensus pattern (40 bp):
GACACGCATTACCACGACCACGACCACGACCACGACCTTC
Found at i:950033 original size:5 final size:6
Alignment explanation
Indices: 949994--950030 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
949984 GACACGCATT
949994 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
950031 CGAGACGGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.30, C:0.54, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:950843 original size:57 final size:57
Alignment explanation
Indices: 950731--950843 Score: 140
Period size: 57 Copynumber: 2.0 Consensus size: 57
950721 TTATAATTTT
* * **
950731 TATTTTAAATTAATATTTAAATATTATAATCTTATAATCTTATCTTTAAGTTATGAC
1 TATTATAAATTAATATTTAAATATTATAATATTATAATCTTATCTTTAAACTATGAC
* *
950788 TATTATAAATTAATCTTTAAACT-TTTTAATATTATAAT-TTCATCTTTAAACTATGA
1 TATTATAAATTAATATTTAAA-TATTATAATATTATAATCTT-ATCTTTAAACTATGA
950844 TCTAGACCCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
56 2 0.04
57 45 0.94
58 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (57 bp):
TATTATAAATTAATATTTAAATATTATAATATTATAATCTTATCTTTAAACTATGAC
Found at i:951686 original size:11 final size:11
Alignment explanation
Indices: 951654--951749 Score: 93
Period size: 11 Copynumber: 8.5 Consensus size: 11
951644 AAAACCCATT
*
951654 GAGCTTGAATC
1 GAGCTTAAATC
*
951665 GAGCTCAAAATC
1 GAGCT-TAAATC
951677 GAGCTTAAATC
1 GAGCTTAAATC
* * *
951688 AAGTTTGAATC
1 GAGCTTAAATC
951699 GAGCTTAAATC
1 GAGCTTAAATC
* * *
951710 AAGTTTGAATC
1 GAGCTTAAATC
951721 GAGCTTAAATC
1 GAGCTTAAATC
*
951732 GAGTTTAAAATC
1 GAGCTT-AAATC
951744 GAGCTT
1 GAGCTT
951750 CAGTCGAGTT
Statistics
Matches: 66, Mismatches: 17, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
11 47 0.71
12 19 0.29
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (11 bp):
GAGCTTAAATC
Found at i:951701 original size:22 final size:22
Alignment explanation
Indices: 951673--951749 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
951663 TCGAGCTCAA
951673 AATCGAGCTTAAATCAAGTTTG
1 AATCGAGCTTAAATCAAGTTTG
951695 AATCGAGCTTAAATCAAGTTTG
1 AATCGAGCTTAAATCAAGTTTG
* *
951717 AATCGAGCTTAAATCGAGTTTAA
1 AATCGAGCTTAAATCAAGTTT-G
951740 AATCGAGCTT
1 AATCGAGCTT
951750 CAGTCGAGTT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
22 42 0.81
23 10 0.19
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (22 bp):
AATCGAGCTTAAATCAAGTTTG
Found at i:955225 original size:20 final size:21
Alignment explanation
Indices: 955202--955247 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
955192 AGCGTTACTT
*
955202 AAAATATT-ATTTTTTTACCG
1 AAAATATTAATTTTGTTACCG
*
955222 AAAATATTAATTTTGTTACCT
1 AAAATATTAATTTTGTTACCG
955243 AAAAT
1 AAAAT
955248 GAATTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (21 bp):
AAAATATTAATTTTGTTACCG
Found at i:955715 original size:31 final size:32
Alignment explanation
Indices: 955654--955735 Score: 107
Period size: 31 Copynumber: 2.6 Consensus size: 32
955644 CAGAAGTTAT
**
955654 AAAATAA-CTATTAAA-TTATTAAATTGATTAC
1 AAAATAATC-ATTAAATTTATTAAATCAATTAC
955685 AAAATAATCATTAAATTTATTAAA-CAATTAC
1 AAAATAATCATTAAATTTATTAAATCAATTAC
*
955716 AAAATGATCATTAAATTTAT
1 AAAATAATCATTAAATTTAT
955736 CACAATTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
31 37 0.80
32 9 0.20
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (32 bp):
AAAATAATCATTAAATTTATTAAATCAATTAC
Found at i:958364 original size:42 final size:42
Alignment explanation
Indices: 958317--958657 Score: 565
Period size: 42 Copynumber: 8.1 Consensus size: 42
958307 AAGTTATAAC
*
958317 GCTTTAAATAAATGTAGTTTAAGTCCATTGTTGCCACTGAAT
1 GCTTTAAATCAATGTAGTTTAAGTCCATTGTTGCCACTGAAT
958359 GCTTTAAATCAATGTAGTTTAAGTCCATTGTTGCCACTGAAT
1 GCTTTAAATCAATGTAGTTTAAGTCCATTGTTGCCACTGAAT
* * *
958401 GCGTTAAATCAATGTAGTTTAAATCCATTGTTGCCAATGAAT
1 GCTTTAAATCAATGTAGTTTAAGTCCATTGTTGCCACTGAAT
958443 GCTTTAAATCAATGTAGTTTAAGTCCATTGTTGCCACTGAAT
1 GCTTTAAATCAATGTAGTTTAAGTCCATTGTTGCCACTGAAT
* *
958485 GCTTTAAATCGATGTAGTTCAAGTCCATTGTTGCCACTGAAT
1 GCTTTAAATCAATGTAGTTTAAGTCCATTGTTGCCACTGAAT
* * *
958527 GCTTCAAATCAGTGTAGTTTAAGTCCATTGTTGCCAATGAAT
1 GCTTTAAATCAATGTAGTTTAAGTCCATTGTTGCCACTGAAT
* *
958569 GCTTTAAATCGATGTAGTTTAAGTCCATTGTTGCCAATGAAT
1 GCTTTAAATCAATGTAGTTTAAGTCCATTGTTGCCACTGAAT
* *
958611 GCTTTAAATCGATGTAGTTTGAGTCCATTGTTGCCACTGAAT
1 GCTTTAAATCAATGTAGTTTAAGTCCATTGTTGCCACTGAAT
958653 GCTTT
1 GCTTT
958658 TGTTTTGTGT
Statistics
Matches: 280, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 280 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (42 bp):
GCTTTAAATCAATGTAGTTTAAGTCCATTGTTGCCACTGAAT
Found at i:961398 original size:23 final size:23
Alignment explanation
Indices: 961371--961481 Score: 199
Period size: 23 Copynumber: 4.9 Consensus size: 23
961361 CTTTGTATTC
961371 GTATTTGTATTCGTGTATATCGT
1 GTATTTGTATTCGTGTATATCGT
961394 GTATTTGTATTCGTGTATATCGT
1 GTATTTGTATTCGTGTATATCGT
*
961417 GTATTTG-AAT-GTGTATATCGT
1 GTATTTGTATTCGTGTATATCGT
961438 GTATTTGTATTCGTGTATATCGT
1 GTATTTGTATTCGTGTATATCGT
961461 GTATTTGTATTCGTGTATATC
1 GTATTTGTATTCGTGTATATC
961482 TTTGGTATAA
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
21 18 0.21
22 4 0.05
23 62 0.74
ACGTcount: A:0.19, C:0.08, G:0.22, T:0.51
Consensus pattern (23 bp):
GTATTTGTATTCGTGTATATCGT
Found at i:961433 original size:44 final size:46
Alignment explanation
Indices: 961371--961481 Score: 190
Period size: 44 Copynumber: 2.5 Consensus size: 46
961361 CTTTGTATTC
*
961371 GTATTTGTATTCGTGTATATCGTGTATTTGTATTCGTGTATATCGT
1 GTATTTGTAATCGTGTATATCGTGTATTTGTATTCGTGTATATCGT
961417 GTATTTG-AAT-GTGTATATCGTGTATTTGTATTCGTGTATATCGT
1 GTATTTGTAATCGTGTATATCGTGTATTTGTATTCGTGTATATCGT
*
961461 GTATTTGTATTCGTGTATATC
1 GTATTTGTAATCGTGTATATC
961482 TTTGGTATAA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
44 41 0.67
45 4 0.07
46 16 0.26
ACGTcount: A:0.19, C:0.08, G:0.22, T:0.51
Consensus pattern (46 bp):
GTATTTGTAATCGTGTATATCGTGTATTTGTATTCGTGTATATCGT
Found at i:963804 original size:28 final size:28
Alignment explanation
Indices: 963764--963827 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
963754 CTGGACCGGT
* * *
963764 CGGTTTAACCGGGAACCGTTGCCTAGTC
1 CGGTTCAACCGGGAACCGCTGCATAGTC
963792 CGGTTCAACCGGGAACCGCTGCATAGTC
1 CGGTTCAACCGGGAACCGCTGCATAGTC
963820 CGGTTCAA
1 CGGTTCAA
963828 TCTATATCGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.20, C:0.30, G:0.28, T:0.22
Consensus pattern (28 bp):
CGGTTCAACCGGGAACCGCTGCATAGTC
Found at i:964896 original size:2 final size:2
Alignment explanation
Indices: 964889--964921 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
964879 GGTTTTATTA
964889 AT 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 AT A
964922 AAGAGATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:966076 original size:29 final size:29
Alignment explanation
Indices: 966010--966068 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
966000 CTTCCCAGCA
*
966010 TAGGTCGCCATGTCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACCTTG
966039 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACCTTG
966068 T
1 T
966069 CCTGCGCCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.10, C:0.36, G:0.31, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCCGGGCGACCTTG
Found at i:966185 original size:22 final size:22
Alignment explanation
Indices: 966120--966185 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
966110 CGCATGCAAA
* **
966120 CGACCTCTTTCGACGTGCATTA
1 CGACCTCTTCCGACGTGCATGG
966142 CGACCTCTTCCGACGTGCATGG
1 CGACCTCTTCCGACGTGCATGG
966164 CGACCTCTTCCGACGTGCATGG
1 CGACCTCTTCCGACGTGCATGG
966186 TGCATGCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.15, C:0.35, G:0.24, T:0.26
Consensus pattern (22 bp):
CGACCTCTTCCGACGTGCATGG
Found at i:977189 original size:24 final size:22
Alignment explanation
Indices: 977157--977214 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
977147 AGAAAAAAAT
* *
977157 AATAATAAAAACAAATTAACTTAA
1 AATAATAAAAAAAAATGAA--TAA
977181 AATAATAAATAAAAAATGAATAA
1 AATAATAAA-AAAAAATGAATAA
*
977204 AATAATGAAAA
1 AATAATAAAAA
977215 TGATAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 2 0.07
23 11 0.37
24 9 0.30
25 8 0.27
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (22 bp):
AATAATAAAAAAAAATGAATAA
Found at i:977210 original size:12 final size:12
Alignment explanation
Indices: 977178--977212 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
977168 CAAATTAACT
*
977178 TAAAATAATAAA
1 TAAAATAATGAA
977190 TAAAA-AATGAA
1 TAAAATAATGAA
977201 TAAAATAATGAA
1 TAAAATAATGAA
977213 AATGATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (12 bp):
TAAAATAATGAA
Found at i:977214 original size:9 final size:8
Alignment explanation
Indices: 977178--977281 Score: 74
Period size: 9 Copynumber: 12.6 Consensus size: 8
977168 CAAATTAACT
977178 TAAAATAA
1 TAAAATAA
977186 T-AAATAA
1 TAAAATAA
977193 -AAAATGAA
1 TAAAAT-AA
977201 TAAAATAA
1 TAAAATAA
*
977209 TGAAAATGA
1 T-AAAATAA
977218 TAAAATAA
1 TAAAATAA
*
977226 TAAATTTAA
1 TAAA-ATAA
977235 -AGGAAATAAA
1 TA--AAAT-AA
*
977245 GAAAAATAA
1 -TAAAATAA
977254 TAATAATAA
1 TAA-AATAA
977263 TAAAA-AA
1 TAAAATAA
977270 TAAAA-AA
1 TAAAATAA
977277 TAAAA
1 TAAAA
977282 ATATATATAT
Statistics
Matches: 80, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
7 24 0.30
8 21 0.26
9 26 0.32
10 8 0.10
12 1 0.01
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (8 bp):
TAAAATAA
Found at i:977222 original size:17 final size:18
Alignment explanation
Indices: 977193--977226 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
977183 TAATAAATAA
977193 AAAATGAATAAAATAATG
1 AAAATGAATAAAATAATG
977211 AAAATG-ATAAAATAAT
1 AAAATGAATAAAATAAT
977227 AAATTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (18 bp):
AAAATGAATAAAATAATG
Found at i:977235 original size:54 final size:50
Alignment explanation
Indices: 977154--977280 Score: 116
Period size: 54 Copynumber: 2.5 Consensus size: 50
977144 GTTAGAAAAA
* * * *
977154 AATAATAATAAA-AACAAATTAACTTAAA-ATAATAAATAAAAAATGAATAA-
1 AATAATAAAAAATAAAAAATAAATTTAAAGA-AATAAA-AAAAAAT-AATAAT
* *
977204 AATAATGAAAATGATAAAATAATAAATTTAAAGGAAATAAAGAAAAATAATAAT
1 AATAAT-AAAA-AATAAAA-AATAAATTTAAA-GAAATAAAAAAAAATAATAAT
977258 AATAATAAAAAATAAAAAATAAA
1 AATAATAAAAAATAAAAAATAAA
977281 AATATATATA
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
50 6 0.10
51 9 0.14
52 7 0.11
53 12 0.19
54 22 0.35
55 6 0.10
56 1 0.02
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.23
Consensus pattern (50 bp):
AATAATAAAAAATAAAAAATAAATTTAAAGAAATAAAAAAAAATAATAAT
Found at i:977284 original size:26 final size:27
Alignment explanation
Indices: 977246--977303 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
977236 GGAAATAAAG
*
977246 AAAAATAATAATA-ATA-ATAAAAAATA
1 AAAAATAAAAATATATATATAAAAAA-A
*
977272 AAAAATAAAAATATATATATAAATAAA
1 AAAAATAAAAATATATATATAAAAAAA
977299 AAAAA
1 AAAAA
977304 CCAAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 12 0.43
27 9 0.32
28 7 0.25
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (27 bp):
AAAAATAAAAATATATATATAAAAAAA
Found at i:978476 original size:15 final size:17
Alignment explanation
Indices: 978448--978481 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
978438 GGACAAAATG
978448 AAAAGTAAATAAATAAT
1 AAAAGTAAATAAATAAT
978465 AAAA-TAAA-AAATAAT
1 AAAAGTAAATAAATAAT
978480 AA
1 AA
978482 TAATGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 4 0.24
17 4 0.24
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAAGTAAATAAATAAT
Found at i:978480 original size:3 final size:3
Alignment explanation
Indices: 978459--978508 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
978449 AAAGTAAATA
* *
978459 AAT AAT AA- AAT AA- AA- AAT AAT AAT AAT GAT AAT AAAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
978502 AAT AAT A
1 AAT AAT A
978509 TAACATATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 6 0.15
3 31 0.77
4 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:978480 original size:22 final size:21
Alignment explanation
Indices: 978459--978508 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
978449 AAAGTAAATA
978459 AATAATAAAATAAAAAATAAT
1 AATAATAAAATAAAAAATAAT
* * *
978480 AATAATGATAATAAATACTAAT
1 AATAAT-AAAATAAAAAATAAT
978502 AATAATA
1 AATAATA
978509 TAACATATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAAAATAAAAAATAAT
Found at i:978490 original size:19 final size:19
Alignment explanation
Indices: 978454--978508 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
978444 AATGAAAAGT
978454 AAATAAATAATAA-AATAAA
1 AAAT-AATAATAATAATAAA
* *
978473 AAATAATAATAATGATAAT
1 AAATAATAATAATAATAAA
*
978492 AAATACTAATAATAATA
1 AAATAATAATAATAATA
978509 TAACATATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 8 0.26
19 23 0.74
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
AAATAATAATAATAATAAA
Found at i:978562 original size:32 final size:32
Alignment explanation
Indices: 978526--978650 Score: 112
Period size: 33 Copynumber: 3.8 Consensus size: 32
978516 TACTATATAA
*
978526 TATATATGTTTT-AAAAATATTTTTTAAAATTT
1 TATATATGTTTTCAAAAATA-TTTTAAAAATTT
*
978558 TATATTAT-TTTTCAAAAATATTTCCAAAACTATATAT
1 TATA-TATGTTTTCAAAAATATTT-TAAAA--AT-T-T
*
978595 TATATA-GTTTTCAAAAATGATTTTAAAAATAT
1 TATATATGTTTTCAAAAAT-ATTTTAAAAATTT
* *
978627 TATATGTGTTTTCAAAAATGTTTT
1 TATATATGTTTTCAAAAATATTTT
978651 TAAAGTTATA
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
32 21 0.27
33 25 0.32
34 2 0.03
35 2 0.03
36 18 0.23
37 9 0.12
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (32 bp):
TATATATGTTTTCAAAAATATTTTAAAAATTT
Found at i:978590 original size:69 final size:69
Alignment explanation
Indices: 978517--978897 Score: 254
Period size: 69 Copynumber: 5.2 Consensus size: 69
978507 TATAACATAT
* *
978517 ACTATATAATATATATGTTTT-AAAAATATTTTTTAAAATTTTATATTATTTTTCAAAAATATTT
1 ACTATATATTATATAT-TTTTCAAAAATATTTTTTAAAATTTTATATTATTTTTCAAAAATGTTT
**
978581 CCAAA
65 TAAAA
* * * *
978586 ACTATATATTATATAGTTTTCAAAAATGA-TTTTAAAAATATTATATGT-GTTTTCAAAAATGTT
1 ACTATATATTATATATTTTTCAAAAAT-ATTTTTTAAAATTTTATAT-TATTTTTCAAAAATGTT
*
978649 TTTAAA
64 TTAAAA
** * *
978655 GTTATATATTATATAATTTTTCAAAAACATTTTTTTAAAACTATATATTATATAAGTTTTT-AAA
1 ACTATATATTATAT-ATTTTTCAAAAATA-TTTTTT-AAA--AT-T-TTATATTA-TTTTTCAAA
978719 AATGTTTTAAAA
58 AATGTTTTAAAA
* * *
978731 ACTATATATTATATATTTTTC-AAAATGTTTTTCGAAAACTATATATTATATATTCATTTTC-AA
1 ACTATATATTATATATTTTTCAAAAATATTTTT-TAAAA-T-TTTA-TAT-TA-T--TTTTCAAA
978794 AATGTTTTAAAA
58 AATGTTTTAAAA
* *** * *
978806 ACTATATAATATATATATATTTCCAAAAACCGTTTTCAAAACTATATATTATATATATTTT-AAA
1 ACTATAT-AT-TATATAT-TTTTCAAAAATATTTTTTAAAA-T-TTTA-TAT-TAT-TTTTCAAA
978870 AATGTTTTCAAAA
58 AATGTTTT-AAAA
*
978883 ACTATATAATATATA
1 ACTATATATTATATA
978898 CATTTTCGAA
Statistics
Matches: 255, Mismatches: 31, Indels: 46
0.77 0.09 0.14
Matches are distributed among these distances:
68 4 0.02
69 65 0.25
70 13 0.05
71 7 0.03
72 9 0.04
73 10 0.04
74 6 0.02
75 38 0.15
76 50 0.20
77 23 0.09
78 22 0.09
79 8 0.03
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (69 bp):
ACTATATATTATATATTTTTCAAAAATATTTTTTAAAATTTTATATTATTTTTCAAAAATGTTTT
AAAA
Found at i:978631 original size:37 final size:35
Alignment explanation
Indices: 978519--978946 Score: 250
Period size: 37 Copynumber: 11.7 Consensus size: 35
978509 TAACATATAC
* * **
978519 TATATAATATATATGTTTT-AAAAATATTTTTTAAA
1 TATATATTATATA-GTTTTCAAAAATGTTTTAAAAA
* * * *
978554 -AT-T-TTATATTATTTTTCAAAAATATTTCCAAAAC
1 TATATATTATA-TAGTTTTCAAAAATGTTT-TAAAAA
978588 TATATATTATATAGTTTTCAAAAATGATTTTAAAAA
1 TATATATTATATAGTTTTCAAAAATG-TTTTAAAAA
* **
978624 TAT-TA-TATGT-GTTTTCAAAAATGTTTTTAAAGT
1 TATATATTATATAGTTTTCAAAAATG-TTTTAAAAA
* * *
978657 TATATATTATATAATTTTTCAAAAACATTTTTTTAAAAC
1 TATATATTATAT-AGTTTTC-AAAA-A-TGTTTTAAAAA
*
978696 TATATATTATATAAGTTTTTAAAAATGTTTTAAAAA
1 TATATATTATAT-AGTTTTCAAAAATGTTTTAAAAA
* *
978732 CTATATATTATATATTTTTC-AAAATGTTTTTCGAAAAC
1 -TATATATTATATAGTTTTCAAAAATG-TTTT--AAAAA
*
978770 TATATATTATATATTCATTTTC-AAAATGTTTTAAAAA
1 TATATATTATATA---GTTTTCAAAAATGTTTTAAAAA
* *
978807 CTATATAATATATATA-TATTTCCAAAAACCGTTTTCAAAAC
1 -TATAT-AT-TATATAGT-TTT-CAAAAA-TGTTTT-AAAAA
*
978848 TATATATTATATA-TATTTTAAAAATGTTTTCAAAAA
1 TATATATTATATAGT-TTTCAAAAATGTTTT-AAAAA
* * **
978884 CTATATAATATATACATTTTCGAAAACCGTTTTATGAAAA
1 -TATATATTATATA-GTTTTC-AAAAATGTTTTA--AAAA
*
978924 TTATATATTATAT-CTTTTCAAAA
1 -TATATATTATATAGTTTTCAAAA
978947 GCATTTTCAA
Statistics
Matches: 318, Mismatches: 40, Indels: 68
0.75 0.09 0.16
Matches are distributed among these distances:
32 8 0.03
33 36 0.11
34 10 0.03
35 14 0.04
36 50 0.16
37 67 0.21
38 38 0.12
39 48 0.15
40 43 0.14
41 4 0.01
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (35 bp):
TATATATTATATAGTTTTCAAAAATGTTTTAAAAA
Found at i:978799 original size:75 final size:75
Alignment explanation
Indices: 978623--978936 Score: 336
Period size: 76 Copynumber: 4.1 Consensus size: 75
978613 GATTTTAAAA
* * * ** *
978623 ATATTATATGTGTTTTCAAAAATGTTTTTAAAGTTATATATTATATAATTTTTCAAAAA-CATTT
1 ATATTATATATATTTT-AAAAATGTTTTAAAAACTATATATTATAT-ATTTTTCAAAAACCGTTT
**
978687 TTTTAAAACTAT
64 TTCGAAAACTAT
*
978699 ATATTATATA-AGTTTTTAAAAATGTTTTAAAAACTATATATTATATATTTTTC-AAAA-TGTTT
1 ATATTATATATA--TTTTAAAAATGTTTTAAAAACTATATATTATATATTTTTCAAAAACCGTTT
978761 TTCGAAAACTAT
64 TTCGAAAACTAT
* *
978773 ATATTATATATTCATTTTCAAAATGTTTTAAAAACTATATAATATATATATATTTCCAAAAACCG
1 ATATTATATA-T-ATTTTAAAAATGTTTTAAAAACTATAT-AT-TATATAT-TTTTCAAAAACCG
978838 -TTTTC-AAAACTAT
61 TTTTTCGAAAACTAT
* * *
978851 ATATTATATATATTTTAAAAATGTTTTCAAAAACTATATAATATATACATTTTCGAAAACCGTTT
1 ATATTATATATATTTTAAAAATGTTTT-AAAAACTATATATTATATA-TTTTTCAAAAACCGTTT
*
978916 TAT-GAAAATTAT
64 T-TCGAAAACTAT
978928 ATATTATAT
1 ATATTATAT
978937 CTTTTCAAAA
Statistics
Matches: 205, Mismatches: 18, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
74 27 0.13
75 49 0.24
76 56 0.27
77 41 0.20
78 22 0.11
79 9 0.04
80 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.46
Consensus pattern (75 bp):
ATATTATATATATTTTAAAAATGTTTTAAAAACTATATATTATATATTTTTCAAAAACCGTTTTT
CGAAAACTAT
Found at i:978960 original size:77 final size:71
Alignment explanation
Indices: 978566--978959 Score: 255
Period size: 76 Copynumber: 5.3 Consensus size: 71
978556 TTTATATTAT
* * * * ** * *
978566 TTTTCAAAAATATTTCCAAAACTATATATTATATAGTTTTCAAAAATGATTTT-AAAAATAT-TA
1 TTTTCAAAAGT-TTTCAAAAACTATATAATATATAATTTTCAAAACCGTTTTTGAAAACTATATA
* *
978629 -TATGTG
65 TTATATC
* ** * ** *
978635 TTTTCAAAAATGTTTT-TAAAGTTATATATTATATAATTTTTCAAAAACATTTTTTTAAAACTAT
1 TTTTC-AAAA-GTTTTCAAAAACTATATAATATATAA-TTTTC-AAAACCGTTTTTGAAAACTAT
*
978699 ATATTATATAAGT
62 ATATTATAT---C
* * * *
978712 TTTTAAAAATGTTTT-AAAAACTATATATTATATATTTTTCAAAA-TGTTTTTCGAAAACTATAT
1 TTTTCAAAA-GTTTTCAAAAACTATATAATATATAATTTTCAAAACCGTTTTT-GAAAACTATAT
978775 ATTATATATTC
64 A-T-TATA-TC
*
978786 ATTTTCAAAATGTTTT-AAAAACTATATAATATATATATATTTCCAAAAACCG-TTTTCAAAACT
1 -TTTTCAAAA-GTTTTCAAAAACTATATAATATATA-AT-TTT-C-AAAACCGTTTTTGAAAACT
*
978849 ATATATTATATATA
60 ATATA-T-TATATC
* *
978863 TTTTAAAAATGTTTTCAAAAACTATATAATATATACATTTTCGAAAACCGTTTTATGAAAATTAT
1 TTTTCAAAA-GTTTTCAAAAACTATATAATATATA-ATTTTC-AAAACCGTTTT-TGAAAACTAT
978928 ATATTATATC
62 ATATTATATC
978938 TTTTCAAAAGCATTTTCAAAAA
1 TTTTCAAAAG--TTTTCAAAAA
978960 ATTATGCTAC
Statistics
Matches: 266, Mismatches: 34, Indels: 43
0.78 0.10 0.13
Matches are distributed among these distances:
69 21 0.08
70 12 0.05
71 9 0.03
72 7 0.03
73 7 0.03
74 20 0.08
75 59 0.22
76 62 0.23
77 41 0.15
78 19 0.07
79 8 0.03
80 1 0.00
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (71 bp):
TTTTCAAAAGTTTTCAAAAACTATATAATATATAATTTTCAAAACCGTTTTTGAAAACTATATAT
TATATC
Found at i:978982 original size:2 final size:2
Alignment explanation
Indices: 978975--979007 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
978965 GCTACATTAC
978975 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
979008 GATAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 26 0.90
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:980863 original size:65 final size:64
Alignment explanation
Indices: 980794--980953 Score: 196
Period size: 65 Copynumber: 2.5 Consensus size: 64
980784 GAATAAATTG
* * * *
980794 AACATCGAATGCATTTCATGCACCGATGCACATACTATGCATCGATGCACTCAGAGTT-TTATGA
1 AACATCGAATGCATTTCATGCATCGATGCACAGACCATACATCGATGCACTCAG-GTTATTATG-
980858 A
64 A
* * * * * *
980859 AACATTGAATGCATTTGATGCATCGATGCACCGGCCATACATCGATGCACTCTGGTTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCACAGACCATACATCGATGCACTCAGGTTATTATGA
*
980923 AACATCGAATGCATTTCATGCATCGGTGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
980954 TAAGAGTGCA
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 32 0.40
65 49 0.60
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAGACCATACATCGATGCACTCAGGTTATTATGA
Found at i:981997 original size:4 final size:4
Alignment explanation
Indices: 981983--982013 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
981973 TTGGATAGAG
981983 TTTC TTTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TT
982014 GCTATAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:982585 original size:27 final size:26
Alignment explanation
Indices: 982533--982585 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
982523 TACACGTGTC
*
982533 TAAATAATTTAATAATATTTTCGTAA
1 TAAATAATTTAATAATATTATCGTAA
*
982559 TAAATAATATTAACTAA-ATTATTGTAA
1 TAAATAAT-TTAA-TAATATTATCGTAA
982586 CATTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 8 0.35
27 12 0.52
28 3 0.13
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (26 bp):
TAAATAATTTAATAATATTATCGTAA
Found at i:984346 original size:4 final size:4
Alignment explanation
Indices: 984339--984363 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
984329 TATATATATA
984339 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
984364 GAAAGAGGGT
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:989869 original size:23 final size:23
Alignment explanation
Indices: 989832--989895 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
989822 CAGCTCATAT
* *
989832 AATTGCAACGAAGTGCCACGTGG
1 AATTGCACCGAAGTGCCACGTAG
* *
989855 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
989878 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
989896 TATAATAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.27, C:0.25, G:0.30, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:990082 original size:103 final size:103
Alignment explanation
Indices: 989911--990128 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
989901 TAATGTCCAT
* *
989911 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
989976 GACTTCAAACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCAAACATGTTCCAAAGAATACATATATGTCCCG
*
990014 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
990079 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCAAACATGTTCCAAAGAATACATATATGTCCCG
990117 AAGGACCACATA
1 AAGGACCACATA
990129 GACCCTCGAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCAAACATGTTCCAAAGAATACATATATGTCCCG
Found at i:995735 original size:23 final size:23
Alignment explanation
Indices: 995709--995774 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 23
995699 CCACAACTCA
995709 TAGAATTGCACCGGAGTGCCGCG
1 TAGAATTGCACCGGAGTGCCGCG
*
995732 TAGAATTGCACCGGAGTACCGCG
1 TAGAATTGCACCGGAGTGCCGCG
* *
995755 TAGAATTTCACCGTAGTGCC
1 TAGAATTGCACCGGAGTGCC
995775 ATATAATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (23 bp):
TAGAATTGCACCGGAGTGCCGCG
Found at i:1006319 original size:12 final size:12
Alignment explanation
Indices: 1006302--1006474 Score: 79
Period size: 12 Copynumber: 13.8 Consensus size: 12
1006292 ATTTTGCCTG
1006302 AAAAAGAAATGA
1 AAAAAGAAATGA
*
1006314 AAAAAGAAAAAGA
1 AAAAAG-AAATGA
1006327 AAAAATGAAAATG-
1 AAAAA-G-AAATGA
*
1006340 AAAATGAAAATGA
1 AAAAAG-AAATGA
*
1006353 AAATGAAAAAATGA
1 AAA--AAGAAATGA
1006367 AAAAATGAAAATGA
1 AAAAA-G-AAATGA
*
1006381 AATGAA-AAATG-
1 AA-AAAGAAATGA
*
1006392 AGAAAGAAATGA
1 AAAAAGAAATGA
* *
1006404 AAAATGAAAAGGA
1 AAAAAG-AAATGA
**
1006417 AAAAAGAAAAAA
1 AAAAAGAAATGA
*
1006429 TAGAAAATGGAA-GA
1 -A-AAAA-GAAATGA
*
1006443 AAAAAGAAAAGA
1 AAAAAGAAATGA
1006455 AAAAATG--ATGA
1 AAAAA-GAAATGA
1006466 AAAAAGAAA
1 AAAAAGAAA
1006475 AAAATAGAGA
Statistics
Matches: 124, Mismatches: 19, Indels: 36
0.69 0.11 0.20
Matches are distributed among these distances:
10 3 0.02
11 17 0.14
12 40 0.32
13 30 0.24
14 28 0.23
15 6 0.05
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (12 bp):
AAAAAGAAATGA
Found at i:1006324 original size:18 final size:18
Alignment explanation
Indices: 1006300--1006418 Score: 113
Period size: 18 Copynumber: 6.6 Consensus size: 18
1006290 GTATTTTGCC
1006300 TGAAAAAGAAATGAAAAA
1 TGAAAAAGAAATGAAAAA
*
1006318 AGAAAAAGAAAAAATG-AAAA
1 TGAAAAAG---AAATGAAAAA
*
1006338 TGAAAATGAAAATG-AAAA
1 TGAAAAAG-AAATGAAAAA
1006356 TG--AAA-AAATGAAAAAA
1 TGAAAAAGAAATG-AAAAA
*
1006372 TGAAAATGAAATGAAAAA
1 TGAAAAAGAAATGAAAAA
*
1006390 TGAGAAAGAAATGAAAAA
1 TGAAAAAGAAATGAAAAA
*
1006408 TGAAAAGGAAA
1 TGAAAAAGAAA
1006419 AAAGAAAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
14 5 0.06
16 8 0.10
18 51 0.61
19 5 0.06
20 10 0.12
21 5 0.06
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (18 bp):
TGAAAAAGAAATGAAAAA
Found at i:1006409 original size:58 final size:56
Alignment explanation
Indices: 1006322--1006456 Score: 175
Period size: 58 Copynumber: 2.3 Consensus size: 56
1006312 GAAAAAAGAA
*
1006322 AAAGAAAAAATGAAAATGAAAATG-AAAATGAAAATGAAAAAATGAAAAAAT-GAAAATG
1 AAAGAAAAAA-GAAAA-G-AAATGAAAAATGAAAAGGAAAAAA-GAAAAAATAGAAAATG
*
1006380 AAATGAAAAATGAGAAAGAAATGAAAAATGAAAAGGAAAAAAGAAAAAATAGAAAATG
1 AAA-GAAAAAAGA-AAAGAAATGAAAAATGAAAAGGAAAAAAGAAAAAATAGAAAATG
*
1006438 GAAGAAAAAAGAAAAGAAA
1 AAAGAAAAAAGAAAAGAAA
1006457 AAATGATGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
56 7 0.10
57 21 0.30
58 32 0.46
59 9 0.13
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.10
Consensus pattern (56 bp):
AAAGAAAAAAGAAAAGAAATGAAAAATGAAAAGGAAAAAAGAAAAAATAGAAAATG
Found at i:1006458 original size:23 final size:23
Alignment explanation
Indices: 1006394--1006475 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 23
1006384 GAAAAATGAG
* *
1006394 AAAGAAATGAAAAATGAAAAGGAAA
1 AAAGAAAAGAAAAATG-GAA-GAAA
*
1006419 AAAGAAAAAATAGAAAATGGAAGAAA
1 AAAG--AAAAGA-AAAATGGAAGAAA
*
1006445 AAAGAAAAGAAAAAAT-GATGAAA
1 AAAGAAAAG-AAAAATGGAAGAAA
1006468 AAAGAAAA
1 AAAGAAAA
1006476 AAATAGAGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
23 14 0.29
24 9 0.19
25 5 0.10
26 8 0.17
27 6 0.12
28 6 0.12
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.07
Consensus pattern (23 bp):
AAAGAAAAGAAAAATGGAAGAAA
Found at i:1006474 original size:40 final size:42
Alignment explanation
Indices: 1006301--1006475 Score: 150
Period size: 45 Copynumber: 4.1 Consensus size: 42
1006291 TATTTTGCCT
* *
1006301 GAAAAAGAAATGAAAAAAGAAAAAGAAAAAATGAAAATG-AAAAT
1 GAAAATGAAATGAAAAAAG-AAAAGAAAAAATG--AATGAAAAAA
*
1006345 GAAAATGAAAATGAAAAAATGAAAA-AATGAAAATGAAATGAAAAAT
1 GAAAATG-AAATGAAAAAA-GAAAAGAA--AAAATG-AATGAAAAAA
* *
1006391 GAGAAA-GAAATGAAAAATGAAAAGGAAAAAA-GAA--AAAATA
1 GA-AAATGAAATGAAAAAAGAAAA-GAAAAAATGAATGAAAAAA
*
1006431 GAAAATGGAA-GAAAAAAGAAAAGAAAAAATG-ATGAAAAAA
1 GAAAATGAAATGAAAAAAGAAAAGAAAAAATGAATGAAAAAA
1006471 GAAAA
1 GAAAA
1006476 AAATAGAGAA
Statistics
Matches: 112, Mismatches: 7, Indels: 28
0.76 0.05 0.19
Matches are distributed among these distances:
38 8 0.07
39 15 0.13
40 19 0.17
42 2 0.02
43 1 0.01
44 17 0.15
45 30 0.27
46 17 0.15
47 3 0.03
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.10
Consensus pattern (42 bp):
GAAAATGAAATGAAAAAAGAAAAGAAAAAATGAATGAAAAAA
Found at i:1006476 original size:6 final size:6
Alignment explanation
Indices: 1006301--1006427 Score: 53
Period size: 6 Copynumber: 20.0 Consensus size: 6
1006291 TATTTTGCCT
* * * *
1006301 GAAAAA G-AAAT GAAAAAA GAAAAA GAAAAAA TGAAAAT GAAAAT GAAAAT
1 GAAAAA GAAAAA G-AAAAA GAAAAA G-AAAAA -GAAAAA GAAAAA GAAAAA
* * * * *
1006351 GAAAAT GAAAAAA TGAAAAAA TGAAAAT G-AAAT GAAAAA TGAGAAA G-AAAT
1 GAAAAA G-AAAAA -G-AAAAA -GAAAAA GAAAAA GAAAAA -GAAAAA GAAAAA
*
1006402 GAAAAA TGAAAAG GAAAAAA GAAAAA
1 GAAAAA -GAAAAA G-AAAAA GAAAAA
1006428 ATAGAAAATG
Statistics
Matches: 98, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
5 12 0.12
6 40 0.41
7 36 0.37
8 10 0.10
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (6 bp):
GAAAAA
Found at i:1006494 original size:19 final size:19
Alignment explanation
Indices: 1006449--1006488 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1006439 AAGAAAAAAG
1006449 AAAAG-AAAAAATGATGAA
1 AAAAGAAAAAAATGATGAA
1006467 AAAAGAAAAAAATAGA-GAA
1 AAAAGAAAAAAAT-GATGAA
1006486 AAA
1 AAA
1006489 TAAAAAGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 13 0.65
20 2 0.10
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (19 bp):
AAAAGAAAAAAATGATGAA
Found at i:1008430 original size:31 final size:31
Alignment explanation
Indices: 1008392--1008545 Score: 256
Period size: 31 Copynumber: 5.0 Consensus size: 31
1008382 CCCGAAGGAC
* *
1008392 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
1008423 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1008454 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1008485 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1008516 CAGTCCATATGTTCCGAAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
1008546 CCCTCGACCC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:1009442 original size:21 final size:21
Alignment explanation
Indices: 1009412--1009456 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1009402 ATTCTGTCGT
* *
1009412 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1009433 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1009454 TTG
1 TTG
1009457 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1012457 original size:31 final size:31
Alignment explanation
Indices: 1012419--1012572 Score: 256
Period size: 31 Copynumber: 5.0 Consensus size: 31
1012409 CCCGAAGGAC
* *
1012419 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
1012450 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1012481 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1012512 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1012543 CAGTCCATATGTTCCGAAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
1012573 CCCTCGACCC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:1013467 original size:21 final size:21
Alignment explanation
Indices: 1013437--1013481 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1013427 ATTCTGTCGT
* *
1013437 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1013458 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1013479 TTG
1 TTG
1013482 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1014291 original size:55 final size:55
Alignment explanation
Indices: 1014217--1014803 Score: 880
Period size: 55 Copynumber: 10.7 Consensus size: 55
1014207 TTTATGAAGA
* *
1014217 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* *
1014272 TCGAGTCCTATACTTTCTGAAGGAATAGAGAGCGGACCCGTTT-TATGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGT-TGAAGATTGT
*
1014327 TCGAGTTCTATACTCTCTAAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
*
1014382 TTGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TATGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGT-TGAAGATTGT
* * *
1014437 TCGAGTTCTATACTCTCTGAAGAAATATAGAGCGGACCCGTTTGTTGAAAATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* *
1014492 TCGAG-TCTTATACTCTCTCAAGAAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
*
1014547 TCGAG-TCTTATACTCTCTGAAGGAATATAGAGCGGACCCGTTTGTTGAAGATTGT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* * *
1014602 TTGAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACTCGTTT-TATGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGT-TGAAGATTGT
* *
1014657 TCGAGTTCTATACTCTCTGAAGAAATAGAGAGCGGACCCGTTTGTTGAAAATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* *
1014712 TCGAG-TCTTATACTCTCTCAAGAAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
* * *
1014767 TCAAGTTTTATACTCTCTGAAAGAATAGAGAGCGGAC
1 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC
1014804 TCGTCTTCCG
Statistics
Matches: 489, Mismatches: 33, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
54 7 0.01
55 476 0.97
56 6 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (55 bp):
TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGT
Found at i:1017247 original size:31 final size:31
Alignment explanation
Indices: 1017209--1017382 Score: 276
Period size: 31 Copynumber: 5.6 Consensus size: 31
1017199 TCCATAGATT
* * *
1017209 CCGAAGAACCTAGGTAATCAGTTCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
1017240 CCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
*
1017271 CCGAAGAACATAGGTAAACAGTTCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
* * *
1017302 CCGAAAAATATAGGTAAACAGTCCATATATC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
1017333 CCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
*
1017364 CCGAAGAACATAAGTAAAC
1 CCGAAGAACATAGGTAAAC
1017383 CCTCGACCCT
Statistics
Matches: 131, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 131 1.00
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (31 bp):
CCGAAGAACATAGGTAAACAGTCCATATGTC
Found at i:1021649 original size:31 final size:31
Alignment explanation
Indices: 1021611--1021704 Score: 118
Period size: 31 Copynumber: 3.0 Consensus size: 31
1021601 CCCGAAGGAC
* * *
1021611 CAGTCCATA-GATTCCGAAAAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAAAACATAGGTAAA
*
1021642 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAAAACATAGGTAAA
* *
1021673 CAGTCCATATGTCCCGAAGAATATAGGTAAA
1 CAGTCCATATGTCCCGAAAAACATAGGTAAA
1021704 C
1 C
1021705 CCTCGACCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 56 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAAAACATAGGTAAA
Found at i:1029599 original size:21 final size:21
Alignment explanation
Indices: 1029544--1029600 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
1029534 AATAAGAGTA
* *
1029544 CCGAAGTACCACATATATGTT
1 CCGAAGGACCACATATATGTC
* **
1029565 CC-ACGGAATTACATATATGTC
1 CCGAAGG-ACCACATATATGTC
1029586 CCGAAGGACCACATA
1 CCGAAGGACCACATA
1029601 GAATTATCCC
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
20 2 0.08
21 21 0.81
22 3 0.12
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (21 bp):
CCGAAGGACCACATATATGTC
Found at i:1030144 original size:2 final size:2
Alignment explanation
Indices: 1030082--1030131 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
1030072 ACATATAAGA
*
1030082 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1030124 AT AT AT AT
1 AT AT AT AT
1030132 CCATTTCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1030465 original size:21 final size:21
Alignment explanation
Indices: 1030439--1030478 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1030429 TTTTTCTTTT
1030439 GGGGGGAATC-GATACCCCCCA
1 GGGGGGAATCTG-TACCCCCCA
1030460 GGGGGGAATCTGTACCCCC
1 GGGGGGAATCTGTACCCCC
1030479 TGCGTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.20, C:0.33, G:0.35, T:0.12
Consensus pattern (21 bp):
GGGGGGAATCTGTACCCCCCA
Found at i:1032588 original size:18 final size:17
Alignment explanation
Indices: 1032565--1032601 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
1032555 CATAGAAATG
*
1032565 TCCCGAAGGACCACTATA
1 TCCCGAAAGACCAC-ATA
1032583 TCCCGAAAGACCACATA
1 TCCCGAAAGACCACATA
1032600 TC
1 TC
1032602 ACATATGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.35, C:0.35, G:0.14, T:0.16
Consensus pattern (17 bp):
TCCCGAAAGACCACATA
Found at i:1034764 original size:16 final size:16
Alignment explanation
Indices: 1034739--1034812 Score: 121
Period size: 16 Copynumber: 4.6 Consensus size: 16
1034729 TGAAAAATTA
*
1034739 GCAAAGTTGAAAGTTG
1 GCAAAATTGAAAGTTG
1034755 GCAAAATTGAAAGTTG
1 GCAAAATTGAAAGTTG
*
1034771 GCAAATTTGAAAGTTG
1 GCAAAATTGAAAGTTG
1034787 GCAAAATTGAAAGTTG
1 GCAAAATTGAAAGTTG
*
1034803 GCAAAGTTGA
1 GCAAAATTGA
1034813 CATCTTTGGT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 54 1.00
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.26
Consensus pattern (16 bp):
GCAAAATTGAAAGTTG
Found at i:1034781 original size:32 final size:32
Alignment explanation
Indices: 1034739--1034812 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
1034729 TGAAAAATTA
1034739 GCAAAGTTGAAAGTTGGCAAAATTGAAAGTTG
1 GCAAAGTTGAAAGTTGGCAAAATTGAAAGTTG
*
1034771 GCAAATTTGAAAGTTGGCAAAATTGAAAGTTG
1 GCAAAGTTGAAAGTTGGCAAAATTGAAAGTTG
1034803 GCAAAGTTGA
1 GCAAAGTTGA
1034813 CATCTTTGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.26
Consensus pattern (32 bp):
GCAAAGTTGAAAGTTGGCAAAATTGAAAGTTG
Found at i:1038919 original size:21 final size:21
Alignment explanation
Indices: 1038895--1038938 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1038885 GTTTGATGTT
1038895 TTCTCT-TTGATTCTCTCTTGA
1 TTCTCTCTTGATTCT-TCTTGA
*
1038916 TTCTCTCTTGATTCTTGTTGA
1 TTCTCTCTTGATTCTTCTTGA
1038937 TT
1 TT
1038939 GTTGTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.09, C:0.20, G:0.11, T:0.59
Consensus pattern (21 bp):
TTCTCTCTTGATTCTTCTTGA
Found at i:1038938 original size:10 final size:11
Alignment explanation
Indices: 1038895--1038930 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
1038885 GTTTGATGTT
1038895 TTCTCT-TTGA
1 TTCTCTCTTGA
1038905 TTCTCTCTTGA
1 TTCTCTCTTGA
1038916 TTCTCTCTTGA
1 TTCTCTCTTGA
1038927 TTCT
1 TTCT
1038931 TGTTGATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.08, C:0.25, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCTCTTGA
Found at i:1049169 original size:11 final size:11
Alignment explanation
Indices: 1049155--1049181 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1049145 CCGACCAAAA
1049155 TTTTCAAATTT
1 TTTTCAAATTT
1049166 TTTTCAAATTT
1 TTTTCAAATTT
1049177 TTTTC
1 TTTTC
1049182 TTCTTATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTCAAATTT
Found at i:1051604 original size:14 final size:14
Alignment explanation
Indices: 1051585--1051620 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
1051575 CTAATCATAA
1051585 AATTAAATAAAAAT
1 AATTAAATAAAAAT
*
1051599 AATTAAATAACAAT
1 AATTAAATAAAAAT
1051613 AATGTAAA
1 AAT-TAAA
1051621 ACCTAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (14 bp):
AATTAAATAAAAAT
Found at i:1053103 original size:9 final size:9
Alignment explanation
Indices: 1053091--1053145 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
1053081 TAATATTTTG
1053091 TATTTAATT
1 TATTTAATT
*
1053100 TATTTAA-G
1 TATTTAATT
1053108 TATTTAATT
1 TATTTAATT
1053117 TATTTAA--
1 TATTTAATT
* *
1053124 TATTTTACT
1 TATTTAATT
1053133 TATTT-ATT
1 TATTTAATT
1053141 TATTT
1 TATTT
1053146 TTGCAGATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 6 0.15
8 14 0.36
9 19 0.49
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TATTTAATT
Found at i:1053112 original size:17 final size:17
Alignment explanation
Indices: 1053090--1053138 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
1053080 TTAATATTTT
1053090 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
1053107 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
* *
1053124 -TATTTTACTTATTTA
1 GTATTTAATTTATTTA
1053139 TTTATTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 13 0.43
17 17 0.57
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:1055854 original size:27 final size:26
Alignment explanation
Indices: 1055792--1055854 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 26
1055782 TGAAAGGACT
**
1055792 AAATACCCTAAATGCTAAAATGATCA
1 AAATACCCTAAACCCTAAAATGATCA
*
1055818 AAATACCCCTAAAACCCTGAAATGATCA
1 AAATA-CCCT-AAACCCTAAAATGATCA
1055846 AAATACCCT
1 AAATACCCT
1055855 TATATTCCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.16
27 8 0.25
28 19 0.59
ACGTcount: A:0.48, C:0.25, G:0.06, T:0.21
Consensus pattern (26 bp):
AAATACCCTAAACCCTAAAATGATCA
Found at i:1056546 original size:32 final size:31
Alignment explanation
Indices: 1056475--1056569 Score: 95
Period size: 32 Copynumber: 3.0 Consensus size: 31
1056465 AAAGCATTTC
* * *
1056475 CTTGGGTAGGCTCTAAAGCCCGAAG-GTACT
1 CTTGGGTAGGCTCTAAGGCCCCAAGTATACT
*
1056505 CTATCGGGTAGGCTCTTAGGCCCCAAGTAATACT
1 CT-T-GGGTAGGCTCTAAGGCCCCAAGT-ATACT
* *
1056539 CTTGGGTAGACTCTCAGGCCCCAA-TATACT
1 CTTGGGTAGGCTCTAAGGCCCCAAGTATACT
1056569 C
1 C
1056570 CTTTAGGTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
30 8 0.15
31 2 0.04
32 38 0.69
33 1 0.02
34 6 0.11
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (31 bp):
CTTGGGTAGGCTCTAAGGCCCCAAGTATACT
Found at i:1057776 original size:350 final size:342
Alignment explanation
Indices: 1057132--1057809 Score: 1104
Period size: 350 Copynumber: 2.0 Consensus size: 342
1057122 ACATGGAAAC
*
1057132 TTTTGCAACACTAATTACCGATATAAGTAAACACAACTATTCGCAACTCGAATCTCATTTTCGCA
1 TTTTGCAACACTAATTACCGATATAAGTAAACACAACTATTCGCAACGCGAATCTCATTTTCGCA
* **
1057197 ACGCCCAATTTCGCAACTCAATTACCGATATAGGTAAACACTGTAGAAAAAATTTGGTCAAAAAT
66 ACGCCCAATTTCGCAACTCAATTACCGATATAGGTAAACACGGTAGAAAAAATCCGGTCAAAAAT
*
1057262 CTGAATTCGCCAATTTGAAAACTAAGTTGTGAATTTGACAAATTCGAGCTGCGAAATGTAAAATC
131 CTAAATTCGCCAATTTGAAAACTAAGTTGTGAATTTGACAAATTCGAGCTGCGAAATGTAAAATC
* * *
1057327 TTGCCTCTTAAAGAAAAAATCATTTCGACAGTTCGTTTGTTTGGTTAAAGTTAAACGAACGAACG
196 TCGCCTCCTAAAGAAAAAATCATTTCGACAGTTCGTTCGTTTGGTTAAAGTTAAACGAACGAACG
**
1057392 AACATGAACATACCCTCATTCGTGTTTGTTCAATTCATTTACAGGCGTAGGTTTATTTGAGTGAT
261 AACATGAACATACCCTCATTCGTGTTTGTTCAATTCATTTACAGGCGTAGGTTTAGCTGAGTGAT
1057457 TCACAACGCGAATTTTG
326 TCACAACGCGAATTTTG
* * *
1057474 TTTTCGCAACGCTAATTACCGATATAGGTAAACACAACTATTCGCAACGCGAATCTCGTTTTCGC
1 TTTT-GCAACACTAATTACCGATATAAGTAAACACAACTATTCGCAACGCGAATCTCATTTTCGC
*
1057539 AACGCGAATTCGCCAATTTCGTAACTCAATTACCGATATAGGTAAACACGGTAGAAAAAATCCGG
65 AA--CG----C-CCAATTTCGCAACTCAATTACCGATATAGGTAAACACGGTAGAAAAAATCCGG
* * *
1057604 TCAAAAATCTAAATTCGCCAATTTGAAAACTAAGTTGTGAATTTGGCAAATTCGTGTTGCGAAAT
123 TCAAAAATCTAAATTCGCCAATTTGAAAACTAAGTTGTGAATTTGACAAATTCGAGCTGCGAAAT
1057669 GTAAAATCTCGCCTCCTAAAGAAAAAATCATTTCGACAGTTCGTTCGTTTGGTTAAAGTTAAACG
188 GTAAAATCTCGCCTCCTAAAGAAAAAATCATTTCGACAGTTCGTTCGTTTGGTTAAAGTTAAACG
** *
1057734 AACGAACGAACATGAGTATACCCTCGTTCGTGTTTGTTCAATTCATTTACAGGCGTAGGTTTAGC
253 AACGAACGAACATGAACATACCCTCATTCGTGTTTGTTCAATTCATTTACAGGCGTAGGTTTAGC
1057799 TGAGTGATTCA
318 TGAGTGATTCA
1057810 TACGTGGACT
Statistics
Matches: 308, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
342 4 0.01
343 58 0.19
345 2 0.01
349 1 0.00
350 243 0.79
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (342 bp):
TTTTGCAACACTAATTACCGATATAAGTAAACACAACTATTCGCAACGCGAATCTCATTTTCGCA
ACGCCCAATTTCGCAACTCAATTACCGATATAGGTAAACACGGTAGAAAAAATCCGGTCAAAAAT
CTAAATTCGCCAATTTGAAAACTAAGTTGTGAATTTGACAAATTCGAGCTGCGAAATGTAAAATC
TCGCCTCCTAAAGAAAAAATCATTTCGACAGTTCGTTCGTTTGGTTAAAGTTAAACGAACGAACG
AACATGAACATACCCTCATTCGTGTTTGTTCAATTCATTTACAGGCGTAGGTTTAGCTGAGTGAT
TCACAACGCGAATTTTG
Found at i:1058742 original size:76 final size:76
Alignment explanation
Indices: 1058592--1058743 Score: 218
Period size: 76 Copynumber: 2.0 Consensus size: 76
1058582 CTCTATTCTA
* * *
1058592 AATTAGTCCTTAAAATTTTGATAATTTTAATTTAATCCCTAAAATATGACACTATTTCTAAATTG
1 AATTACTCCTTAAAATTTTGATAATTCTAATTTAATCCCTAAAATATGACACTATTTCCAAATTG
1058657 GTCCCAAACTT
66 GTCCCAAACTT
* * *
1058668 AATTACTCCTTAAAATTTTGATCAA-TCTAATTTCATCCCTAAACTATGAC-CTTTTTCCAAATT
1 AATTACTCCTTAAAATTTTGAT-AATTCTAATTTAATCCCTAAAATATGACACTATTTCCAAATT
1058731 GGTCCCTAAACTT
65 GGTCCC-AAACTT
1058744 TTGAATATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
75 17 0.25
76 49 0.72
77 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (76 bp):
AATTACTCCTTAAAATTTTGATAATTCTAATTTAATCCCTAAAATATGACACTATTTCCAAATTG
GTCCCAAACTT
Found at i:1062066 original size:2 final size:2
Alignment explanation
Indices: 1062059--1062134 Score: 143
Period size: 2 Copynumber: 38.0 Consensus size: 2
1062049 TCAAGATCTT
1062059 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1062101 TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1062135 ATTCGGAGAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1062704 original size:326 final size:326
Alignment explanation
Indices: 1062111--1063089 Score: 1940
Period size: 326 Copynumber: 3.0 Consensus size: 326
1062101 TATATATATA
1062111 TATATATATATACATATATATATAATTCGGAGAATAACTCTCAATAACAAAAAACATCTACGCAA
1 TATATATATATACATATATATATAATTCGGAGAATAACTCTCAATAACAAAAAACATCTACGCAA
1062176 ACTAGGATTAACTATACTGAAACTCGCATTCTTCTTCATCCAAAAGAAAGGAGCATAAAACATGT
66 ACTAGGATTAACTATACTGAAACTCGCATTCTTCTTCATCCAAAAGAAAGGAGCATAAAACATGT
1062241 ACAAAACTATTGATTTGTAACATTCTAAACTGTAATCTACTAAAACACCCCCTCCAAGCTAAAGC
131 ACAAAACTATTGATTTGTAACATTCTAAACTGTAATCTACTAAAACACCCCCTCCAAGCTAAAGC
1062306 TTCGGAGTCAAAAGTAGGAAGAAGAAAGGAGGAGGACCGGGGGATGTTAACGTCAATACTTTACT
196 TTCGGAGTCAAAAGTAGGAAGAAGAAAGGAGGAGGACCGGGGGATGTTAACGTCAATACTTTACT
1062371 CGGAACGAACTAAAAGTTTAGTGACTGTATTACAAGTTTTAAAAGTTAGGTGACAAAATGTAAGC
261 CGGAACGAACTAAAAGTTTAGTGACTGTATTACAAGTTTTAAAAGTTAGGTGACAAAATGTAAGC
1062436 G
326 G
1062437 TATATATATATACATATATATATAATTCGGAGAATAACTCTCAATAACAAAAAACATCTACGCAA
1 TATATATATATACATATATATATAATTCGGAGAATAACTCTCAATAACAAAAAACATCTACGCAA
*
1062502 ACTAGGATTAACTATACTGAAACTCGCATTCTTCTTCATCCAAAAGGAAGGAGCATAAAACATGT
66 ACTAGGATTAACTATACTGAAACTCGCATTCTTCTTCATCCAAAAGAAAGGAGCATAAAACATGT
1062567 ACAAAACTATTGATTTGTAACATTCTAAACTGTAATCTACTAAAACACCCCCTCCAAGCTAAAGC
131 ACAAAACTATTGATTTGTAACATTCTAAACTGTAATCTACTAAAACACCCCCTCCAAGCTAAAGC
1062632 TTCGGAGTCAAAAGTAGGAAGAAGAAAGGAGGAGGACCGGGGGATGTTAACGTCAATACTTTACT
196 TTCGGAGTCAAAAGTAGGAAGAAGAAAGGAGGAGGACCGGGGGATGTTAACGTCAATACTTTACT
1062697 CGGAACGAACTAAAAGTTTAGTGACTGTATTACAAGTTTTAAAAGTTAGGTGACAAAATGTAAGC
261 CGGAACGAACTAAAAGTTTAGTGACTGTATTACAAGTTTTAAAAGTTAGGTGACAAAATGTAAGC
1062762 G
326 G
1062763 TATATATATATACATATATATATAATTCGGAGAATAACTCTCAATAACAAAAAACATCTACGCAA
1 TATATATATATACATATATATATAATTCGGAGAATAACTCTCAATAACAAAAAACATCTACGCAA
1062828 ACTAGGATTAACTATACTGAAACTCGCATTCTTCTTCATCCAAAAGAAAGGAGCATAAAACATGT
66 ACTAGGATTAACTATACTGAAACTCGCATTCTTCTTCATCCAAAAGAAAGGAGCATAAAACATGT
1062893 ACAAAACTATTGATTTGTAACATTCTAAACTGTAATCTACTAAAACACCCCCTCCAAGCTAAAGC
131 ACAAAACTATTGATTTGTAACATTCTAAACTGTAATCTACTAAAACACCCCCTCCAAGCTAAAGC
1062958 TTCGGAGTCAAAAGTAGGAAGAAGAAAGGAGGAGGACCGGGGGATGTTAACGTCAATACTTTACT
196 TTCGGAGTCAAAAGTAGGAAGAAGAAAGGAGGAGGACCGGGGGATGTTAACGTCAATACTTTACT
*
1063023 CGGAACGAACTAAAAGTTCAGTGACTGTATTACAAGTTTTAAAAGTTAGGTGACAAAATGTAAGC
261 CGGAACGAACTAAAAGTTTAGTGACTGTATTACAAGTTTTAAAAGTTAGGTGACAAAATGTAAGC
1063088 G
326 G
1063089 T
1 T
1063090 CCTAAAAATT
Statistics
Matches: 650, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
326 650 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (326 bp):
TATATATATATACATATATATATAATTCGGAGAATAACTCTCAATAACAAAAAACATCTACGCAA
ACTAGGATTAACTATACTGAAACTCGCATTCTTCTTCATCCAAAAGAAAGGAGCATAAAACATGT
ACAAAACTATTGATTTGTAACATTCTAAACTGTAATCTACTAAAACACCCCCTCCAAGCTAAAGC
TTCGGAGTCAAAAGTAGGAAGAAGAAAGGAGGAGGACCGGGGGATGTTAACGTCAATACTTTACT
CGGAACGAACTAAAAGTTTAGTGACTGTATTACAAGTTTTAAAAGTTAGGTGACAAAATGTAAGC
G
Found at i:1073096 original size:3 final size:3
Alignment explanation
Indices: 1073088--1073113 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1073078 CACTACTTGT
1073088 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
1073114 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1075651 original size:2 final size:2
Alignment explanation
Indices: 1075644--1075728 Score: 170
Period size: 2 Copynumber: 42.5 Consensus size: 2
1075634 TGGTCTGAGT
1075644 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1075686 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1075728 T
1 T
1075729 CTTAATTTTC
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1076256 original size:16 final size:16
Alignment explanation
Indices: 1076214--1076264 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
1076204 TCGCCGATTG
*
1076214 TTTATATTCCTTATTTT
1 TTTATATT-TTTATTTT
1076231 TTTATATTTTTATATTT
1 TTTATATTTTTAT-TTT
*
1076248 TTTGT-TTTTTAGTTTT
1 TTTATATTTTTA-TTTT
1076264 T
1 T
1076265 AATAACTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 14 0.47
17 16 0.53
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (16 bp):
TTTATATTTTTATTTT
Found at i:1076697 original size:40 final size:40
Alignment explanation
Indices: 1076640--1076752 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 40
1076630 GAAAGCGATC
* ** *
1076640 TCGAATTCGCAACGCGAACTCCAATTTCGCAACTTGA-TT
1 TCGAATTCGCAACGCGAATTTTAATTTCGCAACTCGATTT
* *
1076679 TCTGAATTCACAACGCGAATTTTATTTTCGCAACTCGATTT
1 TC-GAATTCGCAACGCGAATTTTAATTTCGCAACTCGATTT
*
1076720 TCGAATTCGCAACACGAATTTTAATTTCGCAAC
1 TCGAATTCGCAACGCGAATTTTAATTTCGCAAC
1076753 AGGTTTTAGT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.03
40 57 0.90
41 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (40 bp):
TCGAATTCGCAACGCGAATTTTAATTTCGCAACTCGATTT
Found at i:1076748 original size:20 final size:20
Alignment explanation
Indices: 1076689--1076753 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
1076679 TCTGAATTCA
* *
1076689 CAACGCGAATTTTATTTTCG
1 CAACACGAATTTTAATTTCG
*
1076709 CAACTCG-ATTTTCGAA-TTCG
1 CAACACGAATTTT--AATTTCG
1076729 CAACACGAATTTTAATTTCG
1 CAACACGAATTTTAATTTCG
1076749 CAACA
1 CAACA
1076754 GGTTTTAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 7 0.18
20 25 0.66
21 6 0.16
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (20 bp):
CAACACGAATTTTAATTTCG
Found at i:1077556 original size:12 final size:12
Alignment explanation
Indices: 1077535--1077568 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1077525 ACCACATTTC
*
1077535 CAATACCAAACA
1 CAATATCAAACA
1077547 CAATATCAAACA
1 CAATATCAAACA
*
1077559 CAATCTCAAA
1 CAATATCAAA
1077569 ACCTGCAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:1077745 original size:24 final size:24
Alignment explanation
Indices: 1077680--1077747 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
1077670 GTGAGTACTA
* *
1077680 GTCAATATTCGAAATTTGATCTTG
1 GTCAATACTCGGAATTTGATCTTG
* * *
1077704 GTCAATACCCAGACTTTGATCTTG
1 GTCAATACTCGGAATTTGATCTTG
*
1077728 GTCAATACTCGGATTTTGAT
1 GTCAATACTCGGAATTTGAT
1077748 GATGTTTCAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (24 bp):
GTCAATACTCGGAATTTGATCTTG
Found at i:1081825 original size:21 final size:20
Alignment explanation
Indices: 1081796--1081867 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
1081786 GTGAATCGGG
*
1081796 CTCTCGAACAGTGGGAGGGAC
1 CTCTTGAACAGTGGGAGGG-C
**
1081817 CTCTTGAAC-GATGACAGAGGC
1 CTCTTGAACAG-TGGGAG-GGC
1081838 CTCTTGAA-ATGTGGGATGGGC
1 CTCTTGAACA-GTGGGA-GGGC
1081859 CTCTTGAAC
1 CTCTTGAAC
1081868 GATATGAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
20 1 0.03
21 35 0.88
22 4 0.10
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (20 bp):
CTCTTGAACAGTGGGAGGGC
Found at i:1081865 original size:42 final size:42
Alignment explanation
Indices: 1081806--1081887 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
1081796 CTCTCGAACA
1081806 GTGGGAGGGACCTCTTGAACGATGA-CAGAGGCCTCTTGAAAT
1 GTGGGAGGGACCTCTTGAACGAT-ATCAGAGGCCTCTTGAAAT
*
1081848 GTGGGATGGG-CCTCTTGAACGATATGAGAGGCCTCTTGAA
1 GTGGGA-GGGACCTCTTGAACGATATCAGAGGCCTCTTGAA
1081888 TGATGACAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
41 1 0.03
42 33 0.89
43 3 0.08
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.23
Consensus pattern (42 bp):
GTGGGAGGGACCTCTTGAACGATATCAGAGGCCTCTTGAAAT
Found at i:1081880 original size:21 final size:21
Alignment explanation
Indices: 1081816--1081887 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
1081806 GTGGGAGGGA
*
1081816 CCTCTTGAACGATGA-CAGAGG
1 CCTCTTGAACGAT-ATGAGAGG
* *
1081837 CCTCTTGAA--ATGTGGGATGGG
1 CCTCTTGAACGATATGAGA--GG
1081858 CCTCTTGAACGATATGAGAGG
1 CCTCTTGAACGATATGAGAGG
1081879 CCTCTTGAA
1 CCTCTTGAA
1081888 TGATGACAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 4 0.10
21 31 0.76
23 6 0.15
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (21 bp):
CCTCTTGAACGATATGAGAGG
Found at i:1084581 original size:19 final size:20
Alignment explanation
Indices: 1084559--1084596 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1084549 AATATTGTGT
1084559 TTCG-AATTCGAAAATAAAA
1 TTCGCAATTCGAAAATAAAA
**
1084578 TTCGCGTTTCGAAAATAAA
1 TTCGCAATTCGAAAATAAA
1084597 CGCGCTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (20 bp):
TTCGCAATTCGAAAATAAAA
Found at i:1084932 original size:2 final size:2
Alignment explanation
Indices: 1084925--1084960 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1084915 TTATACAATA
1084925 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
1084961 GCGCACGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.