Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 291 of 332
Found at i:96968111 original size:9 final size:9
Alignment explanation
Indices: 96968079--96968136 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
96968069 TTTCGTTTCT
96968079 TTATTAAATA
1 TTATT-AATA
96968089 TTATT-AT-
1 TTATTAATA
*
96968096 TT-CTAATA
1 TTATTAATA
96968104 TTATTAATA
1 TTATTAATA
*
96968113 TTATTACTA
1 TTATTAATA
*
96968122 TTATTATTA
1 TTATTAATA
96968131 TTATTA
1 TTATTA
96968137 TTGTATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
6 1 0.02
7 4 0.10
8 4 0.10
9 27 0.66
10 5 0.12
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (9 bp):
TTATTAATA
Found at i:96968130 original size:12 final size:11
Alignment explanation
Indices: 96968086--96968227 Score: 84
Period size: 12 Copynumber: 12.6 Consensus size: 11
96968076 TCTTTATTAA
96968086 ATATTATTATTT
1 ATATTATTA-TT
* *
96968098 CTAATATTATT
1 ATATTATTATT
96968109 A-A-TATTATT
1 ATATTATTATT
96968118 ACTATTATTATT
1 A-TATTATTATT
*
96968130 ATTATTATT-GT
1 A-TATTATTATT
96968141 ATATT-TTATT
1 ATATTATTATT
96968151 ATA-TATGTATAT
1 ATATTAT-TAT-T
96968163 ATATTTATATATTT
1 ATA-TTAT-TA-TT
*
96968177 ATATATAGTATT
1 ATAT-TATTATT
*
96968189 AT-TTTTTATT
1 ATATTATTATT
96968199 ACT-TTATT-TT
1 A-TATTATTATT
96968209 AATATTATTATT
1 -ATATTATTATT
96968221 ATATTAT
1 ATATTAT
96968228 ATTTGCTTTT
Statistics
Matches: 104, Mismatches: 11, Indels: 31
0.71 0.08 0.21
Matches are distributed among these distances:
9 11 0.11
10 19 0.18
11 27 0.26
12 32 0.31
13 3 0.03
14 11 0.11
15 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (11 bp):
ATATTATTATT
Found at i:96974920 original size:15 final size:15
Alignment explanation
Indices: 96974896--96974929 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
96974886 TTAAAAGAAT
* *
96974896 TTAAATTTCAAAATC
1 TTAAAATTCAAAAGC
96974911 TTAAAATTCAAAAGC
1 TTAAAATTCAAAAGC
96974926 TTAA
1 TTAA
96974930 TTAATCATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (15 bp):
TTAAAATTCAAAAGC
Found at i:96975457 original size:3 final size:3
Alignment explanation
Indices: 96975449--96975496 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
96975439 CGCATGAAAG
96975449 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
96975497 AGAGGATAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:96980646 original size:29 final size:30
Alignment explanation
Indices: 96980604--96980663 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
96980594 TTATGGAAGA
* *
96980604 GATGGAGAACTTGTTCGTTG-AGAGTTCGT
1 GATGAAGAACTTGTTCGTTGAAGAATTCGT
*
96980633 GATGAAGAACTTGTTTGTTGAAGAATTCGT
1 GATGAAGAACTTGTTCGTTGAAGAATTCGT
96980663 G
1 G
96980664 TCAAGGTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.25, C:0.08, G:0.32, T:0.35
Consensus pattern (30 bp):
GATGAAGAACTTGTTCGTTGAAGAATTCGT
Found at i:96980728 original size:14 final size:14
Alignment explanation
Indices: 96980709--96980735 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
96980699 CATGATAAAA
96980709 TAAAATACAAGTGG
1 TAAAATACAAGTGG
96980723 TAAAATACAAGTG
1 TAAAATACAAGTG
96980736 TGCAAGAGAA
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:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:96980979 original size:13 final size:13
Alignment explanation
Indices: 96980961--96980998 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
96980951 AATCTGTGTG
96980961 TTCTTTATTTTTT
1 TTCTTTATTTTTT
96980974 TTCTTTATTTTTT
1 TTCTTTATTTTTT
*
96980987 TTCTTTCTTTTT
1 TTCTTTATTTTT
96980999 CTTTGCGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (13 bp):
TTCTTTATTTTTT
Found at i:96985069 original size:224 final size:224
Alignment explanation
Indices: 96984679--96985122 Score: 800
Period size: 224 Copynumber: 2.0 Consensus size: 224
96984669 CTAGTCGTTG
* *
96984679 GACTTGAGCTTTAGGATGCTACAATAATTAACGGAACAGTATTATGCAAATCTAAAACCAAAAGT
1 GACTTGAGCTATAGGATGCTACAATAATTAACAGAACAGTATTATGCAAATCTAAAACCAAAAGT
* *
96984744 TCAATTAAACATCGGATGATCTCAAACATTTATACAAAATCATGTTTTGCAAACAAAATCAAGTT
66 TCAATTAAACATCGGATGATCTCAAACATTTACACAAAATCATGCTTTGCAAACAAAATCAAGTT
* *
96984809 TAAATTGAGCCTACGAAAGCTCTAAAGTTGACCCAAAATCAAGCAATGACTAATTTGACACTTTT
131 TAAATTGAGCCTACGAAAGCTCTAAAGTTCACCCAAAATCAAGCAATGACTAATTTGAAACTTTT
*
96984874 ACAAAATGAAAGG-CAAAAATGCAAACAGA
196 ACAAAATG-AAGGAAAAAAATGCAAACAGA
96984903 GACTTGAGCTATAGGATGCTACAATAATTAACAGAACAGTATTATGCAAATCTAAAACCAAAAGT
1 GACTTGAGCTATAGGATGCTACAATAATTAACAGAACAGTATTATGCAAATCTAAAACCAAAAGT
96984968 TCAATTAAACATCGGATGATCTCAAACATTTACACAAAATCATGCTTTGCAAACAAAATCAAGTT
66 TCAATTAAACATCGGATGATCTCAAACATTTACACAAAATCATGCTTTGCAAACAAAATCAAGTT
*
96985033 TAAATTGAGCTTACGAAAGCTCTAAAGTTCACCCAAAATCAAGCAATGACTAATTTGAAACTTTT
131 TAAATTGAGCCTACGAAAGCTCTAAAGTTCACCCAAAATCAAGCAATGACTAATTTGAAACTTTT
96985098 ACAAAATGAAGGAAAAAAATGCAAA
196 ACAAAATGAAGGAAAAAAATGCAAA
96985123 ACAGGGGTCA
Statistics
Matches: 211, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
223 4 0.02
224 207 0.98
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (224 bp):
GACTTGAGCTATAGGATGCTACAATAATTAACAGAACAGTATTATGCAAATCTAAAACCAAAAGT
TCAATTAAACATCGGATGATCTCAAACATTTACACAAAATCATGCTTTGCAAACAAAATCAAGTT
TAAATTGAGCCTACGAAAGCTCTAAAGTTCACCCAAAATCAAGCAATGACTAATTTGAAACTTTT
ACAAAATGAAGGAAAAAAATGCAAACAGA
Found at i:96988697 original size:16 final size:16
Alignment explanation
Indices: 96988664--96988697 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
96988654 GGTATATGTT
* *
96988664 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
96988680 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
96988696 AA
1 AA
96988698 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:96991518 original size:21 final size:21
Alignment explanation
Indices: 96991492--96991532 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96991482 AGACGAGCAA
* *
96991492 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
96991513 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
96991533 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:96993471 original size:16 final size:16
Alignment explanation
Indices: 96993438--96993471 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
96993428 GGAGATTGTT
* *
96993438 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
96993454 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
96993470 AA
1 AA
96993472 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:96995060 original size:40 final size:41
Alignment explanation
Indices: 96995010--96995086 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
96995000 AAAATTAAAA
*
96995010 AATGTGTAAGTTTATTATATAATA-TATAAT-ATAAAATCTT
1 AATGTGTAAGTATA-TATATAATATTATAATAATAAAATCTT
* *
96995050 AATGTTTAAGTATATATATTATATTATAATAATAAAA
1 AATGTGTAAGTATATATATAATATTATAATAATAAAA
96995087 CAAGTAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 8 0.25
40 18 0.56
41 6 0.19
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.44
Consensus pattern (41 bp):
AATGTGTAAGTATATATATAATATTATAATAATAAAATCTT
Found at i:96996384 original size:14 final size:14
Alignment explanation
Indices: 96996356--96996395 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
96996346 TAATATGTGT
*
96996356 TTATATTTCAATTA
1 TTATATTTAAATTA
96996370 -TATATTGTAAATTA
1 TTATATT-TAAATTA
96996384 TTATATTTAAAT
1 TTATATTTAAAT
96996396 ATTCGGATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 6 0.26
14 11 0.48
15 6 0.26
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (14 bp):
TTATATTTAAATTA
Found at i:96997652 original size:20 final size:20
Alignment explanation
Indices: 96997573--96997641 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
96997563 TTATAATTTT
96997573 TTATAAAAATCATAAAAAAA
1 TTATAAAAATCATAAAAAAA
* * * * * ***
96997593 TAAAAAAAAACTTGTAAATGT
1 TTATAAAAATCAT-AAAAAAA
96997614 TTATAAAAATCATAAAAAAA
1 TTATAAAAATCATAAAAAAA
96997634 TTATAAAA
1 TTATAAAA
96997642 TACATCAAAA
Statistics
Matches: 32, Mismatches: 16, Indels: 2
0.64 0.32 0.04
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (20 bp):
TTATAAAAATCATAAAAAAA
Found at i:96997902 original size:28 final size:26
Alignment explanation
Indices: 96997884--96997968 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 26
96997874 TTCTTACGAC
96997884 TTTATAAAATTTTAT-ATTTTTTTACA
1 TTTATAAAATTTTATGA-TTTTTTACA
* *
96997910 TTTCTATATATTTTATGATTTTTTACTA
1 TTTATA-AAATTTTATGATTTTTTAC-A
** *
96997938 TTTTTATAAAATTTTACAATTTTTTATA
1 --TTTATAAAATTTTATGATTTTTTACA
96997966 TTT
1 TTT
96997969 TTTTACGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
26 8 0.17
27 16 0.34
28 3 0.06
29 15 0.32
30 5 0.11
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.64
Consensus pattern (26 bp):
TTTATAAAATTTTATGATTTTTTACA
Found at i:96997942 original size:19 final size:18
Alignment explanation
Indices: 96997920--96997990 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 18
96997910 TTTCTATATA
*
96997920 TTTTATGATTTTTTACTAT
1 TTTTAT-ATTTTTTACAAT
**
96997939 TTTTATAAAATTTTACAATT
1 TTTTAT-ATTTTTTACAA-T
*
96997959 TTTTATATTTTTTTACGAT
1 TTTTATA-TTTTTTACAAT
96997978 TTTTATATTTTTT
1 TTTTATATTTTTT
96997991 CTAATTTTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
18 6 0.14
19 23 0.53
20 14 0.33
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTATATTTTTTACAAT
Found at i:96997945 original size:56 final size:57
Alignment explanation
Indices: 96997884--96998017 Score: 148
Period size: 56 Copynumber: 2.3 Consensus size: 57
96997874 TTCTTACGAC
*
96997884 TTTATAAAATTTTATATTTTTTTACATTTCTATA-TA-TTTTATGATTTTTTACT-ATT
1 TTTATAAAATTTTATATTTTTTTACATTTCTATACGATTTTTAT-ATTTTTT-CTAATT
* * * * *
96997940 TTTATAAAATTTTACAATTTTTTATATTTTTTTACGATTTTTATATTTTTTCTAATT
1 TTTATAAAATTTTATATTTTTTTACATTTCTATACGATTTTTATATTTTTTCTAATT
*
96997997 TTCAATAAAATTTTAATATTT
1 TT-TATAAAATTTT-ATATTT
96998018 AAATTTTTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
56 31 0.48
57 13 0.20
58 16 0.25
59 4 0.06
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (57 bp):
TTTATAAAATTTTATATTTTTTTACATTTCTATACGATTTTTATATTTTTTCTAATT
Found at i:96997969 original size:28 final size:28
Alignment explanation
Indices: 96997884--96998011 Score: 107
Period size: 28 Copynumber: 4.5 Consensus size: 28
96997874 TTCTTACGAC
* *
96997884 TTTATAAAATTTTATATTTTTTTACATT
1 TTTATAAAATTTTATAATTTTTTATATT
* * *
96997912 TCTAT-ATATTTTATGATTTTTTACTATT
1 TTTATAAAATTTTATAATTTTTTA-TATT
*
96997940 TTTATAAAATTTTACAATTTTTTATATT
1 TTTATAAAATTTTATAATTTTTTATATT
* ** *
96997968 TTTTTACGATTTT-TATATTTTTTCTAATT
1 TTTATAAAATTTTATA-ATTTTTTAT-ATT
*
96997997 TTCAATAAAATTTTA
1 TT-TATAAAATTTTA
96998012 ATATTTAAAT
Statistics
Matches: 76, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
27 16 0.21
28 33 0.43
29 20 0.26
30 7 0.09
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTATAAAATTTTATAATTTTTTATATT
Found at i:96998220 original size:330 final size:332
Alignment explanation
Indices: 96997779--96998406 Score: 1129
Period size: 329 Copynumber: 1.9 Consensus size: 332
96997769 TAAAAAAAAT
96997779 AAAATTTATAGAAAAATTATAAAATATTTCTTTTGCTATGATAATTTTTATAATTTTTTTTAAGA
1 AAAATTTATAGAAAAATTATAAAATATTTCTTTTGCTATGATAATTTTTATAATTTTTTTTAAGA
96997844 AATTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTATATTTTTTTAC
66 AATTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTATA-TTTTTTAC
96997909 ATTTCTATATATTTTATGATTTTTTACTATTTTTATAAAATTTTACAATTTTTTATATTTTTTTA
130 ATTTCTATATATTTTATGATTTTTTACTATTTTTATAAAATTTTACAATTTTTTATATTTTTTTA
96997974 CGATTTTTATATTTTTTCTAATTTTCAATAAAATTTTAATATTT-AA-ATT-TTTAATAATATTT
195 CGATTTTTATA-TTTTTCTAATTTTCAATAAAATTTTAATATTTAAATATTATTTAATAATATTT
96998036 ATAGCTTTTTTATTTTAATTTTTTGTAATTTTTTTGTAATTTTTAATAAAAGCAGAGGTAATTTT
259 ATAGCTTTTTTATTTTAATTTTTTGTAATTTTTTTGTAATTTTTAATAAAAGCAGAGGTAATTTT
96998101 TATAATAAA
324 TATAATAAA
* *
96998110 AAAATTTATAGAAAAATTATAAAATGTTTCTTTTGGTATGATAATTTTTATAA-TTTTTTTAAGA
1 AAAATTTATAGAAAAATTATAAAATATTTCTTTTGCTATGATAATTTTTATAATTTTTTTTAAGA
96998174 AATTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTATATTTTTTACA
66 AATTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTATATTTTTTACA
96998239 TTTCTATATATTTTATGATTTTTTACTATTTTTATAAAATTTTACAATTTTTTATATTTTTTTAC
131 TTTCTATATATTTTATGATTTTTTACTATTTTTATAAAATTTTACAATTTTTTATATTTTTTTAC
96998304 GATTTTTATATTTTTCTAATTTTCAATAAAATTTTAATATTTAAATTTTTATTAAAATTTAATAA
196 GATTTTTATATTTTTCTAATTTTCAATAAAATTTTAATATTTAAA----TATT---ATTTAATAA
96998369 TATTTATAGCTTTTTTATTTTAATTTTTTGTAATTTTT
254 TATTTATAGCTTTTTTATTTTAATTTTTTGTAATTTTT
96998407 AATAAAAGCA
Statistics
Matches: 285, Mismatches: 2, Indels: 13
0.95 0.01 0.04
Matches are distributed among these distances:
328 32 0.11
329 86 0.30
330 67 0.24
331 51 0.18
334 3 0.01
338 46 0.16
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.57
Consensus pattern (332 bp):
AAAATTTATAGAAAAATTATAAAATATTTCTTTTGCTATGATAATTTTTATAATTTTTTTTAAGA
AATTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTATATTTTTTACA
TTTCTATATATTTTATGATTTTTTACTATTTTTATAAAATTTTACAATTTTTTATATTTTTTTAC
GATTTTTATATTTTTCTAATTTTCAATAAAATTTTAATATTTAAATATTATTTAATAATATTTAT
AGCTTTTTTATTTTAATTTTTTGTAATTTTTTTGTAATTTTTAATAAAAGCAGAGGTAATTTTTA
TAATAAA
Found at i:96998236 original size:19 final size:19
Alignment explanation
Indices: 96998214--96998313 Score: 64
Period size: 19 Copynumber: 5.3 Consensus size: 19
96998204 TTCTTACGAC
96998214 TTTATAAAATTTTA-TATT
1 TTTATAAAATTTTACTATT
*
96998232 TTT-T-ACATTTCTA-TATAT
1 TTTATAAAATTT-TACTAT-T
* **
96998250 TTTATGATTTTTTACTATT
1 TTTATAAAATTTTACTATT
*
96998269 TTTATAAAATTTTACAATTT
1 TTTATAAAATTTTACTA-TT
*** *
96998289 TTTATATTTTTTTACGATT
1 TTTATAAAATTTTACTATT
96998308 TTTATA
1 TTTATA
96998314 TTTTTCTAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 11
0.75 0.13 0.13
Matches are distributed among these distances:
16 5 0.08
17 6 0.09
18 7 0.11
19 25 0.38
20 22 0.34
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATAAAATTTTACTATT
Found at i:96998314 original size:19 final size:19
Alignment explanation
Indices: 96998257--96998318 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
96998247 TATTTTATGA
* *
96998257 TTTTTTACTATTTTTATAA
1 TTTTTTACAATTTTTATAT
**
96998276 AATTTTACAATTTTTTATAT
1 TTTTTTACAA-TTTTTATAT
*
96998296 TTTTTTACGATTTTTATAT
1 TTTTTTACAATTTTTATAT
96998315 TTTT
1 TTTT
96998319 CTAATTTTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
19 20 0.57
20 15 0.43
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTTACAATTTTTATAT
Found at i:96998316 original size:28 final size:26
Alignment explanation
Indices: 96998214--96998345 Score: 95
Period size: 28 Copynumber: 4.7 Consensus size: 26
96998204 TTCTTACGAC
*
96998214 TTTATAAAATTTTATATTTTTTACATT
1 TTTAT-AAATTTTATATTTTTTATATT
* *
96998241 TCTATATATTTTATGATTTTTTACTATT
1 TTTATAAATTTTAT-ATTTTTTA-TATT
*
96998269 TTTATAAAATTTTACAATTTTTTATATT
1 TTTAT-AAATTTTA-TATTTTTTATATT
* *
96998297 TTTTTACGATTTTTATATTTTTCTA-ATT
1 TTTATA--AATTTTATATTTTT-TATATT
*
96998325 TTCAATAAAATTTTAATATTT
1 TT-TAT-AAATTTT-ATATTT
96998346 AAATTTTTAT
Statistics
Matches: 83, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
26 8 0.10
27 13 0.16
28 31 0.37
29 30 0.36
30 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTATAAATTTTATATTTTTTATATT
Found at i:96998318 original size:9 final size:9
Alignment explanation
Indices: 96998223--96998318 Score: 54
Period size: 9 Copynumber: 10.3 Consensus size: 9
96998213 CTTTATAAAA
96998223 TTTTATATT
1 TTTTATATT
*
96998232 TTTTACA-T
1 TTTTATATT
* *
96998240 TTCTATATA
1 TTTTATATT
96998249 TTTTATGATT
1 TTTTAT-ATT
96998259 TTTTACTA-T
1 TTTTA-TATT
**
96998268 TTTTATAAAA
1 TTTTAT-ATT
*
96998278 TTTTACAATT
1 TTTTA-TATT
96998288 TTTTATATT
1 TTTTATATT
*
96998297 TTTT-TACGAT
1 TTTTATA--TT
96998307 TTTTATATT
1 TTTTATATT
96998316 TTT
1 TTT
96998319 CTAATTTTCA
Statistics
Matches: 65, Mismatches: 13, Indels: 18
0.68 0.14 0.19
Matches are distributed among these distances:
8 9 0.14
9 29 0.45
10 24 0.37
11 3 0.05
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTATATT
Found at i:96998350 original size:26 final size:27
Alignment explanation
Indices: 96998321--96998374 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
96998311 ATATTTTTCT
96998321 AATTTTCAATAAAATTT-TAATATTTA
1 AATTTTCAATAAAATTTATAATATTTA
* *
96998347 AATTTTTATTAAAATTTAATAATATTTA
1 AATTTTCAATAAAATTT-ATAATATTTA
96998375 TAGCTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.62
28 9 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
AATTTTCAATAAAATTTATAATATTTA
Found at i:96998530 original size:88 final size:88
Alignment explanation
Indices: 96998427--96998587 Score: 216
Period size: 88 Copynumber: 1.8 Consensus size: 88
96998417 GATGTATGAT
* * * *
96998427 TGGCTTTTTGGAAAAA-GTTTAAGGGTCTTCTGGATGCATTTTGAAAGTTCAAGTACCCAATTGA
1 TGGCTTTTTGGAAAAAGGTTTAAGGGT-TTCTGGATGCACTTTAAAAGTTCAAGTACCCAAATAA
96998491 GTGCAAAAAAAAGTATGGGCTTGA
65 GTGCAAAAAAAAGTATGGGCTTGA
** * * * *
96998515 TGGCTTTTTTTAAAAAGGTTTGAGGGTTTTTTGATGCACTTTAAAAGTTCAAGTACTCAAATAAG
1 TGGCTTTTTGGAAAAAGGTTTAAGGGTTTCTGGATGCACTTTAAAAGTTCAAGTACCCAAATAAG
96998580 TGCAAAAA
66 TGCAAAAA
96998588 TAAAAACAGA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
88 53 0.85
89 9 0.15
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (88 bp):
TGGCTTTTTGGAAAAAGGTTTAAGGGTTTCTGGATGCACTTTAAAAGTTCAAGTACCCAAATAAG
TGCAAAAAAAAGTATGGGCTTGA
Found at i:97004032 original size:30 final size:30
Alignment explanation
Indices: 97003992--97004048 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
97003982 TTTTATAAAT
97003992 AATTAATATTT-AT-TACTTAAATATATTTAA
1 AATTAATATTTCATATA-TTAAA-ATATTTAA
*
97004022 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
97004049 AACAACAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 15 0.62
31 7 0.29
32 2 0.08
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:97004201 original size:13 final size:13
Alignment explanation
Indices: 97004185--97004237 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
97004175 TTTAAATCAA
*
97004185 ACTTTTCAAAAAT
1 ACTTCTCAAAAAT
97004198 ACTTCT-AAAAAGT
1 ACTTCTCAAAAA-T
* * *
97004211 ATTTTTTAAAAAT
1 ACTTCTCAAAAAT
97004224 ACTTCTCAAAAAT
1 ACTTCTCAAAAAT
97004237 A
1 A
97004238 TTACCAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 5 0.16
13 22 0.69
14 5 0.16
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (13 bp):
ACTTCTCAAAAAT
Found at i:97004216 original size:26 final size:26
Alignment explanation
Indices: 97004187--97004239 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
97004177 TAAATCAAAC
97004187 TTTTCAAAAATACTTCT-AAAAAGTAT
1 TTTTCAAAAATACTTCTCAAAAA-TAT
*
97004213 TTTTTAAAAATACTTCTCAAAAATAT
1 TTTTCAAAAATACTTCTCAAAAATAT
97004239 T
1 T
97004240 ACCAAACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (26 bp):
TTTTCAAAAATACTTCTCAAAAATAT
Found at i:97005507 original size:24 final size:24
Alignment explanation
Indices: 97005480--97005527 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
97005470 ACACTTCTGA
97005480 CCCTGAATACATCATTACTTATAG
1 CCCTGAATACATCATTACTTATAG
97005504 CCCTGAATACATCATTACTTATAG
1 CCCTGAATACATCATTACTTATAG
97005528 TCACAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (24 bp):
CCCTGAATACATCATTACTTATAG
Found at i:97016484 original size:14 final size:15
Alignment explanation
Indices: 97016461--97016493 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
97016451 TTATAAAATG
97016461 ATTAAATTC-AATAT
1 ATTAAATTCAAATAT
*
97016475 ATTAATTTCAAATAT
1 ATTAAATTCAAATAT
97016490 ATTA
1 ATTA
97016494 TCAAACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTAAATTCAAATAT
Found at i:97019866 original size:29 final size:30
Alignment explanation
Indices: 97019807--97019864 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
97019797 TCCGAGCCTT
* *
97019807 GGGGTAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
97019837 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
97019865 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.33
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:97020094 original size:13 final size:13
Alignment explanation
Indices: 97020076--97020107 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
97020066 TTTCCAGCAA
97020076 TTATGAATTTATT
1 TTATGAATTTATT
97020089 TTATGAATTTATT
1 TTATGAATTTATT
*
97020102 TGATGA
1 TTATGA
97020108 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:97020322 original size:50 final size:50
Alignment explanation
Indices: 97020202--97020443 Score: 281
Period size: 50 Copynumber: 4.7 Consensus size: 50
97020192 ATTTGGGTAA
* * *
97020202 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
97020258 AGAGGTCTCC-TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * **
97020308 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
97020358 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
97020408 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
97020444 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
49 3 0.02
50 87 0.53
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 37 0.23
57 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:97020398 original size:100 final size:104
Alignment explanation
Indices: 97020202--97020451 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
97020192 ATTTGGGTAA
*
97020202 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCTC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TAAGATCA-GAGAGGTCCC
* *
97020267 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
64 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
97020308 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAGAT-A-AGAGGTCCCCT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATCAGAGAGGTCCCCT
97020369 ATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 ATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
97020408 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
97020452 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 47 0.36
101 37 0.28
102 1 0.01
103 4 0.03
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (104 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATCAGAGAGGTCCCCT
ATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:97022677 original size:47 final size:45
Alignment explanation
Indices: 97022624--97022727 Score: 129
Period size: 47 Copynumber: 2.2 Consensus size: 45
97022614 ATAGTTCAAC
* *
97022624 TATGGTCTTACATGTAATCACATATCTC-ACTGATGTCATATCCCAGA
1 TATGGTCTTACA-GTAA-CACATATCACAAC-GATGCCATATCCCAGA
*
97022671 TATGGTCTTATACAGTAACATATATCACAACGATGCCATATCCCAGA
1 TATGGTC-T-TACAGTAACACATATCACAACGATGCCATATCCCAGA
97022718 TATGGTCTTA
1 TATGGTCTTA
97022728 TACAGAAATC
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
45 2 0.04
46 1 0.02
47 37 0.73
48 7 0.14
49 4 0.08
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (45 bp):
TATGGTCTTACAGTAACACATATCACAACGATGCCATATCCCAGA
Found at i:97022800 original size:31 final size:31
Alignment explanation
Indices: 97022763--97022995 Score: 369
Period size: 31 Copynumber: 7.5 Consensus size: 31
97022753 CTTGTAGCCA
97022763 AAGCTACCACTATTT-ACTGATCAGGTAGCTG
1 AAGCTACCACT-TTTCACTGATCAGGTAGCTG
** * *
97022794 GTGCTACCATTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
* *
97022825 GAGCTACCACTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
*
97022856 AAGCTACCACTTTTCACTGATCAGGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
97022887 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
*
97022918 AAACTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
*
97022949 AAACTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
97022980 AAGCTACCACTTTTCA
1 AAGCTACCACTTTTCA
97022996 GTTATCATTT
Statistics
Matches: 190, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
30 3 0.02
31 187 0.98
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCTG
Found at i:97023097 original size:57 final size:50
Alignment explanation
Indices: 97022973--97023149 Score: 230
Period size: 50 Copynumber: 3.5 Consensus size: 50
97022963 CACTGATCAG
* * * * *
97022973 GTAGCTGAAGCTACCACTTTTCAGTTATCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTAATCAGATAAGT
* *
97023024 GTAGCCGAAGTTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTAATCAGATAAGT
* * *
97023074 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTAATCAGATAAGT
*
97023124 GTAGCCGAAGCTATCACTTATTACTT
1 GTAGCCGAAGCTATCACTTATCACTT
97023150 GTTTCCATGG
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
50 89 0.79
51 23 0.21
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTAATCAGATAAGT
Found at i:97028065 original size:32 final size:32
Alignment explanation
Indices: 97028024--97028085 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
97028014 ATGCTTGGAC
97028024 TAACAACATCTTTGAGAATAATTCTTTAAGAT
1 TAACAACATCTTTGAGAATAATTCTTTAAGAT
97028056 TAACAACATCTTTGAGAATAATTCTTTAAG
1 TAACAACATCTTTGAGAATAATTCTTTAAG
97028086 TCAGAGGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (32 bp):
TAACAACATCTTTGAGAATAATTCTTTAAGAT
Found at i:97029534 original size:28 final size:28
Alignment explanation
Indices: 97029494--97029549 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
97029484 ACAATTCAAC
97029494 CATTCAAACACATTCCCTTAATGATACT
1 CATTCAAACACATTCCCTTAATGATACT
97029522 CATTCAAACACATTCCCTTAATGATACT
1 CATTCAAACACATTCCCTTAATGATACT
97029550 TACACATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.32
Consensus pattern (28 bp):
CATTCAAACACATTCCCTTAATGATACT
Found at i:97029560 original size:28 final size:28
Alignment explanation
Indices: 97029498--97029561 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
97029488 TTCAACCATT
**
97029498 CAAACACATTCCCTTAATGATACTCATT
1 CAAACACATTCCCTTAATGATACTCACA
*
97029526 CAAACACATTCCCTTAATGATACTTACA
1 CAAACACATTCCCTTAATGATACTCACA
*
97029554 CATACACA
1 CAAACACA
97029562 CTCATCTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.39, C:0.30, G:0.03, T:0.28
Consensus pattern (28 bp):
CAAACACATTCCCTTAATGATACTCACA
Found at i:97042966 original size:14 final size:14
Alignment explanation
Indices: 97042947--97042975 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
97042937 GAAGAAATGT
97042947 ACAATAGAATACTG
1 ACAATAGAATACTG
97042961 ACAATAGAATACTG
1 ACAATAGAATACTG
97042975 A
1 A
97042976 TGTTAAGACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
ACAATAGAATACTG
Found at i:97043041 original size:24 final size:24
Alignment explanation
Indices: 97043008--97043055 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
97042998 GCAAAAACAA
*
97043008 AAGATGAATAACCAGAACCAATGG
1 AAGATAAATAACCAGAACCAATGG
97043032 AAGATAAATAACCAGAACCAATGG
1 AAGATAAATAACCAGAACCAATGG
97043056 GTAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.19, T:0.12
Consensus pattern (24 bp):
AAGATAAATAACCAGAACCAATGG
Found at i:97044276 original size:66 final size:66
Alignment explanation
Indices: 97044170--97044301 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
97044160 ATCCAAAGTT
97044170 ACAGAGCGATTCCGATTATAAACAGGACAACATTGTTAAAGTGGTCAAAGAATCGCGACAGCAAG
1 ACAGAGCGATTCCGATTATAAACAGGACAACATTGTTAAAGTGGTCAAAGAATCGCGACAGCAAG
97044235 A
66 A
97044236 ACAGAGCGATTCCGATTATAAACAGGACAACATTGTTAAAGTGGTCAAAGAATCGCGACAGCAAG
1 ACAGAGCGATTCCGATTATAAACAGGACAACATTGTTAAAGTGGTCAAAGAATCGCGACAGCAAG
97044301 A
66 A
97044302 TTCCTAAATC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (66 bp):
ACAGAGCGATTCCGATTATAAACAGGACAACATTGTTAAAGTGGTCAAAGAATCGCGACAGCAAG
A
Found at i:97044528 original size:117 final size:116
Alignment explanation
Indices: 97044334--97044567 Score: 387
Period size: 117 Copynumber: 2.0 Consensus size: 116
97044324 AATTCTTCTA
*
97044334 AACTGGGACAACCCGGAAACAGGAATTGCCAAGCTAAATGTTGATGGAAGCTGGAATCAAAGAGA
1 AACTGGGACAACCCGGAAACAGGAATTGCCAAGCTAAATGTTGATGGAAGCTGGAATAAAAGAGA
* * * *
97044399 ATGGAAGGCATGAACAGGCAGTCTATTCAAAGGAGAATGGGAAATTTGGACG
66 ATGAAAGGCATGAAC-GGCAGTCTATTCAAAGGAGAACGGGAAAATCGGACG
*
97044451 AACTGGGACAACCTGGAAACAGGAATTGCCAAGCTAAATGTTGATGGAAGCTGGAATAAAAGAGA
1 AACTGGGACAACCCGGAAACAGGAATTGCCAAGCTAAATGTTGATGGAAGCTGGAATAAAAGAGA
* *
97044516 ATGAAAGGCATGAACGGGAGTCTATTCAGAGGAGAACGGGAAAATCGGACG
66 ATGAAAGGCATGAACGGCAGTCTATTCAAAGGAGAACGGGAAAATCGGACG
97044567 A
1 A
97044568 TTGGATACTT
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
116 32 0.29
117 77 0.71
ACGTcount: A:0.39, C:0.14, G:0.30, T:0.16
Consensus pattern (116 bp):
AACTGGGACAACCCGGAAACAGGAATTGCCAAGCTAAATGTTGATGGAAGCTGGAATAAAAGAGA
ATGAAAGGCATGAACGGCAGTCTATTCAAAGGAGAACGGGAAAATCGGACG
Found at i:97053365 original size:23 final size:23
Alignment explanation
Indices: 97053335--97053382 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
97053325 CAAAACGATG
*
97053335 AAATCTTAATA-ACATTTTATTTT
1 AAATCTTAATATA-ATTATATTTT
97053358 AAATCTTAATATAATTATATTTT
1 AAATCTTAATATAATTATATTTT
97053381 AA
1 AA
97053383 TAGTATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATCTTAATATAATTATATTTT
Found at i:97055065 original size:62 final size:62
Alignment explanation
Indices: 97054946--97055066 Score: 188
Period size: 62 Copynumber: 2.0 Consensus size: 62
97054936 AAACCATGCC
* *
97054946 TGTAACACCCCGTACCCGAGACCGTTACCGGAGTCGAACACGAGGTATTTACGGACTTATTT
1 TGTAACACCCCGTACCCGAGACCGTTACCGGAGTCGAACACGAGGGATTTACAGACTTATTT
* * * *
97055008 TGTAACACCCCGTACCCGAGACCGTTGCCGGAGTCGGACACGAGGGGTTTGCAGACTTA
1 TGTAACACCCCGTACCCGAGACCGTTACCGGAGTCGAACACGAGGGATTTACAGACTTA
97055067 AATCACTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.21
Consensus pattern (62 bp):
TGTAACACCCCGTACCCGAGACCGTTACCGGAGTCGAACACGAGGGATTTACAGACTTATTT
Found at i:97056422 original size:40 final size:40
Alignment explanation
Indices: 97056375--97056558 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
97056365 CTACTCGCTC
* * * * *
97056375 AATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCGCC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACA
97056415 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACA
* * *
97056455 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACA
* *
97056495 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCAC-A
*
97056536 AATACCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
97056559 TTATCATCCA
Statistics
Matches: 128, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
40 105 0.82
41 23 0.18
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACA
Found at i:97064689 original size:40 final size:40
Alignment explanation
Indices: 97064624--97064825 Score: 259
Period size: 40 Copynumber: 5.0 Consensus size: 40
97064614 GGATTTAACT
* *
97064624 GGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
97064663 GGATATAGTAACTTGCGCCAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
97064703 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
97064743 GGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
97064783 GGA-ACTAGTCACTAGCGTA-AAATGCCTTCGGGACTTAGCCC
1 GGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGCCC
97064824 GG
1 GG
97064826 TTATCATCCA
Statistics
Matches: 146, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.10
40 104 0.71
41 24 0.16
42 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:97070457 original size:19 final size:18
Alignment explanation
Indices: 97070435--97070480 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
97070425 ATTTCTTTCT
97070435 TTTGCATTCATTCCATGCA
1 TTTGCATTCATTCCAT-CA
* *
97070454 TTTGCATAGCATTGCATCA
1 TTTGCAT-TCATTCCATCA
97070473 TTTGCATT
1 TTTGCATT
97070481 AGATTTTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (18 bp):
TTTGCATTCATTCCATCA
Found at i:97074933 original size:45 final size:46
Alignment explanation
Indices: 97074876--97074972 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 46
97074866 AGTTGTAGGA
* *
97074876 AGCAGA-CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGG
1 AGCAGATCTGAAAATGACAAATCTTATCTCCATGTATCGGCTATGG
* *
97074921 AGCAGATC-GAAAATGGCAAATCTTATTTCCATGTATCGGCTATGG
1 AGCAGATCTGAAAATGACAAATCTTATCTCCATGTATCGGCTATGG
97074966 AGCAGAT
1 AGCAGAT
97074973 TTTAGCCACC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
45 46 0.98
46 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (46 bp):
AGCAGATCTGAAAATGACAAATCTTATCTCCATGTATCGGCTATGG
Found at i:97074969 original size:177 final size:177
Alignment explanation
Indices: 97074752--97075279 Score: 862
Period size: 177 Copynumber: 3.0 Consensus size: 177
97074742 GAAGCAAACT
* *
97074752 GAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTC
1 GAAAATGACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTC
97074817 TCTGAGGTAGCAAGAGAACAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGA
66 TCTGAGGTAGCAAGAGAACAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGA
97074882 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC
131 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC
* * *
97074929 GAAAATGGCAAATCTTATTTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTC
1 GAAAATGACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTC
* * *
97074994 TCTAAGGTAGCAAGAGAACAAGTTGAAGATACAAGTCTTATCTTCTTGAAGTTGTAGGAAGCAGA
66 TCTGAGGTAGCAAGAGAACAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGA
* * * *
97075059 TTGAAAATTAAAGATCATATCTCCATGTATCGGCTATGGAGCAAATC
131 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC
* * * *
97075106 GAAAATGACGAGTCTTATCTCCATGTATCGGCTATAGAGCGGATTTTAGCCACCAGCCTTATCTC
1 GAAAATGACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTC
* * * *
97075171 TTTGAGGTAACAGGAGAACAGGTTGAAGATACAAGTCTTATCTT-CTGAAGTTGCAGGAAGCAGA
66 TCTGAGGTAGCAAGAGAACAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGA
97075235 CTG-AAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
131 CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
97075280 TTTAGCCACC
Statistics
Matches: 321, Mismatches: 30, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
175 39 0.12
176 20 0.06
177 262 0.82
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (177 bp):
GAAAATGACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTC
TCTGAGGTAGCAAGAGAACAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGA
CTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC
Found at i:97075285 original size:130 final size:132
Alignment explanation
Indices: 97075118--97075411 Score: 493
Period size: 130 Copynumber: 2.2 Consensus size: 132
97075108 AAATGACGAG
* * * *
97075118 TCTTATCTCCATGTATCGGCTATAGAGCGGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAACA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAACA
* *
97075183 GGAGAACAGGTTGAAGATACAAGTCTTATCTT-CTGAAGTTGCAGGAAGCAGACTG-AAATTACA
66 AGAGAACAGGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
97075246 GA
131 GA
97075248 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAACA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAACA
* **
97075313 AGAGAACAGGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTGTA
66 AGAGAACAGGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
97075378 GA
131 GA
97075380 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
97075412 CGAAAATGGT
Statistics
Matches: 153, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
130 91 0.59
131 22 0.14
132 40 0.26
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (132 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAACA
AGAGAACAGGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
GA
Found at i:97075299 original size:307 final size:310
Alignment explanation
Indices: 97074940--97075567 Score: 1028
Period size: 307 Copynumber: 2.0 Consensus size: 310
97074930 AAAATGGCAA
* * *
97074940 ATCTTATTTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTAAGGTAGC
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAAC
* * *
97075005 AAGAGAACAAGTTGAAGATACAAGTCTTATCTTCTTGAAGTTGTAGGAAGCAGATTGAAAATTAA
66 AAGAGAACAAGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTAA
*
97075070 AGATCATATCTCCATGTATCGGCTATGGAGCAAATCGAAAATGACGAGTCTTATCTCCATGTATC
131 AGATCATATCTCCATGTATCGGCTATGGAGCAAATCGAAAATGACAAGTCTTATCTCCATGTATC
* * * *
97075135 GGCTATAGAGCGGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAACAGGAGAACAGGTTGAAGA
196 GGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAACAGGTTAAAGA
97075200 TACAA-GTCTTATCTTC-TGAAGTTGCAGGAAGCAGACTG-AAATTACAG
261 TACAATGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAG
97075247 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAAC
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAAC
* **
97075312 AAGAGAACAGGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTGT
66 AAGAGAACAAGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTAA
* * ** *
97075377 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGTAAGTCTTATTTCCATGTATC
131 AGATCATATCTCCATGTATCGGCTATGGAGCAAATCGAAAATGACAAGTCTTATCTCCATGTATC
* * * *
97075442 GGTTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAGA
196 GGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAACAGGTTAAAGA
97075507 TACAATGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAG
261 TACAATGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAG
97075557 ATCTTATCTCC
1 ATCTTATCTCC
97075568 CTAAACAGTA
Statistics
Matches: 295, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
307 242 0.82
308 11 0.04
309 22 0.07
310 20 0.07
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (310 bp):
ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAAC
AAGAGAACAAGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTAA
AGATCATATCTCCATGTATCGGCTATGGAGCAAATCGAAAATGACAAGTCTTATCTCCATGTATC
GGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAACAGGTTAAAGA
TACAATGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAG
Found at i:97075417 original size:45 final size:46
Alignment explanation
Indices: 97075360--97075456 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 46
97075350 AGTTGTAGGA
*
97075360 AGCAGA-CTGAAAATTGT-AGATCTTATCTCCATGTATCGGCTATGG
1 AGCAGATCTGAAAATGGTAAG-TCTTATCTCCATGTATCGGCTATGG
* *
97075405 AGCAGATC-GAAAATGGTAAGTCTTATTTCCATGTATCGGTTATGG
1 AGCAGATCTGAAAATGGTAAGTCTTATCTCCATGTATCGGCTATGG
97075450 AGCAGAT
1 AGCAGAT
97075457 TTTAGCCACC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
45 44 0.94
46 3 0.06
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (46 bp):
AGCAGATCTGAAAATGGTAAGTCTTATCTCCATGTATCGGCTATGG
Found at i:97075458 original size:177 final size:178
Alignment explanation
Indices: 97075248--97075567 Score: 552
Period size: 177 Copynumber: 1.8 Consensus size: 178
97075238 AAATTACAGA
97075248 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAACA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAACA
* **
97075313 AGAGAACAGGTTAAAGATACAA-GTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTGT
66 AGAGAACAGGTTAAAGATACAATGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTAC
97075377 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGTAAG
131 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGTAAG
* * * *
97075425 TCTTATTTCCATGTATCGGTTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAACA
* *
97075490 AGAGAGCAGGTTAAAGATACAATGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTAC
66 AGAGAACAGGTTAAAGATACAATGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTAC
97075555 AGATCTTATCTCC
131 AGATCTTATCTCC
97075568 CTAAACAGTA
Statistics
Matches: 133, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
177 82 0.62
178 51 0.38
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (178 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAACA
AGAGAACAGGTTAAAGATACAATGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTAC
AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGTAAG
Found at i:97075586 original size:44 final size:44
Alignment explanation
Indices: 97075538--97075759 Score: 142
Period size: 44 Copynumber: 5.1 Consensus size: 44
97075528 AGTTGCAGGA
* *
97075538 AGCAGACT-GAAAATTACAGATCTTATCTCCCTAAACAGTAGTGG
1 AGCAGACTCGAAAA-TACAGATCTTATCCCCCTAAGCAGTAGTGG
* ** * *
97075582 AGCAGA-TCGAAGATAGTGAGCCTTAACCCCCTAAGCAGTAG-GG
1 AGCAGACTCGAAAATACAGA-TCTTATCCCCCTAAGCAGTAGTGG
* * * *
97075625 TAACAGGCTGGAAAATACAGATC---T-CCCCTAAACAGTAGTGG
1 -AGCAGACTCGAAAATACAGATCTTATCCCCCTAAGCAGTAGTGG
* * *
97075666 AGCAGA-TCGAAGACA-ATGAGCCTTATCCCCCTAAGCAGTAG-GG
1 AGCAGACTCGAAAATACA-GA-TCTTATCCCCCTAAGCAGTAGTGG
* * * *
97075709 AAACAGACT-GAATATTACAGATCATATCTCCCTAAGCAGTAGTGG
1 -AGCAGACTCGAA-AATACAGATCTTATCCCCCTAAGCAGTAGTGG
97075754 AGCAGA
1 AGCAGA
97075760 TTGAAGCAAC
Statistics
Matches: 131, Mismatches: 31, Indels: 32
0.68 0.16 0.16
Matches are distributed among these distances:
38 1 0.01
39 8 0.06
40 18 0.14
41 2 0.02
43 10 0.08
44 76 0.58
45 15 0.11
46 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (44 bp):
AGCAGACTCGAAAATACAGATCTTATCCCCCTAAGCAGTAGTGG
Found at i:97075670 original size:84 final size:84
Alignment explanation
Indices: 97075535--97075765 Score: 277
Period size: 84 Copynumber: 2.7 Consensus size: 84
97075525 TGAAGTTGCA
* * *
97075535 GGAAGCAGACTGAA-AATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATAGT
1 GGAAACAGACTGAATAA-TACAGATC---TC-CCCTAAACAGTAGTGGAGCAGATCGAAGACAAT
97075599 GAGCCTTAACCCCCTAAGCAGTAG
61 GAGCCTTAACCCCCTAAGCAGTAG
* *
97075623 GGTAACAGGCTGGAA-AATACAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAATGAGC
1 GGAAACAGACT-GAATAATACAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAATGAGC
*
97075687 CTTATCCCCCTAAGCAGTAG
65 CTTAACCCCCTAAGCAGTAG
* * *
97075707 GGAAACAGACTGAATATTACAGATCATATCTCCCTAAGCAGTAGTGGAGCAGATTGAAG
1 GGAAACAGACTGAATAATACAGATC---TC-CCCTAAACAGTAGTGGAGCAGATCGAAG
97075766 CAACAATTTC
Statistics
Matches: 126, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
83 3 0.02
84 72 0.57
85 2 0.02
87 2 0.02
88 42 0.33
89 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (84 bp):
GGAAACAGACTGAATAATACAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAATGAGCC
TTAACCCCCTAAGCAGTAG
Found at i:97078033 original size:22 final size:22
Alignment explanation
Indices: 97078005--97078049 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
97077995 AACTTACGAA
97078005 TAATTCACAATTAATATAACAT
1 TAATTCACAATTAATATAACAT
*
97078027 TAATTCATAATTAATATAACAT
1 TAATTCACAATTAATATAACAT
97078049 T
1 T
97078050 CATAGTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATTCACAATTAATATAACAT
Found at i:97078981 original size:27 final size:28
Alignment explanation
Indices: 97078928--97078995 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
97078918 CAGATTCCAT
*
97078928 CCAAACACACCAGAATATTATAAATCCTC
1 CCAAACACACCAG-ATATAATAAATCCTC
** *
97078957 CGTAACACACCAG-TATAATATATCCTC
1 CCAAACACACCAGATATAATAAATCCTC
97078984 CCAAACACACCA
1 CCAAACACACCA
97078996 ATAAGGCATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 22 0.67
29 11 0.33
ACGTcount: A:0.43, C:0.34, G:0.04, T:0.19
Consensus pattern (28 bp):
CCAAACACACCAGATATAATAAATCCTC
Found at i:97079614 original size:51 final size:52
Alignment explanation
Indices: 97079538--97079660 Score: 169
Period size: 51 Copynumber: 2.4 Consensus size: 52
97079528 TCCCAAACTT
* * * *
97079538 ACTTCATACTTCATCCGGA-ATTATTACTTTGTTGTTCTGGCTTCAACAAGA
1 ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
*
97079589 ACTTCATATTTCATCCGGATA-TATTACTTTATTGCTCTAGTTTCAACAAGA
1 ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
* *
97079640 GCTTCATATTTCATCCAGATA
1 ACTTCATATTTCATCCGGATA
97079661 ACTTAGTTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
51 63 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (52 bp):
ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
Found at i:97080557 original size:16 final size:16
Alignment explanation
Indices: 97080519--97080568 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
97080509 TCTATAATTC
*
97080519 ATATTATAATTTAAATA
1 ATATAATAA-TTAAATA
* *
97080536 AAATAATAATTATATA
1 ATATAATAATTAAATA
*
97080552 ATATAATAATTTAATA
1 ATATAATAATTAAATA
97080568 A
1 A
97080569 AGTAAGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAATAATTAAATA
Found at i:97081564 original size:20 final size:19
Alignment explanation
Indices: 97081541--97081578 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
97081531 TTAAGGACTT
*
97081541 TTTAATTTAATTAAGTTTTA
1 TTTAAATTAA-TAAGTTTTA
97081561 TTTAAATTAATAAGTTTT
1 TTTAAATTAATAAGTTTT
97081579 CATATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTAAATTAATAAGTTTTA
Found at i:97081904 original size:9 final size:9
Alignment explanation
Indices: 97081886--97081948 Score: 50
Period size: 9 Copynumber: 7.6 Consensus size: 9
97081876 TTTATTTAAG
97081886 TTAA-GTGT
1 TTAATGTGT
97081894 TTAATGTGT
1 TTAATGTGT
97081903 TT--TGTGT
1 TTAATGTGT
97081910 TTAATAAGTGT
1 TTAAT--GTGT
*
97081921 TTAATATG-
1 TTAATGTGT
97081929 TT--TGT-T
1 TTAATGTGT
97081935 TTAATGTGT
1 TTAATGTGT
97081944 TTAAT
1 TTAAT
97081949 TGCAGGTGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
6 4 0.09
7 7 0.16
8 9 0.20
9 15 0.34
11 9 0.20
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (9 bp):
TTAATGTGT
Found at i:97081917 original size:27 final size:25
Alignment explanation
Indices: 97081887--97081948 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 25
97081877 TTATTTAAGT
*
97081887 TAAGTGTTTAATGTGTTTTGTGTTTAA
1 TAAGTGTTTAATATG-TTTGT-TTTAA
97081914 TAAGTGTTTAATATGTTTGTTTTAA
1 TAAGTGTTTAATATGTTTGTTTTAA
97081939 T--GTGTTTAAT
1 TAAGTGTTTAAT
97081949 TGCAGGTGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
23 9 0.26
25 6 0.18
26 5 0.15
27 14 0.41
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.56
Consensus pattern (25 bp):
TAAGTGTTTAATATGTTTGTTTTAA
Found at i:97086216 original size:26 final size:25
Alignment explanation
Indices: 97086165--97086216 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
97086155 TTACATTTTG
*
97086165 ATTCTTAAAAAATGAAAAAAGAATA
1 ATTCTTAAAAAATGAAAAAACAATA
* *
97086190 ATTCTTTAAAAAATGAAGAAACTATA
1 ATTC-TTAAAAAATGAAAAAACAATA
97086216 A
1 A
97086217 ATTAGTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.27
Consensus pattern (25 bp):
ATTCTTAAAAAATGAAAAAACAATA
Found at i:97087113 original size:14 final size:15
Alignment explanation
Indices: 97087083--97087112 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
97087073 CGAAAATGTC
97087083 TACTTAAATTTTTTT
1 TACTTAAATTTTTTT
97087098 TACTTAAATTTTTTT
1 TACTTAAATTTTTTT
97087113 AGAGGTGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TACTTAAATTTTTTT
Found at i:97087472 original size:41 final size:40
Alignment explanation
Indices: 97087417--97087503 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
97087407 TCAAATACAT
* *
97087417 TTAAAATAAATATTAAAATAAGAAACAAATAAAAAATTATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAA-TATA
* * * *
97087458 TTAAAACAATTATTAAAACAATACACAAATTAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
97087498 ATAAAA
1 TTAAAA
97087504 AGTGATTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 9 0.23
41 30 0.77
ACGTcount: A:0.67, C:0.06, G:0.01, T:0.26
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:97087554 original size:27 final size:26
Alignment explanation
Indices: 97087486--97087557 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 26
97087476 CAATACACAA
* *
97087486 ATTAAAAATATAATAAAAAGTGATTAT
1 ATTAAAAATA-AATAAAAAGTAAATAT
* *
97087513 ATTAAAATTAAAAATAAAATGTAAATAT
1 ATTAAAA--ATAAATAAAAAGTAAATAT
97087541 GATTAAAAATAAATAAA
1 -ATTAAAAATAAATAAA
97087558 TATATATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
27 15 0.41
28 13 0.35
29 9 0.24
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (26 bp):
ATTAAAAATAAATAAAAAGTAAATAT
Found at i:97087559 original size:20 final size:22
Alignment explanation
Indices: 97087519--97087560 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
97087509 TTATATTAAA
97087519 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAA-GTAAATATG
97087542 ATTAAAAAT-AAA-TAAATAT
1 ATTAAAAATAAAAGTAAATAT
97087561 ATATATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (22 bp):
ATTAAAAATAAAAGTAAATATG
Found at i:97091811 original size:17 final size:17
Alignment explanation
Indices: 97091786--97091824 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
97091776 AAAAATTTTA
*
97091786 AATTTGTTATGTGATTT
1 AATTAGTTATGTGATTT
97091803 AATTAGTTATGTGATTT
1 AATTAGTTATGTGATTT
97091820 AATTA
1 AATTA
97091825 TTTTAGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (17 bp):
AATTAGTTATGTGATTT
Found at i:97097461 original size:20 final size:20
Alignment explanation
Indices: 97097433--97097470 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
97097423 CAGTAAGATT
* *
97097433 TATTTTAGTATCAAATTTGA
1 TATTGTAGTATAAAATTTGA
97097453 TATTGTAGTATAAAATTT
1 TATTGTAGTATAAAATTT
97097471 TAATATAAGT
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:0.37, C:0.03, G:0.11, T:0.50
Consensus pattern (20 bp):
TATTGTAGTATAAAATTTGA
Found at i:97098813 original size:86 final size:86
Alignment explanation
Indices: 97098692--97098860 Score: 218
Period size: 86 Copynumber: 2.0 Consensus size: 86
97098682 CCTCCTCTCT
* *
97098692 TTTTTTTGTACTCAATTGAGCACATGAACTTTCAAAATGCATAAAAAATG-CCCTCAAACTTCTT
1 TTTTTTTGTACTCAATTGAGCACATAAACTTTCAAAATACATAAAAAA-GACCCTCAAA-TTCTT
97098756 CAAAAAAAGCAATTAAGCCCCTA
64 CAAAAAAAGCAATTAAGCCCCTA
* * * * *
97098779 TTTTTTT-TACTCAATTG-GATACTTAAACTTTCAAAATACATCAAAAAGACCCTCAAATTTTTT
1 TTTTTTTGTACTCAATTGAG-CACATAAACTTTCAAAATACATAAAAAAGACCCTCAAATTCTTC
*
97098842 AAAAAAAGTAATTAAGCCC
65 AAAAAAAGCAATTAAGCCC
97098861 TGCTCTTATT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
85 24 0.33
86 41 0.57
87 7 0.10
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (86 bp):
TTTTTTTGTACTCAATTGAGCACATAAACTTTCAAAATACATAAAAAAGACCCTCAAATTCTTCA
AAAAAAGCAATTAAGCCCCTA
Found at i:97098930 original size:19 final size:20
Alignment explanation
Indices: 97098887--97098931 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
97098877 AGAAAAAATT
97098887 ATAAAAATAATAAATTTTAG
1 ATAAAAATAATAAATTTTAG
* *
97098907 A-AAAATTATTAAATTTTA-
1 ATAAAAATAATAAATTTTAG
97098925 ATAAAAA
1 ATAAAAA
97098932 GAAAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.05
19 19 0.90
20 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
ATAAAAATAATAAATTTTAG
Found at i:97099139 original size:29 final size:28
Alignment explanation
Indices: 97099106--97099205 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 28
97099096 TTACATTTTG
*
97099106 TATAATTTTCTTATGACTTTATAAAATTT
1 TATAATTTT-TTATGAATTTATAAAATTT
** * *
97099135 TATAATTTTTTTAAAAATTTCTATATATTT
1 TATAA-TTTTTTATGAATTTATA-AAATTT
*
97099165 TATAATTTTTTATGATTTTTATAAAATTT
1 TATAATTTTTTATGA-ATTTATAAAATTT
*
97099194 TACAATTTTTTA
1 TATAATTTTTTA
97099206 ATTTTTTAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
29 38 0.67
30 19 0.33
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (28 bp):
TATAATTTTTTATGAATTTATAAAATTT
Found at i:97099201 original size:19 final size:19
Alignment explanation
Indices: 97099123--97099247 Score: 84
Period size: 19 Copynumber: 6.7 Consensus size: 19
97099113 TTCTTATGAC
97099123 TTTATAAAATTTTATAATT
1 TTTATAAAATTTTATAATT
*
97099142 TTTTTAAAAATTTCTAT-ATAT
1 TTTAT-AAAATTT-TATAAT-T
** *
97099163 TTTATAATTTTTTATGATT
1 TTTATAAAATTTTATAATT
*
97099182 TTTATAAAATTTTACAATT
1 TTTATAAAATTTTATAATT
*
97099201 TTT-T--AATTTTTTAA--
1 TTTATAAAATTTTATAATT
* *
97099215 TTT-TACAATTTTTTAATT
1 TTTATAAAATTTTATAATT
*
97099233 TTTAATAATATTTTA
1 TTT-ATAAAATTTTA
97099248 ATTAAAATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
14 4 0.05
16 18 0.22
18 4 0.05
19 26 0.31
20 23 0.28
21 8 0.10
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTATAAAATTTTATAATT
Found at i:97099221 original size:24 final size:26
Alignment explanation
Indices: 97099195--97099247 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 26
97099185 ATAAAATTTT
97099195 ACAATTTTTTAATTTTT-T-AATTTT
1 ACAATTTTTTAATTTTTATAAATTTT
97099219 ACAATTTTTTAATTTTTAATAATATTTT
1 ACAATTTTTTAATTTTT-ATAA-ATTTT
97099247 A
1 A
97099248 ATTAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 17 0.68
26 1 0.04
27 1 0.04
28 6 0.24
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
ACAATTTTTTAATTTTTATAAATTTT
Found at i:97099232 original size:8 final size:8
Alignment explanation
Indices: 97099197--97099250 Score: 63
Period size: 8 Copynumber: 6.5 Consensus size: 8
97099187 AAAATTTTAC
97099197 AATTTTTT
1 AATTTTTT
97099205 AATTTTTT
1 AATTTTTT
**
97099213 AATTTTAC
1 AATTTTTT
97099221 AATTTTTT
1 AATTTTTT
97099229 AATTTTTAAT
1 AATTTTT--T
*
97099239 AATATTTT
1 AATTTTTT
97099247 AATT
1 AATT
97099251 AAAATTTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
8 31 0.82
10 7 0.18
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (8 bp):
AATTTTTT
Found at i:97099241 original size:10 final size:9
Alignment explanation
Indices: 97099162--97099313 Score: 75
Period size: 9 Copynumber: 16.6 Consensus size: 9
97099152 TTTCTATATA
97099162 TTTTATAATT
1 TTTTATAA-T
*
97099172 TTTTATGAT
1 TTTTATAAT
*
97099181 TTTTATAAAA
1 TTTTAT-AAT
*
97099191 TTTTACAAT
1 TTTTATAAT
97099200 TTTT-TAAT
1 TTTTATAAT
97099208 TTTT-TAA-
1 TTTTATAAT
*
97099215 TTTTACAAT
1 TTTTATAAT
97099224 TTTT-TAAT
1 TTTTATAAT
97099232 TTTTAATAAT
1 TTTT-ATAAT
*
97099242 ATTTTAATTAAAA
1 -TTTT-A-T-AAT
*
97099255 TTTAATAAT
1 TTTTATAAT
*
97099264 ATTTAT-AT
1 TTTTATAAT
*
97099272 CTTTTATTGA-
1 -TTTTA-TAAT
*
97099282 TTTTA-AGT
1 TTTTATAAT
97099290 TTTTATATAT
1 TTTTATA-AT
*
97099300 TTTAATAAT
1 TTTTATAAT
97099309 TTTTA
1 TTTTA
97099314 ATAAAAGCAC
Statistics
Matches: 109, Mismatches: 19, Indels: 29
0.69 0.12 0.18
Matches are distributed among these distances:
7 4 0.04
8 26 0.24
9 39 0.36
10 26 0.24
11 8 0.07
12 4 0.04
13 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:97099456 original size:84 final size:86
Alignment explanation
Indices: 97099324--97099493 Score: 227
Period size: 84 Copynumber: 2.0 Consensus size: 86
97099314 ATAAAAGCAC
* * *
97099324 GGGCTTAATTGCTTTTTTTGAAAAAAATTTGAGTGTCTTTTTTATGCATTTTAAAAATTCAAGTA
1 GGGCTTAATTGCTTTTTTTGAAAAAAATTTGAGGGCCTTTTTGATGCATTTTAAAAATTCAAGTA
* *
97099389 TTTAATTGAGTACAAAAAAAA
66 CTTAAATGAGTACAAAAAAAA
** * * *
97099410 GGGCTTAATTGC-TTTTTTG-AAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAATTA
1 GGGCTTAATTGCTTTTTTTGAAAAAAATTTGAGGGCCTTTTTGATGCATTTTAAAAATTCAAGTA
*
97099473 CTTAAATGAGTGCAAAAAAAA
66 CTTAAATGAGTACAAAAAAAA
97099494 AACATAGGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 54 0.74
85 7 0.10
86 12 0.16
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (86 bp):
GGGCTTAATTGCTTTTTTTGAAAAAAATTTGAGGGCCTTTTTGATGCATTTTAAAAATTCAAGTA
CTTAAATGAGTACAAAAAAAA
Found at i:97103888 original size:31 final size:31
Alignment explanation
Indices: 97103833--97103895 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
97103823 AACAACCTAG
*
97103833 TGACTTAAATAAAAACATCTGAATAGTTTAA
1 TGACTTAAATAAAAACATCTGAATAGTCTAA
* *
97103864 TGACTTAAATCAAAAC-TTTCGAATAGTCTAA
1 TGACTTAAATAAAAACATCT-GAATAGTCTAA
97103895 T
1 T
97103896 ACTATTTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (31 bp):
TGACTTAAATAAAAACATCTGAATAGTCTAA
Found at i:97105808 original size:13 final size:14
Alignment explanation
Indices: 97105779--97105814 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
97105769 CAATTTAGCC
97105779 AAATATATTTATAAA
1 AAATA-ATTTATAAA
97105794 AAATAATTT-TAAA
1 AAATAATTTATAAA
97105807 AAATAATT
1 AAATAATT
97105815 GAGGTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.57
14 4 0.19
15 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATAATTTATAAA
Found at i:97111667 original size:23 final size:23
Alignment explanation
Indices: 97111641--97111685 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
97111631 TGTGTATGTG
*
97111641 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
97111664 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
97111686 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:97122276 original size:191 final size:195
Alignment explanation
Indices: 97121941--97122332 Score: 612
Period size: 191 Copynumber: 2.0 Consensus size: 195
97121931 TATTTAGATT
97121941 ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACTAGTTAAATGATTACTT
1 ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATAC-AG-T-AA-GATTACTT
* * * * *
97122006 AAATGTTTGTTTCTTGAGAAGGGCATGTTGGTTCTTTTACAGAAGCAACTTCACTTACTGTTTCT
62 AAATGGTAGTGTCTTGAGAAGGACATGTTGGTTCTTTTACAGAAGCAACTTCACTTACTGGTTCT
* *
97122071 TAAGCAGTTCCTGACCCTGAGCATTAAGTGCACTTGGGTGTTTAAAACTCCAGATGGCCAATTTC
127 TAAGCAGCTCCTGACCCTGAGCATTAAGTGCACTTGGATGTTTAAAACTCCAGATGGCCAATTTC
97122136 AGGG
192 AGGG
* *
97122140 ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATA-A-T-A-CTTACTTTAAT
1 ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACAGTAAGATTACTTAAAT
*
97122201 GGTAGTGTCTTGAGAAGGACATGTTGGTTCTTTTACAGAAGCAACTTCACTTGCTGGTTCTTAAG
66 GGTAGTGTCTTGAGAAGGACATGTTGGTTCTTTTACAGAAGCAACTTCACTTACTGGTTCTTAAG
* *
97122266 CAGCTCCTGACCCTGAGCATTATGTGCACTTGGATGTTTAAAATTCCAGATGGCCAATTTCAGGG
131 CAGCTCCTGACCCTGAGCATTAAGTGCACTTGGATGTTTAAAACTCCAGATGGCCAATTTCAGGG
97122331 AT
1 AT
97122333 TCCCATTTGT
Statistics
Matches: 181, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
191 131 0.72
193 1 0.01
195 1 0.01
197 1 0.01
199 47 0.26
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (195 bp):
ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACAGTAAGATTACTTAAAT
GGTAGTGTCTTGAGAAGGACATGTTGGTTCTTTTACAGAAGCAACTTCACTTACTGGTTCTTAAG
CAGCTCCTGACCCTGAGCATTAAGTGCACTTGGATGTTTAAAACTCCAGATGGCCAATTTCAGGG
Found at i:97128789 original size:115 final size:110
Alignment explanation
Indices: 97128650--97128910 Score: 292
Period size: 112 Copynumber: 2.3 Consensus size: 110
97128640 CCTCAAGACA
* * *
97128650 TTTTTTTTTAC-TTTGAGACATTGATGGCCGACACTAATGTCATTTTAAAATTTTTTTTGGGTGT
1 TTTTTTTTTACTTTTG-GACATTGATGGCCGACACCAATGCCA-TTTAAAATTTTTTTT--GTGC
*** *
97128714 TGACCAGTAGATGACC-AGCACCAAGTACATTTTTTGGCTCCCAATGCAC
62 TGACCAGTAGATGACCGA-CACCAAGTACATTTTTCAACTCCCAAGGCAC
* * * *
97128763 TTTTTTTATATGCTTTTGGACATTGATAGCCAACACCAGTGCCATTTAAAATTTTTTTTGTGCTG
1 TTTTTTT-T-TACTTTTGGACATTGATGGCCGACACCAATGCCATTTAAAATTTTTTTTGTGCTG
* * *
97128828 GCTAGTAGATGGCCGACACCAAGTACATTTTTCAACTCCCAAGGCAC
64 ACCAGTAGATGACCGACACCAAGTACATTTTTCAACTCCCAAGGCAC
* * *
97128875 TTTTTTTTTACTTTGGGAAACTGATGGCCGACACCA
1 TTTTTTTTTACTTTTGGACATTGATGGCCGACACCA
97128911 CATTTTTTGG
Statistics
Matches: 124, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
110 22 0.18
111 1 0.01
112 50 0.40
113 8 0.06
114 16 0.13
115 23 0.19
116 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (110 bp):
TTTTTTTTTACTTTTGGACATTGATGGCCGACACCAATGCCATTTAAAATTTTTTTTGTGCTGAC
CAGTAGATGACCGACACCAAGTACATTTTTCAACTCCCAAGGCAC
Found at i:97132109 original size:22 final size:22
Alignment explanation
Indices: 97132084--97132153 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
97132074 TTCTTATTCC
97132084 TAATTTAAAACACATTAAATTA
1 TAATTTAAAACACATTAAATTA
** * * **
97132106 TAATACAATATACATATGTATT-
1 TAATTTAAAACACAT-TAAATTA
97132128 TAATTTAAAACACATTAAATTA
1 TAATTTAAAACACATTAAATTA
97132150 TAAT
1 TAAT
97132154 ACAATTTACA
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
21 4 0.12
22 26 0.76
23 4 0.12
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (22 bp):
TAATTTAAAACACATTAAATTA
Found at i:97132134 original size:44 final size:44
Alignment explanation
Indices: 97132084--97132271 Score: 229
Period size: 44 Copynumber: 4.5 Consensus size: 44
97132074 TTCTTATTCC
**
97132084 TAATTTAAAACACATTAAATTATAATACAATATACATATGTATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
97132128 TAATTTAAAACACATTAAATTATAATACAATTTACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
97132172 T-A-TT--------TT--ATTATAATACAATTTACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
97132204 TATTTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* *
97132248 TATTTTAAAACATATTAAATTATA
1 TAATTTAAAACACATTAAATTATA
97132272 TTAATTCAAC
Statistics
Matches: 126, Mismatches: 6, Indels: 24
0.81 0.04 0.15
Matches are distributed among these distances:
32 27 0.21
34 4 0.03
42 4 0.03
43 1 0.01
44 90 0.71
ACGTcount: A:0.48, C:0.10, G:0.01, T:0.41
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:97132164 original size:22 final size:22
Alignment explanation
Indices: 97132095--97132164 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
97132085 AATTTAAAAC
97132095 ACATTAAATTATAATACAATAT
1 ACATTAAATTATAATACAATAT
** ** * *
97132117 ACATATGTATT-TAATTTAAAAC
1 ACAT-TAAATTATAATACAATAT
*
97132139 ACATTAAATTATAATACAATTT
1 ACATTAAATTATAATACAATAT
97132161 ACAT
1 ACAT
97132165 ACATATTTAT
Statistics
Matches: 33, Mismatches: 13, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
21 4 0.12
22 25 0.76
23 4 0.12
ACGTcount: A:0.50, C:0.10, G:0.01, T:0.39
Consensus pattern (22 bp):
ACATTAAATTATAATACAATAT
Found at i:97132182 original size:32 final size:32
Alignment explanation
Indices: 97132146--97132210 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
97132136 AACACATTAA
97132146 ATTATAATACAATTTACATACATATTTATTTT
1 ATTATAATACAATTTACATACATATTTATTTT
97132178 ATTATAATACAATTTACATACATATTTATTTT
1 ATTATAATACAATTTACATACATATTTATTTT
97132210 A
1 A
97132211 AAACACATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (32 bp):
ATTATAATACAATTTACATACATATTTATTTT
Found at i:97132196 original size:76 final size:76
Alignment explanation
Indices: 97132102--97132254 Score: 261
Period size: 76 Copynumber: 2.0 Consensus size: 76
97132092 AACACATTAA
** *
97132102 ATTATAATACAATATACATATGTATTTAATTTAAAACACATTAAATTATAATACAATTTACATAC
1 ATTATAATACAATATACATACATATTTAATTTAAAACACATTAAATTATAATACAATATACATAC
97132167 ATATTTATTTT
66 ATATTTATTTT
* *
97132178 ATTATAATACAATTTACATACATATTTATTTTAAAACACATTAAATTATAATACAATATACATAC
1 ATTATAATACAATATACATACATATTTAATTTAAAACACATTAAATTATAATACAATATACATAC
97132243 ATATTTATTTT
66 ATATTTATTTT
97132254 A
1 A
97132255 AAACATATTA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (76 bp):
ATTATAATACAATATACATACATATTTAATTTAAAACACATTAAATTATAATACAATATACATAC
ATATTTATTTT
Found at i:97132973 original size:17 final size:18
Alignment explanation
Indices: 97132935--97132974 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
97132925 AATAAATTAT
*
97132935 AAATTTAAATGAAAACAA
1 AAATTGAAATGAAAACAA
97132953 AAATTGAAATGAAAA-AA
1 AAATTGAAATGAAAACAA
97132970 AAATT
1 AAATT
97132975 AATATCTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (18 bp):
AAATTGAAATGAAAACAA
Found at i:97133039 original size:23 final size:23
Alignment explanation
Indices: 97133007--97133062 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
97132997 AATATAAAAA
*
97133007 AAATTGAAATGAGAAAAAAA-ATT
1 AAATTTAAATGAGAAAAAAAGA-T
97133030 AAATTTAAATG-GAAAAAAAGAT
1 AAATTTAAATGAGAAAAAAAGAT
97133052 -AATTTAAATGA
1 AAATTTAAATGA
97133063 AATGGAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 10 0.33
22 9 0.30
23 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (23 bp):
AAATTTAAATGAGAAAAAAAGAT
Found at i:97133045 original size:21 final size:22
Alignment explanation
Indices: 97133002--97133062 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
97132992 TTATTAATAT
*
97133002 AAAAA-AAATTGAAATGAGAAA
1 AAAAAGAAATTTAAATGAGAAA
*
97133023 AAAAATTAAATTTAAATG-G-AA
1 AAAAA-GAAATTTAAATGAGAAA
97133044 AAAAAGATAATTTAAATGA
1 AAAAAGA-AATTTAAATGA
97133063 AATGGAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 1 0.03
21 22 0.65
22 1 0.03
23 10 0.29
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (22 bp):
AAAAAGAAATTTAAATGAGAAA
Found at i:97147833 original size:113 final size:114
Alignment explanation
Indices: 97147704--97148025 Score: 375
Period size: 113 Copynumber: 2.8 Consensus size: 114
97147694 GTGGTGCCAA
* * * * *
97147704 CCATCAGTGTCCCAAAATAAAAAAAAAGCG-CATTAGGAGTCGAAAAATGTACTTAGTGCCGGCC
1 CCATCAGTATCCCAAAATAAAAAAAAAGTGCCATTAGGAGCCGAAAAATGTACTTGGTGCCGACC
* * * *
97147768 ATCTACTGGTTAGCACCCAAAATATTTTATTAAATGACACTAGT-CTGTG
66 ATCTATTGGTCAGCACCCAAAATATTTTATTAAATGACACTAATGCCG-G
* * * ***
97147817 CCATCAGTATCCCAAAATAAAAACAAAGTGTC-TTAGGAGCCGAAACATGTACTTGGTATAGACC
1 CCATCAGTATCCCAAAATAAAAAAAAAGTGCCATTAGGAGCCGAAAAATGTACTTGGTGCCGACC
* * *
97147881 ATCTATTGGTCAGCATCC-AAATTTTTTTTTAAATGACACTAATGCCGG
66 ATCTATTGGTCAGCACCCAAAATATTTTATTAAATGACACTAATGCCGG
* * * *
97147929 CCATCAATTTCCCAAAGTAAAAAAAGAAAGTGCCA-TGGGAGCCGAAAAATGTACTTGGTGCCGA
1 CCATCAGTATCCCAAAAT-AAAAAA-AAAGTGCCATTAGGAGCCGAAAAATGTACTTGGTGCCGA
*
97147993 CCATCTATTGGTCAGCACCCAAAATAATTTATT
64 CCATCTATTGGTCAGCACCCAAAATATTTTATT
97148026 TTAAACCAAA
Statistics
Matches: 172, Mismatches: 31, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
112 38 0.22
113 74 0.43
114 51 0.30
115 9 0.05
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (114 bp):
CCATCAGTATCCCAAAATAAAAAAAAAGTGCCATTAGGAGCCGAAAAATGTACTTGGTGCCGACC
ATCTATTGGTCAGCACCCAAAATATTTTATTAAATGACACTAATGCCGG
Found at i:97149549 original size:21 final size:21
Alignment explanation
Indices: 97149525--97149658 Score: 53
Period size: 21 Copynumber: 6.4 Consensus size: 21
97149515 CCGTAAGGGA
97149525 TAAACGAAAGCTCATAAGAGC
1 TAAACGAAAGCTCATAAGAGC
** *
97149546 TAAAC-AAAAATCCATAA-AGGT
1 TAAACGAAAGCT-CATAAGA-GC
*
97149567 TAAACTG-AAGCTCAAAAGAGC
1 TAAAC-GAAAGCTCATAAGAGC
* * * * *
97149588 TGAACTGAAA-CCCAAAAGGGT
1 TAAAC-GAAAGCTCATAAGAGC
* * *
97149609 TAAACTAAAACTCATATGAG-
1 TAAACGAAAGCTCATAAGAGC
* * *
97149629 TTAACTAAAGCTCATGAGAGC
1 TAAACGAAAGCTCATAAGAGC
*
97149650 TAAATGAAA
1 TAAACGAAA
97149659 AGCAAACACG
Statistics
Matches: 81, Mismatches: 24, Indels: 16
0.67 0.20 0.13
Matches are distributed among these distances:
20 24 0.30
21 51 0.63
22 6 0.07
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (21 bp):
TAAACGAAAGCTCATAAGAGC
Found at i:97149571 original size:42 final size:42
Alignment explanation
Indices: 97149519--97149624 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
97149509 GGAAACCCGT
* *
97149519 AAGGGATAAACGAAAGCTCATAAGAGCTAAACAAAAATCCATA
1 AAGGGTTAAACGAAAGCTCATAAGAGCTAAACAAAAACCCA-A
* * **
97149562 AA-GGTTAAACTG-AAGCTCAAAAGAGCTGAACTGAAACCCAA
1 AAGGGTTAAAC-GAAAGCTCATAAGAGCTAAACAAAAACCCAA
* *
97149603 AAGGGTTAAACTAAAACTCATA
1 AAGGGTTAAACGAAAGCTCATA
97149625 TGAGTTAACT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
41 3 0.06
42 45 0.88
43 3 0.06
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.16
Consensus pattern (42 bp):
AAGGGTTAAACGAAAGCTCATAAGAGCTAAACAAAAACCCAA
Found at i:97151339 original size:18 final size:18
Alignment explanation
Indices: 97151316--97151354 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
97151306 TTCTCACAAA
97151316 TATTATGACTCAACAAGG
1 TATTATGACTCAACAAGG
97151334 TATTATGACTCAACAAGG
1 TATTATGACTCAACAAGG
97151352 TAT
1 TAT
97151355 AACTTTTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (18 bp):
TATTATGACTCAACAAGG
Found at i:97151452 original size:21 final size:20
Alignment explanation
Indices: 97151428--97151468 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
97151418 TACTTGGAAA
97151428 ATTA-ATTTTGATATAACAAAT
1 ATTATATTTTGA-ATAA-AAAT
97151449 ATTATATTTTGAATAAAAAT
1 ATTATATTTTGAATAAAAAT
97151469 CATTTTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (20 bp):
ATTATATTTTGAATAAAAAT
Found at i:97151546 original size:43 final size:43
Alignment explanation
Indices: 97151494--97151579 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
97151484 TTACCAATAA
97151494 TTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTAAACTCAT
1 TTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTAAACTCAT
*
97151537 TTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTGAACTCAT
1 TTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTAAACTCAT
97151580 ACTTTCAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (43 bp):
TTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTAAACTCAT
Found at i:97163593 original size:12 final size:12
Alignment explanation
Indices: 97163553--97163586 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
97163543 CAAAACCCTA
*
97163553 TTTTTCCTT-TC
1 TTTTTCTTTCTC
97163564 TTTTTCTTTCTC
1 TTTTTCTTTCTC
97163576 TTTTTCTTTCT
1 TTTTTCTTTCT
97163587 TTCTTTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:97170206 original size:8 final size:8
Alignment explanation
Indices: 97170195--97170227 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
97170185 AAATATTTAC
97170195 ATTATAAT
1 ATTATAAT
97170203 ATTATAAT
1 ATTATAAT
97170211 ATTAT-AT
1 ATTATAAT
*
97170218 ATTATTAT
1 ATTATAAT
97170226 AT
1 AT
97170228 ATTTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTATAAT
Found at i:97170277 original size:5 final size:5
Alignment explanation
Indices: 97170253--97170296 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
97170243 GCTATAAATT
*
97170253 ATATA ATAT- ATAT- ATAATA ACATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA
97170297 TTCTAAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 6 0.17
5 28 0.80
6 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:97172108 original size:26 final size:26
Alignment explanation
Indices: 97172079--97172128 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
97172069 AAGTTTAATT
* *
97172079 AATTTTATATTTAAATAAGTTAATAA
1 AATTATATATTTAAATAAGATAATAA
97172105 AATTATATATTTAAATAAGATAAT
1 AATTATATATTTAAATAAGATAAT
97172129 TTATTAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
AATTATATATTTAAATAAGATAATAA
Found at i:97172893 original size:17 final size:17
Alignment explanation
Indices: 97172863--97172896 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
97172853 CTAACTACAT
**
97172863 AAATTAAATTATATAAA
1 AAATTAAAGCATATAAA
97172880 AAATTAAAGCATATAAA
1 AAATTAAAGCATATAAA
97172897 TTAACTCTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATTAAAGCATATAAA
Found at i:97173348 original size:19 final size:20
Alignment explanation
Indices: 97173324--97173367 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
97173314 GTGAACGTGA
97173324 CAAAAAGCAT-TTT-GTGAGG
1 CAAAAAGCATATTTGGTG-GG
*
97173343 CAAAAATCATATTTGGTGGG
1 CAAAAAGCATATTTGGTGGG
97173363 CAAAA
1 CAAAA
97173368 GCCAAATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
20 10 0.45
21 3 0.14
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (20 bp):
CAAAAAGCATATTTGGTGGG
Found at i:97173714 original size:67 final size:67
Alignment explanation
Indices: 97173606--97173739 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
97173596 AGGCTAGCTT
97173606 CTACCTGAACTATTTATCAAGCTGAAATAGTTTACTTGGTCAGTGGTTCCACATATGTTACCTAT
1 CTACCTGAACTATTTATCAAGCTGAAATAGTTTACTTGGTCAGTGGTTCCACATATGTTACCTAT
97173671 CG
66 CG
97173673 CTACCTGAACTATTTATCAAGCTGAAATAGTTTACTTGGTCAGTGGTTCCACATATGTTACCTAT
1 CTACCTGAACTATTTATCAAGCTGAAATAGTTTACTTGGTCAGTGGTTCCACATATGTTACCTAT
97173738 CG
66 CG
97173740 TTGCCTAGAC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (67 bp):
CTACCTGAACTATTTATCAAGCTGAAATAGTTTACTTGGTCAGTGGTTCCACATATGTTACCTAT
CG
Found at i:97181968 original size:18 final size:18
Alignment explanation
Indices: 97181947--97182011 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
97181937 TTGTTTTTTT
97181947 TTTTGTACTTTTTTTAAC
1 TTTTGTACTTTTTTTAAC
* **
97181965 TTTTGTCCTATTTTTTATTT
1 TTTTGTACT-TTTTTTA-AC
* *
97181985 TTTTTTA-TTTTTTTAAG
1 TTTTGTACTTTTTTTAAC
97182002 TTTTGT-CTTT
1 TTTTGTACTTT
97182012 GTCCTTATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
17 8 0.22
18 15 0.42
19 8 0.22
20 5 0.14
ACGTcount: A:0.12, C:0.08, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTTGTACTTTTTTTAAC
Found at i:97181996 original size:37 final size:39
Alignment explanation
Indices: 97181934--97182008 Score: 111
Period size: 37 Copynumber: 2.0 Consensus size: 39
97181924 TCTATTACTT
97181934 TATTTGTTTTTTTTTTTGTACTTTTTTTAACTTTTGTCC
1 TATTTGTTTTTTTTTTTGTACTTTTTTTAACTTTTGTCC
*
97181973 TATTT-TTTATTTTTTTT-TA-TTTTTTTAAGTTTTGTC
1 TATTTGTTT-TTTTTTTTGTACTTTTTTTAACTTTTGTC
97182009 TTTGTCCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 16 0.47
38 5 0.15
39 13 0.38
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.75
Consensus pattern (39 bp):
TATTTGTTTTTTTTTTTGTACTTTTTTTAACTTTTGTCC
Found at i:97182122 original size:25 final size:25
Alignment explanation
Indices: 97182053--97182129 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
97182043 AAAAAACTTG
* * *
97182053 AAATGTATATTTGAAATGTTTTATA
1 AAATATATTTTTGAAATATTTTATA
* *
97182078 ATATATATTTTTTAAA-ATTTTA-A
1 AAATATATTTTTGAAATATTTTATA
*
97182101 AAATATATTTTTGAATATATTTTTTA
1 AAATATATTTTTGAA-ATATTTTATA
97182127 AAA
1 AAA
97182130 ATTTAAATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
23 14 0.34
24 6 0.15
25 17 0.41
26 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (25 bp):
AAATATATTTTTGAAATATTTTATA
Found at i:97182125 original size:35 final size:34
Alignment explanation
Indices: 97182080--97182145 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
97182070 GTTTTATAAT
*
97182080 ATATATTTTTTAAAATTTTAAAAATATATTTTTGA
1 ATATATTTTTTAAAAATTTAAAAAT-TATTTTTGA
*
97182115 ATATATTTTTTAAAAATTTAAATATTATTTT
1 ATATATTTTTTAAAAATTTAAAAATTATTTT
97182146 CAAATATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 6 0.21
35 23 0.79
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (34 bp):
ATATATTTTTTAAAAATTTAAAAATTATTTTTGA
Found at i:97182144 original size:22 final size:21
Alignment explanation
Indices: 97182114--97182183 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 21
97182104 TATATTTTTG
97182114 AATATATTTTTTAAAAATTTA
1 AATATATTTTTTAAAAATTTA
* *
97182135 AATAT-TATTTT-CAAATATTA
1 AATATATTTTTTAAAAAT-TTA
* *
97182155 AATATATTTTTTAATAATATA
1 AATATATTTTTTAAAAATTTA
97182176 AA-ATATTT
1 AATATATTT
97182184 AAATATTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
19 4 0.10
20 19 0.47
21 14 0.35
22 3 0.08
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATATTTTTTAAAAATTTA
Found at i:97182150 original size:19 final size:19
Alignment explanation
Indices: 97182128--97182164 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
97182118 TATTTTTTAA
97182128 AAAT-TTAAATATTATTTTC
1 AAATATTAAATA-TATTTTC
97182147 AAATATTAAATATATTTT
1 AAATATTAAATATATTTT
97182165 TTAATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTAAATATATTTTC
Found at i:97182248 original size:16 final size:16
Alignment explanation
Indices: 97182221--97182267 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
97182211 ATTTATTATT
97182221 AATTTTATAATATTTTA
1 AATTTTA-AATATTTTA
97182238 AATTTTAAATATTTTTA
1 AATTTTAAATA-TTTTA
* *
97182255 AAATTAAAATATT
1 AATTTTAAATATT
97182268 AATCCTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTTAAATATTTTA
Found at i:97182421 original size:32 final size:33
Alignment explanation
Indices: 97182342--97182445 Score: 128
Period size: 32 Copynumber: 3.2 Consensus size: 33
97182332 TAATAATTTA
*
97182342 TAAAATTTATATTT-AAATTT-TAAAATACATT
1 TAAAATATATATTTAAAATTTATAAAATACATT
* *
97182373 TAAAATATGTATTTAAAATATTATAAAATA-AAT
1 TAAAATATATATTTAAAAT-TTATAAAATACATT
97182406 TAAAATA-ATATTTAAAATTTA-AAATATACATT
1 TAAAATATATATTTAAAATTTATAAA-ATACATT
97182438 TAAAATAT
1 TAAAATAT
97182446 TATAAAACAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
30 3 0.05
31 18 0.29
32 23 0.37
33 11 0.18
34 7 0.11
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (33 bp):
TAAAATATATATTTAAAATTTATAAAATACATT
Found at i:97182429 original size:19 final size:20
Alignment explanation
Indices: 97182405--97182443 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
97182395 ATAAAATAAA
*
97182405 TTAAAATA-ATATTTAAAAT
1 TTAAAATATACATTTAAAAT
97182424 TTAAAATATACATTTAAAAT
1 TTAAAATATACATTTAAAAT
97182444 ATTATAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAATATACATTTAAAAT
Found at i:97182566 original size:21 final size:20
Alignment explanation
Indices: 97182507--97182567 Score: 95
Period size: 21 Copynumber: 3.0 Consensus size: 20
97182497 TTTTATATTA
*
97182507 TTAAAAAATATATTTAATAT
1 TTAAAAAATATATTTAAAAT
97182527 TTAAAAAATAATATTTAAAAT
1 TTAAAAAAT-ATATTTAAAAT
97182548 TTAAAAAATATATTATAAAA
1 TTAAAAAATATATT-TAAAA
97182568 CATTTTAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
20 14 0.37
21 24 0.63
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAAAAAATATATTTAAAAT
Found at i:97183053 original size:16 final size:16
Alignment explanation
Indices: 97183032--97183065 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
97183022 ACATAAGTAT
*
97183032 TTTTGAACTACAACTA
1 TTTTGAACAACAACTA
97183048 TTTTGAACAACAACTA
1 TTTTGAACAACAACTA
97183064 TT
1 TT
97183066 CTAAATAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (16 bp):
TTTTGAACAACAACTA
Found at i:97187480 original size:3 final size:3
Alignment explanation
Indices: 97187472--97187497 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
97187462 AAACGATGCA
97187472 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
97187498 ATCCAACTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:97187596 original size:12 final size:12
Alignment explanation
Indices: 97187579--97187626 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 12
97187569 AATTAAAGTA
97187579 AAATAATATTTT
1 AAATAATATTTT
*
97187591 AAATAAT-TATT
1 AAATAATATTTT
*
97187602 -AATAATATTAT
1 AAATAATATTTT
97187613 AAA-AATA-TTT
1 AAATAATATTTT
97187623 AAAT
1 AAAT
97187627 GTTCTCGTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
10 11 0.38
11 9 0.31
12 9 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:97195798 original size:19 final size:20
Alignment explanation
Indices: 97195761--97195798 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
97195751 ATAAGGTGGT
97195761 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
97195781 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
97195799 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:97197747 original size:21 final size:21
Alignment explanation
Indices: 97197723--97197764 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
97197713 TGGATACCTT
97197723 AATTGACT-GACCAAACATTAA
1 AATT-ACTGGACCAAACATTAA
*
97197744 AATTACTGGACCAAACTTTAA
1 AATTACTGGACCAAACATTAA
97197765 TACGACACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (21 bp):
AATTACTGGACCAAACATTAA
Done.