Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 30 of 349
Found at i:8267258 original size:31 final size:31
Alignment explanation
Indices: 8267220--8267461 Score: 362
Period size: 31 Copynumber: 7.8 Consensus size: 31
8267210 ACAAATGACA
8267220 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
8267251 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
8267282 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
8267313 AGTGAAAAGTGGTAGCTTCTGCTACTTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
8267344 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
8267375 AGTGAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* * *
8267406 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
8267437 AGT-AAATAGTGGTAGCTTCGACTAC
1 AGTGAAA-AGTGGTAGCTTCGGCTAC
8267462 AAGTGACAAG
Statistics
Matches: 191, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
30 4 0.02
31 186 0.97
32 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:8267637 original size:49 final size:47
Alignment explanation
Indices: 8267530--8267701 Score: 205
Period size: 49 Copynumber: 3.7 Consensus size: 47
8267520 TGCTCTTGTA
* * * *
8267530 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
*
8267576 CAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATT-CGTG
*
8267625 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATTCGTG
8267667 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
8267702 AGATGTGTAA
Statistics
Matches: 114, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
41 1 0.01
42 35 0.31
44 1 0.01
45 1 0.01
46 24 0.21
47 1 0.01
48 14 0.12
49 37 0.32
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
Found at i:8267668 original size:42 final size:43
Alignment explanation
Indices: 8267577--8267736 Score: 182
Period size: 42 Copynumber: 3.6 Consensus size: 43
8267567 TGATTCGTGC
*
8267577 AAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATTACGTGT
1 AAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T--GTGT
*
8267626 AAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTGT
1 AAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGTGT
*
8267668 AAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATGTGT
1 AAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGTGT
* **
8267710 AAGACCATAGTTGAACTATGGCATCGA
1 AAGACCATAGCTGGGCTATGGCATCGA
8267737 GAAAATAAAG
Statistics
Matches: 101, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
41 1 0.01
42 64 0.63
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 26 0.26
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
AAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGTGT
Found at i:8271644 original size:18 final size:16
Alignment explanation
Indices: 8271621--8271682 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 16
8271611 TCAGTAGCAT
8271621 TCAGTTACTCTATAACAG
1 TCAGTTA-TC-ATAACAG
8271639 TCAGTTATACAATAACAG
1 TCAGTTAT-C-ATAACAG
*
8271657 TCATTTATTCAGTAACAG
1 TCAGTTA-TCA-TAACAG
*
8271675 TCACTTAT
1 TCAGTTAT
8271683 TCTGCAGCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.08
18 34 0.89
19 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (16 bp):
TCAGTTATCATAACAG
Found at i:8271683 original size:18 final size:18
Alignment explanation
Indices: 8271632--8271684 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
8271622 CAGTTACTCT
* *
8271632 ATAACAGTCAGTTATACA
1 ATAACAGTCACTTATTCA
*
8271650 ATAACAGTCATTTATTCA
1 ATAACAGTCACTTATTCA
*
8271668 GTAACAGTCACTTATTC
1 ATAACAGTCACTTATTC
8271685 TGCAGCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAACAGTCACTTATTCA
Found at i:8285148 original size:2 final size:2
Alignment explanation
Indices: 8285141--8285165 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8285131 TTGCTTTAAA
8285141 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
8285166 CAACCTTTAT
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:8293969 original size:22 final size:23
Alignment explanation
Indices: 8293911--8293985 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
8293901 ATAAGTGCCA
8293911 CACTGATATGTAGCCGAAGCTA-
1 CACTGATATGTAGCCGAAGCTAC
*
8293933 AACATGATATGTAGCCGAAG-TAC
1 CAC-TGATATGTAGCCGAAGCTAC
*
8293956 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
8293979 CACTGAT
1 CACTGAT
8293986 CAATAACACT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
22 19 0.41
23 27 0.59
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:8294085 original size:8 final size:8
Alignment explanation
Indices: 8294072--8294100 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8294062 ACCCGGGACT
8294072 CACTGTAA
1 CACTGTAA
8294080 CACTGTAA
1 CACTGTAA
8294088 CACTGTAA
1 CACTGTAA
8294096 CACTG
1 CACTG
8294101 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:8301220 original size:23 final size:23
Alignment explanation
Indices: 8301194--8301269 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
8301184 ATAAGTGCCA
8301194 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
8301217 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
8301240 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
8301263 CACTGAT
1 CACTGAT
8301270 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:8301368 original size:8 final size:8
Alignment explanation
Indices: 8301355--8301383 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8301345 ACCCGGGACT
8301355 CACTGTAA
1 CACTGTAA
8301363 CACTGTAA
1 CACTGTAA
8301371 CACTGTAA
1 CACTGTAA
8301379 CACTG
1 CACTG
8301384 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:8301514 original size:18 final size:17
Alignment explanation
Indices: 8301488--8301526 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
8301478 ATTTTCCTTC
8301488 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
8301505 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
8301523 CACA
1 CACA
8301527 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:8303269 original size:19 final size:19
Alignment explanation
Indices: 8303247--8303283 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
8303237 AGACTTATGA
8303247 CATGTTTTAACTTTTATTG
1 CATGTTTTAACTTTTATTG
8303266 CATGTTTTAACTTTTATT
1 CATGTTTTAACTTTTATT
8303284 TTCTTTTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.08, T:0.59
Consensus pattern (19 bp):
CATGTTTTAACTTTTATTG
Found at i:8305211 original size:30 final size:30
Alignment explanation
Indices: 8305165--8305224 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
8305155 TTCCCGAGCC
*
8305165 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
8305195 TAGGGGTAAAAATGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
8305225 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:8310441 original size:32 final size:31
Alignment explanation
Indices: 8310381--8310464 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 31
8310371 TTAGTTGATG
* **
8310381 AAAAAAAATTGAA-TACCAATTTGGGATAAA
1 AAAAAAAATTCAAGTACCAATTTAAGATAAA
*
8310411 AAAAAAAACTTTAAGTACCAATTTAAGATAAA
1 AAAAAAAA-TTCAAGTACCAATTTAAGATAAA
* * *
8310443 TAAACAAATTCAAGTAACAATT
1 AAAAAAAATTCAAGTACCAATT
8310465 ATATATTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
30 8 0.18
31 16 0.36
32 21 0.47
ACGTcount: A:0.57, C:0.10, G:0.08, T:0.25
Consensus pattern (31 bp):
AAAAAAAATTCAAGTACCAATTTAAGATAAA
Found at i:8310464 original size:31 final size:32
Alignment explanation
Indices: 8310405--8310464 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
8310395 ACCAATTTGG
* *
8310405 GATAAAAAAAAAAACTTTAAGTACCAATTTAA
1 GATAAAAAAAAAAACTTCAAGTAACAATTTAA
* *
8310437 GATAAATAAACAAA-TTCAAGTAACAATT
1 GATAAAAAAAAAAACTTCAAGTAACAATT
8310465 ATATATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 12 0.50
32 12 0.50
ACGTcount: A:0.58, C:0.10, G:0.07, T:0.25
Consensus pattern (32 bp):
GATAAAAAAAAAAACTTCAAGTAACAATTTAA
Found at i:8311938 original size:25 final size:25
Alignment explanation
Indices: 8311910--8312028 Score: 95
Period size: 25 Copynumber: 4.7 Consensus size: 25
8311900 ATCGGATTAT
*
8311910 TTTTATATATATTTATTTTAACTTG
1 TTTTATATATATTTATTTTAAATTG
* **
8311935 TTTTATGTACT-TTTATTCGAAATTG
1 TTTTATATA-TATTTATTTTAAATTG
8311960 TTTTAT-TATA--TATTTTAAATTG
1 TTTTATATATATTTATTTTAAATTG
* *
8311982 CCTTATATATATTTATTTATTTCTAAATTA
1 --TT-T-TATATATATTTATTT-TAAATTG
8312012 TTTTATATATA-TTATTT
1 TTTTATATATATTTATTT
8312029 ATTTTAGATT
Statistics
Matches: 75, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
22 10 0.13
23 1 0.01
24 4 0.05
25 32 0.43
26 11 0.15
27 4 0.05
28 2 0.03
29 5 0.07
30 6 0.08
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTTATATATATTTATTTTAAATTG
Found at i:8312002 original size:29 final size:28
Alignment explanation
Indices: 8311963--8312034 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
8311953 GAAATTGTTT
* *
8311963 TATTATATATTTTAAATTGCCTTATATA
1 TATTATTTATTTTAAATTACCTTATATA
**
8311991 TATTTATTTATTTCTAAATTATTTTATATA
1 TA-TTATTTATTT-TAAATTACCTTATATA
8312021 TATTATTTATTTTA
1 TATTATTTATTTTA
8312035 GATTCTTTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 4 0.11
29 19 0.50
30 15 0.39
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (28 bp):
TATTATTTATTTTAAATTACCTTATATA
Found at i:8312197 original size:24 final size:25
Alignment explanation
Indices: 8312166--8312223 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
8312156 TAGTATATAA
*
8312166 ATTTTAAACTAACTT-ATATTACTT
1 ATTTTAAACTAACTTCATATGACTT
* * *
8312190 ATTTTAAA-TTATTTCATATGCCTT
1 ATTTTAAACTAACTTCATATGACTT
8312214 ATTTTAAACT
1 ATTTTAAACT
8312224 CTTTTCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.14
24 23 0.82
25 1 0.04
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTTTAAACTAACTTCATATGACTT
Found at i:8312288 original size:24 final size:25
Alignment explanation
Indices: 8312230--8312288 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
8312220 AACTCTTTTC
* *
8312230 ATTTATTTTAAATTTTATTATTATT
1 ATTTATTTTAAATTCTATTATTAAT
*
8312255 ATTTACTTTAATATTCT-TTA-TAAT
1 ATTTATTTTAA-ATTCTATTATTAAT
8312279 ATTTATTTTA
1 ATTTATTTTA
8312289 CACTTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 12 0.41
25 13 0.45
26 4 0.14
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (25 bp):
ATTTATTTTAAATTCTATTATTAAT
Found at i:8312318 original size:30 final size:31
Alignment explanation
Indices: 8312259--8312318 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
8312249 ATTATTATTT
* *
8312259 ACTTTAATATTCTTTATAATATTTATTTTAC
1 ACTTTAATATTCTATATAATATCTATTTTAC
* *
8312290 ACTTTTATATT-TATATATTATCTATTTTA
1 ACTTTAATATTCTATATAATATCTATTTTA
8312319 AAATTATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (31 bp):
ACTTTAATATTCTATATAATATCTATTTTAC
Found at i:8312325 original size:28 final size:26
Alignment explanation
Indices: 8312294--8312355 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 26
8312284 TTTTACACTT
8312294 TTATATTTATATATTATCTATTTTAAAA
1 TTATATTTATATA--ATCTATTTTAAAA
*
8312322 TTATA--TATATAATCTATTTTTAAA
1 TTATATTTATATAATCTATTTTAAAA
*
8312346 TCAT-TTTATA
1 TTATATTTATA
8312356 CATAGTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
24 15 0.50
25 4 0.13
26 6 0.20
28 5 0.17
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (26 bp):
TTATATTTATATAATCTATTTTAAAA
Found at i:8312336 original size:24 final size:24
Alignment explanation
Indices: 8312301--8312346 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
8312291 CTTTTATATT
*
8312301 TATATATTATCTATTTTAAAATTA
1 TATATATAATCTATTTTAAAATTA
*
8312325 TATATATAATCTATTTTTAAAT
1 TATATATAATCTATTTTAAAAT
8312347 CATTTTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATATAATCTATTTTAAAATTA
Found at i:8314642 original size:11 final size:11
Alignment explanation
Indices: 8314626--8314650 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8314616 GTGTCAATGG
8314626 TATATTAATAT
1 TATATTAATAT
8314637 TATATTAATAT
1 TATATTAATAT
8314648 TAT
1 TAT
8314651 TTATTAGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATTAATAT
Found at i:8316106 original size:17 final size:18
Alignment explanation
Indices: 8316066--8316106 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
8316056 CTTTTAATTT
*
8316066 TTTAAC-AAAAATTATGA
1 TTTAACAAAAAAATATGA
8316083 TTT-ACAAAAAAATAT-A
1 TTTAACAAAAAAATATGA
8316099 TTTAACAA
1 TTTAACAA
8316107 TAGAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (18 bp):
TTTAACAAAAAAATATGA
Found at i:8319792 original size:13 final size:13
Alignment explanation
Indices: 8319764--8319806 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
8319754 AATGTGTAAT
*
8319764 TTTATTATTATTAA
1 TTTATAATT-TTAA
8319778 TTTATAATTTTAA
1 TTTATAATTTTAA
8319791 TTT-TAAATTTTAA
1 TTTAT-AATTTTAA
8319804 TTT
1 TTT
8319807 GTAGGGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 1 0.04
13 18 0.67
14 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTATAATTTTAA
Found at i:8319888 original size:21 final size:22
Alignment explanation
Indices: 8319862--8319906 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
8319852 TTTAAATCAT
8319862 CGTTGTACT-AAAATATATAAA
1 CGTTGTACTAAAAATATATAAA
8319883 CGTTGTACTAAAAAATATATAAA
1 CGTTGTACT-AAAAATATATAAA
8319906 C
1 C
8319907 ATATATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.41
23 13 0.59
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (22 bp):
CGTTGTACTAAAAATATATAAA
Found at i:8326604 original size:17 final size:16
Alignment explanation
Indices: 8326582--8326614 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
8326572 TGTACTTGGT
8326582 AGAAAATAAAAGTGAGA
1 AGAAAATAAAA-TGAGA
8326599 AGAAAATAAAATGAGA
1 AGAAAATAAAATGAGA
8326615 GATCATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (16 bp):
AGAAAATAAAATGAGA
Found at i:8331537 original size:13 final size:15
Alignment explanation
Indices: 8331506--8331541 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
8331496 GTATTTAGTC
8331506 TTATTTTTATATATT
1 TTATTTTTATATATT
8331521 TTATTTTTAT-T-TT
1 TTATTTTTATATATT
8331534 TTATTTTT
1 TTATTTTT
8331542 GGGAATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.48
14 1 0.05
15 10 0.48
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTATTTTTATATATT
Found at i:8331610 original size:39 final size:39
Alignment explanation
Indices: 8331566--8331649 Score: 168
Period size: 39 Copynumber: 2.2 Consensus size: 39
8331556 TTTCTCTTTG
8331566 TTTTTCACGTTCTCCTTTTCCTTTTTGGCTTTTATTTTC
1 TTTTTCACGTTCTCCTTTTCCTTTTTGGCTTTTATTTTC
8331605 TTTTTCACGTTCTCCTTTTCCTTTTTGGCTTTTATTTTC
1 TTTTTCACGTTCTCCTTTTCCTTTTTGGCTTTTATTTTC
8331644 TTTTTC
1 TTTTTC
8331650 TCCTTTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.05, C:0.23, G:0.07, T:0.65
Consensus pattern (39 bp):
TTTTTCACGTTCTCCTTTTCCTTTTTGGCTTTTATTTTC
Found at i:8337407 original size:13 final size:13
Alignment explanation
Indices: 8337389--8337414 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8337379 CTATAAATGT
8337389 TTTTGCAATGTTG
1 TTTTGCAATGTTG
8337402 TTTTGCAATGTTG
1 TTTTGCAATGTTG
8337415 GGTAGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (13 bp):
TTTTGCAATGTTG
Found at i:8338169 original size:6 final size:6
Alignment explanation
Indices: 8338158--8338196 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
8338148 ACGTTAGTTC
*
8338158 TTTCTT TTTCTT TTTCCT TTTCTT TTTCTT TTT-TT TTTC
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC
8338197 GAATTTTCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:8338905 original size:62 final size:60
Alignment explanation
Indices: 8338802--8339022 Score: 262
Period size: 62 Copynumber: 3.5 Consensus size: 60
8338792 GTGTAGGTTT
8338802 CACACGGCCAAGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACTGTTTGGGGTATAAAAC
1 CACACGGCC-AGGACACGGGCGTGTGCCCAGGCC-TGTAACTCACTGTTTGGGGTATAAAAC
* * * *
8338864 CACACGGCCAGGAACACGGGCTTTTGTCCAGGCCATATAACTCACTGTTTGGGGTATAAAAC
1 CACACGGCCAGG-ACACGGGCGTGTGCCCAGGCC-TGTAACTCACTGTTTGGGGTATAAAAC
* * * * * *
8338926 CACACAGCCAGGGACACGGGCGTGTGCCCAAGACCTGTAACTTATTTTTTGGGGTATAAGAC
1 CACACGGCCA-GGACACGGGCGTGTGCCC-AGGCCTGTAACTCACTGTTTGGGGTATAAAAC
* *
8338988 CACACGGCCAAGGCACGCGGGTGTGTGCCCAGGCC
1 CACACGGCC-AGG-ACACGGGCGTGTGCCCAGGCC
8339023 GTGTGGTAAA
Statistics
Matches: 135, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
61 3 0.02
62 111 0.82
63 21 0.16
ACGTcount: A:0.24, C:0.28, G:0.29, T:0.19
Consensus pattern (60 bp):
CACACGGCCAGGACACGGGCGTGTGCCCAGGCCTGTAACTCACTGTTTGGGGTATAAAAC
Found at i:8339820 original size:26 final size:26
Alignment explanation
Indices: 8339791--8339840 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
8339781 ATTTGTTTTA
8339791 GAATGTTATGGATTTATGAAGATTAT
1 GAATGTTATGGATTTATGAAGATTAT
8339817 GAATGTTATGGATTTATGAAGATT
1 GAATGTTATGGATTTATGAAGATT
8339841 TTGTCTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (26 bp):
GAATGTTATGGATTTATGAAGATTAT
Found at i:8340661 original size:22 final size:22
Alignment explanation
Indices: 8340636--8340681 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
8340626 AACTTTCCAA
8340636 TAATCATAGAAATAACATACTT
1 TAATCATAGAAATAACATACTT
* * *
8340658 TAATCGTAGAAATAATATATTT
1 TAATCATAGAAATAACATACTT
8340680 TA
1 TA
8340682 CATGCTGGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (22 bp):
TAATCATAGAAATAACATACTT
Found at i:8341446 original size:14 final size:14
Alignment explanation
Indices: 8341427--8341453 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8341417 TGTTTAGATT
8341427 ATTTTAAAATTAAC
1 ATTTTAAAATTAAC
8341441 ATTTTAAAATTAA
1 ATTTTAAAATTAA
8341454 GACATTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTTTAAAATTAAC
Found at i:8343433 original size:20 final size:20
Alignment explanation
Indices: 8343395--8343431 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8343385 GTTCATCTAC
8343395 TTTTATTTCTTAGAATTTAG
1 TTTTATTTCTTAGAATTTAG
*
8343415 TTTTATTTTTTA-AATTT
1 TTTTATTTCTTAGAATTT
8343432 TAAAAACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTATTTCTTAGAATTTAG
Found at i:8358817 original size:92 final size:90
Alignment explanation
Indices: 8358632--8358797 Score: 226
Period size: 92 Copynumber: 1.8 Consensus size: 90
8358622 TCAAACTTTT
*
8358632 AAAAAAAACAATTAAGTCCCTCTTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAACGCAT
1 AAAAAAAACAATTAAGCCCCTCTTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAACGCAT
*
8358697 CAAAAAGGCCTTCAAACTTCTTCAA
66 CAAAAAGACCTTCAAACTTCTTCAA
* * * * * *
8358722 AAAAAAAAGTAATTAAGCCCCTGTTCTTCTTTT-CACTCAATTGGGTACTTGAACTTTCAAAATG
1 AAAAAAAA-CAATTAAGCCCCTCTT-TT-TTTTGCACTCAATTGAGCACTTAAACTTTCAAAACG
8358786 CATCAAAAAGAC
63 CATCAAAAAGAC
8358798 TCTAAATTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
90 8 0.12
91 13 0.20
92 40 0.62
93 4 0.06
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (90 bp):
AAAAAAAACAATTAAGCCCCTCTTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAACGCAT
CAAAAAGACCTTCAAACTTCTTCAA
Found at i:8358924 original size:26 final size:27
Alignment explanation
Indices: 8358888--8358939 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
8358878 AGAAAATTTA
8358888 TTAAATTTTAATAAAAA-TATAAAAAT
1 TTAAATTTTAATAAAAATTATAAAAAT
8358914 TTAAATTTTAATAAAAATTATAAAAA
1 TTAAATTTTAATAAAAATTATAAAAA
8358940 AAATTTAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
TTAAATTTTAATAAAAATTATAAAAAT
Found at i:8359209 original size:57 final size:56
Alignment explanation
Indices: 8359142--8359269 Score: 143
Period size: 57 Copynumber: 2.2 Consensus size: 56
8359132 TTCTTACAAC
*** *
8359142 TTTATAAAATTTTATGCTTTTTTATATTTCTATAT-A-CTTTATATTTTTTTTACGATT
1 TTTATAAAATTTTACAATTTTTTATATTT-TATATGATCTTTATATTTTTTCTA--ATT
* *
8359199 TTTATAAAATTTTACAATTTTTTATATTTTTTATGATTTTTATATTTTTTCTAATT
1 TTTATAAAATTTTACAATTTTTTATATTTTATATGATCTTTATATTTTTTCTAATT
*
8359255 TTTAATAAATTTTTA
1 TTT-ATAAAATTTTA
8359270 ATATTTGAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
56 10 0.16
57 37 0.61
58 14 0.23
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (56 bp):
TTTATAAAATTTTACAATTTTTTATATTTTATATGATCTTTATATTTTTTCTAATT
Found at i:8359213 original size:19 final size:20
Alignment explanation
Indices: 8359189--8359243 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
8359179 TTTATATTTT
8359189 TTTTACGATTTTTATA-AAA
1 TTTTACGATTTTTATATAAA
* **
8359208 TTTTACAATTTTT-TATATT
1 TTTTACGATTTTTATATAAA
*
8359227 TTTTATGATTTTTATAT
1 TTTTACGATTTTTATAT
8359244 TTTTTCTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 2 0.07
19 24 0.83
20 3 0.10
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (20 bp):
TTTTACGATTTTTATATAAA
Found at i:8359227 original size:9 final size:9
Alignment explanation
Indices: 8359215--8359258 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
8359205 AAATTTTACA
8359215 ATTTTTTAT
1 ATTTTTTAT
8359224 ATTTTTTAT
1 ATTTTTTAT
8359233 GA-TTTTTAT
1 -ATTTTTTAT
*
8359242 ATTTTTTCT
1 ATTTTTTAT
*
8359251 AATTTTTA
1 ATTTTTTA
8359259 ATAAATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 1 0.03
9 28 0.93
10 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:8359229 original size:18 final size:18
Alignment explanation
Indices: 8359188--8359257 Score: 52
Period size: 19 Copynumber: 3.8 Consensus size: 18
8359178 CTTTATATTT
* *
8359188 TTTTTACGATTTTTATAAA
1 TTTTTACAATTTTT-TATA
*
8359207 ATTTTACAATTTTTTATA
1 TTTTTACAATTTTTTATA
**
8359225 TTTTTTATGA-TTTTTATA
1 -TTTTTACAATTTTTTATA
*
8359243 TTTTTTCTAATTTTT
1 TTTTTAC-AATTTTT
8359258 AATAAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
17 5 0.13
18 12 0.31
19 22 0.56
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTACAATTTTTTATA
Found at i:8359258 original size:18 final size:18
Alignment explanation
Indices: 8359160--8359258 Score: 72
Period size: 18 Copynumber: 5.3 Consensus size: 18
8359150 ATTTTATGCT
* *
8359160 TTTTTATATTTCTATATAC
1 TTTTTATATTT-TTTATAA
* * **
8359179 TTTATATTTTTTTTACGA
1 TTTTTATATTTTTTATAA
** *
8359197 TTTTTATAAAATTTTACAA
1 TTTTTAT-ATTTTTTATAA
*
8359216 TTTTTTATATTTTTTATGA
1 -TTTTTATATTTTTTATAA
*
8359235 TTTTTATATTTTTTCTAA
1 TTTTTATATTTTTTATAA
8359253 TTTTTA
1 TTTTTA
8359259 ATAAATTTTT
Statistics
Matches: 61, Mismatches: 17, Indels: 5
0.73 0.20 0.06
Matches are distributed among these distances:
18 31 0.51
19 23 0.38
20 7 0.11
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTATATTTTTTATAA
Found at i:8359280 original size:26 final size:28
Alignment explanation
Indices: 8359251--8359303 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
8359241 TATTTTTTCT
*
8359251 AATTTTTAAT-AAATTT-TTAATATTTG
1 AATTTTTAATAAAATTTAATAATATTTG
*
8359277 AATTTTTATTAAAATTTAATAATATTT
1 AATTTTTAATAAAATTTAATAATATTT
8359304 TTAGCTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 6 0.26
28 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
AATTTTTAATAAAATTTAATAATATTTG
Found at i:8361057 original size:36 final size:36
Alignment explanation
Indices: 8361011--8361083 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
8361001 CGTTTAATGC
* *
8361011 TTAAATTTATGGTCTTTTAAATTCAAATTTTATTGT
1 TTAAAATTATGATCTTTTAAATTCAAATTTTATTGT
8361047 TTAAAATTATGATCTTTTAAATTCAAATTTTATTGT
1 TTAAAATTATGATCTTTTAAATTCAAATTTTATTGT
8361083 T
1 T
8361084 GATGGGATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (36 bp):
TTAAAATTATGATCTTTTAAATTCAAATTTTATTGT
Found at i:8361632 original size:13 final size:13
Alignment explanation
Indices: 8361614--8361638 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8361604 ATAATGGAGT
8361614 TTAAAATTAAAAA
1 TTAAAATTAAAAA
8361627 TTAAAATTAAAA
1 TTAAAATTAAAA
8361639 CAAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAAATTAAAAA
Found at i:8364377 original size:15 final size:15
Alignment explanation
Indices: 8364350--8364392 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8364340 GTTTGATAAA
*
8364350 TTGAAAAATTAAGTG
1 TTGAAAAATTAAGAG
8364365 TTGAACAAA-TAAGAG
1 TTGAA-AAATTAAGAG
*
8364380 TTGGAAAATTAAG
1 TTGAAAAATTAAG
8364393 TACTGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.21, T:0.28
Consensus pattern (15 bp):
TTGAAAAATTAAGAG
Found at i:8364842 original size:31 final size:31
Alignment explanation
Indices: 8364794--8364867 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
8364784 TAGAAAATAT
* *
8364794 TAAATTAATTTTAATTTATTAAAAAGTTGAGA
1 TAAATT-ATCTTAATTTATTAAAAAGTTGAAA
8364826 TAAATTATCTTAATTTATTAAAAAGTTGAAA
1 TAAATTATCTTAATTTATTAAAAAGTTGAAA
8364857 TAAATTATCTT
1 TAAATTATCTT
8364868 TTTTTAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 34 0.85
32 6 0.15
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (31 bp):
TAAATTATCTTAATTTATTAAAAAGTTGAAA
Found at i:8367933 original size:44 final size:44
Alignment explanation
Indices: 8367883--8368188 Score: 227
Period size: 44 Copynumber: 6.8 Consensus size: 44
8367873 AGGATTTAGT
* * * *
8367883 TTCAATCTACTCCACTACAACTTTAAGGAGATAAGGCTTGTAAC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAAC
* * *
8367927 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAAC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAAC
* * * * *
8367971 TTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTTTGAC
1 -T-T--C---AATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAAC
* * * * * * * *
8368022 CTCAATATACTCCACTACAACTTCAAGGAGATTAGATTTATAGC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAAC
* * * *
8368066 TTTAATCTGCTTCACTGTAACTTCAGGGAGATAAGACTTGTAAC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAAC
* * * * * *
8368110 TTCAATCTTCTCCACTGCAACTTTAGGGAGATTAGATTTATAGC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAAC
* * * * *
8368154 TTTAATCTGCTCTATTGCAACTTTA-GGAGATAAGA
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA
8368189 TTCACTATGG
Statistics
Matches: 208, Mismatches: 47, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
43 9 0.04
44 159 0.76
45 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 1 0.00
51 35 0.17
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (44 bp):
TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAAC
Found at i:8367995 original size:51 final size:51
Alignment explanation
Indices: 8367919--8368016 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
8367909 GGAGATAAGG
* * *
8367919 CTTGTAACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAA
1 CTTGTAACTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGTAA
* * *
8367970 CTTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTT
1 CTTGTAACTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTT
8368017 TTGACCTCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (51 bp):
CTTGTAACTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGTAA
Found at i:8368176 original size:88 final size:88
Alignment explanation
Indices: 8367886--8368188 Score: 304
Period size: 88 Copynumber: 3.4 Consensus size: 88
8367876 ATTTAGTTTC
* * * * * * *
8367886 AATCTACTCCACTACAACTTTAAGGAGATAAGGCTTGTAACTTCAATCTGCTCCACTGCAACTTT
1 AATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTACTCCACTGCAACTTT
*
8367951 AGGGAGATAAGATTTGTAACTTGTAGCTTT
66 AGGGAGATTAGA-TT-T-A----TAGCTTT
** * * * * * * * * *
8367981 AATCTATTCCACTGCAACTTCAGGGAAATAAGATTTTTGACCTCAATATACTCCACTACAACTTC
1 AATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTACTCCACTGCAACTTT
*
8368046 AAGGAGATTAGATTTATAGCTTT
66 AGGGAGATTAGATTTATAGCTTT
* *
8368069 AATCTGCT-TCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAATCTTCTCCACTGCAACTT
1 AATCTGCTCT-ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTACTCCACTGCAACTT
8368133 TAGGGAGATTAGATTTATAGCTTT
65 TAGGGAGATTAGATTTATAGCTTT
* *
8368157 AATCTGCTCTATTGCAACTTTA-GGAGATAAGA
1 AATCTGCTCTACTGCAACTTCAGGGAGATAAGA
8368189 TTCACTATGG
Statistics
Matches: 173, Mismatches: 33, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
87 10 0.06
88 97 0.56
89 1 0.01
92 1 0.01
93 1 0.01
94 2 0.01
95 61 0.35
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (88 bp):
AATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTACTCCACTGCAACTTT
AGGGAGATTAGATTTATAGCTTT
Found at i:8368484 original size:13 final size:13
Alignment explanation
Indices: 8368466--8368491 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8368456 AACGTATATG
8368466 AATGTATATGAAT
1 AATGTATATGAAT
8368479 AATGTATATGAAT
1 AATGTATATGAAT
8368492 GTTATTCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
AATGTATATGAAT
Found at i:8371860 original size:28 final size:27
Alignment explanation
Indices: 8371797--8371948 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
8371787 ATTTTAAGTC
* * *
8371797 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
8371824 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
8371852 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
8371879 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
8371907 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
8371934 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
8371949 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:8371881 original size:55 final size:55
Alignment explanation
Indices: 8371797--8371948 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
8371787 ATTTTAAGTC
* * *
8371797 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
8371852 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
8371907 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
8371949 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:8382462 original size:4 final size:4
Alignment explanation
Indices: 8382445--8382479 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
8382435 TATAGATTGT
* *
8382445 ATAC ATAC AAAC ATAC ATAC ATTC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
8382480 TATATATGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:8399306 original size:15 final size:15
Alignment explanation
Indices: 8399286--8399316 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8399276 TGAATCAAAG
8399286 TTTTGTCTCTTGATA
1 TTTTGTCTCTTGATA
8399301 TTTTGTCTCTTGATA
1 TTTTGTCTCTTGATA
8399316 T
1 T
8399317 ATGGAAAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.61
Consensus pattern (15 bp):
TTTTGTCTCTTGATA
Found at i:8407194 original size:2 final size:2
Alignment explanation
Indices: 8407187--8407218 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
8407177 GAATTTGAAT
*
8407187 TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8407219 CCTGTACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:8421114 original size:21 final size:21
Alignment explanation
Indices: 8421090--8421129 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
8421080 CACCGGGCTT
8421090 CAACACCCTCA-CCATCTCCCC
1 CAACACCCTCATCC-TCTCCCC
8421111 CAACACCCTCATCCTCTCC
1 CAACACCCTCATCCTCTCC
8421130 GCCGCTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.23, C:0.60, G:0.00, T:0.17
Consensus pattern (21 bp):
CAACACCCTCATCCTCTCCCC
Found at i:8423428 original size:23 final size:24
Alignment explanation
Indices: 8423364--8423430 Score: 109
Period size: 25 Copynumber: 2.8 Consensus size: 24
8423354 ACTTAAAGAA
*
8423364 AAATATTTAAAAATATTATATGAT
1 AAATGTTTAAAAATATTATATGAT
8423388 AAATGTTTAAAAAATATTATATGAT
1 AAATGTTT-AAAAATATTATATGAT
8423413 AAATGTTT-AAAATATTAT
1 AAATGTTTAAAAATATTAT
8423431 CCTTCTTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
23 10 0.24
24 7 0.17
25 24 0.59
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (24 bp):
AAATGTTTAAAAATATTATATGAT
Found at i:8425118 original size:81 final size:81
Alignment explanation
Indices: 8425025--8425177 Score: 297
Period size: 81 Copynumber: 1.9 Consensus size: 81
8425015 TATTAAAATA
*
8425025 TTGATAAAAATATAGATGAAATTATAAAATATTTCATTTAAAGAACAGTAAAAATTAGAAAATAT
1 TTGATAAAAATATAGATGAAATTATAAAATATTTCATTTAAAGAACAATAAAAATTAGAAAATAT
8425090 ATAGTCAGGCTCAATT
66 ATAGTCAGGCTCAATT
8425106 TTGATAAAAATATAGATGAAATTATAAAATATTTCATTTAAAGAACAATAAAAATTAGAAAATAT
1 TTGATAAAAATATAGATGAAATTATAAAATATTTCATTTAAAGAACAATAAAAATTAGAAAATAT
8425171 ATAGTCA
66 ATAGTCA
8425178 AGCTTAAAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (81 bp):
TTGATAAAAATATAGATGAAATTATAAAATATTTCATTTAAAGAACAATAAAAATTAGAAAATAT
ATAGTCAGGCTCAATT
Found at i:8426604 original size:16 final size:16
Alignment explanation
Indices: 8426585--8426615 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8426575 TTTCAATTTG
8426585 GACTGTAAATTGGACC
1 GACTGTAAATTGGACC
8426601 GACTGTAAATTGGAC
1 GACTGTAAATTGGAC
8426616 TGTTAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (16 bp):
GACTGTAAATTGGACC
Found at i:8430495 original size:15 final size:15
Alignment explanation
Indices: 8430467--8430513 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
8430457 TGATTATATA
*
8430467 AAAAAATTTAATAAAT
1 AAAAAATAT-ATAAAT
8430483 AAAAAATATATAAAAT
1 AAAAAATATAT-AAAT
*
8430499 AAAACA-ATATAAAT
1 AAAAAATATATAAAT
8430513 A
1 A
8430514 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 5 0.18
15 6 0.21
16 17 0.61
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAAATATATAAAT
Found at i:8435748 original size:14 final size:15
Alignment explanation
Indices: 8435721--8435752 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8435711 AATGATCATA
8435721 TTCCAAATTTTTTTC
1 TTCCAAATTTTTTTC
8435736 TTCCAAATTTTTTTC
1 TTCCAAATTTTTTTC
8435751 TT
1 TT
8435753 TCTTTCTTTT
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:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (15 bp):
TTCCAAATTTTTTTC
Found at i:8437086 original size:23 final size:24
Alignment explanation
Indices: 8437051--8437096 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
8437041 GTCTTTATAT
*
8437051 TTTTTATTAATTTATATATTATCA
1 TTTTAATTAATTTATATATTATCA
*
8437075 TTTTAATT-ATTTTTATATTATC
1 TTTTAATTAATTTATATATTATC
8437097 TAATTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTAATTAATTTATATATTATCA
Found at i:8437224 original size:20 final size:18
Alignment explanation
Indices: 8437183--8437226 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
8437173 TTTTTTTCGA
8437183 AATTTTATGATATTTAAT
1 AATTTTATGATATTTAAT
8437201 AATTTTGATAGAT-TTTATAT
1 AATTTT-AT-GATATTTA-AT
8437221 AATTTT
1 AATTTT
8437227 CAAAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
AATTTTATGATATTTAAT
Found at i:8443383 original size:18 final size:19
Alignment explanation
Indices: 8443348--8443384 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8443338 ATTATTAAGA
8443348 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
8443367 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
8443385 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:8443654 original size:17 final size:16
Alignment explanation
Indices: 8443620--8443672 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
8443610 GATTAGCTAT
*
8443620 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
8443636 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
8443653 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
8443669 TACA
1 TACA
8443673 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 19 0.54
17 16 0.46
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:8444191 original size:29 final size:25
Alignment explanation
Indices: 8444159--8444220 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 25
8444149 AATTTCAAAT
8444159 AATTTATTTTCAATTATTTTATTTTTTAA
1 AATTTATTTTC-ATTA--TTA-TTTTTAA
*
8444188 AATTTTATTTTCATTATTATTTTTAT
1 AA-TTTATTTTCATTATTATTTTTAA
8444214 AATTTAT
1 AATTTAT
8444221 AAGTTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 5 0.16
26 8 0.26
27 3 0.10
29 6 0.19
30 9 0.29
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (25 bp):
AATTTATTTTCATTATTATTTTTAA
Found at i:8445194 original size:24 final size:24
Alignment explanation
Indices: 8445167--8445234 Score: 66
Period size: 27 Copynumber: 2.7 Consensus size: 24
8445157 ATAACTCTTT
8445167 TATGTATATAAATAAAATA-ATAAA
1 TATGTATATAAATAAAATATAT-AA
*
8445191 TATGTAATTATATAATAAAATATATAT
1 TATGT-A-TATA-AATAAAATATATAA
* *
8445218 TATATATAAAAATAAAA
1 TATGTATATAAATAAAA
8445235 GATTTATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
24 12 0.32
25 4 0.11
26 5 0.14
27 14 0.38
28 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (24 bp):
TATGTATATAAATAAAATATATAA
Found at i:8445207 original size:19 final size:19
Alignment explanation
Indices: 8445183--8445228 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
8445173 TATAAATAAA
*
8445183 ATAAT-AAATATGTAATTAT
1 ATAATAAAATATAT-ATTAT
8445202 ATAATAAAATATATATTAT
1 ATAATAAAATATATATTAT
8445221 AT-ATAAAA
1 ATAATAAAA
8445229 ATAAAAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 6 0.24
19 12 0.48
20 7 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
ATAATAAAATATATATTAT
Found at i:8445242 original size:24 final size:22
Alignment explanation
Indices: 8445190--8445251 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
8445180 AAAATAATAA
* *
8445190 ATATGTAATTATATAATAAAATAT
1 ATAT-TAATTA-AAAATAAAAGAT
8445214 ATATTATATATAAAAATAAAAGAT
1 ATATTA-AT-TAAAAATAAAAGAT
*
8445238 TTATTAATTAAAAA
1 ATATTAATTAAAAA
8445252 GATAAATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 6 0.18
23 4 0.12
24 21 0.64
25 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (22 bp):
ATATTAATTAAAAATAAAAGAT
Found at i:8446804 original size:34 final size:35
Alignment explanation
Indices: 8446752--8446861 Score: 113
Period size: 34 Copynumber: 3.2 Consensus size: 35
8446742 AATATGAGAT
* *
8446752 ATTTATAATAGATTAATACGGTAACATTTAATATG
1 ATTTATAATAGATCAATACGGTAACAATTAATATG
8446787 ATTT-TAATAGATCAATACGGTAACAATTAATAT-
1 ATTTATAATAGATCAATACGGTAACAATTAATATG
* * **
8446820 ACTTATAACA-ATTCAATAAAGTAGA-AATTAATATG
1 ATTTATAATAGA-TCAATACGGTA-ACAATTAATATG
8446855 -TTTATAA
1 ATTTATAA
8446862 CAAATCAACT
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
33 4 0.06
34 55 0.86
35 5 0.08
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.37
Consensus pattern (35 bp):
ATTTATAATAGATCAATACGGTAACAATTAATATG
Found at i:8449738 original size:11 final size:11
Alignment explanation
Indices: 8449714--8449756 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
8449704 TTCTAATACG
*
8449714 TATATATATTA
1 TATATATTTTA
*
8449725 TATGTATTTTA
1 TATATATTTTA
* *
8449736 TATATATTATG
1 TATATATTTTA
8449747 TATATATTTT
1 TATATATTTT
8449757 TAATGCCATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TATATATTTTA
Found at i:8449892 original size:3 final size:3
Alignment explanation
Indices: 8449884--8449935 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
8449874 GATGTGTATA
* ** * *
8449884 TAT TAT TAT TACT AAT TAT TAT TAT TGC TAG TAT TAT TAT AAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8449930 TAT TAT
1 TAT TAT
8449936 GTTAGTGTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:8449905 original size:16 final size:15
Alignment explanation
Indices: 8449884--8449923 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
8449874 GATGTGTATA
*
8449884 TATTATTATTACTAAT
1 TATTATTATTACT-AG
*
8449900 TATTATTATTGCTAG
1 TATTATTATTACTAG
8449915 TATTATTAT
1 TATTATTAT
8449924 AATTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (15 bp):
TATTATTATTACTAG
Found at i:8450099 original size:23 final size:26
Alignment explanation
Indices: 8450069--8450124 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 26
8450059 TTTTTTTGTA
8450069 TATATTATTCAT-ACTA-T-CA-TTAT
1 TATATTATT-ATCACTATTACATTTAT
8450092 TATATTATTATCACTATTACATTTAT
1 TATATTATTATCACTATTACATTTAT
8450118 TATATTA
1 TATATTA
8450125 GTATTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 2 0.07
23 13 0.45
24 1 0.03
25 2 0.07
26 11 0.38
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.54
Consensus pattern (26 bp):
TATATTATTATCACTATTACATTTAT
Found at i:8451904 original size:55 final size:55
Alignment explanation
Indices: 8451838--8451950 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
8451828 TGCAATCATT
8451838 TTATTCTTAAGTAATACAATACATTTGAGAGTATTTATTCAAATACGTGGTGTGC
1 TTATTCTTAAGTAATACAATACATTTGAGAGTATTTATTCAAATACGTGGTGTGC
8451893 TTATTCTTAAGTAATACAATACATTTGAGAGTATTTATTCAAATACGTGGTGTGC
1 TTATTCTTAAGTAATACAATACATTTGAGAGTATTTATTCAAATACGTGGTGTGC
8451948 TTA
1 TTA
8451951 ATTTTCTTAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (55 bp):
TTATTCTTAAGTAATACAATACATTTGAGAGTATTTATTCAAATACGTGGTGTGC
Found at i:8466959 original size:40 final size:40
Alignment explanation
Indices: 8466900--8466983 Score: 161
Period size: 40 Copynumber: 2.1 Consensus size: 40
8466890 ACCTCCAATG
8466900 CTTA-CCATATGCAAGAAATCAAAATGCAATAATTTACAA
1 CTTAGCCATATGCAAGAAATCAAAATGCAATAATTTACAA
8466939 CTTAGCCATATGCAAGAAATCAAAATGCAATAATTTACAA
1 CTTAGCCATATGCAAGAAATCAAAATGCAATAATTTACAA
8466979 CTTAG
1 CTTAG
8466984 TTCAGATTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 4 0.09
40 40 0.91
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (40 bp):
CTTAGCCATATGCAAGAAATCAAAATGCAATAATTTACAA
Found at i:8469921 original size:9 final size:9
Alignment explanation
Indices: 8469897--8469933 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8469887 TGAGTTTTCG
*
8469897 AATTCAAAT
1 AATTCGAAT
*
8469906 AACTCGAAT
1 AATTCGAAT
8469915 AATTCGAAT
1 AATTCGAAT
8469924 AATTCGAAT
1 AATTCGAAT
8469933 A
1 A
8469934 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8471198 original size:25 final size:25
Alignment explanation
Indices: 8471164--8471215 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
8471154 TGATTTGGAG
*
8471164 AATGACTATTTCTTGGTAAAGTTCC
1 AATGAATATTTCTTGGTAAAGTTCC
*
8471189 AATGAATATTTCTTGGTCAAGTTCC
1 AATGAATATTTCTTGGTAAAGTTCC
8471214 AA
1 AA
8471216 AATGATGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (25 bp):
AATGAATATTTCTTGGTAAAGTTCC
Found at i:8472196 original size:16 final size:16
Alignment explanation
Indices: 8472175--8472205 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8472165 AAAGGAAAAA
8472175 TGTGACAGTAAATATT
1 TGTGACAGTAAATATT
8472191 TGTGACAGTAAATAT
1 TGTGACAGTAAATAT
8472206 ATTATCTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (16 bp):
TGTGACAGTAAATATT
Found at i:8475257 original size:46 final size:46
Alignment explanation
Indices: 8475197--8475470 Score: 415
Period size: 46 Copynumber: 6.0 Consensus size: 46
8475187 TTTGACATGA
* * * * *
8475197 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** * *
8475243 TGCCATGGTATCTTTCAACTATGGTCTTGTTCATTTCATATTACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
8475289 TGCCATGGTATCTTTCAACCATGGTCTTACGCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
8475335 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
8475381 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
8475427 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
8475471 AGAGCACACT
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 209 0.98
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:8476652 original size:17 final size:17
Alignment explanation
Indices: 8476627--8476660 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8476617 ATAGGACTCC
*
8476627 AAAATTTTAAGAATTTT
1 AAAACTTTAAGAATTTT
8476644 AAAACTTTAAGAATTTT
1 AAAACTTTAAGAATTTT
8476661 TGGTTTATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
AAAACTTTAAGAATTTT
Found at i:8480772 original size:25 final size:26
Alignment explanation
Indices: 8480744--8480809 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 26
8480734 CACTACCGAT
8480744 CAGGATGCTCGTAGGA-ACCATATAA
1 CAGGATGCTCGTAGGAGACCATATAA
* ** *
8480769 CAGGAAGCTCG-A-GAGGGCTTATAA
1 CAGGATGCTCGTAGGAGACCATATAA
8480793 CAGGATGCTCGTAGGAG
1 CAGGATGCTCGTAGGAG
8480810 TTATGGTGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
23 2 0.06
24 17 0.52
25 11 0.33
26 3 0.09
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (26 bp):
CAGGATGCTCGTAGGAGACCATATAA
Found at i:8481146 original size:21 final size:21
Alignment explanation
Indices: 8481122--8481163 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8481112 AACTTAACAC
* *
8481122 CAATTTAATAAAATTCACATT
1 CAATTCAACAAAATTCACATT
*
8481143 CAATTCAACCAAATTCACATT
1 CAATTCAACAAAATTCACATT
8481164 TAGGCAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (21 bp):
CAATTCAACAAAATTCACATT
Found at i:8483543 original size:18 final size:19
Alignment explanation
Indices: 8483502--8483552 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
8483492 TTTTAGAATT
* *
8483502 ATTTTATATATTTTTTAGA
1 ATTTTATATATTTTTAAAA
*
8483521 TTTTTA-ATATTTTTAAAA
1 ATTTTATATATTTTTAAAA
8483539 ATTTTATA-ATTTTT
1 ATTTTATATATTTTT
8483553 TTCAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 21 0.78
19 6 0.22
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTTATATATTTTTAAAA
Found at i:8483582 original size:18 final size:19
Alignment explanation
Indices: 8483561--8483597 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8483551 TTTTCAAAAA
8483561 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
8483579 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
8483598 AAAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:8493511 original size:19 final size:19
Alignment explanation
Indices: 8493487--8493526 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
8493477 TAGGTCTCAA
8493487 CAACATGAAGAGGCAAAAG
1 CAACATGAAGAGGCAAAAG
*
8493506 CAACATGAAGAGGTAAAAG
1 CAACATGAAGAGGCAAAAG
8493525 CA
1 CA
8493527 TTTATTGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.15, G:0.25, T:0.07
Consensus pattern (19 bp):
CAACATGAAGAGGCAAAAG
Found at i:8498781 original size:13 final size:13
Alignment explanation
Indices: 8498763--8498823 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
8498753 TTGGCGATAT
8498763 TTTTGAAAAGTAG-
1 TTTTGAAAAGT-GC
*
8498776 TTTTGAGAAGTG-
1 TTTTGAAAAGTGC
* *
8498788 TTGTGAAAAATTGC
1 TTTTG-AAAAGTGC
*
8498802 TTTTGAGAAGTGC
1 TTTTGAAAAGTGC
8498815 TTTTGAAAA
1 TTTTGAAAA
8498824 CTTTAATTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 5 0.13
13 29 0.76
14 4 0.11
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:8508367 original size:14 final size:15
Alignment explanation
Indices: 8508348--8508385 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
8508338 TGCTACCACT
8508348 AAAAT-ATTTTTCAA
1 AAAATAATTTTTCAA
*
8508362 AAAATAATTTTT-GA
1 AAAATAATTTTTCAA
8508376 AAAATAATTT
1 AAAATAATTT
8508386 ATTTTTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (15 bp):
AAAATAATTTTTCAA
Found at i:8508520 original size:20 final size:20
Alignment explanation
Indices: 8508497--8508536 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8508487 CTATTTTTAA
8508497 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
8508517 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
8508537 TTTAAATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTAATAAATTTATAT
Found at i:8508541 original size:16 final size:18
Alignment explanation
Indices: 8508492--8508536 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
8508482 AAAAACTATT
* *
8508492 TTTAAATATATTAATAAA
1 TTTATATATTTTAATAAA
8508510 TTTATATATATATTAATAAA
1 TTTATATAT-T-TTAATAAA
8508530 TTTATAT
1 TTTATAT
8508537 TTTAAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
20 15 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATTTTAATAAA
Found at i:8509406 original size:15 final size:15
Alignment explanation
Indices: 8509386--8509437 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
8509376 ACCAGAAAAC
8509386 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
8509401 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
8509420 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
8509435 ATT
1 ATT
8509438 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:8509508 original size:13 final size:13
Alignment explanation
Indices: 8509466--8509511 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
8509456 TAATAGATCA
*
8509466 AAAATATTATTTA
1 AAAATATTATTTT
8509479 AAAATATTATTTCT
1 AAAATATTATTT-T
8509493 AAAAT-TTATTATT
1 AAAATATTATT-TT
8509506 AAAATA
1 AAAATA
8509512 AAATTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 23 0.79
14 6 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATATTATTTT
Found at i:8509539 original size:20 final size:20
Alignment explanation
Indices: 8509514--8509553 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8509504 TTAAAATAAA
*
8509514 ATTAAAATATTAAATAATTT
1 ATTAAAATAATAAATAATTT
*
8509534 ATTAAAATAATAAATTATTT
1 ATTAAAATAATAAATAATTT
8509554 TAATAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAAAATAATAAATAATTT
Found at i:8509546 original size:34 final size:33
Alignment explanation
Indices: 8509501--8509639 Score: 91
Period size: 29 Copynumber: 4.3 Consensus size: 33
8509491 CTAAAATTTA
8509501 TTATTAAAAT-A-AAATTAAAATATTAAATAAT
1 TTATTAAAATAATAAATTAAAATATTAAATAAT
*
8509532 TTATTAAAATAATAAATT---AT-TTTAATAAT
1 TTATTAAAATAATAAATTAAAATATTAAATAAT
*
8509561 TTATT-ATATGAATAAA-TATAAATAATTAAATATAT
1 TTATTAAAAT-AATAAATTA-AAAT-ATTAAATA-AT
* * *
8509596 ATTTTTAATAATATTTTAAATTAAAATTTTAAAT-AT
1 -TTATTAA-AATA--ATAAATTAAAATATTAAATAAT
8509632 TT-TTAAAA
1 TTATTAAAA
8509640 ATAAAAGTAA
Statistics
Matches: 85, Mismatches: 7, Indels: 30
0.70 0.06 0.25
Matches are distributed among these distances:
28 4 0.05
29 19 0.22
30 2 0.02
31 10 0.12
32 3 0.04
33 7 0.08
34 10 0.12
35 4 0.05
36 6 0.07
37 2 0.02
38 8 0.09
39 8 0.09
40 2 0.02
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (33 bp):
TTATTAAAATAATAAATTAAAATATTAAATAAT
Found at i:8509574 original size:16 final size:15
Alignment explanation
Indices: 8509526--8509575 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
8509516 TAAAATATTA
*
8509526 AATAATTTATTAAAAT
1 AATAATTTATT-ATAT
*
8509542 AATAAATTATT-T-T
1 AATAATTTATTATAT
8509555 AATAATTTATTATAT
1 AATAATTTATTATAT
8509570 GAATAA
1 -AATAA
8509576 ATATAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 11 0.39
14 1 0.04
15 1 0.04
16 15 0.54
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
AATAATTTATTATAT
Found at i:8511590 original size:14 final size:13
Alignment explanation
Indices: 8511571--8511600 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
8511561 CTGCAATATC
8511571 ATGTATGTATGTGT
1 ATGTATGTAT-TGT
8511585 ATGTATGTATTGT
1 ATGTATGTATTGT
8511598 ATG
1 ATG
8511601 CCAACTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (13 bp):
ATGTATGTATTGT
Found at i:8512606 original size:15 final size:15
Alignment explanation
Indices: 8512586--8512619 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8512576 GAATTGAACA
8512586 AAATTTAGAA-CACAC
1 AAATTTAGAATC-CAC
8512601 AAATTTAGAATCCAC
1 AAATTTAGAATCCAC
8512616 AAAT
1 AAAT
8512620 ATAATAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.94
16 1 0.06
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (15 bp):
AAATTTAGAATCCAC
Found at i:8516823 original size:18 final size:18
Alignment explanation
Indices: 8516798--8516836 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
8516788 AAATTTTATC
*
8516798 AATTTTTAAAACATTATTAA
1 AATTTATAAAA-A-TATTAA
8516818 AATTTATAAAAATATTAA
1 AATTTATAAAAATATTAA
8516836 A
1 A
8516837 TAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 10 0.56
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTATAAAAATATTAA
Found at i:8516928 original size:31 final size:30
Alignment explanation
Indices: 8516885--8516943 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
8516875 AGTTAACTCC
8516885 AAAATTTATTTATTTATATATTTATTTTCT
1 AAAATTTATTTATTTATATATTTATTTTCT
* *
8516915 AAAATATTATTTATTTTTATTTTTATTTT
1 AAAAT-TTATTTATTTATATATTTATTTT
8516944 GATAAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (30 bp):
AAAATTTATTTATTTATATATTTATTTTCT
Found at i:8518459 original size:21 final size:21
Alignment explanation
Indices: 8518435--8518511 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
8518425 GTGTGGATCT
8518435 ACATGACC-ATGTGAAGGCAAC
1 ACATG-CCTATGTGAAGGCAAC
* *
8518456 ACATGCCTGTGTGAAGGCCAC
1 ACATGCCTATGTGAAGGCAAC
* ** *
8518477 ACACGCCCGTGTGGAGAG-AAC
1 ACATGCCTATGTGAAG-GCAAC
*
8518498 ACACGCCTATGTGA
1 ACATGCCTATGTGA
8518512 GCAGCCCGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 2 0.04
21 42 0.93
22 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
ACATGCCTATGTGAAGGCAAC
Found at i:8521370 original size:25 final size:26
Alignment explanation
Indices: 8521321--8521375 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
8521311 AATGATGACG
8521321 AAAACAATAATAATAGCAATAGTA-T
1 AAAACAATAATAATAGCAATAGTATT
* *
8521346 AAAACGATAATAATA-CATATGGTATT
1 AAAACAATAATAATAGCA-ATAGTATT
8521372 AAAA
1 AAAA
8521376 TATCTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.08
25 19 0.73
26 5 0.19
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.25
Consensus pattern (26 bp):
AAAACAATAATAATAGCAATAGTATT
Found at i:8530779 original size:20 final size:20
Alignment explanation
Indices: 8530754--8530804 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
8530744 GTGTGTGTCT
8530754 CCTCCACATGGGCGTGTAGG
1 CCTCCACATGGGCGTGTAGG
8530774 CCTCCACATGGGCGTGTAGG
1 CCTCCACATGGGCGTGTAGG
*
8530794 CCTCTACATGG
1 CCTCCACATGG
8530805 CCGGGGCACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.16, C:0.31, G:0.31, T:0.22
Consensus pattern (20 bp):
CCTCCACATGGGCGTGTAGG
Found at i:8533675 original size:23 final size:24
Alignment explanation
Indices: 8533649--8533709 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
8533639 TGCCTTTAGA
*
8533649 TTAAATT-AATTAA-TGATTAATGT
1 TTAAATTAAATTAATTAATTAA-GT
8533672 TT-AATTAAATTAATTAATTAAGT
1 TTAAATTAAATTAATTAATTAAGT
*
8533695 TTAATTATAAATTAA
1 TTAAAT-TAAATTAA
8533710 ACTAATCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 4 0.12
23 12 0.38
24 8 0.25
25 8 0.25
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (24 bp):
TTAAATTAAATTAATTAATTAAGT
Found at i:8537159 original size:13 final size:13
Alignment explanation
Indices: 8537141--8537173 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
8537131 GAGGTATTGC
8537141 TTGTCTCTCATCT
1 TTGTCTCTCATCT
8537154 TTG--TCTCATCT
1 TTGTCTCTCATCT
8537165 TTGTCTCTC
1 TTGTCTCTC
8537174 TCCATAGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.61
13 7 0.39
ACGTcount: A:0.06, C:0.30, G:0.09, T:0.55
Consensus pattern (13 bp):
TTGTCTCTCATCT
Found at i:8537289 original size:50 final size:50
Alignment explanation
Indices: 8537231--8537332 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
8537221 TGTTAAATTT
8537231 AATACCCCTTAACCTACCCTTGAGTCGTGCAAATCGAATCAAACCCCTCG
1 AATACCCCTTAACCTACCCTTGAGTCGTGCAAATCGAATCAAACCCCTCG
8537281 AATACCCCTTAACCTACCCTTGAGTCGTGCAAATCGAATCAAACCCCTCG
1 AATACCCCTTAACCTACCCTTGAGTCGTGCAAATCGAATCAAACCCCTCG
8537331 AA
1 AA
8537333 ACACTTCAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.31, C:0.35, G:0.12, T:0.22
Consensus pattern (50 bp):
AATACCCCTTAACCTACCCTTGAGTCGTGCAAATCGAATCAAACCCCTCG
Found at i:8538578 original size:23 final size:25
Alignment explanation
Indices: 8538552--8538598 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8538542 TATCATTCAT
*
8538552 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
8538575 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
8538599 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:8538921 original size:46 final size:46
Alignment explanation
Indices: 8538869--8539159 Score: 393
Period size: 46 Copynumber: 6.5 Consensus size: 46
8538859 TGTCATAGTG
* * * *
8538869 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
**** * *
8538915 TCTTTCAACCATGGTCTTATTTTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* *
8538961 TCTTTCAACCATGGTCTTACACATCTCATATTAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
8539007 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGATA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
8539053 TCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
8539091 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
8539137 TCTTTCAACCATGGTCTTACACA
1 TCTTTCAACCATGGTCTTACACA
8539160 CAGGTTGCCA
Statistics
Matches: 219, Mismatches: 17, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
38 32 0.15
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 173 0.79
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:8539093 original size:38 final size:38
Alignment explanation
Indices: 8539038--8539197 Score: 230
Period size: 38 Copynumber: 4.0 Consensus size: 38
8539028 CATTTCATAT
*
8539038 CAGGTTGCCATGATATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
8539076 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
8539121 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
8539160 CAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
8539198 TTTCATATCA
Statistics
Matches: 112, Mismatches: 2, Indels: 16
0.86 0.02 0.12
Matches are distributed among these distances:
38 69 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 33 0.29
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:8539139 original size:84 final size:84
Alignment explanation
Indices: 8538993--8539208 Score: 414
Period size: 84 Copynumber: 2.6 Consensus size: 84
8538983 ATCTCATATT
8538993 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGATATCTTT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGATATCTTT
8539058 CAACCATGGTCTTACACAC
66 CAACCATGGTCTTACACAC
*
8539077 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGATATCTTT
8539142 CAACCATGGTCTTACACAC
66 CAACCATGGTCTTACACAC
*
8539161 AGGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
8539209 AGAGCACACT
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 130 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (84 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGATATCTTT
CAACCATGGTCTTACACAC
Found at i:8543218 original size:11 final size:11
Alignment explanation
Indices: 8543192--8543246 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
8543182 AAACATAATA
8543192 ATAGTAT-TAC
1 ATAGTATATAC
*
8543202 AAAGTATATAC
1 ATAGTATATAC
8543213 ATAGTAT-TA-
1 ATAGTATATAC
* *
8543222 AAAATATATAC
1 ATAGTATATAC
*
8543233 ATAATATATAC
1 ATAGTATATAC
8543244 ATA
1 ATA
8543247 TTAGAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
9 5 0.14
10 10 0.27
11 22 0.59
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (11 bp):
ATAGTATATAC
Found at i:8543231 original size:20 final size:21
Alignment explanation
Indices: 8543192--8543244 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
8543182 AAACATAATA
*
8543192 ATAGTATTACAAAGTATATAC
1 ATAGTATTACAAAATATATAC
8543213 ATAGTATTA-AAAATATATAC
1 ATAGTATTACAAAATATATAC
*
8543233 ATAATATATACA
1 ATAGTAT-TACA
8543245 TATTAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 16 0.57
21 11 0.39
22 1 0.04
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.34
Consensus pattern (21 bp):
ATAGTATTACAAAATATATAC
Found at i:8543341 original size:26 final size:23
Alignment explanation
Indices: 8543295--8543435 Score: 75
Period size: 26 Copynumber: 6.1 Consensus size: 23
8543285 TACTACATAA
8543295 ATATACATATATATATTAAAAAT
1 ATATACATATATATATTAAAAAT
*
8543318 ATATACATAATAATGATATTAAAAGT
1 ATATACAT-AT-AT-ATATTAAAAAT
** * *
8543344 AGGTACGTA-ATATAGTGT-TAAA-
1 ATATACATATATATA-T-TAAAAAT
*
8543366 A-ATACATA-ATATAAT-AAAAT
1 ATATACATATATATATTAAAAAT
*
8543386 ATATGA-ATAATACGATATTAAAAAT
1 ATAT-ACAT-ATA-TATATTAAAAAT
8543411 ATATTACATA-ATATA-TAAAAAT
1 ATA-TACATATATATATTAAAAAT
8543433 ATA
1 ATA
8543436 ATATTTAAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 29
0.68 0.10 0.22
Matches are distributed among these distances:
19 4 0.04
20 1 0.01
21 14 0.15
22 16 0.18
23 17 0.19
24 8 0.09
25 13 0.14
26 18 0.20
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (23 bp):
ATATACATATATATATTAAAAAT
Found at i:8543423 original size:68 final size:70
Alignment explanation
Indices: 8543292--8543462 Score: 164
Period size: 68 Copynumber: 2.5 Consensus size: 70
8543282 TAATACTACA
* * * * * *
8543292 TAAATATACATATATATATTAAAAATATATACATAATAATGATATTAAAAGTAGGTACGTAATAT
1 TAAAAATACATATATATAATAAAAATATATACATAATAACGATATTAAAAATAAGTACATAATAT
8543357 AGTGT
66 AGTGT
*
8543362 TAAAAATACATA-ATATAAT-AAAATATATGA-ATAAT-ACGATATTAAAAATATATTACATAAT
1 TAAAAATACATATATATAATAAAAATATAT-ACATAATAACGATATTAAAAATA-AGTACATAAT
8543423 ATA----
64 ATAGTGT
* *
8543426 TAAAAATATA-ATATTTAA-AAAAATAATATACATAATA
1 TAAAAATACATATATATAATAAAAAT-ATATACATAATA
8543463 TAATATTAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
63 1 0.01
64 20 0.24
65 9 0.11
67 13 0.15
68 24 0.28
69 7 0.08
70 11 0.13
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (70 bp):
TAAAAATACATATATATAATAAAAATATATACATAATAACGATATTAAAAATAAGTACATAATAT
AGTGT
Found at i:8543425 original size:37 final size:39
Alignment explanation
Indices: 8543361--8543464 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 39
8543351 TAATATAGTG
* *
8543361 TTAAAAATACATAATATA-ATAAAATATATGAATAATACGATA-
1 TTAAAAA-A-ATAATATACAT--AATATAT-AAAAATACAATAT
* *
8543403 TTAAAAATAT-AT-TACATAATATATAAAAATATAATAT
1 TTAAAAAAATAATATACATAATATATAAAAATACAATAT
8543440 TTAAAAAAATAATATACATAATATA
1 TTAAAAAAATAATATACATAATATA
8543465 ATATTAATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
36 9 0.17
37 16 0.30
38 4 0.08
39 15 0.28
40 2 0.04
42 7 0.13
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (39 bp):
TTAAAAAAATAATATACATAATATATAAAAATACAATAT
Found at i:8543438 original size:15 final size:15
Alignment explanation
Indices: 8543418--8543468 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
8543408 AATATATTAC
8543418 ATAATATATAAAAAT
1 ATAATATATAAAAAT
* *
8543433 ATAATATTTAAAAAA
1 ATAATATATAAAAAT
* *
8543448 ATAATATA-CATAAT
1 ATAATATATAAAAAT
8543462 ATAATAT
1 ATAATAT
8543469 TAATATATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 10 0.33
15 20 0.67
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAATATATAAAAAT
Found at i:8544000 original size:29 final size:29
Alignment explanation
Indices: 8543941--8544018 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 29
8543931 TAATTAAAAA
* * *
8543941 ATAATACTATATATAAATATATATACATAT
1 ATAATAATA-ATAAAAATATACATACATAT
*
8543971 A-CATAGATAATAAAAATATACACTAC-TAT
1 ATAATA-ATAATAAAAATATACA-TACATAT
*
8544000 ATAATAATAATAATAATAT
1 ATAATAATAATAAAAATAT
8544019 TGAAATACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
29 30 0.77
30 9 0.23
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.35
Consensus pattern (29 bp):
ATAATAATAATAAAAATATACATACATAT
Found at i:8544098 original size:128 final size:129
Alignment explanation
Indices: 8543869--8544143 Score: 321
Period size: 128 Copynumber: 2.1 Consensus size: 129
8543859 AACAATGATA
* *
8543869 ATAATAATAGTAATAATATTAAAATATAAAAAAGAACAATATAATATATAAAAATAATAAAGTAA
1 ATAATAATAATAATAATATTAAAATACAAAAAAGAACAATATAATATATAAAAATAATAAAGTAA
* *
8543934 TTAAAAAATAATACTATATATAAATATATATACATATACATAGATAATAAAAATATACACTACTA
66 GTAAAAAATAATACTATATATAAATATATATACATATACATAGATAAT-AAAA-ATACACTAATA
8543999 T
129 T
* * * *
8544000 ATAATAATAATAATAATATTGAAATAC--AAAA-AA-AATGTAGTATAATAAAAATATTTAAA-T
1 ATAATAATAATAATAATATTAAAATACAAAAAAGAACAATATAATAT-ATAAAAATA-ATAAAGT
* * **
8544060 AAAGTAATAAAA-AATACTATGTATAAA-ATATATACATATACATATATGGTAAAAATACACTAA
64 -AAGTAA-AAAATAATACTATATATAAATATATATACATATACATAGATAATAAAAATACACTAA
8544123 TAT
127 TAT
* *
8544126 ATAATACTAATACTAATA
1 ATAATAATAATAATAATA
8544144 CATTAATAAA
Statistics
Matches: 126, Mismatches: 14, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
126 27 0.21
127 12 0.10
128 32 0.25
129 27 0.21
130 4 0.03
131 24 0.19
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (129 bp):
ATAATAATAATAATAATATTAAAATACAAAAAAGAACAATATAATATATAAAAATAATAAAGTAA
GTAAAAAATAATACTATATATAAATATATATACATATACATAGATAATAAAAATACACTAATAT
Found at i:8544311 original size:3 final size:3
Alignment explanation
Indices: 8544219--8544293 Score: 107
Period size: 3 Copynumber: 25.3 Consensus size: 3
8544209 AAAATAGAAT
* * * *
8544219 ATA ATT ATA ATA GTA ATA TTA ACA A-A ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8544266 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8544294 GAAGTTAAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Done.