Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 72 of 226
Found at i:27012413 original size:24 final size:24
Alignment explanation
Indices: 27012368--27012413 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
27012358 ATACCTCTAA
*
27012368 AATAATAGCAAAATTAATAATAAT
1 AATAATAGCAAAATTAACAATAAT
*
27012392 AATAATAG-AAAGTTATACAATA
1 AATAATAGCAAAATTA-ACAATA
27012414 TTCAAACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (24 bp):
AATAATAGCAAAATTAACAATAAT
Found at i:27042868 original size:7 final size:8
Alignment explanation
Indices: 27042848--27042874 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
27042838 TTGAATCAGG
27042848 ATTTTTTA
1 ATTTTTTA
27042856 ATTTTTTA
1 ATTTTTTA
27042864 ATTTTTTA
1 ATTTTTTA
27042872 ATT
1 ATT
27042875 AAATTGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTTTA
Found at i:27044245 original size:16 final size:18
Alignment explanation
Indices: 27044206--27044239 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27044196 AAAGTTTATA
27044206 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
27044223 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
27044240 AATTTAAAAC
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:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:27044379 original size:5 final size:5
Alignment explanation
Indices: 27044369--27044411 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
27044359 TTATTAAATA
* * *
27044369 ATAAT ATAAT ATAAT ATAAT ATAAA AAAATT AAAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT AT
27044412 GGGTGGACCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:27045141 original size:9 final size:9
Alignment explanation
Indices: 27045127--27045175 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
27045117 GTAGTGATTC
*
27045127 AATTTGGTT
1 AATTCGGTT
*
27045136 AATTTGGTT
1 AATTCGGTT
*
27045145 AATTCGGGT
1 AATTCGGTT
*
27045154 AATTCGGGT
1 AATTCGGTT
27045163 AATTCGGTT
1 AATTCGGTT
27045172 AATT
1 AATT
27045176 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:27046841 original size:15 final size:17
Alignment explanation
Indices: 27046810--27046841 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
27046800 GTCCTGTTTG
27046810 TTCTTAATTTCATAAAT
1 TTCTTAATTTCATAAAT
27046827 TTCTT-ATTT-ATAAAT
1 TTCTTAATTTCATAAAT
27046842 CTTATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (17 bp):
TTCTTAATTTCATAAAT
Found at i:27047698 original size:28 final size:28
Alignment explanation
Indices: 27047667--27047727 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
27047657 CTCGAAGTTC
**
27047667 AAAACCTCAAATCCGCAATTTGAAATTT
1 AAAACCTCAAATCCAAAATTTGAAATTT
* *
27047695 AAAACTTCAAATCTAAAATTTGAAATTT
1 AAAACCTCAAATCCAAAATTTGAAATTT
27047723 AAAAC
1 AAAAC
27047728 TTAAAACCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAACCTCAAATCCAAAATTTGAAATTT
Found at i:27047706 original size:14 final size:14
Alignment explanation
Indices: 27047689--27047729 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
27047679 CCGCAATTTG
27047689 AAATTTAAAACTTC
1 AAATTTAAAACTTC
* * *
27047703 AAATCTAAAATTTG
1 AAATTTAAAACTTC
27047717 AAATTTAAAACTT
1 AAATTTAAAACTT
27047730 AAAACCCAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (14 bp):
AAATTTAAAACTTC
Found at i:27047740 original size:28 final size:28
Alignment explanation
Indices: 27047683--27047740 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
27047673 TCAAATCCGC
* * *
27047683 AATTTGAAATTTAAAACTTCAAATCTAA
1 AATTTGAAATTTAAAACTTAAAACCCAA
27047711 AATTTGAAATTTAAAACTTAAAACCCAA
1 AATTTGAAATTTAAAACTTAAAACCCAA
27047739 AA
1 AA
27047741 AAAATTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.31
Consensus pattern (28 bp):
AATTTGAAATTTAAAACTTAAAACCCAA
Found at i:27048013 original size:30 final size:29
Alignment explanation
Indices: 27047980--27048035 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
27047970 AAAAACCTTT
27047980 TTTTTTCAA-TATTTACCGAAATGGGCCGG
1 TTTTTT-AATTATTTACCGAAATGGGCCGG
*
27048009 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATTATTTACCGAAATGGGCC
27048036 ATTTTCAGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (29 bp):
TTTTTTAATTATTTACCGAAATGGGCCGG
Found at i:27049013 original size:29 final size:29
Alignment explanation
Indices: 27048979--27049034 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
27048969 CGCGGAAAAT
27048979 GGCCCATTCCGGTAAATAATT-AAAAAACC
1 GGCCCATTCCGGTAAAT-ATTGAAAAAACC
**
27049008 GGCCCATTTTGGTAAATATTGAAAAAA
1 GGCCCATTCCGGTAAATATTGAAAAAA
27049035 AGGGCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATATTGAAAAAACC
Found at i:27055108 original size:22 final size:22
Alignment explanation
Indices: 27055080--27055124 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
27055070 CTACAAGGGG
27055080 TATGCTTTACTTTATTTATCTA
1 TATGCTTTACTTTATTTATCTA
27055102 TATGCTTTACTTTATTTATCTA
1 TATGCTTTACTTTATTTATCTA
27055124 T
1 T
27055125 CTTTCGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.60
Consensus pattern (22 bp):
TATGCTTTACTTTATTTATCTA
Found at i:27065523 original size:23 final size:23
Alignment explanation
Indices: 27065484--27065528 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
27065474 TTAAAATCTA
*
27065484 AAAAATAGAAAGATTAATTTTCT
1 AAAAATAGAAAGATTAAATTTCT
*
27065507 AAAAATA-AAAGGCTTAAATTTC
1 AAAAATAGAAA-GATTAAATTTC
27065529 AAATGCACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (23 bp):
AAAAATAGAAAGATTAAATTTCT
Found at i:27071349 original size:21 final size:18
Alignment explanation
Indices: 27071325--27071370 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 18
27071315 ATATAAAAAC
27071325 TATAATATTTTTATGAATAAA
1 TATAATATTTTTAT-AAT--A
*
27071346 TATATTATTTTTATAATA
1 TATAATATTTTTATAATA
27071364 TATAATA
1 TATAATA
27071371 CAGATACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 7 0.30
20 3 0.13
21 13 0.57
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TATAATATTTTTATAATA
Found at i:27071363 original size:20 final size:21
Alignment explanation
Indices: 27071316--27071363 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
27071306 TAAGTTATGA
27071316 TATAA-AAACTATAATATTTT
1 TATAATAAACTATAATATTTT
*
27071336 TATGAATAAA-TATATTATTTT
1 TAT-AATAAACTATAATATTTT
27071357 TATAATA
1 TATAATA
27071364 TATAATACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 15 0.60
22 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TATAATAAACTATAATATTTT
Found at i:27073583 original size:24 final size:24
Alignment explanation
Indices: 27073555--27073606 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
27073545 TTCGTAGGTC
* *
27073555 AAATAAATTATGCTAATAAATATT
1 AAATAAATTATACTAATAAATACT
*
27073579 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
27073603 AAAT
1 AAAT
27073607 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:27074031 original size:18 final size:17
Alignment explanation
Indices: 27074008--27074041 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
27073998 TCATATTATT
27074008 AATAATTATACATTTAAA
1 AATAATTATA-ATTTAAA
27074026 AATAATTATAATTTAA
1 AATAATTATAATTTAA
27074042 TAGAAGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAATTATAATTTAAA
Found at i:27078380 original size:20 final size:19
Alignment explanation
Indices: 27078355--27078410 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 19
27078345 AATAAACACC
27078355 AAAAAA-ATTTTAGAAAATTA
1 AAAAAAGATTTTA-AAAA-TA
27078375 AAAAAAGTATTTTAAAAAT-
1 AAAAAAG-ATTTTAAAAATA
27078394 AAAAAAGTATTTTAAAA
1 AAAAAAG-ATTTTAAAA
27078411 TATTTTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
19 17 0.50
20 7 0.21
21 4 0.12
22 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAAAAGATTTTAAAAATA
Found at i:27078397 original size:19 final size:21
Alignment explanation
Indices: 27078361--27078410 Score: 77
Period size: 19 Copynumber: 2.4 Consensus size: 21
27078351 CACCAAAAAA
27078361 ATTTTAGAAAATTAAAAAAAGT
1 ATTTTA-AAAATTAAAAAAAGT
27078383 ATTTTAAAAA-T-AAAAAAGT
1 ATTTTAAAAATTAAAAAAAGT
27078402 ATTTTAAAA
1 ATTTTAAAA
27078411 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.61
20 1 0.04
21 4 0.14
22 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (21 bp):
ATTTTAAAAATTAAAAAAAGT
Found at i:27079854 original size:91 final size:91
Alignment explanation
Indices: 27079712--27079916 Score: 256
Period size: 91 Copynumber: 2.3 Consensus size: 91
27079702 CACTCAAGTT
* * * * * *
27079712 TTTTCAAAAAAAGCAATTAAGTCCCTGTTTTTTTTTTTGCACTCATTTGGGTACTTGAACTTTCA
1 TTTTCAAAAAAAGCAATTAAGCCCCTGCTCTTTTTTTTGCAATCAATTGGGTACTTGAACTTCCA
27079777 AAATG-TATCAAAAAAGCCCTTAAACC
66 AAATGCT-TCAAAAAAGCCCTTAAACC
27079803 TTTTCAAGAAAAAGCAATTAAGCCCCTGCTCTTTTTTTT-CAATCAATTGGGTACTTGAACTTCC
1 TTTTCAA-AAAAAGCAATTAAGCCCCTGCTCTTTTTTTTGCAATCAATTGGGTACTTGAACTTCC
* ***
27079867 AAAATGCTTC-AAAAAGACCCTCAATTTT
65 AAAATGCTTCAAAAAAG-CCCTTAA-ACC
27079895 TTTTC-AAAAAAGCAATTAAGCC
1 TTTTCAAAAAAAGCAATTAAGCC
27079917 TCTGATTTTA
Statistics
Matches: 100, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
90 22 0.22
91 44 0.44
92 34 0.34
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (91 bp):
TTTTCAAAAAAAGCAATTAAGCCCCTGCTCTTTTTTTTGCAATCAATTGGGTACTTGAACTTCCA
AAATGCTTCAAAAAAGCCCTTAAACC
Found at i:27080024 original size:37 final size:36
Alignment explanation
Indices: 27079950--27080052 Score: 102
Period size: 36 Copynumber: 2.8 Consensus size: 36
27079940 AAAAAAATTA
** *
27079950 TAAAAATTAAAATCAATAAAATC-TATAAATATGAT
1 TAAAAATTAAAAAAAATAAAATCATAAAAATATGAT
** *
27079985 TAAATTTTAATAAAAAATTAAAATCATAAAAAT-TTAT
1 TAAAAATTAA-AAAAAA-TAAAATCATAAAAATATGAT
*
27080022 TAAAAATTAAAAAATATAAGAATCATAAAAA
1 TAAAAATTAAAAAAAATAA-AATCATAAAAA
27080053 ATTGTAATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
35 11 0.20
36 20 0.36
37 18 0.33
38 6 0.11
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (36 bp):
TAAAAATTAAAAAAAATAAAATCATAAAAATATGAT
Found at i:27080187 original size:19 final size:19
Alignment explanation
Indices: 27080066--27080187 Score: 69
Period size: 19 Copynumber: 6.5 Consensus size: 19
27080056 GTAATTTTTT
27080066 TAAAAA-TAGTAAAAAATTA
1 TAAAAATTA-TAAAAAATTA
*
27080085 T-AAAA-TATATAGAAA-TA
1 TAAAAATTATA-AAAAATTA
***
27080102 TAAAAATTATAAACTTTTA
1 TAAAAATTATAAAAAATTA
* *
27080121 T-AAAGTCATAAGAAAATTA
1 TAAAAATTATAA-AAAATTA
*
27080140 TATAGAA-TATAAAGAAA-TA
1 TA-AAAATTATAAA-AAATTA
**
27080159 TAAATTTTATAAAAAATTA
1 TAAAAATTATAAAAAATTA
27080178 TAAAAATTAT
1 TAAAAATTAT
27080188 CGTACCAAAA
Statistics
Matches: 75, Mismatches: 18, Indels: 20
0.66 0.16 0.18
Matches are distributed among these distances:
17 5 0.07
18 27 0.36
19 34 0.45
20 7 0.09
21 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAAAATTATAAAAAATTA
Found at i:27080434 original size:19 final size:21
Alignment explanation
Indices: 27080394--27080433 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27080384 TTTTAATAAA
*
27080394 ATTATAATTTATTATATTTTT
1 ATTAAAATTTATTATATTTTT
27080415 ATTAAAATTTATTAT-TTTT
1 ATTAAAATTTATTATATTTT
27080434 ACAAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTAAAATTTATTATATTTTT
Found at i:27080611 original size:88 final size:89
Alignment explanation
Indices: 27080463--27080673 Score: 248
Period size: 88 Copynumber: 2.4 Consensus size: 89
27080453 TAATAAGAGC
* * * * * *
27080463 AGGGGCTTAATTGC-TTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAATTCAATT
1 AGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTATTTTTAATACATTCTGAAAATTCAAGT
*
27080527 ACCCAATTGAGTG-AAAAAAAAGT
66 ACCCAATTGAGTGAAAAAAAAAGG
* *
27080550 AGGGGCTTAATTGCTTTTTTTGAAGAAGTTTGAGGGTATTTTTAATACGTTCTGAAAATTCAAGT
1 AGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTATTTTTAATACATTCTGAAAATTCAAGT
* **
27080615 GCTTAATTGAGTGAAAAAAAAAGG
66 ACCCAATTGAGTGAAAAAAAAAGG
* * *
27080639 AAGGGCTTAATTACTTTTCTTTTTAAAAA-TTTGAG
1 AGGGGCTTAATTGC-TTT-TTTTGAAAAAGTTTGAG
27080674 AACTTTTTAC
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
87 14 0.13
88 52 0.50
89 21 0.20
90 9 0.09
91 8 0.08
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.38
Consensus pattern (89 bp):
AGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTATTTTTAATACATTCTGAAAATTCAAGT
ACCCAATTGAGTGAAAAAAAAAGG
Found at i:27081921 original size:36 final size:36
Alignment explanation
Indices: 27081875--27081955 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
27081865 AAGCCGCAAA
*
27081875 TTTACATATAAGTT-TATCAAGATTTAATTATATGTG
1 TTTAAATATAA-TTATATCAAGATTTAATTATATGTG
* * *
27081911 TTTAAATATAATTATCTCTATATTTAATTATATGTG
1 TTTAAATATAATTATATCAAGATTTAATTATATGTG
*
27081947 TTTGAATAT
1 TTTAAATAT
27081956 CAAATTGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 2 0.05
36 37 0.95
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.51
Consensus pattern (36 bp):
TTTAAATATAATTATATCAAGATTTAATTATATGTG
Found at i:27082176 original size:33 final size:33
Alignment explanation
Indices: 27082125--27082191 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
27082115 ACAAAGTTAG
* *
27082125 AAATGATCTAAAACGTAAGTAATCAAAATAAAA
1 AAATAATCTAAAACGTAAGTAACCAAAATAAAA
* *
27082158 AAATAATCTAAAATGTAAGTGACCAAAATAAAA
1 AAATAATCTAAAACGTAAGTAACCAAAATAAAA
27082191 A
1 A
27082192 CGATCTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (33 bp):
AAATAATCTAAAACGTAAGTAACCAAAATAAAA
Found at i:27082198 original size:31 final size:32
Alignment explanation
Indices: 27082129--27082211 Score: 87
Period size: 33 Copynumber: 2.6 Consensus size: 32
27082119 AGTTAGAAAT
* *
27082129 GATCTAAAACGTAAGTAATCAAAATAAAAAAAT
1 GATCTAAAACGTAAGTAACCAAAAT-AAAAAAC
* * *
27082162 AATCTAAAATGTAAGTGACCAAAAT-AAAAAC
1 GATCTAAAACGTAAGTAACCAAAATAAAAAAC
* *
27082193 GATCTAAAACATTAGTAAC
1 GATCTAAAACGTAAGTAAC
27082212 TGAATTGAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
31 19 0.47
33 21 0.52
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.22
Consensus pattern (32 bp):
GATCTAAAACGTAAGTAACCAAAATAAAAAAC
Found at i:27087352 original size:21 final size:21
Alignment explanation
Indices: 27087326--27087381 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
27087316 AATAGCAGTG
27087326 GCGGTGAGATTA-ATTACTGTA
1 GCGGTGAGATTAGA-TACTGTA
27087347 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
27087368 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
27087382 AACAGTGGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:27094357 original size:16 final size:15
Alignment explanation
Indices: 27094336--27094395 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
27094326 CTTAAAAGTT
27094336 TTTTATATAATATAAA
1 TTTTATATAATA-AAA
*
27094352 TTTTATAAAATAAAA
1 TTTTATATAATAAAA
*
27094367 ATTTATA-AA-AAAA
1 TTTTATATAATAAAA
*
27094380 -GTTATATAATATAAA
1 TTTTATATAATA-AAA
27094395 T
1 T
27094396 ATTTCAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 5 0.14
13 6 0.16
14 3 0.08
15 12 0.32
16 11 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
TTTTATATAATAAAA
Found at i:27094373 original size:15 final size:16
Alignment explanation
Indices: 27094337--27094376 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
27094327 TTAAAAGTTT
* *
27094337 TTTATATAATATAAAT
1 TTTATAAAATATAAAA
27094353 TTTATAAAATA-AAAA
1 TTTATAAAATATAAAA
27094368 TTTATAAAA
1 TTTATAAAA
27094377 AAAGTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTATAAAATATAAAA
Found at i:27094373 original size:29 final size:30
Alignment explanation
Indices: 27094341--27094408 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
27094331 AAGTTTTTTA
*
27094341 TATAATATAAA-TTTTATAAAATAAAAATT
1 TATAATATAAAGTTATATAAAATAAAAATT
* * *
27094370 TATAA-AAAAAGTTATATAATATAAATATT
1 TATAATATAAAGTTATATAAAATAAAAATT
27094399 TCA-AATATAA
1 T-ATAATATAA
27094409 CAAAAAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 4 0.13
29 23 0.74
30 4 0.13
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (30 bp):
TATAATATAAAGTTATATAAAATAAAAATT
Found at i:27094456 original size:14 final size:13
Alignment explanation
Indices: 27094416--27094458 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
27094406 TAACAAAAAG
27094416 AAAAAAATTAGAA
1 AAAAAAATTAGAA
* *
27094429 ATTAGAAATTAGAA
1 A-AAAAAATTAGAA
27094443 AAAAAAATTCAGAA
1 AAAAAAATT-AGAA
27094457 AA
1 AA
27094459 TCTCAAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (13 bp):
AAAAAAATTAGAA
Found at i:27097326 original size:17 final size:17
Alignment explanation
Indices: 27097304--27097337 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27097294 ACTTGTTTTC
27097304 GCAAATCAGTGTGATAA
1 GCAAATCAGTGTGATAA
27097321 GCAAATCAGTGTGATAA
1 GCAAATCAGTGTGATAA
27097338 AGAATAAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (17 bp):
GCAAATCAGTGTGATAA
Found at i:27103021 original size:29 final size:31
Alignment explanation
Indices: 27102989--27103065 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 31
27102979 TTTAGTTCAG
* *
27102989 GTTACATTTTAGTCATTTATGTT-TGA-AAT
1 GTTACATTTTAGTCACTTATGTTATCATAAT
* *
27103018 GTTACGTTTTAGTCACTTATGTTATCATGAT
1 GTTACATTTTAGTCACTTATGTTATCATAAT
*
27103049 GTAACATTTTAGTCACT
1 GTTACATTTTAGTCACT
27103066 GAGCCGTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 21 0.52
30 2 0.05
31 17 0.43
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTATGTTATCATAAT
Found at i:27116496 original size:27 final size:28
Alignment explanation
Indices: 27116478--27116530 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 28
27116468 GCGGCACCAG
* * *
27116478 TGGTGCCAGTGGCAGAGGCGGCACC-GA
1 TGGTGCCACTGCCACAGGCGGCACCAGA
*
27116505 TGGTGCTACTGCCACAGGCGGCACCA
1 TGGTGCCACTGCCACAGGCGGCACCA
27116531 ACCCCTTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.19, C:0.30, G:0.38, T:0.13
Consensus pattern (28 bp):
TGGTGCCACTGCCACAGGCGGCACCAGA
Found at i:27117139 original size:157 final size:155
Alignment explanation
Indices: 27116971--27117856 Score: 1299
Period size: 155 Copynumber: 5.7 Consensus size: 155
27116961 ATAAAATCCG
* *
27116971 AAAA-AATGTAAAATAATAAAA-TACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGG
1 AAAATAATGTAAAATAATAAAATTA-GAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGG
*
27117034 AAAAAAATATGAACAAAGGGCCGAAATAAGGGTTATTTTTTGAAATTTATTTAAAAAACACACTA
65 AAAAAAATACGAACAAAGGGCCGAAATAAGGGTT-TTTTTT-AAATTTATTTAAAAAACACACTA
* *
27117099 AATTAATAAACTTCAAACATAATGTACT
128 AATTAATACATTTCAAACATAATGTACT
*
27117127 AAAATAATGTAAAATAATAAAATTAGAAAATAATATAATTTT-TT-AAAGTAATAAAATCCAAGG
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCC--GG
* ** * *
27117190 G-AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTACTAAATTTA-AAAAAAAACAGAAGT
64 GAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT-TTAAATTTATTTAAAAAACA-CACT
27117253 -AATTAATACATTTCAAACATAATGTACT
127 AAATTAATACATTTCAAACATAATGTACT
* * *
27117281 AAAATAATGTAAAATAATAAAA-TACAAAAATAATATATTTTTATTGGAAGTAATAAAATCCAGG
1 AAAATAATGTAAAATAATAAAATTA-GAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGG
* * *
27117345 AAAAAAATACGAACAAATGGTCGAAATAA-GGTTTTTTTT-AATTTATTTAAAAAACACAGTAAA
65 AAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTATTTAAAAAACACACTAAA
*
27117408 TTAATATATTTCAAACATAATGTACT
130 TTAATACATTTCAAACATAATGTACT
* * *
27117434 AAACTAATGTAAAATAATAAAATTAGGAAATAATATATTTTTATTGAAAGTAATAAAATCGGGGA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGA
* *
27117499 AAAAAATACGAACAAAGGGCTGAAATAAGGGGTTTTTTTAAATTTATTTAAAAAACACACTAAAT
66 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTATTTAAAAAACACACTAAAT
27117564 TAATACATTTCAAACATAATGTACT
131 TAATACATTTCAAACATAATGTACT
* *
27117589 AAAATAATGTAAAATAATAAAATTAGAAAATAAAATATTTTTATTGAAAGTAATAAAATCCAGGA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGA
*
27117654 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTGTAAATTTATTTAAAACACACACTAA
66 AAAAAATACGAACAAAGGGCCGAAATAAGGG-TTTTTTT-TAAATTTATTTAAAAAACACACTAA
27117719 ATTAATACATTTCAAACATAATGGT-CT
129 ATTAATACATTTCAAACATAAT-GTACT
* * * **
27117746 AAACTAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATAGAAAGTAATAAATTTTGGGA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGA
*
27117811 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTACTAAATTT
66 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT-TTAAATTT
27117857 GTTTTGAAGT
Statistics
Matches: 661, Mismatches: 50, Indels: 38
0.88 0.07 0.05
Matches are distributed among these distances:
152 9 0.01
153 119 0.18
154 92 0.14
155 193 0.29
156 72 0.11
157 172 0.26
158 4 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (155 bp):
AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGA
AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTATTTAAAAAACACACTAAAT
TAATACATTTCAAACATAATGTACT
Found at i:27117629 original size:308 final size:309
Alignment explanation
Indices: 27116971--27117856 Score: 1351
Period size: 308 Copynumber: 2.9 Consensus size: 309
27116961 ATAAAATCCG
* *
27116971 AAAA-AATGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
1 AAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATCCAGGA
*
27117035 AAAAAATATGAACAAAGGGCCGAAATAAGGGTTATTTTTTGAAATTTATTTAAAAAACACACTAA
66 AAAAAATACGAACAAAGGGCCGAAATAAGGGTT-TTTTTT-AAATTTATTTAAAAAACACACTAA
* * *
27117100 ATTAATAAACTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATAA
129 ATTAATAAATTTCAAACATAATGTACTAAACTAATGTAAAATAATAAAATTAGAAAATAATATAT
27117165 TTTT-TT-AAAGTAATAAAATCCAAGGG-AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTT
194 TTTTATTGAAAGTAATAAAAT-C-AGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTT
*
27117227 TACTAAATTTAAAAAAAAACAGAAGTAATTAATACATTTCAAACATAATGTACT
257 TA-TAAATTTAAAAAAAAACAGAACTAATTAATACATTTCAAACATAATGTACT
*
27117281 AAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTATTGGAAGTAATAAAATCCAGGA
1 AAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATCCAGGA
* * *
27117346 AAAAAATACGAACAAATGGTCGAAATAA-GGTTTTTTTT-AATTTATTTAAAAAACACAGTAAAT
66 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTATTTAAAAAACACACTAAAT
* *
27117409 TAATATATTTCAAACATAATGTACTAAACTAATGTAAAATAATAAAATTAGGAAATAATATATTT
131 TAATAAATTTCAAACATAATGTACTAAACTAATGTAAAATAATAAAATTAGAAAATAATATATTT
* *
27117474 TTATTGAAAGTAATAAAATCGGGGAAAAAAATACGAACAAAGGGCTGAAATAAGGGGTTTTTT-T
196 TTATTGAAAGTAATAAAATCAGGGAAAAAAATACGAACAAAGGGCCGAAATAA-GGGTTTTTTAT
** *
27117538 AAATTTATTTAAAAAACA-CACTAAATTAATACATTTCAAACATAATGTACT
260 AAATTTA-AAAAAAAACAGAACT-AATTAATACATTTCAAACATAATGTACT
* *
27117589 AAAATAATGTAAAATAATAAAATTA-GAAAATAAAATATTTTTATTGAAAGTAATAAAATCCAGG
1 AAAATAATGTAAAATAATAAAA-TACAAAAATAATATATTTTTATTGAAAGTAATAAAATCCAGG
*
27117653 AAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTGTAAATTTATTTAAAACACACACTA
65 AAAAAAATACGAACAAAGGGCCGAAATAAGGG-TTTTTTT-TAAATTTATTTAAAAAACACACTA
*
27117718 AATTAATACATTTCAAACATAATGGT-CTAAACTAATGTAAAATAATAAAATTAGAAAATAATAT
128 AATTAATAAATTTCAAACATAAT-GTACTAAACTAATGTAAAATAATAAAATTAGAAAATAATAT
* * **
27117782 ATTTTTATAGAAAGTAATAAATTTTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTT
192 ATTTTTATTGAAAGTAATAAAATCAGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTT
27117847 TACTAAATTT
257 TA-TAAATTT
27117857 GTTTTGAAGT
Statistics
Matches: 529, Mismatches: 32, Indels: 27
0.90 0.05 0.05
Matches are distributed among these distances:
307 99 0.19
308 151 0.29
309 32 0.06
310 15 0.03
311 92 0.17
312 131 0.25
313 9 0.02
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (309 bp):
AAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATCCAGGA
AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTATTTAAAAAACACACTAAAT
TAATAAATTTCAAACATAATGTACTAAACTAATGTAAAATAATAAAATTAGAAAATAATATATTT
TTATTGAAAGTAATAAAATCAGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTATA
AATTTAAAAAAAAACAGAACTAATTAATACATTTCAAACATAATGTACT
Found at i:27117794 original size:20 final size:20
Alignment explanation
Indices: 27117769--27117806 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27117759 ATAATAAAAT
*
27117769 TAGAAAATAATATATTTTTA
1 TAGAAAATAATAAATTTTTA
*
27117789 TAGAAAGTAATAAATTTT
1 TAGAAAATAATAAATTTT
27117807 GGGAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (20 bp):
TAGAAAATAATAAATTTTTA
Found at i:27123635 original size:18 final size:19
Alignment explanation
Indices: 27123604--27123647 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
27123594 AAATAAAAAA
*
27123604 TTTTATATTATTTTGGTAT
1 TTTTTTATTATTTTGGTAT
*
27123623 TTTTTTATT-TTTTTGTAT
1 TTTTTTATTATTTTGGTAT
*
27123641 TATTTTA
1 TTTTTTA
27123648 GTAAAATACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (19 bp):
TTTTTTATTATTTTGGTAT
Found at i:27131185 original size:23 final size:23
Alignment explanation
Indices: 27131159--27131206 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
27131149 TTTTGTACAA
*
27131159 TTCTGATTTGAACTTAGATTATT
1 TTCTAATTTGAACTTAGATTATT
*
27131182 TTCTAATTTGAATTTAGATTATT
1 TTCTAATTTGAACTTAGATTATT
27131205 TT
1 TT
27131207 TAAAGTGTGT
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:0.27, C:0.06, G:0.10, T:0.56
Consensus pattern (23 bp):
TTCTAATTTGAACTTAGATTATT
Found at i:27132974 original size:21 final size:21
Alignment explanation
Indices: 27132849--27133013 Score: 115
Period size: 21 Copynumber: 8.0 Consensus size: 21
27132839 GTACATCGTT
* *
27132849 AACAGAAGCTC-GAA-AGCTA
1 AACAGAAGCTCATAAGAGCTG
*
27132868 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
* * * *
27132889 AAC-GAAAACTCATATGAGTTA
1 AACAG-AAGCTCATAAGAGCTG
* *
27132910 AACAGAAGCTCACAAGAGCCG
1 AACAGAAGCTCATAAGAGCTG
* *
27132931 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGCTG
27132952 AACAGAAGCTCGA-AAGAGCTG
1 AACAGAAGCTC-ATAAGAGCTG
** * * * *
27132973 AATGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTG
27132994 AACAGAAGCTCGA-AAGAGCT
1 AACAGAAGCTC-ATAAGAGCT
27133014 AAACGGAAAG
Statistics
Matches: 109, Mismatches: 30, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
19 11 0.10
20 4 0.04
21 91 0.83
22 3 0.03
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:27133022 original size:42 final size:42
Alignment explanation
Indices: 27132866--27133022 Score: 226
Period size: 42 Copynumber: 3.7 Consensus size: 42
27132856 GCTCGAAAGC
* *
27132866 TAAACAGAAGCTCGTAAGAGCTGAACGAAAACTCATATGAGT
1 TAAACAGAAGCTCGAAAGAGCTGAACGGAAACTCATATGAGT
* * *
27132908 TAAACAGAAGCTC-ACAAGAGCCGAACAGAAACTCATAAGAGT
1 TAAACAGAAGCTCGA-AAGAGCTGAACGGAAACTCATATGAGT
* *
27132950 TGAACAGAAGCTCGAAAGAGCTGAATGGAAACTCATATGAGT
1 TAAACAGAAGCTCGAAAGAGCTGAACGGAAACTCATATGAGT
*
27132992 TAAACAGAAGCTCGAAAGAGCTAAACGGAAA
1 TAAACAGAAGCTCGAAAGAGCTGAACGGAAA
27133023 GTAAAATACA
Statistics
Matches: 100, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
42 99 0.99
43 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.15
Consensus pattern (42 bp):
TAAACAGAAGCTCGAAAGAGCTGAACGGAAACTCATATGAGT
Found at i:27133914 original size:32 final size:32
Alignment explanation
Indices: 27133878--27133938 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
27133868 CAATGGCAAT
*
27133878 ATCCAAAATCTTTAACAAAATCAAAAACTCAA
1 ATCCAAAATCTGTAACAAAATCAAAAACTCAA
27133910 ATCCAAAATCTGTAACAAAATCAAAAACT
1 ATCCAAAATCTGTAACAAAATCAAAAACT
27133939 AAAGTAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.56, C:0.21, G:0.02, T:0.21
Consensus pattern (32 bp):
ATCCAAAATCTGTAACAAAATCAAAAACTCAA
Found at i:27143630 original size:39 final size:38
Alignment explanation
Indices: 27143562--27143644 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 38
27143552 ACCTCGTCCT
** * *
27143562 TGCGAGGTTTACGCGAGCTCCCTCTTGCGACCTTGTCTC
1 TGCGAGGCCTACGCGAGCTCCCTCATGCGACC-TATCTC
*
27143601 TGCGAGGCCTACGCGAGCT-CCTCCATGCGAGCTATCTC
1 TGCGAGGCCTACGCGAGCTCCCT-CATGCGACCTATCTC
27143639 TGCGAG
1 TGCGAG
27143645 CATCTTGCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
38 14 0.37
39 24 0.63
ACGTcount: A:0.13, C:0.34, G:0.28, T:0.25
Consensus pattern (38 bp):
TGCGAGGCCTACGCGAGCTCCCTCATGCGACCTATCTC
Found at i:27146705 original size:19 final size:19
Alignment explanation
Indices: 27146683--27146727 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
27146673 AAAAATTTAT
*
27146683 TAAAAATTAGAAAAAAATA
1 TAAAAATCAGAAAAAAATA
*
27146702 TAAAAATCATAAAAAAATA
1 TAAAAATCAGAAAAAAATA
27146721 TATAAAA
1 TA-AAAA
27146728 AATTGTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
TAAAAATCAGAAAAAAATA
Found at i:27146737 original size:10 final size:11
Alignment explanation
Indices: 27146673--27146730 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
27146663 TTTAATTATT
* *
27146673 AAAAATTTATT
1 AAAAATATATA
*
27146684 AAAAAT-TAGA
1 AAAAATATATA
27146694 AAAAA-ATAT-
1 AAAAATATATA
27146703 AAAAATCATA-A
1 AAAAAT-ATATA
27146714 AAAAATATATA
1 AAAAATATATA
27146725 AAAAAT
1 AAAAAT
27146731 TGTAAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
9 5 0.13
10 12 0.31
11 22 0.56
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (11 bp):
AAAAATATATA
Found at i:27146760 original size:21 final size:21
Alignment explanation
Indices: 27146734--27146778 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27146724 AAAAAATTGT
* *
27146734 AAAATTTTATAAAATCGT-AAG
1 AAAATTATACAAAAT-GTAAAG
27146755 AAAATTATACAAAATGTAAAG
1 AAAATTATACAAAATGTAAAG
27146776 AAA
1 AAA
27146779 TATAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTATACAAAATGTAAAG
Found at i:27147035 original size:27 final size:30
Alignment explanation
Indices: 27147005--27147067 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
27146995 AAAAAGTTCT
27147005 AATTTTTAAT-AAATTT-TAATTTTTTT-A
1 AATTTTTAATAAAATTTATAATTTTTTTGA
*
27147032 AATTTTTATTAAAATTTAATAATTTTTTTGA
1 AATTTTTAATAAAATTT-ATAATTTTTTTGA
27147063 AATTT
1 AATTT
27147068 ATTTTTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 9 0.29
28 6 0.19
30 10 0.32
31 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (30 bp):
AATTTTTAATAAAATTTATAATTTTTTTGA
Found at i:27147039 original size:17 final size:17
Alignment explanation
Indices: 27147004--27147037 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
27146994 TAAAAAGTTC
27147004 TAATTTTTAATAAATTT
1 TAATTTTTAATAAATTT
*
27147021 TAATTTTT-TTAAATTT
1 TAATTTTTAATAAATTT
27147037 T
1 T
27147038 TATTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TAATTTTTAATAAATTT
Found at i:27147265 original size:42 final size:41
Alignment explanation
Indices: 27147182--27147263 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
27147172 GAAAAAAGTA
27147182 GGGGCCTAATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTT
1 GGGGCCTAATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTT
27147223 GGGGCCTAATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTT
1 GGGGCCTAATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTT
27147264 TGATGCATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.17, C:0.10, G:0.29, T:0.44
Consensus pattern (41 bp):
GGGGCCTAATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTT
Found at i:27147330 original size:129 final size:127
Alignment explanation
Indices: 27147096--27147331 Score: 330
Period size: 129 Copynumber: 1.8 Consensus size: 127
27147086 ATGAGAGCAA
*
27147096 GGGCTTAATTGCTTTTTTGAAAAATTTGGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACC
1 GGGCCTAATTGCTTTTTTGAAAAATTTGGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACC
** ** *
27147161 CAATTGAGTGGGAAAAAAGTAGGGGCCTAATTGCTTTTTTTGAAGAAGTTTGAGGGTCTTTTG
66 CAATTGAGTGCAAAAAAAAAAGGGGCCTAATTAC-TTTTTTGAAGAAGTTTGAGGGTCTTTTG
* *
27147224 GGGCCTAATTGCTTTTTTTGAAGAAGTTT-GAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTG
1 GGGCCTAATTGC-TTTTTTGAA-AAATTTGGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTA
* *
27147288 CTCAATTGAGTGCAAAAAAAAAAGAGGGACTTAATTACTTTTTT
64 CCCAATTGAGTGCAAAAAAAAAAG-GGG-CCTAATTACTTTTTT
27147332 TTTTATTTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
128 11 0.12
129 62 0.66
130 14 0.15
131 7 0.07
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (127 bp):
GGGCCTAATTGCTTTTTTGAAAAATTTGGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACC
CAATTGAGTGCAAAAAAAAAAGGGGCCTAATTACTTTTTTGAAGAAGTTTGAGGGTCTTTTG
Found at i:27148902 original size:26 final size:25
Alignment explanation
Indices: 27148873--27148936 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 25
27148863 ATCATTCTTC
27148873 ATATATTTGAAAACTTATTTTAAAAA
1 ATAT-TTTGAAAACTTATTTTAAAAA
*
27148899 ATATTTATGAAAACTTATTTTAAAGA
1 ATATTT-TGAAAACTTATTTTAAAAA
*
27148925 ATATTTTTAAAA
1 ATATTTTGAAAA
27148937 GTAATTAGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
25 7 0.20
26 28 0.80
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (25 bp):
ATATTTTGAAAACTTATTTTAAAAA
Found at i:27148917 original size:14 final size:13
Alignment explanation
Indices: 27148878--27148919 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
27148868 TCTTCATATA
27148878 TTTGAAAACTTAT
1 TTTGAAAACTTAT
**
27148891 TTT-AAAAAATAT
1 TTTGAAAACTTAT
27148903 TTATGAAAACTTAT
1 TT-TGAAAACTTAT
27148917 TTT
1 TTT
27148920 AAAGAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 9 0.39
13 5 0.22
14 9 0.39
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (13 bp):
TTTGAAAACTTAT
Found at i:27153627 original size:64 final size:64
Alignment explanation
Indices: 27153548--27153685 Score: 240
Period size: 64 Copynumber: 2.2 Consensus size: 64
27153538 ACAAAGCAAA
* *
27153548 GGCAATAACATACGGGAAAATATCATGACCAAGTCAGTACATTGGGCATTAGTTTATAAGGAAC
1 GGCAATAACATACGGGAAAATATCATGACCAAGTCAGTAAATTGGGCATTAGTTTATAAGAAAC
27153612 GGCAATAACATACGGGAAAATATCATGACCAAGTCAGTAAATTGGGCATTAGTTTATAAGAAAC
1 GGCAATAACATACGGGAAAATATCATGACCAAGTCAGTAAATTGGGCATTAGTTTATAAGAAAC
**
27153676 ACCAATAACA
1 GGCAATAACA
27153686 GTATTTTCTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 70 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (64 bp):
GGCAATAACATACGGGAAAATATCATGACCAAGTCAGTAAATTGGGCATTAGTTTATAAGAAAC
Found at i:27157774 original size:15 final size:15
Alignment explanation
Indices: 27157754--27157800 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
27157744 GTTGACCCAG
27157754 AAAATAATTTTTTTA
1 AAAATAATTTTTTTA
* **
27157769 AAAATAGTTGCTTT-
1 AAAATAATTTTTTTA
27157783 AAAATATATTTTTTTA
1 AAAATA-ATTTTTTTA
27157799 AA
1 AA
27157801 TTGTAAAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
14 6 0.25
15 16 0.67
16 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (15 bp):
AAAATAATTTTTTTA
Found at i:27157866 original size:18 final size:19
Alignment explanation
Indices: 27157843--27157882 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
27157833 ATTGTAAAAA
27157843 TATTTTATA-AAAATAAAT
1 TATTTTATAGAAAATAAAT
27157861 TATTTTATAGGAAAATAAAT
1 TATTTTATA-GAAAATAAAT
27157881 TA
1 TA
27157883 ATCTTTTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TATTTTATAGAAAATAAAT
Found at i:27159866 original size:16 final size:16
Alignment explanation
Indices: 27159845--27159914 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
27159835 TTTGGTTCGC
* *
27159845 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
27159861 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
27159877 TATAATGGAATAGAGG
1 TGTAATGGAATAGAGG
27159893 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
27159909 TGTAAT
1 TGTAAT
27159915 AGCATAATGG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.33, C:0.00, G:0.34, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:27160171 original size:22 final size:23
Alignment explanation
Indices: 27160129--27160171 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
27160119 TATGAATTTA
*
27160129 ATAAAATCATAATGTATAATACT
1 ATAAAATCATAATGTAAAATACT
*
27160152 ATAAAAT-ATAATTTAAAATA
1 ATAAAATCATAATGTAAAATA
27160172 ATTATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (23 bp):
ATAAAATCATAATGTAAAATACT
Found at i:27160178 original size:120 final size:121
Alignment explanation
Indices: 27160043--27160782 Score: 1315
Period size: 123 Copynumber: 6.1 Consensus size: 121
27160033 TTAATCATAT
*
27160043 TTTAACATAATTATTATT-AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
* * *
27160107 TAAATATTCTTATATGAATTTAATAAAATCATAATGTATAATACTATAAAATATAA
66 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
27160163 TTTAAAATAATTATTATT-AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-
27160227 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
27160284 TTTAAAATAATTATTATT-AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
27160348 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
27160404 TTTAAAATAATTATTATTAAAAATGTAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATA
1 TTTAAAATAATTATTATT-AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
27160469 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
27160526 TTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTTAAT
1 TTTAAAATAATTATTATT-AAAATATAATTTAATAAAAATATATAATTTAATAAAATTC-TTAAT
*
27160591 ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 ATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
27160649 TTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTTAAT
1 TTTAAAATAATTATTATT-AAAATATAATTTAATAAAAATATATAATTTAATAAAATTC-TTAAT
*
27160714 ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 ATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
27160772 TTTAAAATAAT
1 TTTAAAATAAT
27160783 AAAATTTGAA
Statistics
Matches: 608, Mismatches: 8, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
120 137 0.23
121 117 0.19
122 158 0.26
123 196 0.32
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (121 bp):
TTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:27160563 original size:15 final size:16
Alignment explanation
Indices: 27160517--27160581 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 16
27160507 ATAATACTAT
27160517 AAAATATAATTTAA-A
1 AAAATATAATTTAATA
* *
27160532 ATAAT-T-A-TTATTA
1 AAAATATAATTTAATA
*
27160545 AAAATATAATTTAGTAA
1 AAAATATAATTTAAT-A
27160562 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
27160579 AAA
1 AAA
27160582 TTCTTTAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 2 0.05
15 5 0.13
16 4 0.10
17 8 0.21
18 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:27160569 original size:18 final size:17
Alignment explanation
Indices: 27160544--27160581 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
27160534 AATTATTATT
*
27160544 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
27160561 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
27160579 AAA
1 AAA
27160582 TTCTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:27160686 original size:15 final size:16
Alignment explanation
Indices: 27160640--27160704 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 16
27160630 ATAATACTAT
27160640 AAAATATAATTTAA-A
1 AAAATATAATTTAATA
* *
27160655 ATAAT-T-A-TTATTA
1 AAAATATAATTTAATA
*
27160668 AAAATATAATTTAGTAA
1 AAAATATAATTTAAT-A
27160685 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
27160702 AAA
1 AAA
27160705 TTCTTTAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 2 0.05
15 5 0.13
16 4 0.10
17 8 0.21
18 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:27160692 original size:18 final size:17
Alignment explanation
Indices: 27160667--27160704 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
27160657 AATTATTATT
*
27160667 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
27160684 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
27160702 AAA
1 AAA
27160705 TTCTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:27160827 original size:20 final size:20
Alignment explanation
Indices: 27160780--27160818 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27160770 AATTTAAAAT
*
27160780 AATAAAATTTGAATCGATTA
1 AATAATATTTGAATCGATTA
* *
27160800 AATGATATTTGAATTGATT
1 AATAATATTTGAATCGATT
27160819 TGATAATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
AATAATATTTGAATCGATTA
Found at i:27168018 original size:15 final size:14
Alignment explanation
Indices: 27167998--27168028 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
27167988 CAATCAACTC
27167998 CACATATTCTTATAT
1 CACATATTCTTA-AT
27168013 CACATATTCTTAAT
1 CACATATTCTTAAT
27168027 CA
1 CA
27168029 ACAGAGTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (14 bp):
CACATATTCTTAAT
Found at i:27168394 original size:29 final size:29
Alignment explanation
Indices: 27168355--27168417 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
27168345 GTCTGGCCCA
27168355 TGTGGCCCACACGGCCTAGCACATAGTCG
1 TGTGGCCCACACGGCCTAGCACATAGTCG
* * * *
27168384 TGTGGCTCACACGGCCTCGCATATGGTCG
1 TGTGGCCCACACGGCCTAGCACATAGTCG
27168413 TGTGG
1 TGTGG
27168418 TCGTAAATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.16, C:0.30, G:0.32, T:0.22
Consensus pattern (29 bp):
TGTGGCCCACACGGCCTAGCACATAGTCG
Found at i:27168727 original size:24 final size:24
Alignment explanation
Indices: 27168700--27168748 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
27168690 AAAACTTTCG
*
27168700 AAACAAACCCAAAATTGAATTTAA
1 AAACAAACCCAAAATCGAATTTAA
27168724 AAACAAACCCAAAATCGAATTTAA
1 AAACAAACCCAAAATCGAATTTAA
27168748 A
1 A
27168749 CTTTTCCCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.59, C:0.18, G:0.04, T:0.18
Consensus pattern (24 bp):
AAACAAACCCAAAATCGAATTTAA
Found at i:27169428 original size:15 final size:15
Alignment explanation
Indices: 27169408--27169438 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27169398 TAGTTAGATG
*
27169408 AATTTGCATGGATTA
1 AATTTGCATGAATTA
27169423 AATTTGCATGAATTA
1 AATTTGCATGAATTA
27169438 A
1 A
27169439 GAGTAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (15 bp):
AATTTGCATGAATTA
Found at i:27170706 original size:40 final size:39
Alignment explanation
Indices: 27170585--27170725 Score: 126
Period size: 40 Copynumber: 3.6 Consensus size: 39
27170575 ACTTCGAGTT
* ** *
27170585 GATGAGACACTGGGTGTCAATTTACTACTTCGAATTAATTC
1 GATGAGGCACTGGGTGTCAAACTATTACTTCGAATT-A-TC
* **
27170626 GATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGTC
1 GATGAGGCACTGGGTGTCAAACTATTACTTCGAATTA-TC
*
27170663 GATGAGGCACTGGGTGTCAAACTATTACTTTGAATTATCC
1 GATGAGGCACTGGGTGTCAAACTATTACTTCGAATTAT-C
* * *
27170703 GATGAGGTATTGGGTGCCAAACT
1 GATGAGGCACTGGGTGTCAAACT
27170726 GGTGTGTTTT
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
37 19 0.23
38 12 0.15
39 3 0.04
40 33 0.40
41 15 0.18
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (39 bp):
GATGAGGCACTGGGTGTCAAACTATTACTTCGAATTATC
Found at i:27179360 original size:27 final size:30
Alignment explanation
Indices: 27179326--27179387 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
27179316 TATTATTGAT
27179326 TTTTTATTCAT-AAA-A-TTATTTTTATAA
1 TTTTTATTCATAAAACATTTATTTTTATAA
** *
27179353 TTTTTATTTTTAAAACATTTTTTTTTATAA
1 TTTTTATTCATAAAACATTTATTTTTATAA
27179383 TTTTT
1 TTTTT
27179388 GGATATGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 9 0.31
28 3 0.10
29 1 0.03
30 16 0.55
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTTTATTCATAAAACATTTATTTTTATAA
Found at i:27179361 original size:15 final size:15
Alignment explanation
Indices: 27179341--27179387 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
27179331 ATTCATAAAA
27179341 TTATTTTTATAATTT
1 TTATTTTTATAATTT
* *
27179356 TTATTTTTAAAACATT
1 TTATTTTTATAA-TTT
27179372 TT-TTTTTATAATTT
1 TTATTTTTATAATTT
27179386 TT
1 TT
27179388 GGATATGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.15
15 19 0.70
16 4 0.15
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTTTTATAATTT
Found at i:27184917 original size:17 final size:17
Alignment explanation
Indices: 27184895--27184927 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27184885 CACTAACATG
*
27184895 AAAATGGAATGACAATA
1 AAAATGCAATGACAATA
27184912 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
27184928 GTGTACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:27185511 original size:7 final size:7
Alignment explanation
Indices: 27185499--27185524 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27185489 AATTTATTTT
27185499 AAAAATA
1 AAAAATA
27185506 AAAAATA
1 AAAAATA
27185513 AAAAATA
1 AAAAATA
27185520 AAAAA
1 AAAAA
27185525 AAGTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:27185842 original size:21 final size:21
Alignment explanation
Indices: 27185818--27185865 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
27185808 TCATCTTCAG
*
27185818 CAACTTCTTATTCTTCAGCAA
1 CAACTTCTTATTCTGCAGCAA
* *
27185839 CAACTTCTTCTTCTGCAGCAG
1 CAACTTCTTATTCTGCAGCAA
27185860 CAACTT
1 CAACTT
27185866 TCTTCTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.31, G:0.08, T:0.35
Consensus pattern (21 bp):
CAACTTCTTATTCTGCAGCAA
Found at i:27185849 original size:18 final size:18
Alignment explanation
Indices: 27185811--27185851 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
27185801 TTCTTTTTCA
**
27185811 TCTTCAGCAACTTCTTAT
1 TCTTCAGCAACAACTTAT
*
27185829 TCTTCAGCAACAACTTCT
1 TCTTCAGCAACAACTTAT
27185847 TCTTC
1 TCTTC
27185852 TGCAGCAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (18 bp):
TCTTCAGCAACAACTTAT
Found at i:27195868 original size:40 final size:40
Alignment explanation
Indices: 27195813--27196094 Score: 350
Period size: 40 Copynumber: 7.0 Consensus size: 40
27195803 TTATTGGATT
*
27195813 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTATTCCC-G
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTA-CCCCTG
* * * *
27195853 ATTGCACTTACGTGCCCCTATTTGTACTTTGGTACTCATG
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * * *
27195893 GTTGCAGTTCCGTGCCCCTGTTTGTACTTTGGTACCCCTG
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * * *
27195933 ATTACACTTACGTGCCCCTATTTGTACTTCGGTACTCCTA
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
*
27195973 ATTGCACTTATGTGCCCCTGTTTGTACTTCGGTACCCCTG
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * *
27196013 ATTGCACTTATGTGCCCATATTTGTACTTCGGTACCCCTG
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * * * *
27196053 GTTACACTTACGTACCCTTGTTTGCACTTCGGTACCCCTG
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
27196093 AT
1 AT
27196095 CACACTTTGG
Statistics
Matches: 207, Mismatches: 34, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.00
40 206 1.00
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.38
Consensus pattern (40 bp):
ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTG
Found at i:27195932 original size:20 final size:20
Alignment explanation
Indices: 27195814--27196092 Score: 136
Period size: 20 Copynumber: 13.9 Consensus size: 20
27195804 TATTGGATTA
*
27195814 TTGCACTTAC-GTGCCCCTGT
1 TTGCACTT-CGGTACCCCTGT
* * *
27195834 TTGTACTTCGGTATTCCC-GA
1 TTGCACTTCGGTA-CCCCTGT
* *
27195854 TTGCACTTAC-GTGCCCCTAT
1 TTGCACTT-CGGTACCCCTGT
* * * * *
27195874 TTGTACTTTGGTACTCATGG
1 TTGCACTTCGGTACCCCTGT
* * *
27195894 TTGCAGTTCCGTGCCCCTGT
1 TTGCACTTCGGTACCCCTGT
* * *
27195914 TTGTACTTTGGTACCCCTGA
1 TTGCACTTCGGTACCCCTGT
* * *
27195934 TTACACTTAC-GTGCCCCTAT
1 TTGCACTT-CGGTACCCCTGT
* * **
27195954 TTGTACTTCGGTACTCCTAA
1 TTGCACTTCGGTACCCCTGT
** *
27195974 TTGCACTTATGTGCCCCTGT
1 TTGCACTTCGGTACCCCTGT
* *
27195994 TTGTACTTCGGTACCCCTGA
1 TTGCACTTCGGTACCCCTGT
** * * *
27196014 TTGCACTTATGTGCCCATAT
1 TTGCACTTCGGTACCCCTGT
* *
27196034 TTGTACTTCGGTACCCCTGG
1 TTGCACTTCGGTACCCCTGT
* *
27196054 TTACACTTAC-GTACCCTTGT
1 TTGCACTT-CGGTACCCCTGT
27196074 TTGCACTTCGGTACCCCTG
1 TTGCACTTCGGTACCCCTG
27196093 ATCACACTTT
Statistics
Matches: 177, Mismatches: 73, Indels: 18
0.66 0.27 0.07
Matches are distributed among these distances:
19 6 0.03
20 166 0.94
21 5 0.03
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (20 bp):
TTGCACTTCGGTACCCCTGT
Found at i:27195947 original size:80 final size:80
Alignment explanation
Indices: 27195814--27196101 Score: 389
Period size: 80 Copynumber: 3.6 Consensus size: 80
27195804 TATTGGATTA
* *
27195814 TTGCACTTACGTGCCCCTGTTTGTACTTCGGTATTCCC-GATTGCACTTACGTGCCCCTATTTGT
1 TTGCACTTACGTGCCCCTGTTTGTACTTCGGTA-CCCCTGATTACACTTACGTGCCCCTATTTGT
* *
27195878 ACTTTGGTACTCATGG
65 ACTTCGGTACTCCTGG
* * *
27195894 TTGCAGTTCCGTGCCCCTGTTTGTACTTTGGTACCCCTGATTACACTTACGTGCCCCTATTTGTA
1 TTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTATTTGTA
**
27195959 CTTCGGTACTCCTAA
66 CTTCGGTACTCCTGG
* * * *
27195974 TTGCACTTATGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTATGTGCCCATATTTGTA
1 TTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTATTTGTA
*
27196039 CTTCGGTACCCCTGG
66 CTTCGGTACTCCTGG
* * * * *
27196054 TTACACTTACGTACCCTTGTTTGCACTTCGGTACCCCTGATCACACTT
1 TTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTACACTT
27196102 TGGTTCCCCT
Statistics
Matches: 181, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
79 3 0.02
80 178 0.98
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.38
Consensus pattern (80 bp):
TTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTACACTTACGTGCCCCTATTTGTA
CTTCGGTACTCCTGG
Found at i:27196100 original size:20 final size:20
Alignment explanation
Indices: 27195918--27196112 Score: 83
Period size: 20 Copynumber: 9.8 Consensus size: 20
27195908 CCCTGTTTGT
*
27195918 ACTTTGGTACCCCTGATTAC
1 ACTTCGGTACCCCTGATTAC
* **
27195938 ACTTAC-GTGCCCCT-ATTTGT
1 ACTT-CGGTACCCCTGA-TTAC
* * *
27195958 ACTTCGGTACTCCTAATTGC
1 ACTTCGGTACCCCTGATTAC
** * * **
27195978 ACTTATGTGCCCCTGTTTGT
1 ACTTCGGTACCCCTGATTAC
*
27195998 ACTTCGGTACCCCTGATTGC
1 ACTTCGGTACCCCTGATTAC
** * * **
27196018 ACTTATGTGCCCAT-ATTTGT
1 ACTTCGGTACCCCTGA-TTAC
*
27196038 ACTTCGGTACCCCTGGTTAC
1 ACTTCGGTACCCCTGATTAC
* * *
27196058 ACTTAC-GTACCCTTGTTTGC
1 ACTT-CGGTACCCCTGATTAC
*
27196078 ACTTCGGTACCCCTGATCAC
1 ACTTCGGTACCCCTGATTAC
* *
27196098 ACTTTGGTTCCCCTG
1 ACTTCGGTACCCCTG
27196113 TTATGCATCT
Statistics
Matches: 127, Mismatches: 40, Indels: 16
0.69 0.22 0.09
Matches are distributed among these distances:
19 4 0.03
20 121 0.95
21 2 0.02
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.36
Consensus pattern (20 bp):
ACTTCGGTACCCCTGATTAC
Found at i:27201196 original size:18 final size:17
Alignment explanation
Indices: 27201163--27201201 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
27201153 TTTTATAAAT
27201163 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
27201181 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
27201198 TGTG
1 TGTG
27201202 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:27201454 original size:23 final size:23
Alignment explanation
Indices: 27201428--27201548 Score: 163
Period size: 23 Copynumber: 5.3 Consensus size: 23
27201418 GTGTTATTGA
27201428 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
27201451 TCAGTGGTAGCTACGGCTACATAT
1 TCAGTGGTAGCTTCGGCTACAT-T
*
27201475 T-AGTGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* * *
27201497 TCAGTGGTAGCTACGGCTACGTA
1 TCAGTGGTAGCTTCGGCTACATT
* *
27201520 TCAGTGCTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
27201543 TCAGTG
1 TCAGTG
27201549 TGGCACTTAT
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
22 2 0.02
23 82 0.95
24 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:27201483 original size:46 final size:46
Alignment explanation
Indices: 27201427--27201548 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
27201417 AGTGTTATTG
27201427 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
* * *
27201473 ATTAGTGGTAGCTTCAGCTACATTTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
* *
27201519 ATCAGTGCTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
27201549 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
Found at i:27208030 original size:18 final size:18
Alignment explanation
Indices: 27208007--27208041 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
27207997 TGCTTCGGCG
27208007 ACGTAATGTAATATCATT
1 ACGTAATGTAATATCATT
27208025 ACGTAATGTAATATCAT
1 ACGTAATGTAATATCAT
27208042 ACACTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (18 bp):
ACGTAATGTAATATCATT
Found at i:27212720 original size:6 final size:6
Alignment explanation
Indices: 27212709--27212766 Score: 80
Period size: 6 Copynumber: 9.3 Consensus size: 6
27212699 AGAGGAGACG
* *
27212709 GATTTA GATTTA GATCTTT GGATTTT GATTTT GATTTT GATTTT GATTTT
1 GATTTT GATTTT GAT-TTT -GATTTT GATTTT GATTTT GATTTT GATTTT
27212759 GATTTT GA
1 GATTTT GA
27212767 AATTGGAGAT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
6 41 0.84
7 5 0.10
8 3 0.06
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.59
Consensus pattern (6 bp):
GATTTT
Found at i:27221139 original size:31 final size:31
Alignment explanation
Indices: 27221098--27221158 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
27221088 TGTATTTTTT
27221098 TAATTAAGTGACTAA-AATGAAAATTTACCCA
1 TAATTAAGTGACTAATAATG-AAATTTACCCA
* *
27221129 TAATTTAGTGACTAATAATGTAATTTACCC
1 TAATTAAGTGACTAATAATGAAATTTACCC
27221159 TCACATCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (31 bp):
TAATTAAGTGACTAATAATGAAATTTACCCA
Found at i:27221759 original size:18 final size:18
Alignment explanation
Indices: 27221712--27221759 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
27221702 AAAAAGAGCT
*
27221712 AAAACAAAACACAAAGTTCA
1 AAAAC-AAA-ACAAACTTCA
* *
27221732 AAACCCAAACAAACTTCA
1 AAAACAAAACAAACTTCA
27221750 AAAACAAAAC
1 AAAACAAAAC
27221760 CCAACCTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 17 0.74
19 2 0.09
20 4 0.17
ACGTcount: A:0.65, C:0.25, G:0.02, T:0.08
Consensus pattern (18 bp):
AAAACAAAACAAACTTCA
Found at i:27223089 original size:34 final size:34
Alignment explanation
Indices: 27223046--27223115 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
27223036 AAATGATTAT
*
27223046 ACCGGTAACAAGCCATGAGGCAATCAAGAATCAA
1 ACCGGTAACAAGCCACGAGGCAATCAAGAATCAA
*
27223080 ACCGGTAACAAGGCACGAGGCAATCAAGAATCAA
1 ACCGGTAACAAGCCACGAGGCAATCAAGAATCAA
27223114 AC
1 AC
27223116 TCTTCCAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.24, G:0.21, T:0.10
Consensus pattern (34 bp):
ACCGGTAACAAGCCACGAGGCAATCAAGAATCAA
Found at i:27234868 original size:16 final size:16
Alignment explanation
Indices: 27234844--27234874 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27234834 TGTTTAGTTT
27234844 ACTGGAATGAAATAAG
1 ACTGGAATGAAATAAG
*
27234860 ACTGTAATGAAATAA
1 ACTGGAATGAAATAA
27234875 CTATTTTGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.19, T:0.23
Consensus pattern (16 bp):
ACTGGAATGAAATAAG
Found at i:27236166 original size:69 final size:69
Alignment explanation
Indices: 27236018--27236207 Score: 253
Period size: 67 Copynumber: 2.8 Consensus size: 69
27236008 CATAAATAAA
* * * *
27236018 AAAAAGTTATATTACTCCACCACCGCACCCAATTATACATACAAAAAGTG--AACCTACAATGAC
1 AAAAAGTTATATTAGTCCACCACCACACCCATTTACACATACAAAAAGTGACAACCTACAATGAC
27236081 ATAC
66 ATAC
* * * *
27236085 AAAAAGTGATATTAGTCCACTACCACACCTATTTACACATACAAAAAGTGACAACCTACAATTAC
1 AAAAAGTTATATTAGTCCACCACCACACCCATTTACACATACAAAAAGTGACAACCTACAATGAC
*
27236150 ATAT
66 ATAC
* *
27236154 GAAAAGTTATATTAGTTCACCACCACACCCATTTACAC--ACAAAAAGTGACAACC
1 AAAAAGTTATATTAGTCCACCACCACACCCATTTACACATACAAAAAGTGACAACC
27236208 CTCTATGGTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
67 59 0.55
69 48 0.45
ACGTcount: A:0.44, C:0.26, G:0.08, T:0.22
Consensus pattern (69 bp):
AAAAAGTTATATTAGTCCACCACCACACCCATTTACACATACAAAAAGTGACAACCTACAATGAC
ATAC
Found at i:27237173 original size:9 final size:9
Alignment explanation
Indices: 27237156--27237186 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27237146 TCGAGTTGAT
27237156 TCGAATAAC
1 TCGAATAAC
*
27237165 TCGATTAAC
1 TCGAATAAC
27237174 TCGAATAAC
1 TCGAATAAC
27237183 TCGA
1 TCGA
27237187 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:27240949 original size:2 final size:2
Alignment explanation
Indices: 27240942--27240968 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27240932 CAAAACATTA
27240942 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
27240969 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27243706 original size:18 final size:17
Alignment explanation
Indices: 27243685--27243732 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
27243675 TAAATAAATA
27243685 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAA-TGAAT
*
27243703 AATGATTTGTAAATGAAT
1 AATGTTTTG-AAATGAAT
*
27243721 AATATTTTGAAA
1 AATGTTTTGAAA
27243733 ACGAACGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (17 bp):
AATGTTTTGAAATGAAT
Found at i:27244111 original size:25 final size:25
Alignment explanation
Indices: 27244048--27244128 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
27244038 TTAAACTGAA
* *
27244048 ACTGAAACTATCT-TTGATAGTATAT
1 ACTGAAACTA-CTATAGGTAGTATAT
* *
27244073 CCTGAAACTGCTATAGGTAGTATAT
1 ACTGAAACTACTATAGGTAGTATAT
* * *
27244098 ATTGAGACTACTATAGATAG-ACTAT
1 ACTGAAACTACTATAGGTAGTA-TAT
27244123 ACTGAA
1 ACTGAA
27244129 TACACTTAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
24 3 0.07
25 40 0.93
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (25 bp):
ACTGAAACTACTATAGGTAGTATAT
Found at i:27247485 original size:17 final size:18
Alignment explanation
Indices: 27247460--27247495 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
27247450 TTTAAAACAC
27247460 ATTTGAAACATGA-CTTT
1 ATTTGAAACATGACCTTT
*
27247477 ATTTTAAACATGACCTTT
1 ATTTGAAACATGACCTTT
27247495 A
1 A
27247496 GTAATTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (18 bp):
ATTTGAAACATGACCTTT
Found at i:27251552 original size:40 final size:38
Alignment explanation
Indices: 27251454--27251552 Score: 126
Period size: 39 Copynumber: 2.5 Consensus size: 38
27251444 CCCAGCCCAA
**
27251454 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTTT
1 ACCCAATTA-CCAACCCAATAAAACTAAAACTAAAGACT
*
27251493 ACCCAATTACTCAATCCAATAAAACTAAAACTAAAAGACT
1 ACCCAATTAC-CAACCCAATAAAACTAAAACT-AAAGACT
*
27251533 ATCCAATTTACCAACCCAAT
1 ACCCAA-TTACCAACCCAAT
27251553 TTACTAAAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.02
39 29 0.56
40 18 0.35
41 4 0.08
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.21
Consensus pattern (38 bp):
ACCCAATTACCAACCCAATAAAACTAAAACTAAAGACT
Found at i:27251637 original size:9 final size:9
Alignment explanation
Indices: 27251625--27251701 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
27251615 AAAAATAAAA
27251625 AATTCGGGT
1 AATTCGGGT
27251634 AATTCGGGT
1 AATTCGGGT
*
27251643 ATTTTTC-GGT
1 A--ATTCGGGT
*
27251653 AATTCGGTT
1 AATTCGGGT
* *
27251662 AATTTGGTT
1 AATTCGGGT
27251671 AATTCGGGT
1 AATTCGGGT
27251680 AATTCGGGT
1 AATTCGGGT
*
27251689 AATTCGAGT
1 AATTCGGGT
27251698 AATT
1 AATT
27251702 TTTAACCAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
8 3 0.05
9 48 0.83
10 4 0.07
11 3 0.05
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:27251877 original size:12 final size:12
Alignment explanation
Indices: 27251860--27251884 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27251850 AGTAATTTCG
27251860 GGTCGGTTAACC
1 GGTCGGTTAACC
27251872 GGTCGGTTAACC
1 GGTCGGTTAACC
27251884 G
1 G
27251885 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:27253983 original size:24 final size:24
Alignment explanation
Indices: 27253929--27254104 Score: 142
Period size: 24 Copynumber: 7.3 Consensus size: 24
27253919 CATAACACCC
** *
27253929 GCGAACCCCTATCATTAG-CTACCT
1 GCGAACCCCTATCACCAGAC-ACAT
* * **
27253953 GCAAACCCCAATCACCAGACATTT
1 GCGAACCCCTATCACCAGACACAT
*
27253977 GCGAACCCCTATCACTAGACACAT
1 GCGAACCCCTATCACCAGACACAT
* *
27254001 GCGAACCCCTATCGCCAG-CTACCT
1 GCGAACCCCTATCACCAGAC-ACAT
* * **
27254025 ACAAACCCCTATCATTAGACACAT
1 GCGAACCCCTATCACCAGACACAT
* *
27254049 GTGAACCCCTATCACCAG-CTACTT
1 GCGAACCCCTATCACCAGAC-ACAT
* *
27254073 GCGAACCCTTATCACCAAACACAT
1 GCGAACCCCTATCACCAGACACAT
27254097 GCGAACCC
1 GCGAACCC
27254105 TTTAATGTAT
Statistics
Matches: 117, Mismatches: 30, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
23 2 0.02
24 112 0.96
25 3 0.03
ACGTcount: A:0.31, C:0.39, G:0.11, T:0.19
Consensus pattern (24 bp):
GCGAACCCCTATCACCAGACACAT
Found at i:27254008 original size:48 final size:48
Alignment explanation
Indices: 27253929--27254104 Score: 194
Period size: 48 Copynumber: 3.7 Consensus size: 48
27253919 CATAACACCC
* * * * *
27253929 GCGAACCCCTATCATTAG-CTACCTGCAAACCCCAATCACCAGAC-ATTT
1 GCGAACCCCTATCACTAGAC-ACATGCGAACCCCTATCACCAG-CTACTT
* *
27253977 GCGAACCCCTATCACTAGACACATGCGAACCCCTATCGCCAGCTACCT
1 GCGAACCCCTATCACTAGACACATGCGAACCCCTATCACCAGCTACTT
* * * *
27254025 ACAAACCCCTATCATTAGACACATGTGAACCCCTATCACCAGCTACTT
1 GCGAACCCCTATCACTAGACACATGCGAACCCCTATCACCAGCTACTT
* * *
27254073 GCGAACCCTTATCACCAAACACATGCGAACCC
1 GCGAACCCCTATCACTAGACACATGCGAACCC
27254105 TTTAATGTAT
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 1 0.01
48 104 0.98
49 1 0.01
ACGTcount: A:0.31, C:0.39, G:0.11, T:0.19
Consensus pattern (48 bp):
GCGAACCCCTATCACTAGACACATGCGAACCCCTATCACCAGCTACTT
Found at i:27254055 original size:72 final size:72
Alignment explanation
Indices: 27253929--27254089 Score: 189
Period size: 72 Copynumber: 2.2 Consensus size: 72
27253919 CATAACACCC
** * ** *
27253929 GCGAACCCCTATCATTAGCTACCTGCAAACCCCAATCACCAGACATTTGCGAACCCCTATCACTA
1 GCGAACCCCTATCACCAGCTACCTACAAACCCCAATCACCAGACACATGCGAACCCCTATCACCA
27253994 GAC-ACAT
66 G-CTACAT
* * ** *
27254001 GCGAACCCCTATCGCCAGCTACCTACAAACCCCTATCATTAGACACATGTGAACCCCTATCACCA
1 GCGAACCCCTATCACCAGCTACCTACAAACCCCAATCACCAGACACATGCGAACCCCTATCACCA
*
27254066 GCTACTT
66 GCTACAT
*
27254073 GCGAACCCTTATCACCA
1 GCGAACCCCTATCACCA
27254090 AACACATGCG
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
71 1 0.01
72 73 0.99
ACGTcount: A:0.30, C:0.39, G:0.11, T:0.20
Consensus pattern (72 bp):
GCGAACCCCTATCACCAGCTACCTACAAACCCCAATCACCAGACACATGCGAACCCCTATCACCA
GCTACAT
Found at i:27255478 original size:39 final size:39
Alignment explanation
Indices: 27255434--27255519 Score: 163
Period size: 39 Copynumber: 2.2 Consensus size: 39
27255424 CACCACCAAA
27255434 ATTTCTTCTTTCTTTCTTCTGTCAAATTCTACACTTCAT
1 ATTTCTTCTTTCTTTCTTCTGTCAAATTCTACACTTCAT
27255473 ATTTCTTCTTTCTTTCTTCTGTCAAATTCTACACTTCAT
1 ATTTCTTCTTTCTTTCTTCTGTCAAATTCTACACTTCAT
*
27255512 CTTTCTTC
1 ATTTCTTC
27255520 GGTTAAAAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.16, C:0.27, G:0.02, T:0.55
Consensus pattern (39 bp):
ATTTCTTCTTTCTTTCTTCTGTCAAATTCTACACTTCAT
Found at i:27255579 original size:39 final size:39
Alignment explanation
Indices: 27255496--27255579 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
27255486 TTCTTCTGTC
*
27255496 AAATTCTACACTTCATCTTTCTTCGGTTAAAAACCCCCA
1 AAATTTTACACTTCATCTTTCTTCGGTTAAAAACCCCCA
27255535 AAATTTTACACTTCATCTTTCTTCGGTTAAAAACCCCCA
1 AAATTTTACACTTCATCTTTCTTCGGTTAAAAACCCCCA
27255574 AAATTT
1 AAATTT
27255580 GTCCTCACTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (39 bp):
AAATTTTACACTTCATCTTTCTTCGGTTAAAAACCCCCA
Found at i:27258271 original size:18 final size:18
Alignment explanation
Indices: 27258247--27258292 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
27258237 TTTTTTATTT
27258247 TTCATATTCGTTTTACGA
1 TTCATATTCGTTTTACGA
* **
27258265 TTTATATTTATTTTACGA
1 TTCATATTCGTTTTACGA
27258283 TTCATATTCG
1 TTCATATTCG
27258293 AGGTTCAGAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.54
Consensus pattern (18 bp):
TTCATATTCGTTTTACGA
Found at i:27258486 original size:15 final size:15
Alignment explanation
Indices: 27258454--27258486 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
27258444 CGATTAAGGT
27258454 CATAATTCATAACGC
1 CATAATTCATAACGC
27258469 CATAAGTTCATAAC-C
1 CATAA-TTCATAACGC
27258484 CAT
1 CAT
27258487 TTACACACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.27
Consensus pattern (15 bp):
CATAATTCATAACGC
Found at i:27259881 original size:15 final size:15
Alignment explanation
Indices: 27259844--27259889 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
27259834 AATAAAAGAG
27259844 AGAGAAG-AAAG-AA
1 AGAGAAGAAAAGAAA
27259857 AGATGAAAGAAAAGAAA
1 AGA-G-AAGAAAAGAAA
*
27259874 AGAGAAGAAAGGAAA
1 AGAGAAGAAAAGAAA
27259889 A
1 A
27259890 TTTCTCATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.11
14 1 0.04
15 14 0.50
16 5 0.18
17 5 0.18
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (15 bp):
AGAGAAGAAAAGAAA
Found at i:27262343 original size:23 final size:23
Alignment explanation
Indices: 27262317--27262382 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 23
27262307 AACTTAATCG
*
27262317 AACATGTTCACGAACAATAAACA
1 AACATGTTCACAAACAATAAACA
* **
27262340 AACATGTTCATAAACATATAATTA
1 AACATGTTCACAAACA-ATAAACA
*
27262364 AACATGTCCACAAACAATA
1 AACATGTTCACAAACAATA
27262383 TTAATGAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
23 17 0.47
24 19 0.53
ACGTcount: A:0.52, C:0.20, G:0.06, T:0.23
Consensus pattern (23 bp):
AACATGTTCACAAACAATAAACA
Found at i:27264571 original size:20 final size:21
Alignment explanation
Indices: 27264546--27264587 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
27264536 AAAAGTTTCC
* *
27264546 ATATCATATCAT-TCCATTTT
1 ATATCACATCATATCAATTTT
27264566 ATATCACATCATATCAATTTT
1 ATATCACATCATATCAATTTT
27264587 A
1 A
27264588 ACTTAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATCACATCATATCAATTTT
Found at i:27273120 original size:10 final size:10
Alignment explanation
Indices: 27273105--27273137 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
27273095 ACTTATAAAT
27273105 ATTATAATAA
1 ATTATAATAA
27273115 ATTATAATAA
1 ATTATAATAA
27273125 A-TATAATAA
1 ATTATAATAA
27273134 ATTA
1 ATTA
27273138 AAAAGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATTATAATAA
Found at i:27274760 original size:25 final size:24
Alignment explanation
Indices: 27274701--27274815 Score: 79
Period size: 25 Copynumber: 4.6 Consensus size: 24
27274691 AAAGTACATA
* *
27274701 AACGGAAAGCTCTTTTGAGCCATAT
1 AACGGAAAGCTCATGTGAGCCAT-T
*
27274726 AAC-AAGAAGCTCATGTGAGCCATGT
1 AACGGA-AAGCTCATGTGAGCCAT-T
** *
27274751 AACGGAAAGCTCCGGAGAGCCATT
1 AACGGAAAGCTCATGTGAGCCATT
* * *
27274775 CACGGGAAGCTCATGCGAGCCAATT
1 AACGGAAAGCTCATGTGAGCC-ATT
* *
27274800 AATTGGGAAGCTCATG
1 AA-CGGAAAGCTCATG
27274816 AAAGAGCCTT
Statistics
Matches: 71, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
24 18 0.25
25 40 0.56
26 13 0.18
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (24 bp):
AACGGAAAGCTCATGTGAGCCATT
Found at i:27274794 original size:24 final size:24
Alignment explanation
Indices: 27274717--27274866 Score: 86
Period size: 25 Copynumber: 5.9 Consensus size: 24
27274707 AAGCTCTTTT
** *
27274717 GAGCCATATAACAAGAAGCTCATGT
1 GAGCCAT-TAACGGGAAGCTCATGA
* **
27274742 GAGCCATGTAACGGAAAGCTCCGGA
1 GAGCCAT-TAACGGGAAGCTCATGA
* *
27274767 GAGCCATTCACGGGAAGCTCATGC
1 GAGCCATTAACGGGAAGCTCATGA
*
27274791 GAGCCAATTAATTGGGAAGCTCATGAAA
1 GAGCC-ATTAA-CGGGAAGCTCATG--A
* * *
27274819 GAGCCTTTAATCAGGAAGCTC-CGAA
1 GAGCCATTAA-CGGGAAGCTCATG-A
* *
27274844 GAGCCATATATCGGGACGCTCAT
1 GAGCCAT-TAACGGGAAGCTCAT
27274867 AAAAGTTGCG
Statistics
Matches: 95, Mismatches: 24, Indels: 11
0.73 0.18 0.08
Matches are distributed among these distances:
24 17 0.18
25 45 0.47
26 15 0.16
27 13 0.14
28 5 0.05
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.19
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCATGA
Found at i:27278025 original size:19 final size:20
Alignment explanation
Indices: 27277987--27278029 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
27277977 ATAATAATAA
27277987 ACAAGCCCAAAAATAAAATT
1 ACAAGCCCAAAAATAAAATT
*
27278007 ACAAGCCCAAATA-AAAATT
1 ACAAGCCCAAAAATAAAATT
27278026 ACAA
1 ACAA
27278030 ATCCAATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.60, C:0.21, G:0.05, T:0.14
Consensus pattern (20 bp):
ACAAGCCCAAAAATAAAATT
Found at i:27278035 original size:19 final size:18
Alignment explanation
Indices: 27277997--27278035 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
27277987 ACAAGCCCAA
*
27277997 AAATAAAATTACAAGCCC
1 AAATAAAATTACAAACCC
*
27278015 AAATAAAAATTACAAATCC
1 AAAT-AAAATTACAAACCC
27278034 AA
1 AA
27278036 TTACAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (18 bp):
AAATAAAATTACAAACCC
Found at i:27279416 original size:20 final size:19
Alignment explanation
Indices: 27279393--27279430 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
27279383 TAATTTCAAC
27279393 TTTTCATTT-TTATTATTTTA
1 TTTT-ATTTATTATT-TTTTA
27279413 TTTTATTTATTATTTTTT
1 TTTTATTTATTATTTTTT
27279431 GCCCTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTTATTATTTTTTA
Found at i:27284146 original size:21 final size:21
Alignment explanation
Indices: 27284122--27284162 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27284112 GCTTCCCGTA
27284122 CTTTTCATGCCGCTTCTCATT
1 CTTTTCATGCCGCTTCTCATT
* * *
27284143 CTTTTCGTGTCGCTTTTCAT
1 CTTTTCATGCCGCTTCTCAT
27284163 GCTTCTCGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.29, G:0.12, T:0.51
Consensus pattern (21 bp):
CTTTTCATGCCGCTTCTCATT
Found at i:27284171 original size:21 final size:21
Alignment explanation
Indices: 27284132--27284173 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27284122 CTTTTCATGC
* *
27284132 CGCTTCTCATTCTTTTCGTGT
1 CGCTTCTCATGCTTCTCGTGT
*
27284153 CGCTTTTCATGCTTCTCGTGT
1 CGCTTCTCATGCTTCTCGTGT
27284174 TTGTTGTCAT
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:0.05, C:0.29, G:0.17, T:0.50
Consensus pattern (21 bp):
CGCTTCTCATGCTTCTCGTGT
Found at i:27285028 original size:13 final size:14
Alignment explanation
Indices: 27285010--27285039 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
27285000 TAGCACCAGT
27285010 TTCTTTAT-AAATG
1 TTCTTTATAAAATG
27285023 TTCTTTATAAAATG
1 TTCTTTATAAAATG
27285037 TTC
1 TTC
27285040 ATAATTGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (14 bp):
TTCTTTATAAAATG
Found at i:27293078 original size:20 final size:20
Alignment explanation
Indices: 27293053--27293094 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
27293043 TTTCTAACGA
*
27293053 AATTTTAATATCATATTACT
1 AATTTTAATACCATATTACT
27293073 AATTTTAATACCATATTACT
1 AATTTTAATACCATATTACT
27293093 AA
1 AA
27293095 CATTTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTTAATACCATATTACT
Found at i:27296167 original size:29 final size:30
Alignment explanation
Indices: 27296108--27296165 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27296098 TCCGAGCCTT
*
27296108 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
27296138 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
27296166 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:27296395 original size:13 final size:13
Alignment explanation
Indices: 27296377--27296408 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
27296367 TTTCCAGCAA
27296377 TTATGAATTTATT
1 TTATGAATTTATT
27296390 TTATGAATTTATT
1 TTATGAATTTATT
*
27296403 TGATGA
1 TTATGA
27296409 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:27298227 original size:26 final size:25
Alignment explanation
Indices: 27298198--27298277 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 25
27298188 ATGTTCGGTT
27298198 CACATAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCT-CACATAGTACTA
* * * *
27298224 CACAT-GTAACCATTACCAT-CTAATA
1 CACATAGTAGCC-TCA-CATAGTACTA
*
27298249 CACGTAGTAGCCTACACATAGTACTA
1 CACATAGTAGCCT-CACATAGTACTA
27298275 CAC
1 CAC
27298278 GCGTGATCGA
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
25 18 0.45
26 22 0.55
ACGTcount: A:0.36, C:0.29, G:0.11, T:0.24
Consensus pattern (25 bp):
CACATAGTAGCCTCACATAGTACTA
Done.