Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008727.1 Hibiscus syriacus cultivar Beakdansim tig00111794_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: 1388410
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:815730 original size:20 final size:20
Alignment explanation
Indices: 815705--815762 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
815695 ATTCATTTGA
815705 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
815725 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
815745 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
815763 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:815805 original size:14 final size:16
Alignment explanation
Indices: 815785--815858 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
815775 TGAAAATCGC
815785 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
815800 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
815817 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
815836 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
815852 -TTGCGAT
1 ATTGCGAT
815859 AGTCTGTTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:815822 original size:19 final size:19
Alignment explanation
Indices: 815781--815848 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
815771 GAAATGAAAA
815781 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
815797 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
815814 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
815833 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
815849 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:815965 original size:14 final size:14
Alignment explanation
Indices: 815946--815982 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
815936 CATCAATTAA
815946 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
815960 ACAAATCATCTTTT
1 ACAAATCAACATTT
815974 ACAAATCAA
1 ACAAATCAA
815983 TTAAACAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:817887 original size:20 final size:19
Alignment explanation
Indices: 817852--817921 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
817842 GAAACTTAAA
817852 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
* *
817871 ATCGCAATGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
**
817891 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
*
817910 ATCGCAATGCGA
1 ATCGCAACGCGA
817922 TTTGTGTTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 26 0.60
20 17 0.40
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:817952 original size:14 final size:14
Alignment explanation
Indices: 817933--817990 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
817923 TTGTGTTTCG
817933 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
817947 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
817963 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
817979 CGTTGCGATTTT
1 CGTTGCGATTTT
817991 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:817967 original size:32 final size:33
Alignment explanation
Indices: 817928--818006 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
817918 GCGATTTGTG
817928 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
817960 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
817993 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
818007 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:818005 original size:19 final size:17
Alignment explanation
Indices: 817928--818006 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 17
817918 GCGATTTGTG
817928 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
817944 TGTCG-TTGCGATTTCA
1 TTTCGCTTGCGATTTCA
817960 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
817976 TGTCG-TTGCGATTTTCA
1 TTTCGCTTGCGA-TTTCA
817993 TTTCGCATTGCGAT
1 TTTCGC-TTGCGAT
818007 AGCCATTTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
14 15 0.30
15 3 0.06
16 12 0.24
17 4 0.08
18 10 0.20
19 6 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (17 bp):
TTTCGCTTGCGATTTCA
Found at i:818025 original size:20 final size:19
Alignment explanation
Indices: 817991--818045 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
817981 TTGCGATTTT
*
817991 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
818010 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
818030 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
818046 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:818552 original size:18 final size:18
Alignment explanation
Indices: 818526--818570 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
818516 GTCGATCAGA
*
818526 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
818544 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
818562 TGATGGCTC
1 TGATGGCTC
818571 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:819916 original size:20 final size:20
Alignment explanation
Indices: 819891--819944 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
819881 AATAGTTTCT
819891 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
** *
819911 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACAC
*
819931 GAAACT-AAAATCGC
1 GAAAATGAAAATCGC
819945 GTTGCGATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:820205 original size:22 final size:22
Alignment explanation
Indices: 820178--820221 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
820168 GATGGAGATA
820178 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
820200 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
820222 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:820419 original size:21 final size:22
Alignment explanation
Indices: 820389--820484 Score: 69
Period size: 20 Copynumber: 4.6 Consensus size: 22
820379 CGCTTTGAAA
*
820389 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGATTATGTAAGT
* *
820410 ATCGCGTTGCGA--AAGTAAGT
1 ATCGCATTGCGATTATGTAAGT
* * * * *
820430 ATCTCGTTGCGATT-TTTTATT
1 ATCGCATTGCGATTATGTAAGT
*
820451 ATCGCATTGCGA-TA-GTCAGT
1 ATCGCATTGCGATTATGTAAGT
820471 ATCGCATTGCGATT
1 ATCGCATTGCGATT
820485 TTCCCAATTC
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
19 3 0.05
20 29 0.51
21 25 0.44
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.39
Consensus pattern (22 bp):
ATCGCATTGCGATTATGTAAGT
Found at i:820452 original size:41 final size:41
Alignment explanation
Indices: 820389--820486 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
820379 CGCTTTGAAA
* *
820389 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
* * * * *
820430 ATCTCGTTGCGATTTTTTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
820471 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
820487 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.40
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
Found at i:820501 original size:21 final size:21
Alignment explanation
Indices: 820472--820564 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
820462 ATAGTCAGTA
820472 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
820493 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
820513 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
820534 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
820554 TCGCATTGCGA
1 TCGCATTGCGA
820565 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:820502 original size:41 final size:41
Alignment explanation
Indices: 820411--820545 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
820401 TTATGTATTA
* * * ** *
820411 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
820451 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
820493 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
820534 TCGCGTTGCGAT
1 TCGCGTTGCGAT
820546 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:820546 original size:41 final size:41
Alignment explanation
Indices: 820472--820564 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
820462 ATAGTCAGTA
820472 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
820513 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
820554 TCGCATTGCGA
1 TCGCATTGCGA
820565 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):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:827859 original size:265 final size:254
Alignment explanation
Indices: 827344--827922 Score: 817
Period size: 265 Copynumber: 2.2 Consensus size: 254
827334 GTTCGGTTCG
827344 GATTTCTAATTCATATATTCGGGTCGAGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGTTT
1 GATTTCTAATTCATATATTC-GG-CG-GTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGTTT
*
827409 TTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCAAGTTTAGGGTGAAAAATACCCGACCCGAACA
63 TTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCAAGTTTAGGGTGAAAAATACCCAACCCGAACA
*
827474 TATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACTCCTCTATATATAGTTTTT
128 AATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACTCCTCTATATATAGTTTTT
*
827539 TTCAATTAAGTCATTGTTTTATTGAATAAAAATAATTTTTTTTATTATTTCGGGTCAGGTCA
193 TCCAATTAAGTCATTGTTTTATTGAATAAAAATAATTTTTTTTATTATTTCGGGTCAGGTCA
*
827601 GATTTCTAATTCATATATTC-G-GGTCGGGTGAAACTTTATTTTGGTCTGGTCGGGTCGGTTTTT
1 GATTTCTAATTCATATATTCGGCGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTC-G-TTTT
* * **
827664 TTTAAGTGTGATATTCGGGTTGGGTCGGGTTCGGGTTTAGGGTGAAAAATACCCAACCCGATCCG
64 TTTAAGTGTGATATTCGGGTCGGGTCGAGTTCAAGTTTAGGGTGAAAAATACCCAACCCGA----
*
827729 ACCCAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTATAATAATA-TCCCTCTATAT
125 A--C---AAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACT-CCTCTATAT
827793 ATA-TATTTTTCCCAATTAAGTCACTAT-TTTTATTGAATAAAAATAATTTTTTTTATTATTTCG
184 ATAGT-TTTTT-CCAATTAAGTCA-T-TGTTTTATTGAATAAAAATAATTTTTTTTATTATTTCG
* *
827856 GGTCGGGTCG
245 GGTCAGGTCA
* *
827866 GGTTTCTTATTCATATATTCGGGTCGGTCGGGTGAAACTTTATTTTGGTCGGGTCGG
1 GATTTCTAATTCATATATTC-GG-CGGTCGGGTGAAACTTTATTTTGGTCGGGTCGG
827923 ATCTCGGTTG
Statistics
Matches: 288, Mismatches: 14, Indels: 28
0.87 0.04 0.08
Matches are distributed among these distances:
252 33 0.11
253 2 0.01
254 60 0.21
255 1 0.00
257 20 0.07
258 1 0.00
260 1 0.00
262 2 0.01
263 61 0.21
264 11 0.04
265 63 0.22
266 1 0.00
267 1 0.00
269 31 0.11
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (254 bp):
GATTTCTAATTCATATATTCGGCGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGTTTTTT
TAAGTGTGATATTCGGGTCGGGTCGAGTTCAAGTTTAGGGTGAAAAATACCCAACCCGAACAAAT
ATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACTCCTCTATATATAGTTTTTTCC
AATTAAGTCATTGTTTTATTGAATAAAAATAATTTTTTTTATTATTTCGGGTCAGGTCA
Found at i:831616 original size:15 final size:17
Alignment explanation
Indices: 831596--831633 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
831586 TGAAAATGTT
831596 CTATGTGTA-AT-TGAA
1 CTATGTGTATATATGAA
831611 CTATGTGTATATATGAA
1 CTATGTGTATATATGAA
831628 -TATGTG
1 CTATGTG
831634 AAATGACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 8 0.38
17 4 0.19
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (17 bp):
CTATGTGTATATATGAA
Found at i:831831 original size:25 final size:26
Alignment explanation
Indices: 831803--831873 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
831793 ATTCTTAAGG
*
831803 AATTTCTAAGTGGTCATTC-GGGACA
1 AATTTCTAAGCGGTCATTCGGGGACA
* *
831828 AA-TTCTACGCGGTCCTTCGGGGACA
1 AATTTCTAAGCGGTCATTCGGGGACA
*
831853 AATTTCTACGCGG-CACTTCGG
1 AATTTCTAAGCGGTCA-TTCGG
831874 TGCAAAATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 13 0.33
25 11 0.28
26 15 0.38
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (26 bp):
AATTTCTAAGCGGTCATTCGGGGACA
Found at i:831865 original size:26 final size:26
Alignment explanation
Indices: 831803--831887 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 26
831793 ATTCTTAAGG
* * *
831803 AATTTCTAAGTGGTCATTC-GGGACA
1 AATTTCTACGCGGTCCTTCGGGGACA
831828 AA-TTCTACGCGGTCCTTCGGGGACA
1 AATTTCTACGCGGTCCTTCGGGGACA
*
831853 AATTTCTACGCGG-CACTTCGGTG-CA
1 AATTTCTACGCGGTC-CTTCGGGGACA
*
831878 AAATTCTACG
1 AATTTCTACG
831888 TGGCACTACA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
24 13 0.25
25 22 0.42
26 17 0.33
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (26 bp):
AATTTCTACGCGGTCCTTCGGGGACA
Found at i:838379 original size:15 final size:15
Alignment explanation
Indices: 838356--838387 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
838346 TTCTCGCTCG
*
838356 TAGTTTAACTTAGTT
1 TAGTGTAACTTAGTT
838371 TAGTGTAACTTAGTT
1 TAGTGTAACTTAGTT
838386 TA
1 TA
838388 ATAATAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (15 bp):
TAGTGTAACTTAGTT
Found at i:841417 original size:15 final size:16
Alignment explanation
Indices: 841377--841408 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
841367 TTAGTACAAC
841377 AATTTGATTGAATATT
1 AATTTGATTGAATATT
841393 AATTTGATTG-ATATT
1 AATTTGATTGAATATT
841408 A
1 A
841409 TTTTTATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (16 bp):
AATTTGATTGAATATT
Found at i:843193 original size:31 final size:29
Alignment explanation
Indices: 843125--843194 Score: 70
Period size: 31 Copynumber: 2.2 Consensus size: 29
843115 AATATTTTTT
*
843125 TTATAATTTTATTAATAAAAATATTAATAT
1 TTAT-ATTTTATTAATAAAAATATTAATAA
843155 TGGTATATTTTATTGAAATAAAAATATT-ATAAA
1 T--TATATTTTATT--AATAAAAATATTAAT-AA
843188 TTATATT
1 TTATATT
843195 AATTATTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
30 1 0.03
31 14 0.41
32 5 0.15
33 14 0.41
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
TTATATTTTATTAATAAAAATATTAATAA
Found at i:843274 original size:23 final size:23
Alignment explanation
Indices: 843225--843293 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
843215 GTGTTATATG
* * * **
843225 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATCTTTATTAAA
843248 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATCTTTATTAAA
*
843271 ATATTATTAGAT-TCTTATATTAA
1 ATATT-TTAAATATCTT-TATTAA
843294 TATTAAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 27 0.71
24 11 0.29
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATCTTTATTAAA
Found at i:843499 original size:23 final size:23
Alignment explanation
Indices: 843444--843512 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
843434 ATTTTATTAT
*
843444 AATATTAAAAATATATATTTTTAGA
1 AATATTAATAA-ATATA-TTTTAGA
843469 AATATTAATAAATATATTTTA-A
1 AATATTAATAAATATATTTTAGA
* *
843491 ATATTTTAATAATTAATATTTT
1 A-ATATTAATAAAT-ATATTTT
843513 GATTAAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
22 2 0.05
23 15 0.38
24 12 0.31
25 10 0.26
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (23 bp):
AATATTAATAAATATATTTTAGA
Found at i:846664 original size:25 final size:25
Alignment explanation
Indices: 846630--846683 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
846620 TAGTTTTTGA
*
846630 AAAATGACTTTTAAAAGTGTTGTAG
1 AAAATAACTTTTAAAAGTGTTGTAG
*
846655 AAAATAACTTTTAAAAGTGTTGTAT
1 AAAATAACTTTTAAAAGTGTTGTAG
846680 AAAA
1 AAAA
846684 GTACAGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (25 bp):
AAAATAACTTTTAAAAGTGTTGTAG
Found at i:847566 original size:59 final size:60
Alignment explanation
Indices: 847488--847615 Score: 136
Period size: 60 Copynumber: 2.1 Consensus size: 60
847478 ATTTGAAACC
* * * *
847488 AATTTAGAATGAAGATCATAGTTGA-GGATGA-AATTAAAATGCTCAAAAGTTTAAAGACT
1 AATTTAGAATAAAGATCATAATTGAGGGA-AATAATTAAAATACTCAAAAGTTTAAAGACT
* * * * *
847547 AATTTAGAATAATAG-TCATAATTTAGGGAAATAATTAATATATTTAAAAGTTTAAAGATT
1 AATTTAGAATAA-AGATCATAATTGAGGGAAATAATTAAAATACTCAAAAGTTTAAAGACT
847607 AATTTAGAA
1 AATTTAGAA
847616 CGAGGATTGT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
59 20 0.35
60 37 0.65
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.34
Consensus pattern (60 bp):
AATTTAGAATAAAGATCATAATTGAGGGAAATAATTAAAATACTCAAAAGTTTAAAGACT
Found at i:854914 original size:31 final size:29
Alignment explanation
Indices: 854879--854956 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 29
854869 GTTCAAAAGG
854879 GACAAAATATAATTAATAATAAAAAATAAAA
1 GACAAAATA-AATTAATAATAAAAAAT-AAA
* *
854910 GACAAAATAAAAATAATCATAAAAAATAAA
1 GACAAAAT-AAATTAATAATAAAAAATAAA
854940 GAACAAAATCAAATTAA
1 G-ACAAAAT-AAATTAA
854957 ATAAAATTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 4 0.10
31 36 0.88
32 1 0.02
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (29 bp):
GACAAAATAAATTAATAATAAAAAATAAA
Found at i:867069 original size:36 final size:36
Alignment explanation
Indices: 867017--867227 Score: 359
Period size: 36 Copynumber: 5.9 Consensus size: 36
867007 AGTTGAGTAT
* *
867017 TATCAACTTTGATACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* *
867053 TATTAGTTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
867089 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
867125 TATCAGCTTTGGCACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
867161 TATCAGCTTTAGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
867197 TATTAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
867228 CCAGCATCGT
Statistics
Matches: 164, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 164 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.43
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:874775 original size:64 final size:64
Alignment explanation
Indices: 874681--874888 Score: 228
Period size: 65 Copynumber: 3.2 Consensus size: 64
874671 TTTCAAAGTG
* * *
874681 ATGCACCGATGCACCA-ATCCATGCATCGATGCACCATGGAATAAATTG-AACATCAAATGCATT
1 ATGCATCGATGCACCATA-CCATGCATCGATGCACCA-GG-ATATATTGAAACATCGAATGCATT
874744 TT
63 TT
* * *
874746 ATGCATCGATGCA-CATACCATGCATCGATGCACTAAGGGT-TTTATGAAAACATCGAATGCATT
1 ATGCATCGATGCACCATACCATGCATCGATGCAC-CAGGATATAT-TG-AAACATCGAATGCATT
*
874809 TG
63 TT
* * *
874811 ATGCATTGATGCACCAT-CCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCACCATACCATGCATCGATGCAC-CAGGATATATTGAAACATCGAATGCATTTT
874875 ATGCATCGATGCAC
1 ATGCATCGATGCAC
874889 TCTTAGTGCA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 50 0.40
65 64 0.52
66 6 0.05
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (64 bp):
ATGCATCGATGCACCATACCATGCATCGATGCACCAGGATATATTGAAACATCGAATGCATTTT
Found at i:874798 original size:65 final size:63
Alignment explanation
Indices: 874681--874914 Score: 249
Period size: 64 Copynumber: 3.6 Consensus size: 63
874671 TTTCAAAGTG
* * * * ** *
874681 ATGCACCGATGCACCAATCCATGCATCGATGCACCATGGAATAAATTG-AACATCAAATGCATTT
1 ATGCATCGATGCA-C-ATCCATGCATCGATGCACTAAGG-GTATTTTGAAACATCGAATGCATTT
874745 T
63 T
874746 ATGCATCGATGCACATACCATGCATCGATGCACTAAGGGT-TTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACAT-CCATGCATCGATGCACTAAGGGTATTT-TG-AAACATCGAATGCATTT
*
874810 G
63 T
* * *
874811 ATGCATTGATGCACCATCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCA-CATCCATGCATCGATGCACTAAGGGTATTTTGAAACATCGAATGCATTTT
* *
874875 ATGCATCGATGCAC-TCTTAGTGCACCGATGCACTAAGGGT
1 ATGCATCGATGCACATC-CA-TGCATCGATGCACTAAGGGT
874915 CCAACGGTCA
Statistics
Matches: 144, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
62 3 0.02
63 7 0.05
64 66 0.46
65 62 0.43
66 6 0.04
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (63 bp):
ATGCATCGATGCACATCCATGCATCGATGCACTAAGGGTATTTTGAAACATCGAATGCATTTT
Found at i:874904 original size:129 final size:130
Alignment explanation
Indices: 874679--874914 Score: 329
Period size: 129 Copynumber: 1.8 Consensus size: 130
874669 TTTTTCAAAG
874679 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGGAATAAATTGAACATCAAATGCATT
1 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGGAATAAATTGAACATCAAATGCATT
*
874744 TTATGCATCGATGCACATACCATGCATCGATGCACTAAGGGTTTTATGAAAACATCGAATGCATT
66 TTATGCATCGATGCACATACCATGCACCGATGCACTAAGGGTTTTATGAAAACATCGAATGCATT
** * ** *
874809 TGATGCATTGATGCACC-ATCCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCGAATGCA
1 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCAAATGCA
*
874871 TTTTATGCATCGATGCAC-T-CTTAGTGCACCGATGCACTAAGGGT
64 TTTTATGCATCGATGCACATAC-CA-TGCACCGATGCACTAAGGGT
874915 CCAACGGTCA
Statistics
Matches: 94, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
127 1 0.01
128 7 0.07
129 69 0.73
130 17 0.18
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (130 bp):
TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGGAATAAATTGAACATCAAATGCATT
TTATGCATCGATGCACATACCATGCACCGATGCACTAAGGGTTTTATGAAAACATCGAATGCATT
Found at i:878092 original size:21 final size:21
Alignment explanation
Indices: 878050--878092 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
878040 TTTCTGGGTT
* * *
878050 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
878071 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
878092 A
1 A
878093 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:878150 original size:65 final size:67
Alignment explanation
Indices: 878072--878220 Score: 221
Period size: 67 Copynumber: 2.3 Consensus size: 67
878062 ACCCATTCAA
* *
878072 GGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATGCTAGA-GGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
878135 GG
66 GG
* * * *
878137 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
878202 GG
66 GG
*
878204 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
878221 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
65 22 0.29
66 19 0.25
67 34 0.45
ACGTcount: A:0.28, C:0.29, G:0.26, T:0.17
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
GG
Found at i:878209 original size:20 final size:20
Alignment explanation
Indices: 878184--878221 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
878174 GATTGCTTGA
*
878184 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
878204 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
878222 TGAGAAAAAG
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:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:878885 original size:22 final size:22
Alignment explanation
Indices: 878857--878923 Score: 118
Period size: 22 Copynumber: 3.0 Consensus size: 22
878847 TTATGGACAT
878857 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
878879 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
878901 AATTCTACGGGGCACTTC-GTGC
1 AATTCTAC-GGGCACTTCGGTGC
878923 A
1 A
878924 TTTATACGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
22 35 0.80
23 9 0.20
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:882572 original size:44 final size:44
Alignment explanation
Indices: 882487--882583 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
882477 TTGTGCTTAA
*
882487 TGCATCGATACACTTAACAGTGCATCGATGCATCCCTTTGAATG
1 TGCATCGATACACTTAACAGTGCACCGATGCATCCCTTTGAATG
*
882531 TGCATCGATACAC-TATGCAGGTGCACCGATGCA-CGCC-TTGAATG
1 TGCATCGATACACTTA-ACA-GTGCACCGATGCATC-CCTTTGAATG
882575 TGCATCGAT
1 TGCATCGAT
882584 GCACAAGGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
43 2 0.04
44 32 0.67
45 14 0.29
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (44 bp):
TGCATCGATACACTTAACAGTGCACCGATGCATCCCTTTGAATG
Found at i:885124 original size:65 final size:63
Alignment explanation
Indices: 885007--885214 Score: 242
Period size: 65 Copynumber: 3.2 Consensus size: 63
884997 TTTCAAAGTG
* * **
885007 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCA-CAA-CCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCGAATGCATT
885070 TT
62 TT
* *
885072 ATGCATCGATGCACATACCTTGCATCGATGCACTCAGGGT-TTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGCTATTT-TG-AAACATCGAATGCATTT
*
885136 G
63 T
* *
885137 ATGCATCGATGCACCAGCCATGCATTGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
885201 ATGCATCGATGCAC
1 ATGCATCGATGCAC
885215 TCTTAGTGCA
Statistics
Matches: 125, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 49 0.39
65 66 0.53
66 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
Found at i:885230 original size:129 final size:130
Alignment explanation
Indices: 885005--885240 Score: 320
Period size: 129 Copynumber: 1.8 Consensus size: 130
884995 TTTTTCAAAG
*
885005 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGGAATAAATTGAACATCGAATGCATT
1 TGATGCACCGATGCACCAAGCCATGCATCGATGCACCATGGAATAAATTGAACATCGAATGCATT
* *
885070 TTATGCATCGATGCACATACCTTGCATCGATGCACTCAGGGTTTTATGAAAACATCGAATGCATT
66 TTATGCATCGATGCACATACCTTGCACCGATGCACTAAGGGTTTTATGAAAACATCGAATGCATT
* * * **
885135 TGATGCATCGATGCACC-AGCCATGCATTGATGCACTCA-GG-CTATTTTGAAACATCGAATGCA
1 TGATGCACCGATGCACCAAGCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCA
*
885197 TTTTATGCATCGATGCAC-T-CTTAGTGCACCGATGCACTAAGGGT
64 TTTTATGCATCGATGCACATACCT--TGCACCGATGCACTAAGGGT
885241 CCAACGGTCA
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
127 2 0.02
128 6 0.06
129 67 0.72
130 18 0.19
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (130 bp):
TGATGCACCGATGCACCAAGCCATGCATCGATGCACCATGGAATAAATTGAACATCGAATGCATT
TTATGCATCGATGCACATACCTTGCACCGATGCACTAAGGGTTTTATGAAAACATCGAATGCATT
Found at i:886313 original size:36 final size:36
Alignment explanation
Indices: 886261--886363 Score: 179
Period size: 36 Copynumber: 2.9 Consensus size: 36
886251 AGTTGAGTAT
* *
886261 TATCAGCTTTGATACATTCATGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
886297 TATCATCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
886333 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
886364 CCAGCACCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 63 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:890266 original size:16 final size:16
Alignment explanation
Indices: 890242--890283 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
890232 AATTTAGCTT
*
890242 GTTCGTGTTCCTATTC
1 GTTCATGTTCCTATTC
890258 GTTCATGTTCCTATTC
1 GTTCATGTTCCTATTC
890274 GTTCATGTTC
1 GTTCATGTTC
890284 ATTCGTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.10, C:0.24, G:0.17, T:0.50
Consensus pattern (16 bp):
GTTCATGTTCCTATTC
Found at i:891378 original size:36 final size:36
Alignment explanation
Indices: 891297--891440 Score: 177
Period size: 35 Copynumber: 4.1 Consensus size: 36
891287 AGATAAACAA
* ** *
891297 TTGAATCGAAAGTG-CTTATGCTTCCTCCCGTTC-AC
1 TTGAATCGAAAGTGTC-GATGCTTCCTTTCGTTCTTC
* *
891332 TTGAATCGAAAGTGTCGATGCTTTCTTTTGTTCTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTTC
* * *
891368 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTC-AC
1 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTTC
891403 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTTC
891439 TT
1 TT
891441 ATTCACCTTC
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
35 58 0.63
36 34 0.37
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.40
Consensus pattern (36 bp):
TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTTC
Found at i:891413 original size:71 final size:71
Alignment explanation
Indices: 891297--891440 Score: 243
Period size: 71 Copynumber: 2.0 Consensus size: 71
891287 AGATAAACAA
** * *
891297 TTGAATCGAAAGTGCTTATGCTTCCTCCCGTTCACTTGAATCGAAAGTGTCGATGCTTTCTTTTG
1 TTGAATCGAAAGTGCCGATGCTTCCTCCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCG
891362 TTCTTC
66 TTCTTC
*
891368 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCG
1 TTGAATCGAAAGTGCCGATGCTTCCTCCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCG
891433 TTCTTC
66 TTCTTC
891439 TT
1 TT
891441 ATTCACCTTC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.40
Consensus pattern (71 bp):
TTGAATCGAAAGTGCCGATGCTTCCTCCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCG
TTCTTC
Found at i:898396 original size:16 final size:14
Alignment explanation
Indices: 898359--898401 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
898349 TCATTATATT
*
898359 ATATAATATTTATA
1 ATATTATATTTATA
898373 A-ATTATATTATATA
1 ATATTATATT-TATA
898387 ATATTCATATTTATA
1 ATATT-ATATTTATA
898402 TTTCATCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 7 0.28
14 6 0.24
15 7 0.28
16 5 0.20
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
ATATTATATTTATA
Found at i:899580 original size:5 final size:5
Alignment explanation
Indices: 899570--899605 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
899560 AATCGAGGCC
*
899570 TTTTA TTTTA TTTTA -TTTA TTTTA ATTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
899606 CAGTTACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:899635 original size:13 final size:13
Alignment explanation
Indices: 899617--899646 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
899607 AGTTACTATT
899617 TTTTATTTACATA
1 TTTTATTTACATA
*
899630 TTTTATTTACCTA
1 TTTTATTTACATA
899643 TTTT
1 TTTT
899647 TTAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTATTTACATA
Found at i:899753 original size:29 final size:29
Alignment explanation
Indices: 899687--899771 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
899677 GATTTAAAAA
* *
899687 TATTATTTATTTATTTA-TTTTATTATTAT
1 TATT-TTTATTTATTTATTTTTATTTTTAC
* *
899716 TATTATTATTTATTTATTTTTATTTTTGC
1 TATTTTTATTTATTTATTTTTATTTTTAC
* *
899745 TCTTTTTA-TTATTTCATTTTCATTTTT
1 TATTTTTATTTATTT-ATTTTTATTTTT
899772 TATTATCCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
28 17 0.36
29 30 0.64
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.73
Consensus pattern (29 bp):
TATTTTTATTTATTTATTTTTATTTTTAC
Found at i:899784 original size:20 final size:20
Alignment explanation
Indices: 899747--899797 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
899737 ATTTTTGCTC
* *
899747 TTTTTATTATTTCATTTTCAT
1 TTTTTATTA-TCCATTTTAAT
*
899768 TTTTTATTATCCTTTTTAAT
1 TTTTTATTATCCATTTTAAT
*
899788 ATTTTATTAT
1 TTTTTATTAT
899798 TATCTTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTATTATCCATTTTAAT
Found at i:899791 original size:22 final size:22
Alignment explanation
Indices: 899766--899808 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
899756 TTTCATTTTC
899766 ATTTT-TTATTATCCTTTTTAAT
1 ATTTTATTATTAT-CTTTTTAAT
899788 ATTTTATTATTATCTTTTTAA
1 ATTTTATTATTATCTTTTTAA
899809 AAAACTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTTATTATTATCTTTTTAAT
Found at i:901704 original size:21 final size:21
Alignment explanation
Indices: 901677--901727 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
901667 CAAACATTTC
901677 ATACATTTTTGCAGTTTGCAT
1 ATACATTTTTGCAGTTTGCAT
* *
901698 ATGCATTTTTGCATTTTGCAT
1 ATACATTTTTGCAGTTTGCAT
*
901719 CTACATTTT
1 ATACATTTT
901728 ATTTTTAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.51
Consensus pattern (21 bp):
ATACATTTTTGCAGTTTGCAT
Found at i:904788 original size:42 final size:42
Alignment explanation
Indices: 904729--904873 Score: 136
Period size: 42 Copynumber: 3.4 Consensus size: 42
904719 CATTCGGGGC
*
904729 TCAACTTCACAACGAAGGGGCTTCCCAATTTCAGAGCCAATT
1 TCAACTTCACAGCGAAGGGGCTTCCCAATTTCAGAGCCAATT
*** * ** **
904771 TCAACTTCACAGCGAAGGATATTGGACTCAAGAT-A-ATG-CAAGC
1 TCAACTTCACAGCGAAGGGGCTT---CCCAATTTCAGA-GCCAATT
904814 TCAACTTCAC-GACGAAGGGGCTTCCCAATTTCAGAGCCAATT
1 TCAACTTCACAG-CGAAGGGGCTTCCCAATTTCAGAGCCAATT
904856 TCAACTTCACAGCGAAGG
1 TCAACTTCACAGCGAAGG
904874 ATATTGGACC
Statistics
Matches: 77, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
40 5 0.06
41 2 0.03
42 40 0.52
43 23 0.30
44 2 0.03
45 5 0.06
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (42 bp):
TCAACTTCACAGCGAAGGGGCTTCCCAATTTCAGAGCCAATT
Found at i:904829 original size:85 final size:85
Alignment explanation
Indices: 904727--904919 Score: 341
Period size: 85 Copynumber: 2.3 Consensus size: 85
904717 GTCATTCGGG
*
904727 GCTCAACTTCACAACGAAGGGGCTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
1 GCTCAACTTCACGACGAAGGGGCTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
* * **
904792 TTGGACTCAAGATAATGCAA
66 TTGGACCCAAGACAACACAA
904812 GCTCAACTTCACGACGAAGGGGCTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
1 GCTCAACTTCACGACGAAGGGGCTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
904877 TTGGACCCAAGACAACACAA
66 TTGGACCCAAGACAACACAA
904897 GCTCAACTTCACGACGAAGGGGC
1 GCTCAACTTCACGACGAAGGGGC
904920 GGTTGATTGT
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 103 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (85 bp):
GCTCAACTTCACGACGAAGGGGCTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
TTGGACCCAAGACAACACAA
Found at i:904907 original size:43 final size:42
Alignment explanation
Indices: 904771--904916 Score: 104
Period size: 43 Copynumber: 3.4 Consensus size: 42
904761 AGAGCCAATT
* * *
904771 TCAACTTCAC-AGCGAAGGATATTGGACTCAAGATAATGCAAGC
1 TCAACTTCACGA-CGAAGGATATTGGACCCAAGACAA-CCAAGC
*** ** **
904814 TCAACTTCACGACGAAGGGGCTT---CCCAATTTCAGAGCCAATT
1 TCAACTTCACGACGAAGGATATTGGACCCAA-GACA-A-CCAAGC
904856 TCAACTTCAC-AGCGAAGGATATTGGACCCAAGACAACACAAGC
1 TCAACTTCACGA-CGAAGGATATTGGACCCAAGACAAC-CAAGC
904899 TCAACTTCACGACGAAGG
1 TCAACTTCACGACGAAGG
904917 GGCGGTTGAT
Statistics
Matches: 76, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
40 4 0.05
41 2 0.03
42 23 0.30
43 38 0.50
44 4 0.05
45 5 0.07
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (42 bp):
TCAACTTCACGACGAAGGATATTGGACCCAAGACAACCAAGC
Found at i:905041 original size:110 final size:110
Alignment explanation
Indices: 904843--905042 Score: 312
Period size: 110 Copynumber: 1.8 Consensus size: 110
904833 GCTTCCCAAT
* *
904843 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCAAAACGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCA
* *
904908 CGACGAAGGGGCGGTTGATTGTCAATAAATAACTTTTCAATTTCA
66 CGACGAAGGGGCGGCTGACTGTCAATAAATAACTTTTCAATTTCA
* * *
904953 TTCAGAGTCAATTTCAACTTCAAAACGAATGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCAAAACGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCA
*
905018 C-AGCGAAGGGGCGGCTGGCTGTCAA
66 CGA-CGAAGGGGCGGCTGACTGTCAA
905043 CAAACAATTT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
109 1 0.01
110 80 0.99
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCAAAACGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCA
CGACGAAGGGGCGGCTGACTGTCAATAAATAACTTTTCAATTTCA
Found at i:905273 original size:36 final size:36
Alignment explanation
Indices: 905226--905395 Score: 231
Period size: 36 Copynumber: 4.8 Consensus size: 36
905216 GTGCTCACCA
*
905226 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAGTT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
**
905262 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
* ** *
905298 TCGTCTCTCTTGAGACAGTTTCTTTTAAAACAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
* *
905334 TTGTCTCTCTTGAGACA---T-CTTTAAAACAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
905366 TTGTCTCTCTTGAGACAGTTTCCCTTGAAA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAA
905396 TAAAATCTTT
Statistics
Matches: 117, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
32 30 0.26
33 1 0.01
35 1 0.01
36 85 0.73
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
Found at i:905345 original size:72 final size:68
Alignment explanation
Indices: 905228--905555 Score: 240
Period size: 72 Copynumber: 4.8 Consensus size: 68
905218 GCTCACCATT
* * *
905228 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACA---T-CCTTAAAAC
905293 AAACATC
62 AAACATC
** * *
905300 GTCTCTCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATCTTTAAAACAAAT
1 GTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACATCCTTAAAACAAAC
* *
905365 TTT
66 ATC
** * *
905368 GTCTCTCTTGAGACAGTTTCCCTTGAAATA-AAATCTTTGAATCTGCTT------TCCTAAAAAT
1 GTCTCTCTTGAGACAGTTTCCCTT-AAA-ACAAAT-TTTGTCTCT-CTTGAGACATCCTTAAAAC
**
905426 AAATTTC
62 AAACATC
* ** * ** *
905433 GTCTCCCTTGAGACAGTTTCTTTTAGAACTAAGCTTTGTCTCTCTCGAGACAATTTCTCTTAAAA
1 GTCTCTCTTGAGACAGTTTCCCTTAAAAC-AAATTTTGTCTCTCTTGAGAC-A--TC-CTTAAAA
* *
905498 CAAA-TTT
61 CAAACATC
* **
905505 GTCTCTCTTGAGACATTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACA
1 GTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACA
905556 GTTTCCCCTG
Statistics
Matches: 205, Mismatches: 35, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
63 3 0.01
64 9 0.04
65 36 0.18
68 33 0.16
69 8 0.04
70 9 0.04
71 21 0.10
72 77 0.38
73 9 0.04
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (68 bp):
GTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACATCCTTAAAACAAAC
ATC
Found at i:905357 original size:32 final size:34
Alignment explanation
Indices: 905226--905555 Score: 196
Period size: 36 Copynumber: 9.5 Consensus size: 34
905216 GTGCTCACCA
* *
905226 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAGTT
1 TTGTCTCTCTTGAGACA--TTCCCTTAAAACAAATT
* **
905262 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACA
1 TTGTCTCTCTTGAGACA--TTCCCTTAAAACAAATT
* **
905298 TCGTCTCTCTTGAGACAGTTTCTTTTAAAACAAATT
1 TTGTCTCTCTTGAGACA--TTCCCTTAAAACAAATT
*
905334 TTGTCTCTCTTGAGACA-T-CTTTAAAACAAATT
1 TTGTCTCTCTTGAGACATTCCCTTAAAACAAATT
905366 TTGTCTCTCTTGAGACAGTTTCCCTTGAAATA-AAATCT
1 TTGTCTCTCTTGAGACA--TTCCCTT-AAA-ACAAAT-T
** * * *
905404 TTG--AATC-T--G-C-TTTCCTAAAAATAAATT
1 TTGTCTCTCTTGAGACATTCCCTTAAAACAAATT
* * ** * **
905431 TCGTCTCCCTTGAGACAGTTTCTTTTAGAACTAAGCT
1 TTGTCTCTCTTGAGACA--TTCCCTTAAAAC-AAATT
* *
905468 TTGTCTCTCTCGAGACAATTTCTCTTAAAACAAA-T
1 TTGTCTCTCTTGAGAC-A-TTCCCTTAAAACAAATT
**
905503 TTGTCTCTCTTGAGACATTTTCTTTTAAAACAAATT
1 TTGTCTCTCTTGAGACA--TTCCCTTAAAACAAATT
905539 TTGTCTCTCTTGAGACA
1 TTGTCTCTCTTGAGACA
905556 GTTTCCCCTG
Statistics
Matches: 237, Mismatches: 36, Indels: 42
0.75 0.11 0.13
Matches are distributed among these distances:
27 4 0.02
28 7 0.03
29 6 0.03
30 1 0.00
32 32 0.14
33 3 0.01
34 1 0.00
35 33 0.14
36 110 0.46
37 34 0.14
38 6 0.03
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (34 bp):
TTGTCTCTCTTGAGACATTCCCTTAAAACAAATT
Found at i:905483 original size:37 final size:35
Alignment explanation
Indices: 905421--905560 Score: 172
Period size: 35 Copynumber: 3.9 Consensus size: 35
905411 TGCTTTCCTA
* *
905421 AAAATAAATTTCGTCTCCCTTGAGACAGTTTCTTTT
1 AAAACAAATTT-GTCTCTCTTGAGACAGTTTCTTTT
* * * * *
905457 AGAACTAAGCTTTGTCTCTCTCGAGACAATTTCTCTT
1 AAAAC-AA-ATTTGTCTCTCTTGAGACAGTTTCTTTT
*
905494 AAAACAAATTTGTCTCTCTTGAGACATTTTCTTTT
1 AAAACAAATTTGTCTCTCTTGAGACAGTTTCTTTT
905529 AAAACAAATTTTGTCTCTCTTGAGACAGTTTC
1 AAAACAAA-TTTGTCTCTCTTGAGACAGTTTC
905561 CCCTGAAACA
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
35 32 0.36
36 27 0.31
37 26 0.30
38 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (35 bp):
AAAACAAATTTGTCTCTCTTGAGACAGTTTCTTTT
Found at i:905549 original size:36 final size:36
Alignment explanation
Indices: 905421--905572 Score: 144
Period size: 36 Copynumber: 4.2 Consensus size: 36
905411 TGCTTTCCTA
* * * **
905421 AAAATAAATTTCGTCTCCCTTGAGACAGTTTCTTTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
* ** * * *
905457 AGAACTAAGCTTTGTCTCTCTCGAGACAATTTCTCTT
1 AAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTT
* **
905494 AAAACAAA-TTTGTCTCTCTTGAGACATTTTCTTTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
*
905529 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCCT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
*
905565 GAAACAAA
1 AAAACAAA
905573 ATCTTTCAAA
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
35 32 0.34
36 35 0.37
37 28 0.29
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
Found at i:905558 original size:173 final size:170
Alignment explanation
Indices: 905300--905671 Score: 530
Period size: 173 Copynumber: 2.2 Consensus size: 170
905290 AACAAACATC
* *
905300 GTCTCTCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATCTTTAAAACAAAT
1 GTCTCTCTTGAGACAATTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACATCTTTAAAACAAAT
* * * * * *
905365 TTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATCTTTGAATCTGCTTTCCTAAAAATAAAT
66 TTTGTCTCTCTTGAGACAGTTTCCCCTGAAACAAAATCTTTCAAACTACTTTCCTAAAAACAAAT
*
905430 TTCGTCTCCCTTGAGACAGTTTCTTTTAGAACTAAGCTTT
131 TTCGTCTCCCTTGAGACAATTTCTTTTAGAACTAAGCTTT
*
905470 GTCTCTCTCGAGACAATTTCTCTTAAAACAAA-TTTGTCTCTCTTGAGACATTTTCTTTTAAAAC
1 GTCTCTCTTGAGACAATTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACA---TC-TTTAAAAC
* **
905534 AAATTTTGTCTCTCTTGAGACAGTTTCCCCTGAAACAAAATCTTTCAAACTATTTTCCTTGAAAC
62 AAATTTTGTCTCTCTTGAGACAGTTTCCCCTGAAACAAAATCTTTCAAACTACTTTCCTAAAAAC
* * * *
905599 GAATTTTGTCTCCCTTGAGACAATTTCTTTTGGAGCTAAGCTTT
127 AAATTTCGTCTCCCTTGAGACAATTTCTTTTAGAACTAAGCTTT
*
905643 GTCTCTCTTGAGGCAATTTCTCTTGAAAA
1 GTCTCTCTTGAGACAATTTCTCTT-AAAA
905672 AAAACCTTTG
Statistics
Matches: 178, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
169 18 0.10
170 29 0.16
172 2 0.01
173 125 0.70
174 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.40
Consensus pattern (170 bp):
GTCTCTCTTGAGACAATTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACATCTTTAAAACAAAT
TTTGTCTCTCTTGAGACAGTTTCCCCTGAAACAAAATCTTTCAAACTACTTTCCTAAAAACAAAT
TTCGTCTCCCTTGAGACAATTTCTTTTAGAACTAAGCTTT
Found at i:907410 original size:9 final size:9
Alignment explanation
Indices: 907396--907425 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
907386 ATCGAGGCCT
907396 TTTATTTTA
1 TTTATTTTA
907405 TTTATTTTAA
1 TTTATTTT-A
907415 TTTATTTTA
1 TTTATTTTA
907424 TT
1 TT
907426 CAGTTACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:907440 original size:28 final size:28
Alignment explanation
Indices: 907409--907481 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 28
907399 ATTTTATTTA
907409 TTTTAATTTATTTTATTCAGTTA-CTATT
1 TTTTAATTTATTTTATT-AGTTACCTATT
* *
907437 TTTT-ATTTACATATT-TTATTTACCTATT
1 TTTTAATTT--ATTTTATTAGTTACCTATT
*
907465 TTTTAATTTAATTTATT
1 TTTTAATTTATTTTATT
907482 TTAATCATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
27 11 0.31
28 17 0.47
29 8 0.22
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (28 bp):
TTTTAATTTATTTTATTAGTTACCTATT
Found at i:907455 original size:13 final size:13
Alignment explanation
Indices: 907437--907466 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
907427 AGTTACTATT
907437 TTTTATTTACATA
1 TTTTATTTACATA
*
907450 TTTTATTTACCTA
1 TTTTATTTACATA
907463 TTTT
1 TTTT
907467 TTAATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTATTTACATA
Found at i:907581 original size:19 final size:20
Alignment explanation
Indices: 907529--907622 Score: 75
Period size: 22 Copynumber: 4.5 Consensus size: 20
907519 ATTTATTTTA
* *
907529 TTTTATTATTATTATTAATATT
1 TTTTATTATT-TTTTTCATA-T
* *
907551 TTATTTTTATTTTTTTC-TCT
1 TT-TTATTATTTTTTTCATAT
907571 TTTTATTATTTTATTTTCATAT
1 TTTTATTA-TTT-TTTTCATAT
*
907593 TTTTATTATATTTTTTAATA-
1 TTTTATTAT-TTTTTTCATAT
907613 TTTTATTATT
1 TTTTATTATT
907623 ATCTTTTAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
19 6 0.10
20 15 0.25
21 14 0.23
22 18 0.30
23 7 0.12
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATTATTTTTTTCATAT
Found at i:907622 original size:8 final size:8
Alignment explanation
Indices: 907507--907622 Score: 57
Period size: 8 Copynumber: 14.2 Consensus size: 8
907497 GATTTAAAAT
907507 TTTTATT-
1 TTTTATTA
907514 TATTTATTTA
1 T-TTTA-TTA
907524 TTTTATT-
1 TTTTATTA
907531 TTATTATTA
1 TT-TTATTA
*
907540 TTATTAATA
1 TT-TTATTA
907549 TTTTA-T-
1 TTTTATTA
*
907555 TTTTATTT
1 TTTTATTA
*
907563 TTTTCTCT-
1 TTTTAT-TA
907571 TTTTATTA
1 TTTTATTA
907579 TTTTATTTTCA
1 TTTTA--TT-A
907590 TATTT-TTA
1 T-TTTATTA
*
907598 TTATATT-
1 TTTTATTA
*
907605 TTTTAATA
1 TTTTATTA
907613 TTTTATTA
1 TTTTATTA
907621 TT
1 TT
907623 ATCTTTTAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 29
0.71 0.06 0.24
Matches are distributed among these distances:
6 5 0.06
7 13 0.15
8 42 0.48
9 19 0.22
10 3 0.03
11 2 0.02
12 3 0.03
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTATTA
Found at i:907630 original size:55 final size:55
Alignment explanation
Indices: 907516--907629 Score: 126
Period size: 55 Copynumber: 2.0 Consensus size: 55
907506 TTTTTATTTA
* *
907516 TTTATTTATTTTATTTTATTATTATTATTAATATTTTATTTTTATTTTTTTCTCTT
1 TTTATTTATTTTATTTTATTATTATTATTAATATTTTATTTTTA-TTTATTATCTT
* *
907572 TTTA-TTATTTTATTTTCA-TATTTTTATTATATTTTTTAATATTTTA-TTATTATCTT
1 TTTATTTATTTTATTTT-ATTATTATTATTA-ATATTTT-AT-TTTTATTTATTATCTT
907628 TT
1 TT
907630 AAAAAAAACT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
55 22 0.44
56 21 0.42
57 2 0.04
58 5 0.10
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (55 bp):
TTTATTTATTTTATTTTATTATTATTATTAATATTTTATTTTTATTTATTATCTT
Found at i:910221 original size:51 final size:50
Alignment explanation
Indices: 910119--910245 Score: 130
Period size: 51 Copynumber: 2.5 Consensus size: 50
910109 GTAGCAGTAA
* * * * *
910119 AGCGTGCCCCCTGAACCGCGCTATATGTTGATTTGGTGCCACGTGGGGTAT
1 AGCGCGCCCCCTG-ACCGCGCTATATGCTGAATGGGTGACACGTGGGGTAT
* *
910170 AGCGCGCCCCCTGCACCGCGCTATATGCTGACATGGGTTACACGT-GTGTAT
1 AGCGCGCCCCCTG-ACCGCGCTATATGCTGA-ATGGGTGACACGTGGGGTAT
* *
910221 AGCGCGCGCCCAGATCCGCGCTATA
1 AGCGCGCCCCCTGA-CCGCGCTATA
910246 CGCCAAGTTG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
50 1 0.02
51 54 0.84
52 9 0.14
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.23
Consensus pattern (50 bp):
AGCGCGCCCCCTGACCGCGCTATATGCTGAATGGGTGACACGTGGGGTAT
Found at i:915901 original size:22 final size:22
Alignment explanation
Indices: 915873--915919 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
915863 GTCAAACATA
915873 GGCTTCATGAAAGAGAAGCAAC
1 GGCTTCATGAAAGAGAAGCAAC
915895 GGCTTCATGAAAGAGAAGCAAC
1 GGCTTCATGAAAGAGAAGCAAC
915917 GGC
1 GGC
915920 CTTAACCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.19, G:0.30, T:0.13
Consensus pattern (22 bp):
GGCTTCATGAAAGAGAAGCAAC
Found at i:916048 original size:2 final size:2
Alignment explanation
Indices: 916041--916065 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
916031 CCATATTCAA
916041 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
916066 AAAGAGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:916469 original size:2 final size:2
Alignment explanation
Indices: 916462--916486 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
916452 AGTTTACCCT
916462 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
916487 TGAATCTGAT
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:917131 original size:2 final size:2
Alignment explanation
Indices: 917124--917162 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
917114 ATAAACATAA
*
917124 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
917163 CCTTCAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:918596 original size:23 final size:23
Alignment explanation
Indices: 918570--918637 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
918560 TTTTTAATAA
918570 CTTTGTCTTTATGACACAATTTT
1 CTTTGTCTTTATGACACAATTTT
918593 CTTTGTCTTTATGACACAATTTT
1 CTTTGTCTTTATGACACAATTTT
* *
918616 CTTTGCCTTTGTGACACAATTT
1 CTTTGTCTTTATGACACAATTT
918638 CCTCTACCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (23 bp):
CTTTGTCTTTATGACACAATTTT
Found at i:921492 original size:19 final size:20
Alignment explanation
Indices: 921468--921505 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
921458 TGAAAATGAT
*
921468 TTGATTTT-AAAAGCAAAAG
1 TTGATTTTGAAAAACAAAAG
921487 TTGATTTTGAAAAACAAAA
1 TTGATTTTGAAAAACAAAA
921506 TGAAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (20 bp):
TTGATTTTGAAAAACAAAAG
Found at i:923282 original size:64 final size:66
Alignment explanation
Indices: 923073--923282 Score: 202
Period size: 65 Copynumber: 3.2 Consensus size: 66
923063 TTTTTCAGAG
* * * **
923073 TGATGCACCGATGCACCA-ATCCATGCATCGATGCAC-CATGAATTAAATTG--AACATCGAATG
1 TGATGCATCGATGCACCATA-CCATGCACCGATGCACTCA-GGATTTTA-TGAAAACATCGAATG
923134 CATT
63 CATT
* *
923138 TCATGCATCGATGC-CCATACCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCAT
923202 T
66 T
* * * * *
923203 TGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-T-AAATCATCGAATGCA
1 TGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGAT-TTTATGAAAACATCGAATGCA
*
923265 CT
65 TT
*
923267 TGATGCATCGGTGCAC
1 TGATGCATCGATGCAC
923283 TCTTAGTGCA
Statistics
Matches: 123, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
63 2 0.02
64 53 0.43
65 62 0.50
66 6 0.05
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (66 bp):
TGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCAT
T
Found at i:931923 original size:65 final size:65
Alignment explanation
Indices: 931812--931971 Score: 182
Period size: 65 Copynumber: 2.5 Consensus size: 65
931802 AATTAAATTG
* * *
931812 AACATCGAATGCATTTCATGCATCGATGCA-CATACCATGCACCGATGAACTGAGGAT-TTTATG
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCACGCACCGATGAACTCAGGATATTT-T-
931875 AA
64 AA
* * * * * *
931877 AACATCGAATGCATTTGATGCATTGATGCACCA-GCCACGCATCGATGCACTCTGGCTATTTTAA
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCACGCACCGATGAACTCAGGATATTTTAA
* *
931941 ATCATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
931972 TCTTAGTGCA
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 30 0.37
65 46 0.57
66 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCACGCACCGATGAACTCAGGATATTTTAA
Found at i:931971 original size:17 final size:19
Alignment explanation
Indices: 931943--931991 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
931933 TATTTTAAAT
931943 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
931961 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
931980 CACCGATGCACT
1 CATCGATGCACT
931992 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:935731 original size:16 final size:16
Alignment explanation
Indices: 935694--935731 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
935684 TAGTTTCACC
935694 ACACTGGAAACAAGCT
1 ACACTGGAAACAAGCT
*
935710 ATACTGGAAACAAGCT
1 ACACTGGAAACAAGCT
*
935726 GCACTG
1 ACACTG
935732 AGCAATCTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (16 bp):
ACACTGGAAACAAGCT
Found at i:937644 original size:53 final size:53
Alignment explanation
Indices: 937581--937735 Score: 283
Period size: 53 Copynumber: 2.9 Consensus size: 53
937571 ACTAAGGTAG
937581 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGC
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGC
*
937634 CGAAATGGTAATTCACAAACTCATTATGAATATCATGGATGCACACATAGTGC
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGC
* *
937687 TGAAATGGTAATTCACAAACTCATTATGAATACCATGGAAGCACACATA
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATA
937736 TGCATTACAA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 98 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.25
Consensus pattern (53 bp):
CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGC
Found at i:938286 original size:22 final size:22
Alignment explanation
Indices: 938258--938329 Score: 89
Period size: 22 Copynumber: 3.5 Consensus size: 22
938248 CCCTCCTACA
938258 GTATCGATACTTCTCTTCTATG
1 GTATCGATACTTCTCTTCTATG
*
938280 GTATCGATAC-CCTCTTC-A--
1 GTATCGATACTTCTCTTCTATG
*
938298 GTATCGATACTTTTCTTCTATG
1 GTATCGATACTTCTCTTCTATG
*
938320 GTACCGATAC
1 GTATCGATAC
938330 CCTTTTCAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 10 0.24
19 5 0.12
20 2 0.05
21 6 0.14
22 19 0.45
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (22 bp):
GTATCGATACTTCTCTTCTATG
Found at i:938303 original size:18 final size:18
Alignment explanation
Indices: 938256--938348 Score: 60
Period size: 18 Copynumber: 4.7 Consensus size: 18
938246 ACCCCTCCTA
*
938256 CAGTATCGATACTTCTCTT
1 CAGTATCGATAC-CCTCTT
938275 CTATGGTATCGATACCCTCTT
1 C-A--GTATCGATACCCTCTT
**
938296 CAGTATCGATACTTTTCTT
1 CAGTATCGATAC-CCTCTT
* *
938315 CTATGGTACCGATACCCTTTT
1 C-A--GTATCGATACCCTCTT
*
938336 CAGTATTGATACC
1 CAGTATCGATACC
938349 TTTTTTGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
18 19 0.33
19 6 0.10
20 4 0.07
21 10 0.17
22 19 0.33
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.40
Consensus pattern (18 bp):
CAGTATCGATACCCTCTT
Found at i:938305 original size:40 final size:40
Alignment explanation
Indices: 938256--938347 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
938246 ACCCCTCCTA
*
938256 CAGTATCGATACTTCTCTTCTATGGTATCGATACCCTCTT
1 CAGTATCGATACTTCTCTTCTATGGTACCGATACCCTCTT
* *
938296 CAGTATCGATACTTTTCTTCTATGGTACCGATACCCTTTT
1 CAGTATCGATACTTCTCTTCTATGGTACCGATACCCTCTT
*
938336 CAGTATTGATAC
1 CAGTATCGATAC
938348 CTTTTTTGCA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (40 bp):
CAGTATCGATACTTCTCTTCTATGGTACCGATACCCTCTT
Found at i:938449 original size:21 final size:20
Alignment explanation
Indices: 938404--938453 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
938394 ATTCCTCTTG
938404 GTATCGATACCTCCACATCA
1 GTATCGATACCTCCACATCA
* *
938424 TTATCGATACTACTTCA-ATCA
1 GTATCGATAC--CTCCACATCA
938445 GTATCGATA
1 GTATCGATA
938454 TTGTTCATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 9 0.36
21 12 0.48
22 4 0.16
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (20 bp):
GTATCGATACCTCCACATCA
Found at i:940865 original size:30 final size:29
Alignment explanation
Indices: 940825--940881 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
940815 GTAAATCCCA
*
940825 AAATAAAAACTCGAGTGCCCTAATGGGTT
1 AAATAAAAACTCGAATGCCCTAATGGGTT
*
940854 AAATATAAAACTCGAATGTCCTAATGGG
1 AAATA-AAAACTCGAATGCCCTAATGGG
940882 CCAAAAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (29 bp):
AAATAAAAACTCGAATGCCCTAATGGGTT
Found at i:941049 original size:29 final size:27
Alignment explanation
Indices: 940999--941076 Score: 68
Period size: 29 Copynumber: 2.7 Consensus size: 27
940989 TTTCTTAAGG
*
940999 TTTAAATTTTAGATATTTAGATTCTAAAA
1 TTTAAATTTTAGATATTAAGA-T-TAAAA
*
941028 TTTATATTTTAGGAT-TTAAGATTAAAA
1 TTTAAATTTTA-GATATTAAGATTAAAA
* *
941055 TTTTAGAAATTTAGATTTTAAG
1 -TTTA-AATTTTAGATATTAAG
941077 GTCCAAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 5 0.12
28 8 0.20
29 25 0.61
30 3 0.07
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.49
Consensus pattern (27 bp):
TTTAAATTTTAGATATTAAGATTAAAA
Found at i:941498 original size:21 final size:22
Alignment explanation
Indices: 941473--941514 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
941463 TTCTAATAAA
941473 TAATTAA-AAATATTAATTTAT
1 TAATTAATAAATATTAATTTAT
* *
941494 TAATTAATAATTATTATTTTA
1 TAATTAATAAATATTAATTTA
941515 CTACACCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATTAATAAATATTAATTTAT
Found at i:946301 original size:230 final size:230
Alignment explanation
Indices: 945898--946587 Score: 1371
Period size: 230 Copynumber: 3.0 Consensus size: 230
945888 AAATAATTCA
945898 TATCGAGTAAAAGTAATTAGTTGATTAACAGATAACGTAATGAGAAAATAACCTCAATGATAAAA
1 TATCGAGTAAAAGTAATTAGTTGATTAACAGATAACGTAATGAGAAAATAACCTCAATGATAAAA
*
945963 AATGTATTATAATATATGATTTTAATCAATTTTTTTAGATTTGCTAAAATGACCAACTAAATCGT
66 AATGTATTATAATATATAATTTTAATCAATTTTTTTAGATTTGCTAAAATGACCAACTAAATCGT
946028 AATGCGATCGATAATTCGCAACGCGATCTCCGGTATCACAAATCAGTTTCCAGATTCGCAACGCG
131 AATGCGATCGATAATTCGCAACGCGATCTCCGGTATCACAAATCAGTTTCCAGATTCGCAACGCG
946093 ATTCTGACTATCGCATTGCGATTTTCCAAATTCGC
196 ATTCTGACTATCGCATTGCGATTTTCCAAATTCGC
946128 TATCGAGTAAAAGTAATTAGTTGATTAACAGATAACGTAATGAGAAAATAACCTCAATGATAAAA
1 TATCGAGTAAAAGTAATTAGTTGATTAACAGATAACGTAATGAGAAAATAACCTCAATGATAAAA
946193 AATGTATTATAATATATAATTTTAATCAATTTTTTTAGATTTGCTAAAATGACCAACTAAATCGT
66 AATGTATTATAATATATAATTTTAATCAATTTTTTTAGATTTGCTAAAATGACCAACTAAATCGT
946258 AATGCGATCGATAATTCGCAACGCGATCTCCGGTATCACAAATCAGTTTCCAGATTCGCAACGCG
131 AATGCGATCGATAATTCGCAACGCGATCTCCGGTATCACAAATCAGTTTCCAGATTCGCAACGCG
946323 ATTCTGACTATCGCATTGCGATTTTCCAAATTCGC
196 ATTCTGACTATCGCATTGCGATTTTCCAAATTCGC
946358 TATCGAGTAAAAGTAATTAGTTGATTAACAGATAACGTAATGAGAAAATAACCTCAATGATAAAA
1 TATCGAGTAAAAGTAATTAGTTGATTAACAGATAACGTAATGAGAAAATAACCTCAATGATAAAA
946423 AATGTATTATAATATATAATTTTAATCAATTTTTTTAGATTTGCTAAAATGACCAACTAAATCGT
66 AATGTATTATAATATATAATTTTAATCAATTTTTTTAGATTTGCTAAAATGACCAACTAAATCGT
946488 AATGCGATCGATAATTCGCAACGCGATCTCCGGTATCACAAATCAGTTTCCAGATTCGCAACGCG
131 AATGCGATCGATAATTCGCAACGCGATCTCCGGTATCACAAATCAGTTTCCAGATTCGCAACGCG
946553 ATTCTGACTATCGCATTGCGATTTTCCAAATTCGC
196 ATTCTGACTATCGCATTGCGATTTTCCAAATTCGC
946588 GTTGCGATTT
Statistics
Matches: 459, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
230 459 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (230 bp):
TATCGAGTAAAAGTAATTAGTTGATTAACAGATAACGTAATGAGAAAATAACCTCAATGATAAAA
AATGTATTATAATATATAATTTTAATCAATTTTTTTAGATTTGCTAAAATGACCAACTAAATCGT
AATGCGATCGATAATTCGCAACGCGATCTCCGGTATCACAAATCAGTTTCCAGATTCGCAACGCG
ATTCTGACTATCGCATTGCGATTTTCCAAATTCGC
Found at i:946592 original size:21 final size:21
Alignment explanation
Indices: 946563--946609 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
946553 ATTCTGACTA
946563 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
946584 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
946605 TCGCA
1 TCGCA
946610 ATACGAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:946630 original size:20 final size:20
Alignment explanation
Indices: 946605--946650 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
946595 TTTTCCTAAT
946605 TCGCAATACGAATACGTAAA
1 TCGCAATACGAATACGTAAA
* *
946625 TCGCAATGCGAATATGTAAA
1 TCGCAATACGAATACGTAAA
946645 TCGCAA
1 TCGCAA
946651 CGCGAATCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (20 bp):
TCGCAATACGAATACGTAAA
Found at i:946655 original size:20 final size:20
Alignment explanation
Indices: 946613--946657 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
946603 ATTCGCAATA
*
946613 CGAATACGTAAATCGCAATG
1 CGAATACGTAAATCGCAACG
*
946633 CGAATATGTAAATCGCAACG
1 CGAATACGTAAATCGCAACG
946653 CGAAT
1 CGAAT
946658 CTGACTATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
CGAATACGTAAATCGCAACG
Found at i:946880 original size:22 final size:22
Alignment explanation
Indices: 946855--946920 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
946845 GGCAACATCC
*
946855 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGGCGAAATCA
*
946877 GTCCCCATCTCCGGCGATATCA
1 GTCCCCATCTCCGGCGAAATCA
* *
946899 ATCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGGCGAAATCA
946921 TTCACGGTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGGCGAAATCA
Found at i:947328 original size:20 final size:20
Alignment explanation
Indices: 947288--947357 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
947278 TGTGATTCTT
* **
947288 GCGTTGCAATAGTCAAATTC
1 GCGTTGCGATAGTCATTTTC
947308 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCATTTTC
* **
947328 GTGTTGCGATTTTCATTTTC
1 GCGTTGCGATAGTCATTTTC
*
947348 GTGTTGCGAT
1 GCGTTGCGAT
947358 TTAAAGTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (20 bp):
GCGTTGCGATAGTCATTTTC
Found at i:947358 original size:20 final size:20
Alignment explanation
Indices: 947305--947359 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
947295 AATAGTCAAA
* **
947305 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
947325 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
947345 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
947360 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:947367 original size:20 final size:20
Alignment explanation
Indices: 947324--947367 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
947314 CGATAGTCAT
** *
947324 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
947344 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
947364 TTTC
1 TTTC
947368 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:949274 original size:20 final size:20
Alignment explanation
Indices: 949249--949427 Score: 188
Period size: 20 Copynumber: 9.6 Consensus size: 20
949239 AGAATAGTTT
949249 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
949269 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
949289 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
949305 A--ATCGCAATGC-AAAATG
1 ACTATCGCAATGCGAAAATG
**
949322 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
949338 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
949356 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
949376 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
949396 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
949416 ACTATCGCAATG
1 ACTATCGCAATG
949428 AAAGAATCGC
Statistics
Matches: 139, Mismatches: 6, Indels: 28
0.80 0.03 0.16
Matches are distributed among these distances:
14 14 0.10
16 9 0.06
17 9 0.06
18 5 0.04
19 7 0.05
20 95 0.68
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:949448 original size:21 final size:19
Alignment explanation
Indices: 949305--949463 Score: 95
Period size: 20 Copynumber: 8.7 Consensus size: 19
949295 GCAACGAGAG
*
949305 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
*
949324 AATCGCAA--C--AA-CAA
1 AATCGCAATGCGAAATGAA
* *
949338 AATCGCAACGCGAAAATGAC
1 AATCGCAATGCG-AAATGAA
* *
949358 TATCGCAATGCGAAAATGAC
1 AATCGCAATGCG-AAATGAA
* *
949378 TATCGCAATGCGAAAATGAC
1 AATCGCAATGCG-AAATGAA
* * *
949398 TATCGCAATGCGAATTTGAC
1 AATCGCAATGCGAA-ATGAA
*
949418 TATCGCAAT--GAAA-G--
1 AATCGCAATGCGAAATGAA
949432 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
949451 AATCGCATTGCGA
1 AATCGCAATGCGA
949464 TTCTCTCGTT
Statistics
Matches: 119, Mismatches: 9, Indels: 24
0.78 0.06 0.16
Matches are distributed among these distances:
14 18 0.15
15 2 0.02
16 6 0.05
17 2 0.02
18 3 0.03
19 24 0.20
20 64 0.54
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:949497 original size:20 final size:20
Alignment explanation
Indices: 949470--949538 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
949460 GCGATTCTCT
**
949470 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
949490 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
949510 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
949530 CGTTGCGAT
1 CGTTGCGAT
949539 TTTAAGTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:949548 original size:20 final size:20
Alignment explanation
Indices: 949470--949548 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
949460 GCGATTCTCT
*
949470 CGTTGCGATAGTCAA-ATTCG
1 CGTTGCGATAGT-AAGTTTCG
* * *
949490 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
949510 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
949530 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
949549 AGATTCTATT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
19 1 0.02
20 49 0.98
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:951540 original size:14 final size:14
Alignment explanation
Indices: 951521--951556 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
951511 ATTGTTTAAT
951521 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
951535 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
951549 TGATTTGT
1 TGATTTGT
951557 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:951750 original size:34 final size:33
Alignment explanation
Indices: 951673--951754 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
951663 TCGCAACGTG
**
951673 GAAATGACTATCGCAACAAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACAAGAGAATCGCAATGC
*
951706 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACAAGAGAATCGCAATGC
951739 GAAAATGAAAATCGCA
1 G-AAATGAAAATCGCA
951755 TTGCGATTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 31 0.69
34 14 0.31
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (33 bp):
GAAATGAAAATCGCAACAAGAGAATCGCAATGC
Found at i:951753 original size:20 final size:19
Alignment explanation
Indices: 951695--951760 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 19
951685 GCAACAAGAG
951695 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
951714 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
951728 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
951748 AATCGCATTGCGA
1 AATCGCAATGCGA
951761 TTCTCTCGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
19 10 0.26
20 13 0.34
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:951774 original size:14 final size:14
Alignment explanation
Indices: 951755--951808 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
951745 GAAAATCGCA
951755 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
951769 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
951786 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
951802 TTGCGAT
1 TTGCGAT
951809 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:951788 original size:33 final size:33
Alignment explanation
Indices: 951750--951828 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
951740 AAAATGAAAA
**
951750 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCATT
951783 TCGCATTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCATT
*
951816 TCCGCGTTGCGAT
1 T-CGCATTGCGAT
951829 AGTCAATTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 32 0.76
34 10 0.24
ACGTcount: A:0.13, C:0.25, G:0.22, T:0.41
Consensus pattern (33 bp):
TCGCATTGCGATTCTCTCGTTGCGATAGTCATT
Found at i:951825 original size:20 final size:20
Alignment explanation
Indices: 951800--951888 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
951790 GCGATTCTCT
951800 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
951820 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
**
951840 CGTTGCGATAGTCATTTCAT
1 CGTTGCGATAGTCATTTCCG
** *
951860 TATTGTGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
951880 CGTTGCGAT
1 CGTTGCGAT
951889 TTCCGCGTTG
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 54 0.96
21 2 0.04
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:954130 original size:15 final size:14
Alignment explanation
Indices: 954095--954125 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
954085 TCACGTGGCA
954095 TTTTCTTTGGGGAC
1 TTTTCTTTGGGGAC
954109 TTTTCTTTGGGGA-
1 TTTTCTTTGGGGAC
954122 TTTT
1 TTTT
954126 TTCTTCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.06, C:0.10, G:0.26, T:0.58
Consensus pattern (14 bp):
TTTTCTTTGGGGAC
Found at i:954349 original size:24 final size:24
Alignment explanation
Indices: 954322--954367 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
954312 ATCATCAAAA
954322 TCCGAGTATTGACCAAGATCAATG
1 TCCGAGTATTGACCAAGATCAATG
*
954346 TCCGGGTATTGACCAAGATCAA
1 TCCGAGTATTGACCAAGATCAA
954368 ATTTCGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (24 bp):
TCCGAGTATTGACCAAGATCAATG
Found at i:955238 original size:20 final size:20
Alignment explanation
Indices: 955213--955256 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
955203 TTCAGTATTA
*
955213 CGATAGTCAGAATCTCGTTG
1 CGATAGTCAGAATCGCGTTG
*
955233 CGATAGTCAGATTCGCGTTG
1 CGATAGTCAGAATCGCGTTG
955253 CGAT
1 CGAT
955257 TTACGTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (20 bp):
CGATAGTCAGAATCGCGTTG
Found at i:955278 original size:20 final size:20
Alignment explanation
Indices: 955243--955375 Score: 194
Period size: 20 Copynumber: 6.7 Consensus size: 20
955233 CGATAGTCAG
*
955243 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * *
955263 ATTTGCATTACGATTTATGT
1 ATTCGCATTGCGATTTACGT
* *
955283 ATTCACATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
955303 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
955323 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
955343 ATTCGCATTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
955363 ATTCGGATTGCGA
1 ATTCGCATTGCGA
955376 ATTAAGAAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 101 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:955398 original size:21 final size:21
Alignment explanation
Indices: 955372--955417 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
955362 TATTCGGATT
955372 GCGAATTAAGAAAATCGCAAC
1 GCGAATTAAGAAAATCGCAAC
** *
955393 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAAGAAAATCGCAAC
955414 GCGA
1 GCGA
955418 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAAGAAAATCGCAAC
Found at i:964063 original size:21 final size:21
Alignment explanation
Indices: 964039--964094 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
964029 ATAAAATTAT
964039 AATATATATATACTTTT-AAAA
1 AATATATATATA-TTTTCAAAA
*
964060 AATAATACATATATTTTCAAAA
1 AAT-ATATATATATTTTCAAAA
*
964082 CATATATATATAT
1 AATATATATATAT
964095 ATATATAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
AATATATATATATTTTCAAAA
Found at i:964081 original size:22 final size:22
Alignment explanation
Indices: 964040--964096 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
964030 TAAAATTATA
*
964040 ATATATATATACTTTTAAAAAAT
1 ATATACATATA-TTTTAAAAAAT
*
964063 A-ATACATATATTTTCAAAACAT
1 ATATACATATATTTT-AAAAAAT
*
964085 ATATATATATAT
1 ATATACATATAT
964097 ATATAATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.14
22 15 0.52
23 10 0.34
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATACATATATTTTAAAAAAT
Found at i:964088 original size:2 final size:2
Alignment explanation
Indices: 964083--964147 Score: 57
Period size: 2 Copynumber: 34.0 Consensus size: 2
964073 TTTTCAAAAC
* * * *
964083 AT AT AT AT AT AT AT AT AT A- AT GT TT AT -T TT A- AA AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
964123 A- 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
964148 TATGTATCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
1 4 0.08
2 47 0.89
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:964134 original size:47 final size:46
Alignment explanation
Indices: 964083--964230 Score: 136
Period size: 47 Copynumber: 3.2 Consensus size: 46
964073 TTTTCAAAAC
* * *
964083 ATATATATATATATATATAATGTTTATTTTAAAATACTATAATATAT
1 ATATATATATATATATATAATGTATATTTCAAAATA-TATAACATAT
* * *
964130 ATATATATATATATATATTATGTATCTTTCAAAATATATAACGTAT
1 ATATATATATATATATATAATGTATATTTCAAAATATATAACATAT
* * * * * * * *
964176 ATAT-TTTAAAAATATACTATATATATTTTTCAAAACAAATAATATAT
1 ATATATATATATATATA-TA-ATGTATATTTCAAAATATATAACATAT
964223 ATATATAT
1 ATATATAT
964231 CCTCGAGAAT
Statistics
Matches: 81, Mismatches: 17, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
45 9 0.11
46 13 0.16
47 57 0.70
48 2 0.02
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (46 bp):
ATATATATATATATATATAATGTATATTTCAAAATATATAACATAT
Found at i:964205 original size:23 final size:25
Alignment explanation
Indices: 964173--964226 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
964163 ATATATAACG
* *
964173 TATATA-TTTT-AAAA-ATATACTA
1 TATATATTTTTCAAAACAAATAATA
964195 TATATATTTTTCAAAACAAATAATA
1 TATATATTTTTCAAAACAAATAATA
964220 TATATAT
1 TATATAT
964227 ATATCCTCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 6 0.22
23 4 0.15
24 4 0.15
25 13 0.48
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (25 bp):
TATATATTTTTCAAAACAAATAATA
Found at i:964971 original size:28 final size:28
Alignment explanation
Indices: 964939--964992 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
964929 TCCCCTTTGT
964939 GAGTTAAGTCATGCCGAAAAATTATCGC
1 GAGTTAAGTCATGCCGAAAAATTATCGC
964967 GAGTTAAGTCATGCCGAAAAATTATC
1 GAGTTAAGTCATGCCGAAAAATTATC
964993 TCGAATAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (28 bp):
GAGTTAAGTCATGCCGAAAAATTATCGC
Found at i:965232 original size:70 final size:71
Alignment explanation
Indices: 965005--965357 Score: 373
Period size: 71 Copynumber: 4.9 Consensus size: 71
964995 GAATAAGACT
* * * * * *
965005 AAATGTTTCAAGAGAAAATATCTCAAATGAGATAAAATTTTGTTTC-CATAGAAAT-TGTCTTGG
1 AAAT-TTTCAAGGGAAAATATCTCAAGTGAGATGAAATTTTGTTTCAGAT-G-AATCTGTCTCGA
965068 GTGAGAC--
63 GTGAGACAA
* * **
965075 AAATTTTCAAGGGAAAATATCTCAAGTGAGATGAAATTTTGCTTCGGCCGAATCTGTCTCGAGTG
1 AAATTTTCAAGGGAAAATATCTCAAGTGAGATGAAATTTTGTTTCAGATGAATCTGTCTCGAGTG
965140 AGACAA
66 AGACAA
*
965146 AACA-TTTCAGGGGAAAATATCTCAAGTGAGATGAAATTTTGTTTCAG-TGAATCTGTCTCGAGT
1 AA-ATTTTCAAGGGAAAATATCTCAAGTGAGATGAAATTTTGTTTCAGATGAATCTGTCTCGAGT
965209 GAGACAA
65 GAGACAA
* *
965216 AAATTTTCAAGCGAAAATAT-TCTAAGTGAGATGAAATTTTGTTTCGAGAT-AAACTGTCTCGAG
1 AAATTTTCAAGGGAAAATATCTC-AAGTGAGATGAAATTTTGTTTC-AGATGAATCTGTCTCGAG
965279 TGAGACAA
64 TGAGACAA
* * * * *
965287 AAATTTTCAAGGAAAAAAAAATATCTCAAGTGAGATGCGATTTTTGTTTCAAGAT-AAACTATCT
1 AAATTTTCAAGG----GAAAATATCTCAAGTGAGATG-AAATTTTGTTTC-AGATGAATCTGTCT
965351 CGAGTGA
60 CGAGTGA
965358 AAATATTTCT
Statistics
Matches: 246, Mismatches: 22, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
68 3 0.01
69 54 0.22
70 64 0.26
71 75 0.30
72 2 0.01
75 17 0.07
76 31 0.13
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (71 bp):
AAATTTTCAAGGGAAAATATCTCAAGTGAGATGAAATTTTGTTTCAGATGAATCTGTCTCGAGTG
AGACAA
Found at i:965273 original size:141 final size:141
Alignment explanation
Indices: 965005--965337 Score: 378
Period size: 141 Copynumber: 2.3 Consensus size: 141
964995 GAATAAGACT
* * * *
965005 AAATGTTTCAA-G-AGAAAATATCTCAAATGAGATAAAATTTTGTTTCCATAGAAATTGTCTTGG
1 AAAT-TTTCAAGGAAGAAAATATCTCAAGTGAGATGAAATTTTGTTT-CATAGAAATTGTCTCGA
* * *
965068 GTGAGACAAATTTTCAAGGGAAAATATCTCAAGTGAGATGAAATTTTGCTTCGGCCGAATCTGTC
64 GTGAGACAAATTTTCAAGCGAAAATATCTCAAGTGAGATGAAATTTTGCTTCGGCAGAAACTGTC
965133 TCGAGTGAGACAA
129 TCGAGTGAGACAA
*
965146 AACA-TTTC-AGG-GGAAAATATCTCAAGTGAGATGAAATTTTGTTTCAGT-G-AATCTGTCTCG
1 AA-ATTTTCAAGGAAGAAAATATCTCAAGTGAGATGAAATTTTGTTTCA-TAGAAAT-TGTCTCG
* *
965206 AGTGAGACAAAAATTTTCAAGCGAAAATAT-TCTAAGTGAGATGAAATTTTGTTTCGAG-ATAAA
63 AGTGAGAC--AAATTTTCAAGCGAAAATATCTC-AAGTGAGATGAAATTTTGCTTCG-GCAGAAA
965269 CTGTCTCGAGTGAGACAA
124 CTGTCTCGAGTGAGACAA
* * *
965287 AAATTTTCAAGGAAAAAAAAATATCTCAAGTGAGATGCGATTTTTGTTTCA
1 AAATTTTCAAGG--AAGAAAATATCTCAAGTGAGATG-AAATTTTGTTTCA
965338 AGATAAACTA
Statistics
Matches: 164, Mismatches: 14, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
138 3 0.02
139 17 0.10
140 39 0.24
141 69 0.42
142 5 0.03
145 20 0.12
146 11 0.07
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (141 bp):
AAATTTTCAAGGAAGAAAATATCTCAAGTGAGATGAAATTTTGTTTCATAGAAATTGTCTCGAGT
GAGACAAATTTTCAAGCGAAAATATCTCAAGTGAGATGAAATTTTGCTTCGGCAGAAACTGTCTC
GAGTGAGACAA
Found at i:965362 original size:53 final size:53
Alignment explanation
Indices: 965304--965410 Score: 126
Period size: 53 Copynumber: 2.0 Consensus size: 53
965294 CAAGGAAAAA
* ** * * *
965304 AAAATATCTCAAGTGAGATGCGATTTTTGTTTCAAGA-TAAACTATCTCGAGTG
1 AAAATATCTCAAGTGAAATGAAATTGTT-TTTCAAGAGAAAACTATCTAGAGTG
* *
965357 AAAATATTTCTAGTGAAATGAAATTGTTTTTCAAGAGAAAACTATCTAGAGTG
1 AAAATATCTCAAGTGAAATGAAATTGTTTTTCAAGAGAAAACTATCTAGAGTG
965410 A
1 A
965411 GTCGAATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
52 8 0.18
53 37 0.82
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (53 bp):
AAAATATCTCAAGTGAAATGAAATTGTTTTTCAAGAGAAAACTATCTAGAGTG
Found at i:965624 original size:73 final size:73
Alignment explanation
Indices: 965528--965667 Score: 167
Period size: 73 Copynumber: 1.9 Consensus size: 73
965518 TGAATTTTTG
** *
965528 TTTCAAGGAAATTGTCTTGAGTGAGAAGAAAATTGTT-TCCGAGGAAAACTATCTCAAGTGAGAT
1 TTTCAAGGAAATTGTCTCAAGTGAGAAGAAAATTGTTCT-CGAGGAAAACTATATCAAGTGAGAT
965592 AAAAAATTA
65 AAAAAATTA
** * * * *
965601 TTTCAA-GAGAATTGTCTCAAGTGAGATTAAATTTGTTCTTGAGGAAAGCTATATCGAGTGAGAT
1 TTTCAAGGA-AATTGTCTCAAGTGAGAAGAAAATTGTTCTCGAGGAAAACTATATCAAGTGAGAT
965665 AAA
65 AAA
965668 TTTCTGTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
72 2 0.04
73 53 0.95
74 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (73 bp):
TTTCAAGGAAATTGTCTCAAGTGAGAAGAAAATTGTTCTCGAGGAAAACTATATCAAGTGAGATA
AAAAATTA
Found at i:989847 original size:41 final size:41
Alignment explanation
Indices: 989790--989868 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
989780 ATTCTAAGTA
*
989790 AACTTTTGGAGTTTCAT-CTTCCATTGAATTAATAACTAGTG
1 AACTTTTGGAGTTTCATACTTCC-TTGAATTAACAACTAGTG
*
989831 AACTTTTGGAGTTTCATATTTCCTTGAATTAACAACTA
1 AACTTTTGGAGTTTCATACTTCCTTGAATTAACAACTA
989869 ATTTACCGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 31 0.89
42 4 0.11
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (41 bp):
AACTTTTGGAGTTTCATACTTCCTTGAATTAACAACTAGTG
Done.