Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 121 of 199
Found at i:36835789 original size:36 final size:36
Alignment explanation
Indices: 36835745--36835816 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
36835735 AGTATAGCTT
*
36835745 CACATCTTGGATTTCATTATCTC-AGTTTTCTTATCA
1 CACATCTTGGATTTCATTATCTCGA-TTTTCATATCA
36835781 CACATCTTGGATTTCATTATCTCGATTTTCATATCA
1 CACATCTTGGATTTCATTATCTCGATTTTCATATCA
36835817 TTCTTATTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.46
Consensus pattern (36 bp):
CACATCTTGGATTTCATTATCTCGATTTTCATATCA
Found at i:36837890 original size:42 final size:43
Alignment explanation
Indices: 36837781--36837894 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 43
36837771 AGCTTGTACA
* * * * *
36837781 ATGCCAACGTCGCAGACGTGGTCTTACATGTAATCAAATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAACG
* * * *
36837824 ATTCCACTGTCCCA-AGCAGGGTCTTACACGAAATCATAT-ACG
1 ATGCCAATGTCCCAGA-CATGGTCTTACACGAAATCAAATAACG
*
36837866 ATGCCAATGTTCCAGACATGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
36837895 ATAAATCTCA
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
42 27 0.48
43 29 0.52
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAACG
Found at i:36848466 original size:42 final size:42
Alignment explanation
Indices: 36848367--36848527 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 42
36848357 AGCTCGTACA
* * * * * *
36848367 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAATAATG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCATAT-ACG
*
36848410 ATGCC-ACTGTCCCAGACAAGGTCTTACACGAAATCATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCATATACG
* * * *
36848452 ATGCCAATGTCCCAGACATGGTCTGACACGTAAATC-TCAAATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCAT-ATA-CG
* *
36848496 ATGCCAACGTTCCAGACGTGGTCTTACACGAA
1 ATGCCAACGTCCCAGACATGGTCTTACACGAA
36848528 GTCACATATC
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 30 0.31
43 40 0.41
44 27 0.28
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCATATACG
Found at i:36859393 original size:14 final size:14
Alignment explanation
Indices: 36859374--36859414 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
36859364 TATTACCATA
36859374 TAATTTTGGTTATC
1 TAATTTTGGTTATC
36859388 TAATTTTGGTTATC
1 TAATTTTGGTTATC
36859402 TAATTTTGGTTAT
1 TAATTTTGGTTAT
36859415 AATGACATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.22, C:0.05, G:0.15, T:0.59
Consensus pattern (14 bp):
TAATTTTGGTTATC
Found at i:36863854 original size:20 final size:19
Alignment explanation
Indices: 36863821--36863868 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
36863811 TCGTATTCAT
* *
36863821 ATTTT-ATTTTATTTTTAT
1 ATTTTAATTTAATTTTTAC
36863839 ATTTTTAATTTAATTTTTAC
1 A-TTTTAATTTAATTTTTAC
36863859 ATTTTAATTT
1 ATTTTAATTT
36863869 TTCTTTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 1 0.04
19 13 0.50
20 12 0.46
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTTTAATTTAATTTTTAC
Found at i:36863864 original size:14 final size:13
Alignment explanation
Indices: 36863827--36863870 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
36863817 TCATATTTTA
*
36863827 TTTTATTTTTATAT
1 TTTTAATTTTA-AT
36863841 TTTTAA-TTTAAT
1 TTTTAATTTTAAT
36863853 TTTTACATTTTAAT
1 TTTTA-ATTTTAAT
36863867 TTTT
1 TTTT
36863871 CTTTTGTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 7 0.26
13 5 0.19
14 15 0.56
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:36867708 original size:3 final size:3
Alignment explanation
Indices: 36867689--36867749 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
36867679 TCTATTCTTT
* *
36867689 TTA TTT TTA TT- TTA TTA TTA TTA TTA TT- TTA TTA TTTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
36867733 TTA -AA TCTA TTA TTA TT
1 TTA TTA T-TA TTA TTA TT
36867750 TGTTTTGTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
2 5 0.11
3 37 0.79
4 5 0.11
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36867744 original size:30 final size:28
Alignment explanation
Indices: 36867687--36867746 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 28
36867677 TGTCTATTCT
*
36867687 TTTTATTTTTATTTTATTATTATTATTA
1 TTTTATTTTTATTTTATTATAATTATTA
36867715 TTTTATTATTTATTGTTATTA-AATCTATTA
1 TTTTATT-TTTATT-TTATTATAAT-TATTA
36867745 TT
1 TT
36867747 ATTTGTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 7 0.25
29 8 0.29
30 13 0.46
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (28 bp):
TTTTATTTTTATTTTATTATAATTATTA
Found at i:36867749 original size:33 final size:28
Alignment explanation
Indices: 36867687--36867750 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 28
36867677 TGTCTATTCT
36867687 TTTTATTTTTATTTTATTATTATTATTA
1 TTTTATTTTTATTTTATTATTATTATTA
36867715 TTTTATTATTTATTGTTATTAAATCTATTATTA
1 TTTTATT-TTTATT-TTATT--AT-TATTATTA
36867748 TTT
1 TTT
36867751 GTTTTGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
28 7 0.23
29 6 0.19
30 5 0.16
32 2 0.06
33 11 0.35
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (28 bp):
TTTTATTTTTATTTTATTATTATTATTA
Found at i:36867952 original size:24 final size:25
Alignment explanation
Indices: 36867905--36867963 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
36867895 ATTTATTATT
* *
36867905 TTATTACT-TTATTATTACTTAGTC
1 TTATTACTATTATGATTACTGAGTC
36867929 TTATTACTATTATGATTA-TGAGTC
1 TTATTACTATTATGATTACTGAGTC
* *
36867953 ATATTAGTATT
1 TTATTACTATT
36867964 TCTATAGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 22 0.73
25 8 0.27
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.54
Consensus pattern (25 bp):
TTATTACTATTATGATTACTGAGTC
Found at i:36869333 original size:9 final size:9
Alignment explanation
Indices: 36869319--36869343 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
36869309 AGCTCTATTT
36869319 TTATTTTTA
1 TTATTTTTA
36869328 TTATTTTTA
1 TTATTTTTA
36869337 TTATTTT
1 TTATTTT
36869344 AGTTGTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTATTTTTA
Found at i:36876337 original size:18 final size:18
Alignment explanation
Indices: 36876316--36876354 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
36876306 AATTCTGTAA
*
36876316 TTAGTTTAAATTTGATCT
1 TTAGTTGAAATTTGATCT
*
36876334 TTAGTTGAAATTTGATTT
1 TTAGTTGAAATTTGATCT
36876352 TTA
1 TTA
36876355 AATTTTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (18 bp):
TTAGTTGAAATTTGATCT
Found at i:36881009 original size:15 final size:15
Alignment explanation
Indices: 36880986--36881015 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36880976 CTCTATCCAG
*
36880986 TTCAGTTCAGTTCTA
1 TTCAATTCAGTTCTA
36881001 TTCAATTCAGTTCTA
1 TTCAATTCAGTTCTA
36881016 CTTGAGTTGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (15 bp):
TTCAATTCAGTTCTA
Found at i:36881555 original size:17 final size:18
Alignment explanation
Indices: 36881522--36881556 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
36881512 AAAAGTCTAC
36881522 ATAAAATAAAATATAAAT
1 ATAAAATAAAATATAAAT
*
36881540 ATAAAA-AAATTATAAAT
1 ATAAAATAAAATATAAAT
36881557 TATGCTCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAAATAAAATATAAAT
Found at i:36888280 original size:32 final size:32
Alignment explanation
Indices: 36888239--36888450 Score: 237
Period size: 32 Copynumber: 6.7 Consensus size: 32
36888229 CAATATATAA
**
36888239 ATACATATACAATTCAATTCGGCAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATAGAAGT
* *
36888271 ATACCTATACAA-TCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATAGAAGT
* * * *
36888302 ATATATATACAATTCAAATCAGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATAGAAGT
* **
36888334 ATATATATACAATTCAATTCGGCAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATAGAAGT
* * *
36888366 ATACCTATACAATTCAAATCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATAGAAGT
* * **
36888398 ATATATATACAATTCAATTCGGCAGTAGGTGT
1 ATACATATACAATTCAATTCGGCAATAGAAGT
* *
36888430 ATACCTATAAAATTCAATTCG
1 ATACATATACAATTCAATTCG
36888451 ACAGTATATA
Statistics
Matches: 150, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
31 26 0.17
32 124 0.83
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (32 bp):
ATACATATACAATTCAATTCGGCAATAGAAGT
Found at i:36888343 original size:95 final size:96
Alignment explanation
Indices: 36888220--36888414 Score: 331
Period size: 95 Copynumber: 2.0 Consensus size: 96
36888210 AATGCTCAAA
*
36888220 TCAAATTAGCAATATATAAATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAA-T
1 TCAAATCAGCAATATATAAATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATT
*
36888284 CAATTCGGCAATATAAGTATATATATACAAT
66 CAAATCGGCAATATAAGTATATATATACAAT
* *
36888315 TCAAATCAGCAATATA-AGTATATATATACAATTCAATTCGGCAATAGGTGTATACCTATACAAT
1 TCAAATCAGCAATATATA-AATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAAT
36888379 TCAAATCGGCAATATAAGTATATATATACAAT
65 TCAAATCGGCAATATAAGTATATATATACAAT
36888411 TCAA
1 TCAA
36888415 TTCGGCAGTA
Statistics
Matches: 94, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
94 1 0.01
95 58 0.62
96 35 0.37
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (96 bp):
TCAAATCAGCAATATATAAATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATT
CAAATCGGCAATATAAGTATATATATACAAT
Found at i:36888381 original size:64 final size:64
Alignment explanation
Indices: 36888239--36888446 Score: 274
Period size: 64 Copynumber: 3.3 Consensus size: 64
36888229 CAATATATAA
* *** ** ***
36888239 ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAA-TCAATTCGGCAATATAAGT
1 ATACATATACAATTCAAATCGGCAATATAAGTATATATATACAATTCAATTCGGCAATAGGTGT
* *
36888302 ATATATATACAATTCAAATCAGCAATATAAGTATATATATACAATTCAATTCGGCAATAGGTGT
1 ATACATATACAATTCAAATCGGCAATATAAGTATATATATACAATTCAATTCGGCAATAGGTGT
* *
36888366 ATACCTATACAATTCAAATCGGCAATATAAGTATATATATACAATTCAATTCGGCAGTAGGTGT
1 ATACATATACAATTCAAATCGGCAATATAAGTATATATATACAATTCAATTCGGCAATAGGTGT
* *
36888430 ATACCTATAAAATTCAA
1 ATACATATACAATTCAA
36888447 TTCGACAGTA
Statistics
Matches: 128, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
63 36 0.28
64 92 0.72
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (64 bp):
ATACATATACAATTCAAATCGGCAATATAAGTATATATATACAATTCAATTCGGCAATAGGTGT
Found at i:36888444 original size:96 final size:95
Alignment explanation
Indices: 36888239--36888450 Score: 325
Period size: 96 Copynumber: 2.2 Consensus size: 95
36888229 CAATATATAA
*
36888239 ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATCAATTCGGCAATATAAGTAT
1 ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATCAAATCGGCAATATAAGTAT
*
36888304 ATATATACAATTCAAATCAGCAATATAAGT
66 ATATATACAATTCAAATCAGCAATAGAAGT
*
36888334 ATATATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAAATCGGCAATATAAGTA
1 ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAA-TCAAATCGGCAATATAAGTA
* * * **
36888399 TATATATACAATTCAATTCGGCAGTAGGTGT
65 TATATATACAATTCAAATCAGCAATAGAAGT
* *
36888430 ATACCTATAAAATTCAATTCG
1 ATACATATACAATTCAATTCG
36888451 ACAGTATATA
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 43 0.41
96 62 0.59
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (95 bp):
ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATCAAATCGGCAATATAAGTAT
ATATATACAATTCAAATCAGCAATAGAAGT
Found at i:36902619 original size:61 final size:61
Alignment explanation
Indices: 36902524--36902652 Score: 231
Period size: 61 Copynumber: 2.1 Consensus size: 61
36902514 GTATAGTTCC
**
36902524 ATACTTTGTGATTTTGCTATTTCGGTTTTATTATGATTCTATGTGATTATTTGAAAGAGAT
1 ATACTTTGTGATTTCACTATTTCGGTTTTATTATGATTCTATGTGATTATTTGAAAGAGAT
36902585 ATACTTTGTGATTTCACTATTTCGGTTTTATTATGATTCTATGTGATTATTTGAAAGAGAT
1 ATACTTTGTGATTTCACTATTTCGGTTTTATTATGATTCTATGTGATTATTTGAAAGAGAT
*
36902646 ATTCTTT
1 ATACTTT
36902653 TGACGGAGAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (61 bp):
ATACTTTGTGATTTCACTATTTCGGTTTTATTATGATTCTATGTGATTATTTGAAAGAGAT
Found at i:36906490 original size:43 final size:43
Alignment explanation
Indices: 36906395--36906540 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
36906385 GGGTTAACGA
* * *
36906395 GATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAT
1 GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATG-T
*
36906438 -AATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGT
1 GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGT
* * * * *
36906480 GATTTTGTGTAATACCATGGCT-TGACTATTGGCATCGATACGT
1 GATTTCGTGTAAGACCATGTCTGGGAC-ATTGGCATCGATATGT
* *
36906523 GATTACATGTAAGACCAT
1 GATTTCGTGTAAGACCAT
36906541 ATCTTGGATA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 27 0.31
43 59 0.69
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGT
Found at i:36909368 original size:23 final size:23
Alignment explanation
Indices: 36909342--36909389 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
36909332 ATTAGTGCCA
*
36909342 CACTAATATGTAGCCGAAGCTAC
1 CACTAAAATGTAGCCGAAGCTAC
*
36909365 CACTAAAATGTAGCTGAAGCTAC
1 CACTAAAATGTAGCCGAAGCTAC
36909388 CA
1 CA
36909390 TTGATCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (23 bp):
CACTAAAATGTAGCCGAAGCTAC
Found at i:36916816 original size:23 final size:23
Alignment explanation
Indices: 36916790--36916842 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
36916780 ATAAGTGCCA
36916790 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
36916813 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
36916836 CACTGAT
1 CACTGAT
36916843 CAATAACACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:36919161 original size:26 final size:26
Alignment explanation
Indices: 36919130--36919196 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
36919120 CATTTCGACC
**
36919130 CATAGCTCGTGTGAGAAGGCTTATTT
1 CATAGCTCGTGTGAGAAGGCCCATTT
* *
36919156 CATAGCTTGTGTGAGCAGGCCCATTT
1 CATAGCTCGTGTGAGAAGGCCCATTT
* *
36919182 TACAGCTCGTGTGAG
1 CATAGCTCGTGTGAG
36919197 CAATGATGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (26 bp):
CATAGCTCGTGTGAGAAGGCCCATTT
Found at i:36922395 original size:28 final size:28
Alignment explanation
Indices: 36922357--36922435 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
36922347 GTGAGCAGCC
** *
36922357 CAAATATCACAGGTTGTGTGAGCAAATT
1 CAAATATCACAACTTGTGTGAGCAAACT
36922385 CAAATATCACAACTTGTGTGAGCAAACT
1 CAAATATCACAACTTGTGTGAGCAAACT
* * *
36922413 CAAATATCATAACTCGTATGAGC
1 CAAATATCACAACTTGTGTGAGC
36922436 CAATCGAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (28 bp):
CAAATATCACAACTTGTGTGAGCAAACT
Found at i:36923266 original size:16 final size:15
Alignment explanation
Indices: 36923245--36923274 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
36923235 AATTAAATAC
36923245 AACAACATTCATTAAT
1 AACAACATT-ATTAAT
36923261 AACAACATTATTAA
1 AACAACATTATTAA
36923275 GTTGAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (15 bp):
AACAACATTATTAAT
Found at i:36923637 original size:18 final size:19
Alignment explanation
Indices: 36923614--36923653 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
36923604 AGTAGCATTC
36923614 AAAACATTATATCAAAA-A
1 AAAACATTATATCAAAAGA
36923632 AAAACATTATATCAAAAGA
1 AAAACATTATATCAAAAGA
36923651 AAA
1 AAA
36923654 TTAAGTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.68, C:0.10, G:0.03, T:0.20
Consensus pattern (19 bp):
AAAACATTATATCAAAAGA
Found at i:36923891 original size:15 final size:15
Alignment explanation
Indices: 36923871--36923902 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
36923861 GTATATAAAA
36923871 AACTAAATTTGAATG
1 AACTAAATTTGAATG
36923886 AACTAAATTTGAATG
1 AACTAAATTTGAATG
36923901 AA
1 AA
36923903 ATTTTCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (15 bp):
AACTAAATTTGAATG
Found at i:36925800 original size:49 final size:49
Alignment explanation
Indices: 36925745--36925881 Score: 213
Period size: 49 Copynumber: 2.8 Consensus size: 49
36925735 TATTTTCTCA
* *
36925745 ATGCCATAGTCCAACTATGGTCTTACACGTAATCACATAACATATACCG
1 ATGCCATAGACCAGCTATGGTCTTACACGTAATCACATAACATATACCG
* *
36925794 ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATTCCG
1 ATGCCATAGACCAGCTATGGTCTTACACGTAATCACATAACATATACCG
*
36925843 ATGCCATA-ACCTAGCTATGGTCTTACACGGAATCACATA
1 ATGCCATAGACC-AGCTATGGTCTTACACGTAATCACATA
36925882 TCACTTATTG
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 2 0.02
49 80 0.98
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (49 bp):
ATGCCATAGACCAGCTATGGTCTTACACGTAATCACATAACATATACCG
Found at i:36927089 original size:23 final size:23
Alignment explanation
Indices: 36927063--36927158 Score: 102
Period size: 23 Copynumber: 4.2 Consensus size: 23
36927053 ATAAGTGCCA
*
36927063 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAACCGAAGCTAC
* * ** *
36927086 CACTAATACGTAAATGTAGCTAC
1 CACTGATATGTAACCGAAGCTAC
* * *
36927109 CATTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAACCGAAGCTAC
*
36927132 CACTGATATGTAACCGTAGCTAC
1 CACTGATATGTAACCGAAGCTAC
36927155 CACT
1 CACT
36927159 AATCAATAAC
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAACCGAAGCTAC
Found at i:36927424 original size:18 final size:20
Alignment explanation
Indices: 36927387--36927428 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
36927377 ATTTTCCTTC
*
36927387 CACATTTAATAATAATAATT
1 CACATATAATAATAATAATT
36927407 CACATATAA-AAT-ATAATT
1 CACATATAATAATAATAATT
36927425 CACA
1 CACA
36927429 ATTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
20 8 0.38
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (20 bp):
CACATATAATAATAATAATT
Found at i:36928872 original size:39 final size:37
Alignment explanation
Indices: 36928809--36928935 Score: 108
Period size: 31 Copynumber: 3.5 Consensus size: 37
36928799 GCCCGAATAT
* * *
36928809 AATAATTTTTTTATTTTTTTATTTTAAAATACTTTTAA
1 AATACTTTTTTTAATTTTTAATTTTAAAATA-TTTTAA
36928847 AATACTTTTTTTAAATTTTTAA--TT----T-TTTTAA
1 AATACTTTTTTT-AATTTTTAATTTTAAAATATTTTAA
*
36928878 AATACTTTTTAATT-TTTTTTAATTTTAAAATATTTTTAA
1 AATACTTTTT--TTAATTTTTAATTTTAAAATA-TTTTAA
*
36928917 AATACTTTTTTAAATTTTT
1 AATACTTTTTTTAATTTTT
36928936 GTTTTAATTT
Statistics
Matches: 71, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
31 23 0.32
33 5 0.07
37 4 0.06
38 16 0.23
39 23 0.32
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (37 bp):
AATACTTTTTTTAATTTTTAATTTTAAAATATTTTAA
Found at i:36928897 original size:31 final size:30
Alignment explanation
Indices: 36928841--36928914 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 30
36928831 TTTAAAATAC
36928841 TTTTAAAATACTTTTTTTAAATTTTTAATTT
1 TTTTAAAATACTTTTTTT-AATTTTTAATTT
36928872 TTTTAAAATAC--TTTTTAATTTTT--TTT
1 TTTTAAAATACTTTTTTTAATTTTTAATTT
36928898 AATTTTAAAATA-TTTTT
1 --TTTTAAAATACTTTTT
36928915 AAAATACTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
26 3 0.08
28 17 0.44
29 8 0.21
31 11 0.28
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (30 bp):
TTTTAAAATACTTTTTTTAATTTTTAATTT
Found at i:36928931 original size:12 final size:11
Alignment explanation
Indices: 36928830--36928935 Score: 52
Period size: 11 Copynumber: 10.3 Consensus size: 11
36928820 TATTTTTTTA
*
36928830 TTTTAAAATAC
1 TTTTAAAATAT
36928841 TTTTAAAATACT
1 TTTTAAAATA-T
**
36928853 TTTTTTAA-AT
1 TTTTAAAATAT
*
36928863 TTTT--AATTT
1 TTTTAAAATAT
36928872 TTTTAAAATACT
1 TTTTAAAATA-T
36928884 TTTT--AAT-T
1 TTTTAAAATAT
* *
36928892 TTTT---TTAA
1 TTTTAAAATAT
36928900 TTTTAAAATAT
1 TTTTAAAATAT
36928911 TTTTAAAATACT
1 TTTTAAAATA-T
*
36928923 TTTTTAAAT-T
1 TTTTAAAATAT
36928933 TTT
1 TTT
36928936 GTTTTAATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
7 1 0.01
8 11 0.15
9 5 0.07
10 12 0.16
11 26 0.35
12 20 0.27
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:36928977 original size:26 final size:25
Alignment explanation
Indices: 36928927--36928977 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
36928917 AATACTTTTT
**
36928927 TAAATTTTTGTTTTAATTTTCAAAA
1 TAAATTTTTGTTTTAATTTAAAAAA
36928952 TAAATTTTTGGTATTT-ATTTAAAAAA
1 TAAATTTTT-GT-TTTAATTTAAAAAA
36928978 CGGGCTGGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 9 0.41
26 10 0.45
27 3 0.14
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (25 bp):
TAAATTTTTGTTTTAATTTAAAAAA
Found at i:36931655 original size:18 final size:17
Alignment explanation
Indices: 36931629--36931662 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36931619 GCGCCGCGCT
36931629 CCTCCCACGCGCGCCTG
1 CCTCCCACGCGCGCCTG
*
36931646 CCTCCTCACGTGCGCCT
1 CCTCC-CACGCGCGCCT
36931663 CCGTACCCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.06, C:0.56, G:0.21, T:0.18
Consensus pattern (17 bp):
CCTCCCACGCGCGCCTG
Found at i:36937695 original size:27 final size:26
Alignment explanation
Indices: 36937658--36937708 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
36937648 AAAAAGGAGC
**
36937658 AAAAGAAAAAAATCAAAATCAAAACA
1 AAAAGAAAAAAAGAAAAATCAAAACA
36937684 AAAAGAAGAAAAAGAAAAATCAAAA
1 AAAAGAA-AAAAAGAAAAATCAAAA
36937709 ATCAAGGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.78, C:0.08, G:0.08, T:0.06
Consensus pattern (26 bp):
AAAAGAAAAAAAGAAAAATCAAAACA
Found at i:36937750 original size:15 final size:13
Alignment explanation
Indices: 36937718--36937767 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
36937708 AATCAAGGTC
*
36937718 AAAATGAAAATGAA
1 AAAAAGAAAA-GAA
* *
36937732 AAAGAGAGAAGAA
1 AAAAAGAAAAGAA
36937745 AAAAAGAAAAG-A
1 AAAAAGAAAAGAA
36937757 AAAAAGAAAAG
1 AAAAAGAAAAG
36937768 GAGAGCTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
12 12 0.39
13 12 0.39
14 7 0.23
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:36940108 original size:43 final size:43
Alignment explanation
Indices: 36939982--36940197 Score: 132
Period size: 44 Copynumber: 5.0 Consensus size: 43
36939972 TCGAAAACAA
** *
36939982 AGCCTTGCCTCAATCGGTTGCAGTGGAGCAGGTTAAAGATAGC
1 AGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTAAAGATACC
* * ** * * * * **
36940025 AGATCTTGCCTTCCT-GCACTACAGCGAAGCAGATCGAAGATACC
1 AG-CCTTGCCTCCCTCG-GTTGCAGTGGAGCAGGTTAAAGATACC
* * *
36940069 AGCCTTGCCTCCCTCGGTTGTAGTGGAGTAGGTTAAAGATATC
1 AGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTAAAGATACC
* * * * * * *
36940112 AGATCTTGCC-CTCCT-GCGCTGACAGCGAAGCAGATCAAAGACACC
1 AG-CCTTGCCTC-CCTCG-GTTG-CAGTGGAGCAGGTTAAAGATACC
* *
36940157 AACCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATA
1 AGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTAAAGATA
36940198 GCAGATCTTG
Statistics
Matches: 119, Mismatches: 45, Indels: 18
0.65 0.25 0.10
Matches are distributed among these distances:
43 48 0.40
44 53 0.45
45 18 0.15
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (43 bp):
AGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTAAAGATACC
Found at i:36940182 original size:88 final size:87
Alignment explanation
Indices: 36939843--36940238 Score: 505
Period size: 87 Copynumber: 4.5 Consensus size: 87
36939833 CAGATCAGTG
* * *
36939843 AAGATAGCAAATCTTGCCTTCCTGCATTTACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* *
36939908 TCGGTTGCATTGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCAGGTTA
* * * * *
36939930 AAGATAGCAGATCTTGTCTTCCTGCATTGATAGCAAAGCAGATCGAAAACAAAGCCTTGCCTCAA
1 AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
36939995 TCGGTTGCAGTGGAGCAGGTTA
66 TCGGTTGCAGTGGAGCAGGTTA
*
36940017 AAGATAGCAGATCTTGCCTTCCTGCACT-ACAGCGAAGCAGATCGAAGATAC-CAGCCTTGCCTC
1 AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTC
* * *
36940080 CCTCGGTTGTAGTGGAGTAGGTTA
64 CATCGGTTGCAGTGGAGCAGGTTA
* * *
36940104 AAGATATCAGATCTTGCCCTCCTGCGCTGACAGCGAAGCAGATC-AAAGACACCAA-CCTTGCCT
1 AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAA-ACA--AAGCCTTGCCT
* *
36940167 CCCTCGGTTGCAGTGGAGCAGGTTG
63 CCATCGGTTGCAGTGGAGCAGGTTA
* * *
36940192 AAGATAGCAGATCTTGCCTTCCTACA-TCGACAGTGAAGCAAATCGAA
1 AAGATAGCAGATCTTGCCTTCCTGCACT-GACAGCGAAGCAGATCGAA
36940239 GATTAGAAGT
Statistics
Matches: 270, Mismatches: 31, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
86 19 0.07
87 165 0.61
88 83 0.31
89 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
TCGGTTGCAGTGGAGCAGGTTA
Found at i:36940525 original size:44 final size:44
Alignment explanation
Indices: 36940457--36940550 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
36940447 TAGATCGCAT
* *
36940457 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTAAGATTACAGCGGAG
* * *
36940501 CAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTAAGATTACAGCGGAG
*
36940545 CGGATT
1 CAGATT
36940551 AAAATAAAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTAAGATTACAGCGGAG
Found at i:36940538 original size:98 final size:97
Alignment explanation
Indices: 36940359--36940540 Score: 233
Period size: 98 Copynumber: 1.9 Consensus size: 97
36940349 TGTAAGGAAG
* * * * *
36940359 CAGATTGAAGCCAGTAATCCTATCTCCCTGATATTACAGCGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCCT
*
36940424 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* **
36940457 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCC
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAATAAG-AATCC
36940521 TATCTCCCT-AAGATTACAGT
64 TATCTCCCTGAAG-TTACAGT
36940541 GGAGCGGATT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
97 5 0.07
98 64 0.89
99 3 0.04
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (97 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:36940613 original size:142 final size:142
Alignment explanation
Indices: 36940357--36940626 Score: 504
Period size: 142 Copynumber: 1.9 Consensus size: 142
36940347 AGTGTAAGGA
* *
36940357 AGCAGATTGAAGCCAGTAATCCTATCTCCCTGATATTACAGCGGAGCGGATTAAAATAAAGGATC
1 AGCAGATTGAAGCCAGTAATCCTATCTCCCTAAGATTACAGCGGAGCGGATTAAAATAAAGGATC
36940422 TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTG
66 TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTG
36940487 AGATTACAGCGG
131 AGATTACAGCGG
* *
36940499 AGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATC
1 AGCAGATTGAAGCCAGTAATCCTATCTCCCTAAGATTACAGCGGAGCGGATTAAAATAAAGGATC
36940564 TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCC
66 TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCC
36940627 AAGCGATATA
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 124 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (142 bp):
AGCAGATTGAAGCCAGTAATCCTATCTCCCTAAGATTACAGCGGAGCGGATTAAAATAAAGGATC
TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTG
AGATTACAGCGG
Found at i:36940690 original size:50 final size:50
Alignment explanation
Indices: 36940636--36940868 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
36940626 CAAGCGATAT
* * * * **
36940636 AGTGGAATAGATTAAAGCTACAACAGCGAATCTTACCT-CCTAGGCGGTGC
1 AGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCCTCCCT-GACATTGC
* *
36940686 AGTGGAGCAGATTAAAGCCACAACAGTGAATCTTGCCTCCCTGACATTGC
1 AGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGC
* * *
36940736 AGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGC
1 AGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGC
* * *
36940786 AGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACATTGC
1 AGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGC
** * **
36940836 AGTTAAAAAGATTAAAGCCACAATGGCGAATCT
1 AGTGGAACAGATTAAAGCCACAACAGCGAATCT
36940869 AACTTTCCAA
Statistics
Matches: 161, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
50 158 0.98
51 3 0.02
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (50 bp):
AGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGC
Found at i:36955790 original size:54 final size:54
Alignment explanation
Indices: 36955703--36955827 Score: 223
Period size: 54 Copynumber: 2.3 Consensus size: 54
36955693 ACCACGGTCT
*
36955703 CGGGTGCGGGTGCTTCAACCGGTGGGTCGGCCTTCTCTTCTTCCCTGACTTCAA
1 CGGGTGCGGGTGCTTCAACCGGTGGGTCAGCCTTCTCTTCTTCCCTGACTTCAA
* *
36955757 CGGGTGCGGGTGCTTCAATCGGTGGGTCAGCCTTCTCTTCTTCCTTGACTTCAA
1 CGGGTGCGGGTGCTTCAACCGGTGGGTCAGCCTTCTCTTCTTCCCTGACTTCAA
36955811 CGGGTGCGGGTGCTTCA
1 CGGGTGCGGGTGCTTCA
36955828 GTTTCGACTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.10, C:0.29, G:0.31, T:0.30
Consensus pattern (54 bp):
CGGGTGCGGGTGCTTCAACCGGTGGGTCAGCCTTCTCTTCTTCCCTGACTTCAA
Found at i:36966707 original size:24 final size:25
Alignment explanation
Indices: 36966680--36966729 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
36966670 ACTAGTCATA
*
36966680 GAGAGAATTGAGGAG-GGATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
*
36966704 GAGAGATTTGAGGAGAGAATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
36966729 G
1 G
36966730 GATTTGGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.34, C:0.00, G:0.40, T:0.26
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:36967659 original size:27 final size:27
Alignment explanation
Indices: 36967399--36967648 Score: 293
Period size: 27 Copynumber: 9.3 Consensus size: 27
36967389 AGAGATCGAT
* * *
36967399 AAATGATCAAAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
36967426 AAATGACTGAAATACCCCCGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** **
36967453 AAATGACCGAAATACCCCTGTAAAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** *
36967480 AAATGATCGAAATACCTTCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
36967507 AAATGACCGAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
36967534 GAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
36967561 AAATTATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
36967588 AAATGACCGAAATACTCTCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
**
36967615 AAATGACTAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
36967642 AAATGAC
1 AAATGAC
36967649 TATTATACCC
Statistics
Matches: 188, Mismatches: 35, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 188 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:36967659 original size:81 final size:81
Alignment explanation
Indices: 36967399--36967647 Score: 327
Period size: 81 Copynumber: 3.1 Consensus size: 81
36967389 AGAGATCGAT
* * * * *
36967399 AAATGATCAAAATACCCCCATAGGATAAAATGACTGAAATACCCCCGTAGGGTAAAATGACCGAA
1 AAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCGAA
** **
36967464 ATACCCCTGTAAAGTA
66 ATACCCCCATAGGGTA
** * * *
36967480 AAATGATCGAAATACCTTCATAAGGTAAAATGACCGAAATACCCTTATAGGGTAGAATGACCGAA
1 AAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCGAA
36967545 ATACCCCCATAGGGTA
66 ATACCCCCATAGGGTA
* * * **
36967561 AAATTATCGAAATACCCCCATAGGGTAAAATGACCGAAATACTCTCATAGGATAAAATGACTAAA
1 AAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCGAA
36967626 ATACCCCCATAGGGTA
66 ATACCCCCATAGGGTA
36967642 AAATGA
1 AAATGA
36967648 CTATTATACC
Statistics
Matches: 143, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 143 1.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.20
Consensus pattern (81 bp):
AAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCGAA
ATACCCCCATAGGGTA
Found at i:36972385 original size:35 final size:35
Alignment explanation
Indices: 36972346--36972417 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
36972336 TTTAGAAATA
36972346 TCTCGCCTGCTTAGATAAAGAGTCAAAAGATATGG
1 TCTCGCCTGCTTAGATAAAGAGTCAAAAGATATGG
*
36972381 TCTCGCCTGCTTAGATAAGGAGTCAAAAGATATGG
1 TCTCGCCTGCTTAGATAAAGAGTCAAAAGATATGG
36972416 TC
1 TC
36972418 ATGCTGTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (35 bp):
TCTCGCCTGCTTAGATAAAGAGTCAAAAGATATGG
Found at i:36978071 original size:21 final size:21
Alignment explanation
Indices: 36978047--36978090 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
36978037 CACCCAAACA
36978047 CTTAGCGGAGAATTTACCAAT
1 CTTAGCGGAGAATTTACCAAT
36978068 CTTAGCGGAGAATTTACCAAT
1 CTTAGCGGAGAATTTACCAAT
36978089 CT
1 CT
36978091 CATCCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (21 bp):
CTTAGCGGAGAATTTACCAAT
Found at i:36987661 original size:25 final size:25
Alignment explanation
Indices: 36987607--36987661 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
36987597 AAATATTAAA
*
36987607 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
36987632 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
36987656 TATTAA
1 T-TTAA
36987662 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:36987695 original size:37 final size:37
Alignment explanation
Indices: 36987592--36987708 Score: 120
Period size: 37 Copynumber: 3.2 Consensus size: 37
36987582 GCTTATCTAC
*
36987592 AATATAAATATTAAATTTAAT-TT-AA-TATTAAGAT
1 AATATTAATATTAAATTTAATATTAAACTATTAAGAT
*
36987626 AATCACTTTAATATTAAA-TTAATA-AAATACTATTAAGAT
1 AAT-A--TTAATATTAAATTTAATATTAA-ACTATTAAGAT
*
36987665 AAGTATTAA-ATTAAATTTAATATTAAACTATTAAAAT
1 AA-TATTAATATTAAATTTAATATTAAACTATTAAGAT
36987702 AATATTA
1 AATATTA
36987709 TTTTTGAATA
Statistics
Matches: 69, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
34 3 0.04
35 1 0.01
36 16 0.23
37 33 0.48
38 3 0.04
39 12 0.17
40 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (37 bp):
AATATTAATATTAAATTTAATATTAAACTATTAAGAT
Found at i:36989849 original size:24 final size:24
Alignment explanation
Indices: 36989795--36989850 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
36989785 AACAGATACG
36989795 TTTCTATATACAAATTCAAACATAT
1 TTTC-ATATACAAATTCAAACATAT
* * **
36989820 TCTCATATACAAATTCAGATGTAT
1 TTTCATATACAAATTCAAACATAT
36989844 TTTCATA
1 TTTCATA
36989851 ATCAGATACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (24 bp):
TTTCATATACAAATTCAAACATAT
Found at i:36994874 original size:13 final size:13
Alignment explanation
Indices: 36994856--36994895 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
36994846 CTTCTTAATG
36994856 GTCTACAGTTTCT
1 GTCTACAGTTTCT
*
36994869 GTCTACAGTTTTT
1 GTCTACAGTTTCT
*
36994882 GTTTACAGTTTCT
1 GTCTACAGTTTCT
36994895 G
1 G
36994896 AGAGAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.50
Consensus pattern (13 bp):
GTCTACAGTTTCT
Found at i:36996294 original size:76 final size:75
Alignment explanation
Indices: 36996159--36996519 Score: 274
Period size: 76 Copynumber: 4.8 Consensus size: 75
36996149 CCACGCCACA
* * * * * * *
36996159 TGGTAGAGCCTACTCCCTTAGGAGGGGAGACCATCAAGCCAAACAATTTGACTATCATCTCTTAT
1 TGGTAGAGCCTACTCCTTTA--A-AGGATACCATCAAGCTAAACAAATTGACTCTCATCTCTTTT
*
36996224 GCTATCATGCCATG
63 GCT-TCATACCATG
* * *
36996238 TGGTAGAGTCTACTCCTTTAAAGGATACCATCAAGCTAAACAAATTGTCTCTCATCTATTTTGCT
1 TGGTAGAGCCTACTCCTTTAAAGGATACCATCAAGCTAAACAAATTGACTCTCATCTCTTTTGCT
* *
36996303 CTCATATCAAG
66 -TCATACCATG
* * *
36996314 TGGTAGAGCCTACTCCCTTAAAGGATACCATCAAGCTAAAAAAATTGGCTCTCATCTCTTTTGCT
1 TGGTAGAGCCTACTCCTTTAAAGGATACCATCAAGCTAAACAAATTGACTCTCATCTCTTTTGCT
* * *
36996379 CCTATTCCATA
66 TC-ATACCATG
* * * * * *
36996390 TGGTAAAGCCTAGTCCTTCAAAGGATATCATCAA-TTCAAACAAATGTG-CTCTC-T-TTTATTT
1 TGGTAGAGCCTACTCCTTTAAAGGATACCATCAAGCT-AAACAAAT-TGACTCTCATCTCT-TTT
*
36996451 GCATCA-A--AT-
63 GCTTCATACCATG
* * * * * * *
36996460 T-GTAAAGCCTAATCC-TCAAAGTATACCATAAAGCTAAACAAATTGGCTCTCATTTCTTTT
1 TGGTAGAGCCTACTCCTTTAAAGGATACCATCAAGCTAAACAAATTGACTCTCATCTCTTTT
36996520 TACCCTATAC
Statistics
Matches: 233, Mismatches: 41, Indels: 26
0.78 0.14 0.09
Matches are distributed among these distances:
67 2 0.01
68 27 0.12
69 18 0.08
70 3 0.01
71 2 0.01
74 3 0.01
75 9 0.04
76 148 0.64
77 3 0.01
79 18 0.08
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (75 bp):
TGGTAGAGCCTACTCCTTTAAAGGATACCATCAAGCTAAACAAATTGACTCTCATCTCTTTTGCT
TCATACCATG
Found at i:36996413 original size:152 final size:145
Alignment explanation
Indices: 36996158--36996552 Score: 350
Period size: 152 Copynumber: 2.7 Consensus size: 145
36996148 CCCACGCCAC
* * * * * * *
36996158 ATGGTAGAGCCTACTCCCTTAGGAGGGGAGACCATCAAGCCAAACAATTTGACTATCATCTCTTA
1 ATGGTAGAGCCTACTCCCTTA--A-AGGATACCATCAAGCTAAACAAATTGGCTCTCATCTCTTT
* * * * * *
36996223 TGCT-ATCATGCCATGTGGTAGAGTCTACTCCTTTAAAGGATACCATCAAGCT-AAACAAAT-TG
63 TGCTCCT-ATACCATGTGGTAAAGCCTAGTCCTTCAAAGGATACCATCAA-CTCAAACAAATGTG
36996285 TCTCTCATCTATTTTGCTCTCATATCAA
126 -CTCTCATCTA-TTTG----C--ATCAA
* *
36996313 GTGGTAGAGCCTACTCCCTTAAAGGATACCATCAAGCTAAAAAAATTGGCTCTCATCTCTTTTGC
1 ATGGTAGAGCCTACTCCCTTAAAGGATACCATCAAGCTAAACAAATTGGCTCTCATCTCTTTTGC
* * * *
36996378 TCCTATTCCATATGGTAAAGCCTAGTCCTTCAAAGGATATCATCAATTCAAACAAATGTGCTCTC
66 TCCTATACCATGTGGTAAAGCCTAGTCCTTCAAAGGATACCATCAACTCAAACAAATGTGCTCTC
* *
36996443 TTTTATTTGCATCAA
131 ATCTATTTGCATCAA
* * * * * * * *
36996458 ATTGTAAAGCCTAAT-CCTCAAAGTATACCATAAAGCTAAACAAATTGGCTCTCATTTCTTTTTA
1 ATGGTAGAGCCTACTCCCTTAAAGGATACCATCAAGCTAAACAAATTGGCTCTCATCTC-TTTTG
*
36996522 C-CCTATACCACGTGGTAAAGCCTAGTTCCTT
65 CTCCTATACCATGTGGTAAAGCCTAG-TCCTT
36996553 AGGGATACCA
Statistics
Matches: 202, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
144 59 0.29
145 26 0.13
147 1 0.00
151 5 0.02
152 87 0.43
153 4 0.02
155 20 0.10
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (145 bp):
ATGGTAGAGCCTACTCCCTTAAAGGATACCATCAAGCTAAACAAATTGGCTCTCATCTCTTTTGC
TCCTATACCATGTGGTAAAGCCTAGTCCTTCAAAGGATACCATCAACTCAAACAAATGTGCTCTC
ATCTATTTGCATCAA
Found at i:36996562 original size:75 final size:75
Alignment explanation
Indices: 36996482--36996621 Score: 176
Period size: 75 Copynumber: 1.9 Consensus size: 75
36996472 TCCTCAAAGT
* *
36996482 ATACCATAAAG-CTAAACAAATTGGCTCTCATTTCTTTTTAC-CCTATACCACGTGGTAAAGCCT
1 ATACCATAAAGTC-AAACAAATTGGCTCTCATTTC-TTCTACTCCCATACCACGTGGTAAAGCCT
36996545 AGTTCCTTAGGG
64 AGTTCCTTAGGG
* * * * * *
36996557 ATACCATTAAGTCAATCAACTTGTCTTTCATTTCTTCTACTCCCATACCACGTGGTAGAGCCTAG
1 ATACCATAAAGTCAAACAAATTGGCTCTCATTTCTTCTACTCCCATACCACGTGGTAAAGCCTAG
36996622 CCTCTCAGGG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
74 5 0.09
75 49 0.89
76 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (75 bp):
ATACCATAAAGTCAAACAAATTGGCTCTCATTTCTTCTACTCCCATACCACGTGGTAAAGCCTAG
TTCCTTAGGG
Found at i:36999258 original size:21 final size:21
Alignment explanation
Indices: 36999213--36999260 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
36999203 TTTAAAATCT
*
36999213 AAAAAATAAAATACTATTTAA
1 AAAAAATAAAATACTATATAA
36999234 AAAAAATAAAAGTA-TA-ATAA
1 AAAAAATAAAA-TACTATATAA
*
36999254 CAAAAAT
1 AAAAAAT
36999261 CGAAAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 13 0.54
22 2 0.08
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAAATAAAATACTATATAA
Found at i:37000827 original size:12 final size:12
Alignment explanation
Indices: 37000810--37000835 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37000800 AATATTTGTC
37000810 TTAATTAAAAAA
1 TTAATTAAAAAA
37000822 TTAATTAAAAAA
1 TTAATTAAAAAA
37000834 TT
1 TT
37000836 TTGAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAATTAAAAAA
Found at i:37002537 original size:512 final size:511
Alignment explanation
Indices: 37001571--37002765 Score: 2300
Period size: 512 Copynumber: 2.3 Consensus size: 511
37001561 TTCATATTTT
37001571 ACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAAACACCTAATCTAAGTCCCGGGTGTAAGTT
1 ACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAAACACCTAATCTAAGTCCCGGGTGTAAGTT
*
37001636 TATTACTTTAACTTTCATATTTTGTGATAAATTCTTGTGTTATGTTATAAGGAGTTCACACATGT
66 TCTTACTTTAACTTTCATATTTTGTGATAAATT-TTGTGTTATGTTATAAGGAGTTCACACATGT
37001701 GAACCATAGTTTGCATATGTAGTTTAGCCGAGTATAGGATCGCAGACATTATGCTGCGAAGTATG
130 GAACCATAGTTTGCATATGTAGTTTAGCCGAGTATAGGATCGCAGACATTATGCTGCGAAGTATG
* *
37001766 TGATTGTGATATGTGTTAAATATGAAAATTAATATCTGTAATTGTGGCTATTTTGGTACTACGAT
195 TGATTGTGATATGTGTTAAATATGAAAATTAATATCTGTAATTGTGGCCATTTCGGTACTACGAT
37001831 CTTTGAAACAATTGGATATTGTTGGCATGCCATAGGATTGTGAGTACTCACCTTTGTGTTTTATG
260 CTTTGAAACAATTGGATATTGTTGGCATGCCATAGGATTGTGAGTACTCACCTTTGTGTTTTATG
*
37001896 ATTTGGGCGAAAGTCCCTAGGACAGGTTAGGAGAAATAATATGTTTCGTCTATTAGTAACTTGAG
325 ATTTGGGCGAAAGTCCCTAGGACAGGTTAGGAGAAATAATATGCTTCGTCTATTAGTAACTTGAG
37001961 TATATTTGTGAAGTTGTGAACCTAACAGAGTCGTCTACAGGCAAAAAAAAGGGAAAAACGAAGCT
390 TATATTTGTGAAGTTGTGAACCTAACAGAGTCGTCTACAGGCAAAAAAAAGGGAAAAACGAAGCT
37002026 TTTTTAAAGCTTTCAATAAACTAGTGAGTGTTTTGGGGTTGCTGCTAGTATGAGCGA
455 TTTTTAAAGCTTTCAATAAACTAGTGAGTGTTTTGGGGTTGCTGCTAGTATGAGCGA
37002083 ACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAAACACCTAATCTAAGTCCCGGGTGTAAGTT
1 ACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAAACACCTAATCTAAGTCCCGGGTGTAAGTT
37002148 TCTTACTTTAACTTTCATATTTTGTGATAAATTATTGTGTTATGTTATAAGGAGTTCACACATGT
66 TCTTACTTTAACTTTCATATTTTGTGATAAATT-TTGTGTTATGTTATAAGGAGTTCACACATGT
37002213 GAACCATAGTTTGCATATGTAGTTTAGCCGAGTATAGGATCGCAGACATTATGCTGCGAAGTATG
130 GAACCATAGTTTGCATATGTAGTTTAGCCGAGTATAGGATCGCAGACATTATGCTGCGAAGTATG
37002278 TGATTGTGATATGTGTTAAATATGAAAATTAATATCTGTAATTGTGGCCATTTCGGTACTACGAT
195 TGATTGTGATATGTGTTAAATATGAAAATTAATATCTGTAATTGTGGCCATTTCGGTACTACGAT
37002343 CTTTGAAACAATTGGATATTGTTGGCATGCCATAGGATTGTGAGTACTCACCTTTGTGTTTTATG
260 CTTTGAAACAATTGGATATTGTTGGCATGCCATAGGATTGTGAGTACTCACCTTTGTGTTTTATG
37002408 ATTTGGGCGAAAGTCCCTAGGACAGGTTAGGAGAAATAATATGCTTCGTCTATTAGTAACTTGAG
325 ATTTGGGCGAAAGTCCCTAGGACAGGTTAGGAGAAATAATATGCTTCGTCTATTAGTAACTTGAG
*
37002473 TATATTTGTGAAGTTGTGAACCTAACAGAGTCGTCTACAGGCAAAAAAAAGGGAAAAGCGAAGCT
390 TATATTTGTGAAGTTGTGAACCTAACAGAGTCGTCTACAGGCAAAAAAAAGGGAAAAACGAAGCT
37002538 TTTTTAAAGCTTTCAATAAACTAGTGAGTGTTTTGGGGTTGCTGCTAGTATGAGCGA
455 TTTTTAAAGCTTTCAATAAACTAGTGAGTGTTTTGGGGTTGCTGCTAGTATGAGCGA
* *
37002595 ACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAAACACCTAATCTAAGTCCCGAGTTTAAGTT
1 ACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAAACACCTAATCTAAGTCCCGGGTGTAAGTT
37002660 TCTTACTTTAACTTTCATATTTTGTGATAAATGTTTGTGTTATGTTATAAGGAGTTCACACATGT
66 TCTTACTTTAACTTTCATATTTTGTGATAAAT-TTTGTGTTATGTTATAAGGAGTTCACACATGT
37002725 GAACCATAGTTTGCATATGTAGTTTAGCCGAGTATAGGATC
130 GAACCATAGTTTGCATATGTAGTTTAGCCGAGTATAGGATC
37002766 CCAAATCCTT
Statistics
Matches: 674, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
512 673 1.00
513 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (511 bp):
ACCATTGTGTTAAACGAGAGCTTAGGTTGGTCTAAAACACCTAATCTAAGTCCCGGGTGTAAGTT
TCTTACTTTAACTTTCATATTTTGTGATAAATTTTGTGTTATGTTATAAGGAGTTCACACATGTG
AACCATAGTTTGCATATGTAGTTTAGCCGAGTATAGGATCGCAGACATTATGCTGCGAAGTATGT
GATTGTGATATGTGTTAAATATGAAAATTAATATCTGTAATTGTGGCCATTTCGGTACTACGATC
TTTGAAACAATTGGATATTGTTGGCATGCCATAGGATTGTGAGTACTCACCTTTGTGTTTTATGA
TTTGGGCGAAAGTCCCTAGGACAGGTTAGGAGAAATAATATGCTTCGTCTATTAGTAACTTGAGT
ATATTTGTGAAGTTGTGAACCTAACAGAGTCGTCTACAGGCAAAAAAAAGGGAAAAACGAAGCTT
TTTTAAAGCTTTCAATAAACTAGTGAGTGTTTTGGGGTTGCTGCTAGTATGAGCGA
Found at i:37002785 original size:7 final size:7
Alignment explanation
Indices: 37002775--37002836 Score: 65
Period size: 7 Copynumber: 8.9 Consensus size: 7
37002765 CCCAAATCCT
37002775 TAAACCC
1 TAAACCC
37002782 TAAACCC
1 TAAACCC
37002789 -AAACCC
1 TAAACCC
*
37002795 CAAACCC
1 TAAACCC
*
37002802 TTAAACCT
1 -TAAACCC
*
37002810 TAAACCT
1 TAAACCC
37002817 TAAA-CC
1 TAAACCC
37002823 TCAAACCC
1 T-AAACCC
37002831 TAAACC
1 TAAACC
37002837 TTGAGGTTCG
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 8 0.17
7 32 0.67
8 8 0.17
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:37002805 original size:28 final size:29
Alignment explanation
Indices: 37002765--37002836 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 29
37002755 AGTATAGGAT
*
37002765 CCCAAATCCTTAAACCCTAAACC-CAAAC
1 CCCAAACCCTTAAACCCTAAACCTCAAAC
* *
37002793 CCCAAACCCTTAAACCTTAAACCTTAAAC
1 CCCAAACCCTTAAACCCTAAACCTCAAAC
*
37002822 CTCAAACCC-TAAACC
1 CCCAAACCCTTAAACC
37002837 TTGAGGTTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 27 0.69
29 12 0.31
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.17
Consensus pattern (29 bp):
CCCAAACCCTTAAACCCTAAACCTCAAAC
Found at i:37004811 original size:22 final size:24
Alignment explanation
Indices: 37004786--37004833 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
37004776 AAAAAGATTC
37004786 TTATATT-T-TAAACCCTAAAAAA
1 TTATATTATATAAACCCTAAAAAA
**
37004808 TTATATTATATAAGTCCTAAAAAA
1 TTATATTATATAAACCCTAAAAAA
37004832 TT
1 TT
37004834 TTCAAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 1 0.05
24 14 0.64
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (24 bp):
TTATATTATATAAACCCTAAAAAA
Found at i:37005294 original size:6 final size:6
Alignment explanation
Indices: 37005283--37005312 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
37005273 CCAAATTTGC
37005283 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
37005313 TGATGCTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:37006266 original size:14 final size:14
Alignment explanation
Indices: 37006249--37006297 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
37006239 TAAACGTTCT
*
37006249 TTTTGTTTTCTTCC
1 TTTTCTTTTCTTCC
*
37006263 TTTTCTTTTTTTCC
1 TTTTCTTTTCTTCC
*
37006277 TTTTCCTTTCTT--
1 TTTTCTTTTCTTCC
37006289 TTTTCTTTT
1 TTTTCTTTT
37006298 TCTTGTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 8 0.27
14 22 0.73
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTCTTTTCTTCC
Found at i:37012313 original size:8 final size:8
Alignment explanation
Indices: 37012297--37012329 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
37012287 CCCGAGCTAG
37012297 TTTAGGGT
1 TTTAGGGT
*
37012305 TTTAAGGT
1 TTTAGGGT
37012313 TTTAGGG-
1 TTTAGGGT
37012320 TTTAGGGT
1 TTTAGGGT
37012328 TT
1 TT
37012330 AAATTGATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (8 bp):
TTTAGGGT
Found at i:37020913 original size:18 final size:18
Alignment explanation
Indices: 37020903--37020946 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
37020893 TTTCGATTTA
37020903 TTTTTCTTTTTCATTTTC
1 TTTTTCTTTTTCATTTTC
37020921 TTTTTCTTTTTCATTTTC
1 TTTTTCTTTTTCATTTTC
37020939 TTTTTCTT
1 TTTTTCTT
37020947 CTTTTTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTCTTTTTCATTTTC
Found at i:37020919 original size:12 final size:12
Alignment explanation
Indices: 37020903--37020958 Score: 64
Period size: 12 Copynumber: 4.9 Consensus size: 12
37020893 TTTCGATTTA
*
37020903 TTTTTCTTTTTC
1 TTTTTCATTTTC
* *
37020915 ATTTTCTTTTTC
1 TTTTTCATTTTC
37020927 TTTTTCATTTTC
1 TTTTTCATTTTC
37020939 TTTTTC---TTC
1 TTTTTCATTTTC
37020948 TTTTTCATTTT
1 TTTTTCATTTT
37020959 TATTACAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
9 9 0.24
12 29 0.76
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCATTTTC
Found at i:37020958 original size:6 final size:6
Alignment explanation
Indices: 37020903--37020946 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
37020893 TTTCGATTTA
* *
37020903 TTTTTC TTTTTC ATTTTC TTTTTC TTTTTC ATTTTC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT
37020947 CTTTTTCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:37023609 original size:23 final size:24
Alignment explanation
Indices: 37023556--37023611 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
37023546 TGAAACTGAA
* *
37023556 ATTGCTTCTGCATATGTAACTGAT
1 ATTGCTTCTGTATATGTAACTAAT
*
37023580 -TTG-TTCTGTATCTG-AACTAAT
1 ATTGCTTCTGTATATGTAACTAAT
37023601 ATTGCTTCTGT
1 ATTGCTTCTGT
37023612 TAGCTAACCG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 6 0.22
22 12 0.44
23 9 0.33
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.46
Consensus pattern (24 bp):
ATTGCTTCTGTATATGTAACTAAT
Found at i:37025793 original size:87 final size:87
Alignment explanation
Indices: 37025654--37025847 Score: 248
Period size: 87 Copynumber: 2.2 Consensus size: 87
37025644 CCCTCAAATT
* * *
37025654 AAAAAAAAAATTAAGCCCCTCTTTTTTTTGCACTCAATTGAGTAGTTTAACTTTCAAAATGCATA
1 AAAAAAAAAATTAAGCCCCTCTTTTTTTTGCACTCAACTGAGTACTTGAACTTTCAAAATGCATA
37025719 AAAAAAAACCTCAAACTTCTTC
66 AAAAAAAACCTCAAACTTCTTC
*
37025741 AAAAAAATAAATTAAG-CCCTACTTTTTTTT-CACTCAACTGGGTACTTGAACTTTCAAAATGCA
1 AAAAAAA-AAATTAAGCCCCT-CTTTTTTTTGCACTCAACTGAGTACTTGAACTTTCAAAATGCA
* * * * *
37025804 TAAAAAAGACCCTCAAAATTTTTT
64 TAAAAAAAAACCTCAAACTTCTTC
* **
37025828 AAAACAGCAATTAAGCCCCT
1 AAAAAAAAAATTAAGCCCCT
37025848 GCTCTTATTA
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
86 7 0.08
87 68 0.74
88 17 0.18
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (87 bp):
AAAAAAAAAATTAAGCCCCTCTTTTTTTTGCACTCAACTGAGTACTTGAACTTTCAAAATGCATA
AAAAAAAACCTCAAACTTCTTC
Found at i:37025885 original size:14 final size:15
Alignment explanation
Indices: 37025853--37025893 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
37025843 CCCCTGCTCT
*
37025853 TATTAAAAATTTAAA
1 TATTAAATATTTAAA
*
37025868 TATTAAATA-TTAAG
1 TATTAAATATTTAAA
37025882 TATTAAAT-TTTA
1 TATTAAATATTTA
37025894 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
TATTAAATATTTAAA
Found at i:37026227 original size:29 final size:30
Alignment explanation
Indices: 37026195--37026281 Score: 83
Period size: 29 Copynumber: 3.0 Consensus size: 30
37026185 TTACATTTTG
37026195 TATAATTATTTTATGA-ATTTATAAAATTT
1 TATAATTATTTTATGATATTTATAAAATTT
* *
37026224 TAT-ATATATTTT-T-ATATTTCTATATATTT
1 TATAAT-TATTTTATGATATTTATA-AAATTT
* * *
37026253 TATAATTTTTTTACGATTTTTATAAAATT
1 TATAATTATTTTATGATATTTATAAAATT
37026282 GTACAATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
27 1 0.02
28 9 0.20
29 22 0.49
30 6 0.13
31 7 0.16
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (30 bp):
TATAATTATTTTATGATATTTATAAAATTT
Found at i:37026275 original size:20 final size:20
Alignment explanation
Indices: 37026153--37026325 Score: 81
Period size: 20 Copynumber: 8.7 Consensus size: 20
37026143 GTACGATAAA
*
37026153 TTTTATAATTTTTTTACGAA
1 TTTTATAATTTTTTTACGAT
* *
37026173 ATTTAT-ATTTCTTTAC-AT
1 TTTTATAATTTTTTTACGAT
* *
37026191 TTTGTATAATTATTTTATGAAT
1 TTT-TATAATTTTTTTACG-AT
* * * *
37026213 TTATAAAATTTTATATA-TAT
1 TTTTATAATTTT-TTTACGAT
* * *
37026233 TTTTAT-ATTTCTATA-TA-
1 TTTTATAATTTTTTTACGAT
37026250 TTTTATAATTTTTTTACGAT
1 TTTTATAATTTTTTTACGAT
** * *
37026270 TTTTATAA-AATTGTACAAT
1 TTTTATAATTTTTTTACGAT
* *
37026289 TTTATATATATTATTTTATGAT
1 TTT-TATA-ATTTTTTTACGAT
37026311 TTTTAATAATTTTTT
1 TTTT-ATAATTTTTT
37026326 AATATCTTAA
Statistics
Matches: 114, Mismatches: 27, Indels: 23
0.70 0.16 0.14
Matches are distributed among these distances:
17 6 0.05
18 16 0.14
19 27 0.24
20 30 0.26
21 15 0.13
22 20 0.18
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTATAATTTTTTTACGAT
Found at i:37026500 original size:87 final size:88
Alignment explanation
Indices: 37026409--37026626 Score: 226
Period size: 87 Copynumber: 2.5 Consensus size: 88
37026399 ATAAAAGCAA
37026409 GGGCTTAATTTTTTTTTTTTTTAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACC
1 GGGCTTAATTTTTTTTTTTTTTAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACC
* * * **
37026474 TAATTGAGTG-CAAAAAAAGTAG
66 GAAATGAGTGTAAAAAAAAACAG
** *** * * * *
37026496 GGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGG-CTTTTTTATGCATTTTTAAAGTTTAAGTAT
1 GGGCTTAATTTTTTTTTTTTTTAA-GTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTAC
37026560 CGAAATGAGTGTAAAAAAAAACAG
65 CGAAATGAGTGTAAAAAAAAACAG
* * *
37026584 AGGCTTAATTGCTTTTTTTTTTTTTAAATTTGAGGAT-TTTTTG
1 GGGCTTAA-T--TTTTTTTTTTTTTAAGTTTGAGGGTCTTTTTG
37026627 CACCCTTAAG
Statistics
Matches: 102, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
87 54 0.53
88 25 0.25
89 1 0.01
90 12 0.12
91 10 0.10
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (88 bp):
GGGCTTAATTTTTTTTTTTTTTAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACC
GAAATGAGTGTAAAAAAAAACAG
Found at i:37026589 original size:88 final size:88
Alignment explanation
Indices: 37026433--37026602 Score: 234
Period size: 88 Copynumber: 1.9 Consensus size: 88
37026423 TTTTTTTTAA
* * * ** *
37026433 GTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCTAATTGAGTGCAAAAAAAGTAGGG
1 GTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCGAAATGAGTGAAAAAAAAACAGAG
37026498 GCTTAATTGCTTTTTTTGAAAAG
66 GCTTAATTGCTTTTTTTGAAAAG
* * * *
37026521 GTTTGAGGG-CTTTTTTATGCATTTTTAAAGTTTAAGTATCGAAATGAGTGTAAAAAAAAACAGA
1 GTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCGAAATGAGTG-AAAAAAAAACAGA
37026585 GGCTTAATTGCTTTTTTT
65 GGCTTAATTGCTTTTTTT
37026603 TTTTTTAAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
87 35 0.49
88 36 0.51
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (88 bp):
GTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCGAAATGAGTGAAAAAAAAACAGAG
GCTTAATTGCTTTTTTTGAAAAG
Found at i:37030095 original size:20 final size:21
Alignment explanation
Indices: 37030062--37030119 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
37030052 TACAAATCAA
*
37030062 TAAAAGTT-ATAAAAATTA-T
1 TAAAATTTAATAAAAATTATT
* *
37030081 TAAACTTTAATAAAAAATATT
1 TAAAATTTAATAAAAATTATT
*
37030102 TAAAATTTACTAAAAATT
1 TAAAATTTAATAAAAATT
37030120 GAAAAAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 6 0.19
20 9 0.29
21 16 0.52
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAAATTTAATAAAAATTATT
Found at i:37030446 original size:21 final size:19
Alignment explanation
Indices: 37030403--37030457 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
37030393 TTTTTCTATA
37030403 TTTCTATATATTTTATAATTT
1 TTTCTA-AT-TTTTATAATTT
37030424 TTTAC-AATTTTTATAATATTT
1 TTT-CTAATTTTTAT-A-ATTT
37030445 TTTCTAATTTTTA
1 TTTCTAATTTTTA
37030458 ATAAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 6 0.20
20 4 0.13
21 19 0.63
22 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTCTAATTTTTATAATTT
Found at i:37034510 original size:26 final size:26
Alignment explanation
Indices: 37034481--37034579 Score: 89
Period size: 25 Copynumber: 3.9 Consensus size: 26
37034471 AATTTTCTCG
*
37034481 AAATTTTACTGGAGGCAAAATTGCCA
1 AAATTTTACTGGAGGTAAAATTGCCA
* *
37034507 AAATTTTACCAGGA-GTAAAATAGCC-
1 AAATTTTA-CTGGAGGTAAAATTGCCA
** *
37034532 AAATTTTAC-CAATGGTAAAATTGTCA
1 AAATTTTACTGGA-GGTAAAATTGCCA
*
37034558 AAATTTTATTGG-GGTAAAATTG
1 AAATTTTACTGGAGGTAAAATTG
37034580 GGGTGAGAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 27 0.47
26 25 0.43
27 4 0.07
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (26 bp):
AAATTTTACTGGAGGTAAAATTGCCA
Found at i:37037475 original size:14 final size:14
Alignment explanation
Indices: 37037456--37037487 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
37037446 GGACGAATAC
*
37037456 ATTTCTCGATGTCG
1 ATTTCTCAATGTCG
37037470 ATTTCTCAATGTCG
1 ATTTCTCAATGTCG
37037484 ATTT
1 ATTT
37037488 TCTTGAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (14 bp):
ATTTCTCAATGTCG
Found at i:37043092 original size:26 final size:26
Alignment explanation
Indices: 37043013--37043094 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
37043003 GATGGTCACG
37043013 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * ***
37043039 CGTGTACTGGAATGAT--AGG-TCAC-A
1 TGTGTAGTACTATG-TGCAGGCT-ACTA
37043063 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
37043089 TGTGTA
1 TGTGTA
37043095 CCGGATAGTT
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
23 1 0.03
24 11 0.28
25 10 0.25
26 17 0.43
27 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:37043132 original size:101 final size:102
Alignment explanation
Indices: 37043008--37043194 Score: 326
Period size: 101 Copynumber: 1.8 Consensus size: 102
37042998 AAAGTGATGG
37043008 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CTGGAATGAT-A-GGTCACATGTGTAG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GG-ATGATAATGGTCACATGTGTAG
37043070 TACTATGTGCAGGCTACTATGTGTACCGGATAGTTTCGA
64 TACTATGTGCAGGCTACTATGTGTACCGGATAGTTTCGA
*
37043109 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGATAATGGTCACATGTGTAGTA
37043174 CTATGTGCAGGCTACTATGTG
66 CTATGTGCAGGCTACTATGTG
37043195 AACCAAACAT
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
100 4 0.05
101 40 0.49
102 38 0.46
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGTGTACCGGATAGTTTCGA
Found at i:37043138 original size:51 final size:51
Alignment explanation
Indices: 37043004--37043190 Score: 254
Period size: 51 Copynumber: 3.7 Consensus size: 51
37042994 AGTGAAAGTG
* * *
37043004 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
*
37043053 ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * *
37043104 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
37043156 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
37043191 TGTGAACCAA
Statistics
Matches: 121, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
49 2 0.02
50 41 0.34
51 76 0.63
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:37043194 original size:26 final size:26
Alignment explanation
Indices: 37043114--37043194 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
37043104 TTCGATCACG
37043114 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
37043140 CGTGTA-T-CGGATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
37043165 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
37043191 TGTG
1 TGTG
37043195 AACCAAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:37043252 original size:45 final size:45
Alignment explanation
Indices: 37043196--37043288 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
37043186 TACTATGTGA
* * *
37043196 ACCAAACATCATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCC
1 ACCAAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
* *
37043241 ACCAGACATCATTGATTAATAAGGTGGTTGCTATTTGCTGAATCC
1 ACCAAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
37043286 ACC
1 ACC
37043289 GAGTATCTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (45 bp):
ACCAAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:37045530 original size:30 final size:31
Alignment explanation
Indices: 37045455--37045531 Score: 101
Period size: 30 Copynumber: 2.6 Consensus size: 31
37045445 TTTTAAAATT
37045455 TTATAAAA-ATTC-AAA-A-ATAAATAAAAA
1 TTATAAAATATTCAAAATATATAAATAAAAA
*
37045482 TTATAAAATATTCCAAATATATAAAT-AAAA
1 TTATAAAATATTCAAAATATATAAATAAAAA
*
37045512 TTATAAAATATTGAAAATAT
1 TTATAAAATATTCAAAATAT
37045532 TACTAATCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 8 0.18
28 4 0.09
29 3 0.07
30 23 0.52
31 6 0.14
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (31 bp):
TTATAAAATATTCAAAATATATAAATAAAAA
Found at i:37052480 original size:22 final size:22
Alignment explanation
Indices: 37052451--37052514 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
37052441 AGTTAATGAA
37052451 AATG-AAATAACAATACTTGTTG
1 AATGAAAATAACAATAC-TGTTG
* *
37052473 AAT-AAAATAACAA-GCTATT-
1 AATGAAAATAACAATACTGTTG
37052492 AATGAAAATAACAATACATGTTG
1 AATGAAAATAACAATAC-TGTTG
37052515 TACACCTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
19 3 0.09
20 13 0.39
21 2 0.06
22 15 0.45
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (22 bp):
AATGAAAATAACAATACTGTTG
Found at i:37056012 original size:11 final size:12
Alignment explanation
Indices: 37055996--37056056 Score: 56
Period size: 11 Copynumber: 5.2 Consensus size: 12
37055986 TATCCAGAAA
37055996 TAATA-TTATTT
1 TAATATTTATTT
*
37056007 TAATATTTTAATAT
1 TAATA-TTT-ATTT
*
37056021 TAA-ATTTAATT
1 TAATATTTATTT
*
37056032 TAATATTTATCT
1 TAATATTTATTT
37056044 TAATA-TTATTT
1 TAATATTTATTT
37056055 TA
1 TA
37056057 TTAATTTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 17 0.43
12 14 0.35
13 3 0.08
14 6 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (12 bp):
TAATATTTATTT
Found at i:37056030 original size:12 final size:12
Alignment explanation
Indices: 37055996--37056050 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
37055986 TATCCAGAAA
*
37055996 TAATA-TTATTT
1 TAATATTTAATT
37056007 TAATATTTTAATAT
1 TAATA-TTTAAT-T
37056021 TAA-ATTTAATT
1 TAATATTTAATT
37056032 TAATATTT-ATCT
1 TAATATTTAAT-T
37056044 TAATATT
1 TAATATT
37056051 ATTTTATTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
11 11 0.29
12 18 0.47
13 5 0.13
14 4 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATATTTAATT
Found at i:37056035 original size:17 final size:17
Alignment explanation
Indices: 37056013--37056106 Score: 54
Period size: 17 Copynumber: 5.4 Consensus size: 17
37056003 ATTTTAATAT
37056013 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
*
37056030 TTTAATATT-TATCTTAA
1 TTTAATATTAAAT-TTAA
*
37056047 TATT-ATTTTATTAATTTAA
1 T-TTAATATTA--AATTTAA
37056066 --TAATATTAAAGTGATT-A
1 TTTAATATTAAA-T--TTAA
*
37056083 TCTTAATATTTAATTTAA
1 T-TTAATATTAAATTTAA
37056101 TTTAAT
1 TTTAAT
37056107 GATAAGGTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 26
0.66 0.06 0.29
Matches are distributed among these distances:
15 2 0.03
16 4 0.07
17 31 0.53
18 6 0.10
19 5 0.08
20 11 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:37065223 original size:17 final size:17
Alignment explanation
Indices: 37065201--37065238 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
37065191 TATTATTTAT
37065201 TTAATTAATTGAATTAA
1 TTAATTAATTGAATTAA
* *
37065218 TTAATTAATTTACTTAA
1 TTAATTAATTGAATTAA
37065235 TTAA
1 TTAA
37065239 ATTATTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
TTAATTAATTGAATTAA
Found at i:37074399 original size:42 final size:43
Alignment explanation
Indices: 37074339--37074457 Score: 152
Period size: 42 Copynumber: 2.8 Consensus size: 43
37074329 ATAGGATTCT
*
37074339 GATATGTGATTACATGTAAGACCATGTCTGGGACA-TCGGCGTC
1 GATATATGATTACATGTAAGACCATGTCTGGGACAGT-GGCGTC
* * * *
37074382 G-TATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCGTT
1 GATATATGATTACATGTAAGACCATGTCTGGGACAGTGGCGTC
* *
37074424 GATATTTGATTACATGTAAGACCACGTCTGGGAC
1 GATATATGATTACATGTAAGACCATGTCTGGGAC
37074458 GTTGGCATTG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 35 0.55
43 29 0.45
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
GATATATGATTACATGTAAGACCATGTCTGGGACAGTGGCGTC
Found at i:37077449 original size:23 final size:22
Alignment explanation
Indices: 37077415--37077460 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
37077405 AAAATTAATA
* * *
37077415 ACTTTTTTAAACAGTAGATGAT
1 ACTTTTTAAAACAATAAATGAT
37077437 ACTTTTTAAAAACAATAAATGAT
1 ACTTTTT-AAAACAATAAATGAT
37077460 A
1 A
37077461 ATTCTATTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (22 bp):
ACTTTTTAAAACAATAAATGAT
Found at i:37077836 original size:33 final size:33
Alignment explanation
Indices: 37077793--37077939 Score: 140
Period size: 31 Copynumber: 4.5 Consensus size: 33
37077783 TAAGTTATTA
37077793 TTTATATATCATTAAATTAAATTATTTAAATAT
1 TTTATATATCATTAAATTAAATTATTTAAATAT
* **
37077826 TTTATGTATCATTGTATTAAATTATTTAAATA-
1 TTTATATATCATTAAATTAAATTATTTAAATAT
* * *
37077858 -TAATTTATCATTATATTAAATTATTT-AA-AT
1 TTTATATATCATTAAATTAAATTATTTAAATAT
* * * ** *
37077888 TTTATTTATTATTATATTTACTTTTTTTAAATAT
1 TTTATATATCATTA-AATTAAATTATTTAAATAT
*
37077922 TTTATATATCATAAAATT
1 TTTATATATCATTAAATT
37077940 TTATAAATAA
Statistics
Matches: 92, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
29 1 0.01
30 2 0.02
31 34 0.37
32 8 0.09
33 34 0.37
34 13 0.14
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.56
Consensus pattern (33 bp):
TTTATATATCATTAAATTAAATTATTTAAATAT
Found at i:37077875 original size:31 final size:31
Alignment explanation
Indices: 37077794--37077905 Score: 143
Period size: 31 Copynumber: 3.5 Consensus size: 31
37077784 AAGTTATTAT
* *
37077794 TTATATATCATTAAATTAAATTATTTAAATA
1 TTATTTATCATTATATTAAATTATTTAAATA
* *
37077825 TTTTATGTATCATTGTATTAAATTATTTAAATA
1 --TTATTTATCATTATATTAAATTATTTAAATA
* *
37077858 TAATTTATCATTATATTAAATTATTTAAATT
1 TTATTTATCATTATATTAAATTATTTAAATA
*
37077889 TTATTTATTATTATATT
1 TTATTTATCATTATATT
37077906 TACTTTTTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
31 42 0.60
33 28 0.40
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (31 bp):
TTATTTATCATTATATTAAATTATTTAAATA
Found at i:37079324 original size:42 final size:44
Alignment explanation
Indices: 37079205--37079325 Score: 112
Period size: 39 Copynumber: 2.9 Consensus size: 44
37079195 AAAAAGTATA
* * *
37079205 TTTAATACAATAAAATATTTATTATATTTATCAA--TG---TTT
1 TTTAATATAATAAAATATTTAATATATTTATGAATGTGTTTTTT
* **
37079244 TTTAATATAATAAAATATTTATTATATTTATGGTTGTGTTTTTT
1 TTTAATATAATAAAATATTTAATATATTTATGAATGTGTTTTTT
* * *
37079288 TTTAATATAA-ATACTTTTTAATATATTT-TGAATGTGTT
1 TTTAATATAATAAAATATTTAATATATTTATGAATGTGTT
37079326 AAAGTGGTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
39 30 0.45
41 2 0.03
42 8 0.12
43 14 0.21
44 13 0.19
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (44 bp):
TTTAATATAATAAAATATTTAATATATTTATGAATGTGTTTTTT
Found at i:37088751 original size:20 final size:19
Alignment explanation
Indices: 37088728--37088769 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
37088718 TAAAGAAAGT
37088728 AAATGC-AATGGAAAGTAATG
1 AAATGCAAAT-GAAAGTAA-G
*
37088748 AAATTCAAATGAAAGTAAG
1 AAATGCAAATGAAAGTAAG
37088767 AAA
1 AAA
37088770 ATTTGGAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.57, C:0.05, G:0.19, T:0.19
Consensus pattern (19 bp):
AAATGCAAATGAAAGTAAG
Found at i:37089246 original size:15 final size:16
Alignment explanation
Indices: 37089228--37089257 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37089218 TGGTGTCTTG
37089228 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
37089243 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
37089258 AGCATGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:37095562 original size:32 final size:32
Alignment explanation
Indices: 37095508--37095587 Score: 119
Period size: 32 Copynumber: 2.5 Consensus size: 32
37095498 ATGCATGAAT
*
37095508 TAATT-AA-ATGCAGAACACATAATGTAAATCA
1 TAATTAAATATGCA-AACACATAATGCAAATCA
*
37095539 TAATTAAATATGCAAACACATAATGCAAGTCA
1 TAATTAAATATGCAAACACATAATGCAAATCA
37095571 TAATTAAATATGCAAAC
1 TAATTAAATATGCAAAC
37095588 TTATTAAATG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
31 5 0.11
32 35 0.78
33 5 0.11
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (32 bp):
TAATTAAATATGCAAACACATAATGCAAATCA
Found at i:37097458 original size:21 final size:21
Alignment explanation
Indices: 37097434--37097476 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
37097424 CTTTATATTT
37097434 TATAACTTATATGCATA-TCTA
1 TATAAC-TATATGCATATTCTA
* *
37097455 TATATCTATGTGCATATTCTA
1 TATAACTATATGCATATTCTA
37097476 T
1 T
37097477 TTTCATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.47
Consensus pattern (21 bp):
TATAACTATATGCATATTCTA
Found at i:37099252 original size:22 final size:22
Alignment explanation
Indices: 37099224--37099265 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
37099214 CATTAAAAAA
37099224 TTATTTTAAAAATAAAAAATTT
1 TTATTTTAAAAATAAAAAATTT
*
37099246 TTATTTTAAAATTAAAAAAT
1 TTATTTTAAAAATAAAAAAT
37099266 AAAAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTATTTTAAAAATAAAAAATTT
Found at i:37099805 original size:55 final size:55
Alignment explanation
Indices: 37099733--37099840 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
37099723 AGCTATAACT
* * * *
37099733 AAGTTTTCGTATTTCTAC-ATAAAGCTAAT-ATTTCTCATTATCATATAATTAAACA
1 AAGTTGTCGTATTTCTACAACAAAG-T-ATGATCTCTAATTATCATATAATTAAACA
37099788 AAGTTGTCGTATTTCTACAACAAAGTATGATCTCTAATTATCATATAATTAAA
1 AAGTTGTCGTATTTCTACAACAAAGTATGATCTCTAATTATCATATAATTAAA
37099841 ATAAGAGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
54 2 0.04
55 40 0.85
56 5 0.11
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (55 bp):
AAGTTGTCGTATTTCTACAACAAAGTATGATCTCTAATTATCATATAATTAAACA
Found at i:37100294 original size:2 final size:2
Alignment explanation
Indices: 37100258--37100286 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
37100248 TTAAAAATGG
37100258 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37100287 GCTATATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37106407 original size:21 final size:21
Alignment explanation
Indices: 37106368--37106416 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
37106358 AACAATTTTC
*
37106368 TTTT-TCCTTTTTTTCCCTCCT
1 TTTTCTCCTTTCTTTCCCT-CT
37106389 TTTTCTCCTTTCTTT-CCTCT
1 TTTTCTCCTTTCTTTCCCTCT
37106409 TTCTTCTC
1 TT-TTCTC
37106417 AACCCCATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 4 0.16
21 12 0.48
22 9 0.36
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTCTCCTTTCTTTCCCTCT
Found at i:37112183 original size:13 final size:13
Alignment explanation
Indices: 37112167--37112196 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
37112157 AGTGCTGCAA
37112167 AAAAATGCTTATG
1 AAAAATGCTTATG
*
37112180 AAAAATGCTTTTG
1 AAAAATGCTTATG
37112193 AAAA
1 AAAA
37112197 GCTTGGTCTG
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:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:37114050 original size:16 final size:18
Alignment explanation
Indices: 37114013--37114047 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
37114003 AATATTAAGA
37114013 ATTT-TATTAAATTATAT
1 ATTTATATTAAATTATAT
37114030 ATTTATATTAAATTATAT
1 ATTTATATTAAATTATAT
37114048 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATTAAATTATAT
Found at i:37114059 original size:16 final size:17
Alignment explanation
Indices: 37114020--37114065 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
37114010 AGAATTTTAT
* *
37114020 TAAATTATATATTTATAT
1 TAAATTATAT-TTAATAA
37114038 TAAATTATATTTAATAA
1 TAAATTATATTTAATAA
37114055 T-AATTAT-TTTA
1 TAAATTATATTTA
37114066 GATTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 6 0.23
18 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTATATTTAATAA
Found at i:37114061 original size:26 final size:25
Alignment explanation
Indices: 37114032--37114088 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
37114022 AATTATATAT
37114032 TTATATTAAATTATATTTAATAATAA
1 TTATATTAAATTATATTTAATAAT-A
* * * *
37114058 TTATTTTAGATTATATTTTATAGTA
1 TTATATTAAATTATATTTAATAATA
37114083 TTATAT
1 TTATAT
37114089 ATTATGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
TTATATTAAATTATATTTAATAATA
Found at i:37114147 original size:17 final size:17
Alignment explanation
Indices: 37114112--37114163 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
37114102 TAAATTTATA
*
37114112 TAAGAATATT-TTAATAT
1 TAAGAATTTTATTAA-AT
37114129 TAAGAATTTTATTAAAT
1 TAAGAATTTTATTAAAT
* *
37114146 T-ATATTTTTATTAAAT
1 TAAGAATTTTATTAAAT
37114162 TA
1 TA
37114164 TATTTAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 14 0.47
17 12 0.40
18 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
TAAGAATTTTATTAAAT
Found at i:37114156 original size:16 final size:16
Alignment explanation
Indices: 37114135--37114168 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
37114125 ATATTAAGAA
37114135 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
37114151 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
37114167 TT
1 TT
37114169 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTATTAAATTATAT
Found at i:37114167 original size:26 final size:26
Alignment explanation
Indices: 37114133--37114193 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
37114123 TAATATTAAG
* * *
37114133 AATTTTATTAAATTA-TATTTTTATTA
1 AATTATATTAAATAATTATTATT-TTA
*
37114159 AATTATATTTAATAATTATTATTTTA
1 AATTATATTAAATAATTATTATTTTA
37114185 AATTATATT
1 AATTATATT
37114194 TTATACTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 24 0.80
27 6 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
AATTATATTAAATAATTATTATTTTA
Found at i:37114177 original size:13 final size:13
Alignment explanation
Indices: 37114143--37114216 Score: 69
Period size: 15 Copynumber: 5.3 Consensus size: 13
37114133 AATTTTATTA
37114143 AATTATATTTTTATT
1 AATTATA-TTTTA-T
*
37114158 AAATTATATTTAAT
1 -AATTATATTTTAT
37114172 AATTATTATTTTA-
1 AATTA-TATTTTAT
37114185 AATTATATTTTAT
1 AATTATATTTTAT
*
37114198 ACTATTATATATTAT
1 A--ATTATATTTTAT
37114213 AATT
1 AATT
37114217 TTAGTAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
12 7 0.14
13 14 0.27
14 7 0.14
15 16 0.31
16 7 0.14
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (13 bp):
AATTATATTTTAT
Found at i:37114317 original size:120 final size:120
Alignment explanation
Indices: 37113936--37114550 Score: 921
Period size: 120 Copynumber: 5.1 Consensus size: 120
37113926 CCACAAAATC
* *
37113936 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAAAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
* *
37114001 TTAATATTAAGAATTTTATTAAATTATATA-TTTATATTAAATTATATTTAATAAT
66 TTAATATTAAGAATTTTATTAAATCATATATTTTA-ATTAAAATATATTTAATAAT
* *
37114056 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTTATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA-
* *
37114121 TTTAATATTAAGAATTTTATTAAAT--TATATTTTTATTAAATTATATTTAATAAT
65 TTTAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAT
* * *
37114175 TATTATTTTAAATTATATTTTATACTATTATATATTATAATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
*
37114240 TTAACATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAT
66 TTAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAT
* * * *
37114295 AATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTTAGTAAATTCAGATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
* * *
37114360 TGATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATGTATTTAATAAT
66 TTAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAT
* * *
37114415 AATTATGTTAAATTATATTTAATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
1 AATTATTTTAAATTATA--T--TTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
* * *
37114480 ATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT
62 ATATTTAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAT
*
37114539 AATTATGTTAAA
1 AATTATTTTAAA
37114551 ATATGATTAA
Statistics
Matches: 460, Mismatches: 27, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
118 24 0.05
119 83 0.18
120 218 0.47
121 25 0.05
122 1 0.00
124 109 0.24
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAT
Found at i:37114356 original size:239 final size:239
Alignment explanation
Indices: 37113936--37114544 Score: 925
Period size: 239 Copynumber: 2.5 Consensus size: 239
37113926 CCACAAAATC
* *
37113936 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAAAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
* *
37114001 TTAATATTAAGAATTTTATTAAATTATATA-TTTATATTAAATTATATTTAATAATAATTATTTT
66 TTAATATTAAGAATTTTATTAAATTATATATTTTA-ATTAAAATATATTTAATAATAATTATTTC
* * * * * *
37114065 AGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTTATATAAGAATATTTTAATATT
130 AAATTATATTTTATAGTATCATATATTATAATTTTAGTAAATTCAGATAAGAATA-TTGAATATT
* *
37114130 AAGAATTTTATTAAAT-TATATTTTTATTAAATTATATTTAATAAT
194 AAGAATTTTATTAAATATATATTTTAATTAAAATATATTTAATAAT
* * *
37114175 TATTATTTTAAATTATATTTTATACTATTATATATTATAATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
* *
37114240 TTAACATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCA
66 TTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCA
*
37114305 AATTATATTTTATAGTATCATATATTATAATTTTAGTAAATTCAGATAAGAATATTGATTATTAA
131 AATTATATTTTATAGTATCATATATTATAATTTTAGTAAATTCAGATAAGAATATTGAATATTAA
*
37114370 GAATTTTATTAAATCATATATTTTAATTAAAATGTATTTAATAAT
196 GAATTTTATTAAAT-ATATATTTTAATTAAAATATATTTAATAAT
* * *
37114415 AATTATGTTAAATTATATTTAATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
1 AATTATTTTAAATTATA--T--TTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
* *
37114480 ATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
62 ATATTTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
37114545 GTTAAAATAT
Statistics
Matches: 334, Mismatches: 29, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
238 23 0.07
239 165 0.49
240 45 0.13
242 1 0.00
244 100 0.30
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (239 bp):
AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCA
AATTATATTTTATAGTATCATATATTATAATTTTAGTAAATTCAGATAAGAATATTGAATATTAA
GAATTTTATTAAATATATATTTTAATTAAAATATATTTAATAAT
Found at i:37114524 original size:18 final size:17
Alignment explanation
Indices: 37114496--37114530 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37114486 ATTATTAAGA
*
37114496 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37114513 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37114531 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:37114784 original size:16 final size:16
Alignment explanation
Indices: 37114763--37114795 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
37114753 TTGATTTGCT
37114763 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
37114779 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
37114795 A
1 A
37114796 ATACAGCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:37116050 original size:10 final size:10
Alignment explanation
Indices: 37116028--37116065 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
37116018 TGATATGCTG
37116028 TAAAAAAAT-
1 TAAAAAAATA
*
37116037 TAAAAATATA
1 TAAAAAAATA
37116047 TAAAAAAATA
1 TAAAAAAATA
37116057 CTAAAAAAA
1 -TAAAAAAA
37116066 GTAGGTCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.32
10 9 0.36
11 8 0.32
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (10 bp):
TAAAAAAATA
Found at i:37116645 original size:31 final size:30
Alignment explanation
Indices: 37116600--37116687 Score: 83
Period size: 31 Copynumber: 3.0 Consensus size: 30
37116590 TTAATGATGC
*
37116600 ATAAAATATTTTAAA-AACTTAAATATAATA
1 ATAAATTATTTTAAACAA-TTAAATATAATA
* *
37116630 ATAAATTATATTTAAACAATTTAATATAATG
1 ATAAATTAT-TTTAAACAATTAAATATAATA
* * *
37116661 ATAAA-T-GTTTAAATAATTTAATATAAT
1 ATAAATTATTTTAAACAATTAAATATAAT
37116688 GTTACATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 19 0.37
30 9 0.18
31 21 0.41
32 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (30 bp):
ATAAATTATTTTAAACAATTAAATATAATA
Found at i:37116969 original size:30 final size:30
Alignment explanation
Indices: 37116933--37116994 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
37116923 TTATGAATTA
37116933 AAGAAAATTTCGAGTCTTAATCGAGCTTAC
1 AAGAAAATTTCGAGTCTTAATCGAGCTTAC
37116963 AAGAAAATTTCGAGTCTTAATCGAGCTTAC
1 AAGAAAATTTCGAGTCTTAATCGAGCTTAC
37116993 AA
1 AA
37116995 AAGCTCTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (30 bp):
AAGAAAATTTCGAGTCTTAATCGAGCTTAC
Found at i:37117487 original size:33 final size:33
Alignment explanation
Indices: 37117430--37117523 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 33
37117420 ACTCAAACTT
* * * *
37117430 TTACCTAGACCTTATGCATACAACAATCAATTC
1 TTACCTAGGCCATATACATGCAACAATCAATTC
*
37117463 TTACCTTA-GCCATATACATGCAACAATCGATTC
1 TTACC-TAGGCCATATACATGCAACAATCAATTC
*
37117496 TTACCTAGGTCATATACATGCAACAATC
1 TTACCTAGGCCATATACATGCAACAATC
37117524 TATTTCATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 2 0.04
33 49 0.92
34 2 0.04
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.30
Consensus pattern (33 bp):
TTACCTAGGCCATATACATGCAACAATCAATTC
Found at i:37117830 original size:2 final size:2
Alignment explanation
Indices: 37117823--37117864 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
37117813 ATTTACGAAG
37117823 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
37117865 TATATATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Done.