Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 26 of 349
Found at i:7097593 original size:41 final size:41
Alignment explanation
Indices: 7097542--7097634 Score: 177
Period size: 41 Copynumber: 2.2 Consensus size: 41
7097532 CAACTTCGAC
7097542 CTACTACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
1 CTAC-ACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
7097584 CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
1 CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
7097625 CTACACAAAT
1 CTACACAAAT
7097635 TCACAATGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 47 0.92
42 4 0.08
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.25
Consensus pattern (41 bp):
CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
Found at i:7098291 original size:13 final size:14
Alignment explanation
Indices: 7098267--7098300 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
7098257 AAGAAGAAGC
7098267 AGAAATATGGAGAAA
1 AGAAA-ATGGAGAAA
7098282 A-AAAATGGAGAAA
1 AGAAAATGGAGAAA
7098295 AGAAAA
1 AGAAAA
7098301 GAAATGTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.56
14 7 0.39
15 1 0.06
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.09
Consensus pattern (14 bp):
AGAAAATGGAGAAA
Found at i:7098300 original size:18 final size:19
Alignment explanation
Indices: 7098277--7098312 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7098267 AGAAATATGG
7098277 AGAAAAAAAATG-GAGAAA
1 AGAAAAAAAATGTGAGAAA
*
7098295 AGAAAAGAAATGTGAGAA
1 AGAAAAAAAATGTGAGAA
7098313 GAAAAGAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.67, C:0.00, G:0.25, T:0.08
Consensus pattern (19 bp):
AGAAAAAAAATGTGAGAAA
Found at i:7113813 original size:6 final size:6
Alignment explanation
Indices: 7113804--7113856 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
7113794 TAAGATTGAG
7113804 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
7113852 ATACA
1 ATACA
7113857 CTTCTTTTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (6 bp):
ATACAT
Found at i:7114893 original size:29 final size:29
Alignment explanation
Indices: 7114838--7114893 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
7114828 TATTTTCAAA
* * * *
7114838 ATTATTTATGAAAATTGGTTAATTTTCTG
1 ATTACTTATGAAAAATGGCTAAATTTCTG
*
7114867 ATTACTTATTAAAAATGGCTAAATTTC
1 ATTACTTATGAAAAATGGCTAAATTTC
7114894 GAGAAAATGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (29 bp):
ATTACTTATGAAAAATGGCTAAATTTCTG
Found at i:7115314 original size:25 final size:25
Alignment explanation
Indices: 7115277--7115367 Score: 68
Period size: 26 Copynumber: 3.8 Consensus size: 25
7115267 TTCAATACTA
* *
7115277 TTTAA-TATTTTTTTATTTACGCAAT
1 TTTAATTAATTTTTCATTTA-GCAAT
* *
7115302 TTTAATTAATTTTTCA-ATA-CTA-
1 TTTAATTAATTTTTCATTTAGCAAT
*
7115324 TTTAA-TATTTTTTTCATTTATGCAAT
1 TTTAATTA-ATTTTTCATTTA-GCAAT
7115350 TTTAATTAATTTTT-ATTT
1 TTTAATTAATTTTTCATTT
7115368 TATATTTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
21 2 0.04
22 12 0.24
23 4 0.08
25 13 0.25
26 18 0.35
27 2 0.04
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTAATTAATTTTTCATTTAGCAAT
Found at i:7115321 original size:47 final size:48
Alignment explanation
Indices: 7115260--7115363 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 48
7115250 AGTGGTAATT
7115260 TTAATTTTTCAATACTATTTAATATTTTTTT-ATTTACGCAATTTTAA
1 TTAATTTTTCAATACTATTTAATATTTTTTTCATTTACGCAATTTTAA
*
7115307 TTAATTTTTCAATACTATTTAATATTTTTTTCATTTATGCAATTTTAA
1 TTAATTTTTCAATACTATTTAATATTTTTTTCATTTACGCAATTTTAA
7115355 TTAATTTTT
1 TTAATTTTT
7115364 ATTTTATATT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 31 0.56
48 24 0.44
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.60
Consensus pattern (48 bp):
TTAATTTTTCAATACTATTTAATATTTTTTTCATTTACGCAATTTTAA
Found at i:7115336 original size:22 final size:22
Alignment explanation
Indices: 7115264--7115339 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
7115254 GTAATTTTAA
7115264 TTTTTCAATACTATTTAATATT
1 TTTTTCAATACTATTTAATATT
* * *
7115286 TTTTT-ATTTACGCAATTTTAAT-TAA
1 TTTTTCA-ATA--CTA-TTTAATAT-T
7115311 TTTTTCAATACTATTTAATATT
1 TTTTTCAATACTATTTAATATT
7115333 TTTTTCA
1 TTTTTCA
7115340 TTTATGCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 1 0.02
22 20 0.49
23 3 0.07
24 3 0.07
25 13 0.32
26 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.59
Consensus pattern (22 bp):
TTTTTCAATACTATTTAATATT
Found at i:7116253 original size:7 final size:7
Alignment explanation
Indices: 7116241--7116287 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
7116231 TTGTCGTTTC
7116241 GTATTTA
1 GTATTTA
7116248 GTATTTA
1 GTATTTA
7116255 GTATTTA
1 GTATTTA
7116262 GTATTTA
1 GTATTTA
7116269 GTATTTA
1 GTATTTA
7116276 GTATTTA
1 GTATTTA
7116283 GTATT
1 GTATT
7116288 ATGTATATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:7116821 original size:30 final size:29
Alignment explanation
Indices: 7116785--7116849 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
7116775 TGATGATGCA
* *
7116785 GGCCCATCAATAGTGCCCACACAATCACCG
1 GGCCCATCAACAGCGCCCACACAATCA-CG
* *
7116815 GGCCCATCAACAGCGCTCACACAGTCACG
1 GGCCCATCAACAGCGCCCACACAATCACG
7116844 GGCCCA
1 GGCCCA
7116850 ACACTTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.28, C:0.42, G:0.20, T:0.11
Consensus pattern (29 bp):
GGCCCATCAACAGCGCCCACACAATCACG
Found at i:7116925 original size:18 final size:18
Alignment explanation
Indices: 7116902--7116945 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7116892 ATGCTAAGTG
* *
7116902 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTACA
7116920 TGTATCCTAACCCTTACA
1 TGTATCCTAACCCTTACA
*
7116938 TGTTTCCT
1 TGTATCCT
7116946 TTTCTCAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.30, G:0.09, T:0.41
Consensus pattern (18 bp):
TGTATCCTAACCCTTACA
Found at i:7117472 original size:8 final size:9
Alignment explanation
Indices: 7117456--7117485 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7117446 GGAATAAGGC
7117456 AATATTTTT
1 AATATTTTT
7117465 AATATTTTT
1 AATATTTTT
7117474 -ATATTTTT
1 AATATTTTT
7117482 AATA
1 AATA
7117486 AAATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:7119027 original size:27 final size:27
Alignment explanation
Indices: 7118995--7119046 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
7118985 CCACTGAATC
*
7118995 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
7119022 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
7119047 TTTATTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:7119227 original size:26 final size:26
Alignment explanation
Indices: 7119198--7119249 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
7119188 ACCAATGAAA
* *
7119198 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGAGAATCAGCACATAGCAACCCC
7119224 TCGGAGAATCAGCACATAGCAACCCC
1 TCGGAGAATCAGCACATAGCAACCCC
7119250 CTTTCACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.35, G:0.21, T:0.13
Consensus pattern (26 bp):
TCGGAGAATCAGCACATAGCAACCCC
Found at i:7119233 original size:103 final size:103
Alignment explanation
Indices: 7118961--7119327 Score: 589
Period size: 103 Copynumber: 3.6 Consensus size: 103
7118951 TAGCCGTTAT
** *
7118961 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
7119026 AATCAGCACATAGCAA-CCCCTTTT-ATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
7119062 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
7119127 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
*
7119165 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTC-GGA
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
7119229 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
7119269 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
7119328 TTTATATACA
Statistics
Matches: 251, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
101 78 0.31
102 8 0.03
103 96 0.38
104 68 0.27
105 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:7119689 original size:29 final size:29
Alignment explanation
Indices: 7119656--7119719 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
7119646 TAATCCACCA
7119656 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
7119685 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
7119715 CCCAA
1 CCCAA
7119720 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:7119693 original size:30 final size:30
Alignment explanation
Indices: 7119663--7119719 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7119653 CCACCCAACT
7119663 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
7119692 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
7119720 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:7127509 original size:25 final size:26
Alignment explanation
Indices: 7127464--7127517 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
7127454 TGGTACAAAT
*
7127464 TGATAATGGGTTAGGTTAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7127490 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7127515 TGA
1 TGA
7127518 ATGTTCCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.39
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:7127528 original size:36 final size:37
Alignment explanation
Indices: 7127481--7127554 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
7127471 GGGTTAGGTT
*
7127481 AATGTTCCATGATAAT-GGTTAGGTAAATGTTTCATG
1 AATGTTCCATGATAATGGGTTAGGTAAATGTTCCATG
7127517 AATGTTCCATGATAATGGGTTAGGTAAATGTTCCATG
1 AATGTTCCATGATAATGGGTTAGGTAAATGTTCCATG
7127554 A
1 A
7127555 TGGGAATTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 16 0.44
37 20 0.56
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.36
Consensus pattern (37 bp):
AATGTTCCATGATAATGGGTTAGGTAAATGTTCCATG
Found at i:7129095 original size:26 final size:25
Alignment explanation
Indices: 7129043--7129095 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
7129033 TTTACAGTTT
7129043 TACCCCTAGTAGGTAAATTACCGAAA
1 TACCCCTAG-AGGTAAATTACCGAAA
*
7129069 TACCCCTAG-GGTTAAATTGACCTAAA
1 TACCCCTAGAGG-TAAATT-ACCGAAA
7129095 T
1 T
7129096 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGGTAAATTACCGAAA
Found at i:7134576 original size:126 final size:125
Alignment explanation
Indices: 7134308--7134657 Score: 506
Period size: 125 Copynumber: 2.8 Consensus size: 125
7134298 TAAAATGGCC
* * * **
7134308 ATTATTGTAGTCTAAGTACTTTATTTGTGGTTGTTATAATTAAATTATAGTTCATTTTGA-TAAT
1 ATTATTGTAGTCTAAGTAC-TTATTTGTGGTTGTTATGATTAAATTGTAGTTCATTTTAATTTTT
* *
7134372 TTTTTGTGATAACGTGAACCAAACCTGGACCACATCTTTATATCAATATTTTAGTTAGATT
65 TTTTTGTGATAACGTGAATCAAACCTAGACCACATCTTTATATCAATATTTTAGTTAGATT
* * *
7134433 ACTATTGTAGTCGAAGTATCTTATTTGTGATTGTTATGATTAAATTGTAGTTCATTTTAATTGTT
1 ATTATTGTAGTCTAAGTA-CTTATTTGTGGTTGTTATGATTAAATTGTAGTTCATTTTAATT-TT
** * *
7134498 TTTTTTGTGATAACGTGAATCAAATTTAGACCACAT-TTTATATTAATATTTTTGTTAGATT
64 TTTTTTGTGATAACGTGAATCAAACCTAGACCACATCTTTATATCAATATTTTAGTTAGATT
**
7134559 ATTATTGTAGTCTAAGTACCTTATTTGTGGTTGTTATGACCAAATTGTAGTTCATTTTAATTTTT
1 ATTATTGTAGTCTAAGTA-CTTATTTGTGGTTGTTATGATTAAATTGTAGTTCATTTTAATTTTT
7134624 TTTTTGTGATAACGTGAATCAAACCTAGACCACA
65 TTTTTGTGATAACGTGAATCAAACCTAGACCACA
7134658 CATAAGGCAG
Statistics
Matches: 200, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
125 87 0.44
126 81 0.41
127 32 0.16
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (125 bp):
ATTATTGTAGTCTAAGTACTTATTTGTGGTTGTTATGATTAAATTGTAGTTCATTTTAATTTTTT
TTTTGTGATAACGTGAATCAAACCTAGACCACATCTTTATATCAATATTTTAGTTAGATT
Found at i:7137123 original size:20 final size:20
Alignment explanation
Indices: 7137092--7137139 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
7137082 TAAATATTAA
7137092 AATATAAATATTTACAGAATT
1 AATAT-AATATTTACAGAATT
* *
7137113 AATATAATATTTACGGGATT
1 AATATAATATTTACAGAATT
7137133 AATATAA
1 AATATAA
7137140 AAATGTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (20 bp):
AATATAATATTTACAGAATT
Found at i:7152031 original size:21 final size:21
Alignment explanation
Indices: 7152000--7152055 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
7151990 GAATTTTTTT
*
7152000 ATTATTTTTAA-AAAATTTCA
1 ATTATTATTAATAAAATTTCA
**
7152020 ATATATTATTAATTGAATTTCA
1 AT-TATTATTAATAAAATTTCA
7152042 ATTATTA--AATAAAA
1 ATTATTATTAATAAAA
7152056 AGTCTTATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 5 0.17
20 2 0.07
21 13 0.45
22 9 0.31
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (21 bp):
ATTATTATTAATAAAATTTCA
Found at i:7155531 original size:3 final size:3
Alignment explanation
Indices: 7155523--7155548 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7155513 TGTGTACCAG
7155523 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
7155549 CAGCAGCAGA
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:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:7161492 original size:23 final size:23
Alignment explanation
Indices: 7161410--7161496 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
7161400 CCTGATCAGT
*
7161410 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
7161432 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
7161452 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
7161475 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
7161497 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:7162964 original size:5 final size:5
Alignment explanation
Indices: 7162954--7162987 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
7162944 TTACTTATTT
7162954 ATATA ATATAA TATATA ATATA ATATA ATATA AT
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA AT
7162988 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 21 0.78
6 2 0.07
7 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:7162970 original size:12 final size:12
Alignment explanation
Indices: 7162953--7162980 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7162943 TTTACTTATT
7162953 TATATAATATAA
1 TATATAATATAA
7162965 TATATAATATAA
1 TATATAATATAA
7162977 TATA
1 TATA
7162981 ATATAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:7164193 original size:10 final size:10
Alignment explanation
Indices: 7164180--7164222 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
7164170 AAAATTAGTC
7164180 TAATTAACTA
1 TAATTAACTA
7164190 TAATTAACTA
1 TAATTAACTA
*
7164200 -AACTTAATTA
1 TAA-TTAACTA
7164210 TAATTAA-TA
1 TAATTAACTA
7164219 TAAT
1 TAAT
7164223 CAATGGATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 8 0.27
10 20 0.67
11 2 0.07
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (10 bp):
TAATTAACTA
Found at i:7174934 original size:23 final size:24
Alignment explanation
Indices: 7174895--7174940 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
7174885 GATGGGTTGT
* *
7174895 GAAGGGGAGGGAGGGAGA-GAAGG
1 GAAGGGGAGGAAAGGAGATGAAGG
7174918 GAAGGGGAGGAAAGGAGATGAAG
1 GAAGGGGAGGAAAGGAGATGAAG
7174941 AGATGGAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.39, C:0.00, G:0.59, T:0.02
Consensus pattern (24 bp):
GAAGGGGAGGAAAGGAGATGAAGG
Found at i:7177312 original size:6 final size:6
Alignment explanation
Indices: 7177298--7177329 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
7177288 TTTCCATTTC
7177298 TTCTCTT TTCTTT TTCTTT TTCTTT TTCTTT T
1 TTCT-TT TTCTTT TTCTTT TTCTTT TTCTTT T
7177330 ACAATTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTCTTT
Found at i:7177617 original size:12 final size:12
Alignment explanation
Indices: 7177602--7177640 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7177592 ATAAATAAAT
7177602 ATATATATATAG
1 ATATATATATAG
*
7177614 ATATAGATATAG
1 ATATATATATAG
* *
7177626 ATAGATAGATAG
1 ATATATATATAG
7177638 ATA
1 ATA
7177641 GATAATGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (12 bp):
ATATATATATAG
Found at i:7181182 original size:17 final size:19
Alignment explanation
Indices: 7181143--7181183 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
7181133 TTAAAATTTG
7181143 TAAATAAATATAGTGAATT
1 TAAATAAATATAGTGAATT
7181162 TAAA-AAAT-TAGT-AATT
1 TAAATAAATATAGTGAATT
7181178 CTAAAT
1 -TAAAT
7181184 TTAATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 4 0.20
19 4 0.20
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (19 bp):
TAAATAAATATAGTGAATT
Found at i:7183094 original size:18 final size:20
Alignment explanation
Indices: 7183057--7183097 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7183047 CAATATAATA
7183057 ATATATAATGTACTACTATT
1 ATATATAATGTACTACTATT
*
7183077 ATATATAAT-TATTA-TATT
1 ATATATAATGTACTACTATT
7183095 ATA
1 ATA
7183098 GATTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 4 0.20
20 9 0.45
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
ATATATAATGTACTACTATT
Found at i:7183504 original size:25 final size:24
Alignment explanation
Indices: 7183458--7183504 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
7183448 TCATTAAATT
*
7183458 TAAAATTAAAATTTTTATAATTTA
1 TAAAATTAAAATTTTTAGAATTTA
7183482 TAAAATTTAAAATTATTT-GAATT
1 TAAAA-TTAAAATT-TTTAGAATT
7183505 CGTCAAAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 12 0.60
26 3 0.15
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TAAAATTAAAATTTTTAGAATTTA
Found at i:7184090 original size:21 final size:21
Alignment explanation
Indices: 7184062--7184108 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
7184052 CTATATTACA
7184062 TTTA-AATTTGAGATTTAAGC
1 TTTATAATTTGAGATTTAAGC
7184082 TTTATAATTTGAGATTTAAGC
1 TTTATAATTTGAGATTTAAGC
7184103 TTTATA
1 TTTATA
7184109 CTTTAAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (21 bp):
TTTATAATTTGAGATTTAAGC
Found at i:7188259 original size:26 final size:26
Alignment explanation
Indices: 7188231--7188281 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
7188221 GTAATTTAAA
* *
7188231 AAAAAAGATAAATAA-AGATAAAAGT
1 AAAAAATAAAAATAATAGATAAAAGT
7188256 AAAAAATAAAAATAATAGATAAAAGT
1 AAAAAATAAAAATAATAGATAAAAGT
7188282 CTTCAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (26 bp):
AAAAAATAAAAATAATAGATAAAAGT
Found at i:7189570 original size:29 final size:30
Alignment explanation
Indices: 7189538--7189594 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
7189528 ACCATGAATA
* *
7189538 TAATTAAACTAA-AAAATTCAACCAAAAAC
1 TAATGAAACTAACAAAACTCAACCAAAAAC
* *
7189567 TAATGACACTAACAAGACTCAACCAAAA
1 TAATGAAACTAACAAAACTCAACCAAAA
7189595 GCAATCGAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.58, C:0.21, G:0.04, T:0.18
Consensus pattern (30 bp):
TAATGAAACTAACAAAACTCAACCAAAAAC
Found at i:7198562 original size:42 final size:42
Alignment explanation
Indices: 7198499--7198655 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
7198489 TCATGTTCAT
* * *
7198499 TTTCCGTTTAGCTCTCATGAGCTTCTGTTCAACTCATT-TGAG
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAAC-CCTTATGGG
* * * *
7198541 TTTCCGTTTAGCTTTTTTGAGCTTTTGGTCAACCCTTATGGG
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGG
* * *
7198583 TTTCCATTCAGCTCTTATGAGCTTTTGTTCAACCCTTATGGG
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGG
* * *
7198625 TTTCTGTTTAGCACTTATGTGCTTCTGTTCA
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCA
7198656 GCCTTCAGGC
Statistics
Matches: 96, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
41 3 0.03
42 93 0.97
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (42 bp):
TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGG
Found at i:7198613 original size:21 final size:20
Alignment explanation
Indices: 7198589--7198657 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 20
7198579 TGGGTTTCCA
*
7198589 TTCAGCTCTTATGAGCTTTTG
1 TTCAGCACTTATG-GCTTTTG
* * *
7198610 TTCAACCCTTATGGGTTTCTG
1 TTCAGCACTTATGGCTTT-TG
* *
7198631 TTTAGCACTTATGTGCTTCTG
1 TTCAGCACTTATG-GCTTTTG
7198652 TTCAGC
1 TTCAGC
7198658 CTTCAGGCTT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
20 4 0.11
21 30 0.81
22 3 0.08
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (20 bp):
TTCAGCACTTATGGCTTTTG
Found at i:7200375 original size:42 final size:42
Alignment explanation
Indices: 7200321--7200457 Score: 202
Period size: 42 Copynumber: 3.3 Consensus size: 42
7200311 TTCGAATGCG
* * *
7200321 CACACGGCCTGAGACATGGGCATGTCTCCTGACCGTGTGAGT
1 CACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTGAGT
* *
7200363 CACATGGCCTGAGACACGGGCGTGTCTCCTGATCGTGTAAGT
1 CACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTGAGT
* * *
7200405 TACATGGCTTGAGACACGGGCGTGTCTCCTGACCATGTGAGT
1 CACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTGAGT
7200447 CACATGGCCTG
1 CACATGGCCTG
7200458 GCCACATGGC
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.23
Consensus pattern (42 bp):
CACATGGCCTGAGACACGGGCGTGTCTCCTGACCGTGTGAGT
Found at i:7211397 original size:7 final size:6
Alignment explanation
Indices: 7211351--7211415 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
7211341 TAATTTAGCC
* * * *
7211351 ATTTTT ATTTTT A-TTGT A-TTTT ATTTTT GTTTTT AGTTTA ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
*
7211397 ATTTTCT ACTTTTT CTTTT
1 ATTTT-T A-TTTTT ATTTT
7211416 GTTTGCTTCT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
5 8 0.17
6 32 0.68
7 3 0.06
8 4 0.09
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:7214795 original size:5 final size:5
Alignment explanation
Indices: 7214787--7214869 Score: 59
Period size: 5 Copynumber: 16.6 Consensus size: 5
7214777 GCCATCCCAT
*
7214787 TTTTA TTTTA TTTTA TTTTA -TTTA TTATTA TTTGTTA TATTA -TTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA -TT-TTA TTTTA TTTTA
* *
7214833 TTTTTA TTTTA -CTAA TTTTTA TTTTA -TTTA -TTTA TTT
1 -TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTT
7214870 ATTATTCTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
4 17 0.27
5 31 0.49
6 10 0.16
7 5 0.08
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:7214807 original size:15 final size:15
Alignment explanation
Indices: 7214785--7214865 Score: 85
Period size: 15 Copynumber: 5.3 Consensus size: 15
7214775 TAGCCATCCC
7214785 ATTTTTATTTTATTT
1 ATTTTTATTTTATTT
7214800 -TATTTTA-TTTATTATT
1 AT-TTTTATTTTA-T-TT
*
7214816 ATTTGTTATATTATTT
1 ATTT-TTATTTTATTT
* *
7214832 ATTTTTATTTTACTA
1 ATTTTTATTTTATTT
7214847 ATTTTTATTTTATTT
1 ATTTTTATTTTATTT
7214862 ATTT
1 ATTT
7214866 ATTTATTATT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
14 5 0.09
15 31 0.57
16 10 0.19
17 5 0.09
18 3 0.06
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (15 bp):
ATTTTTATTTTATTT
Found at i:7214824 original size:22 final size:20
Alignment explanation
Indices: 7214788--7214910 Score: 79
Period size: 19 Copynumber: 6.4 Consensus size: 20
7214778 CCATCCCATT
*
7214788 TTTATTTTA-TTTTATTTTA
1 TTTATTTTATTTTTATATTA
7214807 TTTATTATTATTTGTTATATTA
1 TTTATT-TTATTT-TTATATTA
7214829 TTTATTTT-TATTTTACTAATT-
1 TTTATTTTAT-TTTTA-T-ATTA
7214850 TTTATTTTA--TTTAT-TTA
1 TTTATTTTATTTTTATATTA
*
7214867 TTTA--TTATTCTTATACTTA
1 TTTATTTTATTTTTATA-TTA
**
7214886 --TATTTTAAATTTAT-TTA
1 TTTATTTTATTTTTATATTA
7214903 TTTATTTT
1 TTTATTTT
7214911 TTGCTATTCT
Statistics
Matches: 83, Mismatches: 5, Indels: 32
0.69 0.04 0.27
Matches are distributed among these distances:
15 3 0.04
16 2 0.02
17 13 0.16
18 1 0.01
19 26 0.31
20 7 0.08
21 15 0.18
22 16 0.19
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (20 bp):
TTTATTTTATTTTTATATTA
Found at i:7214912 original size:60 final size:62
Alignment explanation
Indices: 7214785--7214901 Score: 152
Period size: 60 Copynumber: 1.9 Consensus size: 62
7214775 TAGCCATCCC
* **
7214785 ATTTTTATTTTATTTTATTTTATTTATTATTATTTGTTATATTATTTATTTTTATTTTACTA
1 ATTTTTATTTTATTTTATTTTATTTATTATTATTTCTTATATTATTTAAATTTATTTTACTA
*
7214847 ATTTTTATTTTA-TTTA-TTTATTTATTATTCTTATACTTATA-T-TTTAAATTTATTT
1 ATTTTTATTTTATTTTATTTTATTTATTATTATT-T-CTTATATTATTTAAATTTATTT
7214902 ATTTATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
60 26 0.53
61 6 0.12
62 17 0.35
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.71
Consensus pattern (62 bp):
ATTTTTATTTTATTTTATTTTATTTATTATTATTTCTTATATTATTTAAATTTATTTTACTA
Found at i:7233373 original size:19 final size:20
Alignment explanation
Indices: 7233349--7233386 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
7233339 TAGTCTTAAA
*
7233349 ATAAAATAA-AAGTAAAAAC
1 ATAAAATAATAAATAAAAAC
7233368 ATAAAATAATAAATAAAAA
1 ATAAAATAATAAATAAAAA
7233387 ATTTTTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
ATAAAATAATAAATAAAAAC
Found at i:7235145 original size:13 final size:13
Alignment explanation
Indices: 7235127--7235151 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7235117 TGTGAGAGCC
7235127 CACGGCCGTGTCG
1 CACGGCCGTGTCG
7235140 CACGGCCGTGTC
1 CACGGCCGTGTC
7235152 TGTCTTCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:7243215 original size:6 final size:6
Alignment explanation
Indices: 7243199--7243229 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
7243189 TTCAAACTAC
7243199 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA
7243230 GCATATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:7256972 original size:16 final size:15
Alignment explanation
Indices: 7256949--7256989 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
7256939 TACTTTAGCC
7256949 ATTTATTTTATTTCA
1 ATTTATTTTATTTCA
*
7256964 ATTTAATTTTATTTTA
1 ATTT-ATTTTATTTCA
7256980 ATTT-TTTTAT
1 ATTTATTTTAT
7256990 ATCACTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 4 0.17
16 14 0.58
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTATTTTATTTCA
Found at i:7260475 original size:16 final size:15
Alignment explanation
Indices: 7260450--7260481 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
7260440 TACTCCTCCC
7260450 TTTCTATTCTTTCTT
1 TTTCTATTCTTTCTT
7260465 TTTCTTATTCTTTCTT
1 TTTC-TATTCTTTCTT
7260481 T
1 T
7260482 CCTTCTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTCTATTCTTTCTT
Found at i:7260475 original size:21 final size:21
Alignment explanation
Indices: 7260451--7260491 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7260441 ACTCCTCCCT
*
7260451 TTCTATTCTTT-CTTTTTCTTA
1 TTCT-TTCTTTCCTTCTTCTTA
7260472 TTCTTTCTTTCCTTCTTCTT
1 TTCTTTCTTTCCTTCTTCTT
7260492 TCCCTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (21 bp):
TTCTTTCTTTCCTTCTTCTTA
Found at i:7260492 original size:15 final size:16
Alignment explanation
Indices: 7260454--7260493 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
7260444 CCTCCCTTTC
*
7260454 TATTCTTTCTTTTTCT
1 TATTCTTTCTTTTCCT
7260470 TATTCTTTC-TTTCCT
1 TATTCTTTCTTTTCCT
*
7260485 TCTTCTTTC
1 TATTCTTTC
7260494 CCTTTCTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTCTTTCTTTTCCT
Found at i:7260719 original size:4 final size:4
Alignment explanation
Indices: 7260701--7260735 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
7260691 CTATTTTATG
**
7260701 ATTT ATTT AACT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
7260736 ACCTATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:7262291 original size:8 final size:8
Alignment explanation
Indices: 7262280--7262317 Score: 58
Period size: 8 Copynumber: 4.5 Consensus size: 8
7262270 CTATTTTATC
7262280 TTTTTTTA
1 TTTTTTTA
7262288 TTTTTTTA
1 TTTTTTTA
7262296 TTTTTTTA
1 TTTTTTTA
7262304 TTTATTTTCA
1 TTT-TTTT-A
7262314 TTTT
1 TTTT
7262318 ATCTTTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 19 0.68
9 5 0.18
10 4 0.14
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTA
Found at i:7262332 original size:16 final size:15
Alignment explanation
Indices: 7262271--7262337 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
7262261 TGAGTCCATC
7262271 TATTTTATCTTTTTT
1 TATTTTATCTTTTTT
*
7262286 TA-TTT-T-TTTATT
1 TATTTTATCTTTTTT
7262298 T-TTTTAT-TTATTTT
1 TATTTTATCTT-TTTT
*
7262312 CATTTTATCTTTCTTT
1 TATTTTATCTTT-TTT
7262328 TATTTT-TCTT
1 TATTTTATCTT
7262338 GAAGACTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
12 9 0.21
13 4 0.10
14 6 0.14
15 13 0.31
16 10 0.24
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.79
Consensus pattern (15 bp):
TATTTTATCTTTTTT
Found at i:7262335 original size:11 final size:11
Alignment explanation
Indices: 7262271--7262337 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
7262261 TGAGTCCATC
7262271 TATTTTATCTTT
1 TATTTT-TCTTT
*
7262283 T-TTTATTTTTT
1 TATTT-TTCTTT
*
7262294 TATTTTTTTATT
1 TATTTTTCT-TT
7262306 TA-TTTTCATTT
1 TATTTTTC-TTT
*
7262317 TATCTTTCTTT
1 TATTTTTCTTT
7262328 TATTTTTCTT
1 TATTTTTCTT
7262338 GAAGACTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
11 32 0.70
12 14 0.30
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TATTTTTCTTT
Found at i:7263891 original size:88 final size:89
Alignment explanation
Indices: 7263716--7263908 Score: 212
Period size: 88 Copynumber: 2.2 Consensus size: 89
7263706 TGATTTCGTC
* * * * *
7263716 ATTCCTAGTACTGACA-ATCAGTGTAGACTTTAGGCCTGCTGGACATGTGTCTCACTCTAGATCA
1 ATTCCTAGTACTGACATATCAGTGCAGACTTCAGGCATGCTAGACACGTGTCTCACTCTAGATCA
* *
7263780 CCAGCGGTGCATACGGTTCTTTCT
66 CCAGCGGAGCACACGGTTCTTTCT
* * * * *
7263804 GTTCCTAGTACTGACATTTC-GTGCGGACTTCAGGCATGCTAGACACGTGTCTCACTTTAGGTCA
1 ATTCCTAGTACTGACATATCAGTGCAGACTTCAGGCATGCTAGACACGTGTCTCACTCTAGATCA
** *
7263868 CTTGCGGAGCACGCGG-TCTTTTCT
66 CCAGCGGAGCACACGGTTC-TTTCT
*
7263892 ATTCCTAGTACTAACAT
1 ATTCCTAGTACTGACAT
7263909 CCACTTGTGG
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
87 2 0.02
88 82 0.95
89 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (89 bp):
ATTCCTAGTACTGACATATCAGTGCAGACTTCAGGCATGCTAGACACGTGTCTCACTCTAGATCA
CCAGCGGAGCACACGGTTCTTTCT
Found at i:7287129 original size:26 final size:24
Alignment explanation
Indices: 7287094--7287142 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
7287084 ATTTTATTGG
7287094 ATTTTAAATTTATGTTTATATTTTAT
1 ATTTTAAATTTA-GTTTAT-TTTTAT
*
7287120 ATTTTCAATTTAGTTTATTTTTA
1 ATTTTAAATTTAGTTTATTTTTA
7287143 GTAAGAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 6 0.27
26 11 0.50
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (24 bp):
ATTTTAAATTTAGTTTATTTTTAT
Found at i:7292957 original size:31 final size:30
Alignment explanation
Indices: 7292893--7292957 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
7292883 AGTCTATATC
* *
7292893 TTTATAATTTTTAAAGGATTAAATTGAATT
1 TTTATAATTTTTAAAGGATTAAAGTGAAAT
7292923 TTTATAA-TTTTAAAGGAGGTTAAAGTGAAAT
1 TTTATAATTTTTAAAGGA--TTAAAGTGAAAT
7292954 TTTA
1 TTTA
7292958 CATTTACTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 10 0.32
30 7 0.23
31 14 0.45
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGATTAAAGTGAAAT
Found at i:7298427 original size:18 final size:19
Alignment explanation
Indices: 7298404--7298455 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 19
7298394 ATTTTTATTT
*
7298404 AAAATAAATATTATTTAA-
1 AAAATAAATATGATTTAAG
*
7298422 AAAATAAGTA-GA-TTAAG
1 AAAATAAATATGATTTAAG
7298439 AAAATAAATATGATTTA
1 AAAATAAATATGATTTA
7298456 TTTTTATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.14
17 10 0.36
18 11 0.39
19 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.33
Consensus pattern (19 bp):
AAAATAAATATGATTTAAG
Found at i:7298595 original size:19 final size:20
Alignment explanation
Indices: 7298560--7298598 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7298550 GGCATTATTT
7298560 TTATTTAGAATAAATAAATA
1 TTATTTAGAATAAATAAATA
7298580 TTATTTAGAA-AAATAAATA
1 TTATTTAGAATAAATAAATA
7298599 GATTAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TTATTTAGAATAAATAAATA
Found at i:7314737 original size:30 final size:30
Alignment explanation
Indices: 7314696--7314756 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
7314686 TGATACCCTC
*
7314696 AACAGCCTTGAAATGAATAGAAGAATGAAG
1 AACAACCTTGAAATGAATAGAAGAATGAAG
7314726 AACAACCTTGAAATGAATAGAAGAATGAAG
1 AACAACCTTGAAATGAATAGAAGAATGAAG
7314756 A
1 A
7314757 CCATCTACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.52, C:0.10, G:0.21, T:0.16
Consensus pattern (30 bp):
AACAACCTTGAAATGAATAGAAGAATGAAG
Found at i:7318560 original size:20 final size:20
Alignment explanation
Indices: 7318531--7318569 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7318521 TAGACCTTTT
7318531 ATATGCTATTTTAAATTGTC
1 ATATGCTATTTTAAATTGTC
*
7318551 ATATGTTATTTTAAATTGT
1 ATATGCTATTTTAAATTGT
7318570 TTTGTATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (20 bp):
ATATGCTATTTTAAATTGTC
Found at i:7318681 original size:22 final size:22
Alignment explanation
Indices: 7318656--7318698 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7318646 ATTTTTATAT
7318656 ATTACTTA-GTCAAAATTGTTTC
1 ATTACTTATGTC-AAATTGTTTC
* *
7318678 ATTATTTATTTCAAATTGTTT
1 ATTACTTATGTCAAATTGTTT
7318699 TATATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.53
Consensus pattern (22 bp):
ATTACTTATGTCAAATTGTTTC
Found at i:7320647 original size:16 final size:16
Alignment explanation
Indices: 7320626--7320657 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7320616 TGAGAAGTAT
7320626 CAATATTCAAGTTTCA
1 CAATATTCAAGTTTCA
*
7320642 CAATATTCAATTTTCA
1 CAATATTCAAGTTTCA
7320658 AGTGAAGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.41
Consensus pattern (16 bp):
CAATATTCAAGTTTCA
Found at i:7322500 original size:29 final size:29
Alignment explanation
Indices: 7322458--7322515 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
7322448 CCGATGATAC
7322458 GACAAAAAACAATCAATGATTATTTATTA
1 GACAAAAAACAATCAATGATTATTTATTA
7322487 GACAAAAAACAATCAATGATTATTTATTA
1 GACAAAAAACAATCAATGATTATTTATTA
7322516 ATCTCTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (29 bp):
GACAAAAAACAATCAATGATTATTTATTA
Found at i:7326817 original size:19 final size:19
Alignment explanation
Indices: 7326789--7326842 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
7326779 AAATAAAAAG
7326789 AAAGTGTTAAAATATATTTA
1 AAAGT-TTAAAATATATTTA
*
7326809 ACAA-TTTAAAAACATATTTA
1 A-AAGTTT-AAAATATATTTA
*
7326829 AAAGTTTAAGATAT
1 AAAGTTTAAAATAT
7326843 TGTTAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 9 0.32
20 17 0.61
21 2 0.07
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (19 bp):
AAAGTTTAAAATATATTTA
Found at i:7328020 original size:23 final size:22
Alignment explanation
Indices: 7327969--7328026 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
7327959 CTTCACACAC
*
7327969 TAATTTCATTATTTTTATAATTT
1 TAATTTTATTA-TTTTATAATTT
*
7327992 TAATTTTATTATTTTATTATTCT
1 TAATTTTATTATTTTATAATT-T
* *
7328015 TTATTTTTTTAT
1 TAATTTTATTAT
7328027 AGAAAAAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 9 0.30
23 21 0.70
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (22 bp):
TAATTTTATTATTTTATAATTT
Found at i:7328824 original size:5 final size:5
Alignment explanation
Indices: 7328817--7328850 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
7328807 AAATTTAAAT
* *
7328817 TTAAT TTAAT TTAAC TTAAC TTAAC TTAAC TTAA
1 TTAAC TTAAC TTAAC TTAAC TTAAC TTAAC TTAA
7328851 AATTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (5 bp):
TTAAC
Found at i:7329062 original size:16 final size:16
Alignment explanation
Indices: 7329043--7329073 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7329033 TAAGCATTTT
7329043 TAATATATATATATAA
1 TAATATATATATATAA
*
7329059 TAATATATATTTATA
1 TAATATATATATATA
7329074 TTGATTCAAA
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:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATATATATATATAA
Found at i:7331229 original size:29 final size:29
Alignment explanation
Indices: 7331196--7331254 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
7331186 TTACTCCCCA
*
7331196 TCTATGTTTTTAGTAACGGTCTTTAAGAT
1 TCTATATTTTTAGTAACGGTCTTTAAGAT
*
7331225 TCTATATTTTTAGTAACGTTCTTTAAGAT
1 TCTATATTTTTAGTAACGGTCTTTAAGAT
7331254 T
1 T
7331255 TGAATGTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (29 bp):
TCTATATTTTTAGTAACGGTCTTTAAGAT
Found at i:7331536 original size:9 final size:9
Alignment explanation
Indices: 7331522--7331561 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
7331512 GGAAATAGAA
7331522 AAGAATAAG
1 AAGAATAAG
7331531 AAGAATAAG
1 AAGAATAAG
*
7331540 AGGAA-AAG
1 AAGAATAAG
*
7331548 AAGAAAAAG
1 AAGAATAAG
7331557 AAGAA
1 AAGAA
7331562 GAGAAGCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (9 bp):
AAGAATAAG
Found at i:7331549 original size:23 final size:23
Alignment explanation
Indices: 7331519--7331564 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7331509 CTAGGAAATA
* * *
7331519 GAAAAGAATAAGAAGAATAAGAG
1 GAAAAGAAGAAAAAGAAGAAGAG
7331542 GAAAAGAAGAAAAAGAAGAAGAG
1 GAAAAGAAGAAAAAGAAGAAGAG
7331565 AAGCAATGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.04
Consensus pattern (23 bp):
GAAAAGAAGAAAAAGAAGAAGAG
Found at i:7331550 original size:17 final size:17
Alignment explanation
Indices: 7331522--7331567 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
7331512 GGAAATAGAA
*
7331522 AAGAATAAGAAGAATAAG
1 AAGAA-AAGAAGAAAAAG
*
7331540 AGGAAAAGAAGAAAAAG
1 AAGAAAAGAAGAAAAAG
*
7331557 AAGAAGAGAAG
1 AAGAAAAGAAG
7331568 CAATGGACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.04
Consensus pattern (17 bp):
AAGAAAAGAAGAAAAAG
Found at i:7335863 original size:19 final size:19
Alignment explanation
Indices: 7335839--7335875 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7335829 TAGTTACGGG
7335839 TAATTAGCAATTTAATTGC
1 TAATTAGCAATTTAATTGC
**
7335858 TAATTAGGGATTTAATTG
1 TAATTAGCAATTTAATTG
7335876 ATCATAGGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43
Consensus pattern (19 bp):
TAATTAGCAATTTAATTGC
Found at i:7337510 original size:24 final size:24
Alignment explanation
Indices: 7337482--7337534 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
7337472 TTTCTAGAAG
*
7337482 ATTTAGTATTTATGAGTAAAATAT
1 ATTTAGTATTTATGAGCAAAATAT
* *
7337506 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATGAGCAAAATAT
7337530 ATTTA
1 ATTTA
7337535 ACTTTGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (24 bp):
ATTTAGTATTTATGAGCAAAATAT
Found at i:7342575 original size:22 final size:21
Alignment explanation
Indices: 7342550--7342609 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
7342540 ATTGATAATT
7342550 ATAAAATATAAATATAGAACTA
1 ATAAAATATAAATATA-AACTA
* *
7342572 ATAAAATATAATATATACATTA
1 ATAAAATATAA-ATATAAACTA
7342594 A-AAAATATAAA-ATAAA
1 ATAAAATATAAATATAAA
7342610 ATTTTAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 9 0.26
22 15 0.44
23 5 0.15
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (21 bp):
ATAAAATATAAATATAAACTA
Found at i:7342586 original size:21 final size:22
Alignment explanation
Indices: 7342550--7342603 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
7342540 ATTGATAATT
7342550 ATAAAATATAAATATAGA-ACTA
1 ATAAAATAT-AATATAGACACTA
* *
7342572 ATAAAATATAATATATACATTA
1 ATAAAATATAATATAGACACTA
7342594 A-AAAATATAA
1 ATAAAATATAA
7342604 AATAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAAAATATAATATAGACACTA
Found at i:7347323 original size:9 final size:9
Alignment explanation
Indices: 7347306--7347335 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
7347296 ATGTACCATC
7347306 ATTTCCATGT
1 ATTT-CATGT
7347316 ATTTCATGT
1 ATTTCATGT
7347325 ATTTCATGT
1 ATTTCATGT
7347334 AT
1 AT
7347336 GTACCATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.53
Consensus pattern (9 bp):
ATTTCATGT
Found at i:7348386 original size:39 final size:39
Alignment explanation
Indices: 7348334--7348411 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
7348324 GTAAGAATTG
7348334 AAGTCACAAGAAGAAAAAATGGAAGAACAAGCTTAAGCT
1 AAGTCACAAGAAGAAAAAATGGAAGAACAAGCTTAAGCT
* * *
7348373 AAGTCGCATGAAGAAAAAATTGAAGAACAAGCTTAAGCT
1 AAGTCACAAGAAGAAAAAATGGAAGAACAAGCTTAAGCT
7348412 CAGCTCTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.51, C:0.13, G:0.21, T:0.15
Consensus pattern (39 bp):
AAGTCACAAGAAGAAAAAATGGAAGAACAAGCTTAAGCT
Found at i:7348769 original size:12 final size:12
Alignment explanation
Indices: 7348752--7348776 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7348742 GACACTTCGT
7348752 AAATATTTATAA
1 AAATATTTATAA
7348764 AAATATTTATAA
1 AAATATTTATAA
7348776 A
1 A
7348777 TATTTACAGC
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:7349115 original size:103 final size:103
Alignment explanation
Indices: 7349004--7349209 Score: 403
Period size: 103 Copynumber: 2.0 Consensus size: 103
7348994 CAATAACATC
7349004 ATATTTTAATAATTTGGGGAATGTCGGCAAAAATCTTCTCATCTAATCTTATATAAAATTTGGAA
1 ATATTTTAATAATTTGGGGAATGTCGGCAAAAATCTTCTCATCTAATCTTATATAAAATTTGGAA
7349069 ACCCATGAAAAAATCAAACAATAGTTATTTTTAGCATG
66 ACCCATGAAAAAATCAAACAATAGTTATTTTTAGCATG
*
7349107 ATATTTTAATAATTTGGGGAATGTTGGCAAAAATCTTCTCATCTAATCTTATATAAAATTTGGAA
1 ATATTTTAATAATTTGGGGAATGTCGGCAAAAATCTTCTCATCTAATCTTATATAAAATTTGGAA
7349172 ACCCATGAAAAAATCAAACAATAGTTATTTTTAGCATG
66 ACCCATGAAAAAATCAAACAATAGTTATTTTTAGCATG
7349210 TGTTGTTCAA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (103 bp):
ATATTTTAATAATTTGGGGAATGTCGGCAAAAATCTTCTCATCTAATCTTATATAAAATTTGGAA
ACCCATGAAAAAATCAAACAATAGTTATTTTTAGCATG
Found at i:7359534 original size:15 final size:14
Alignment explanation
Indices: 7359514--7359552 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
7359504 TATACTTACT
7359514 TATTATTTAAAAATA
1 TATTA-TTAAAAATA
*
7359529 TATTATT-AAATTA
1 TATTATTAAAAATA
7359542 TATTATTAAAA
1 TATTATTAAAA
7359553 TAATAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 12 0.55
14 5 0.23
15 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATTATTAAAAATA
Found at i:7359586 original size:19 final size:20
Alignment explanation
Indices: 7359564--7359601 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
7359554 AATAGTTAAA
*
7359564 AGAAATAATA-AAACAAAAT
1 AGAAATAAAAGAAACAAAAT
7359583 AGAAATAAAAGAAACAAAA
1 AGAAATAAAAGAAACAAAA
7359602 GATAGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (20 bp):
AGAAATAAAAGAAACAAAAT
Found at i:7365627 original size:12 final size:12
Alignment explanation
Indices: 7365610--7365646 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
7365600 TAGGTTTTGA
*
7365610 AAAATGGCAATG
1 AAAATGGAAATG
*
7365622 AAAATGAAAATG
1 AAAATGGAAATG
7365634 AAAATGGAAATG
1 AAAATGGAAATG
7365646 A
1 A
7365647 TCCATTTGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.59, C:0.03, G:0.22, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:7373082 original size:19 final size:19
Alignment explanation
Indices: 7373058--7373094 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7373048 AGATTAACAA
*
7373058 AAAATAAATTACATATAAT
1 AAAATAAATTACAAATAAT
7373077 AAAATAAATTACAAATAA
1 AAAATAAATTACAAATAA
7373095 AACGATGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATAAATTACAAATAAT
Found at i:7378776 original size:18 final size:16
Alignment explanation
Indices: 7378749--7378795 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
7378739 ATGAAATAAT
7378749 TAAACATATAAAAAATTA
1 TAAA-ATATAAAAAA-TA
*
7378767 TAAAATTATAAAAAATC
1 TAAAA-TATAAAAAATA
7378784 TAAAATATAAAA
1 TAAAATATAAAA
7378796 CTTTCCTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 7 0.26
17 7 0.26
18 13 0.48
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAATATAAAAAATA
Found at i:7379784 original size:21 final size:20
Alignment explanation
Indices: 7379740--7379785 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
7379730 ATTTCTATTT
7379740 TTCTT-TAAAAATTGTAAAA
1 TTCTTATAAAAATTGTAAAA
*
7379759 -T-TTATAATAAATTTTAAAA
1 TTCTTATAA-AAATTGTAAAA
7379778 TTCTTATA
1 TTCTTATA
7379786 TTCTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 2 0.09
18 4 0.18
19 10 0.45
20 1 0.05
21 5 0.23
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (20 bp):
TTCTTATAAAAATTGTAAAA
Found at i:7379846 original size:20 final size:18
Alignment explanation
Indices: 7379821--7379895 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 18
7379811 TTAACCATTT
7379821 AAATTTTTAATGATTTTAAC
1 AAATTTTTAAT-ATTTT-AC
*
7379841 AAATTTTTAAT-TTTTTC
1 AAATTTTTAATATTTTAC
*
7379858 AAGTTTTTTAAATAGATTTTAC
1 AA-ATTTTT-AAT--ATTTTAC
*
7379880 AACTTTTTAATATTTT
1 AAATTTTTAATATTTT
7379896 TAATAAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
17 3 0.07
18 14 0.30
19 3 0.07
20 14 0.30
21 5 0.11
22 7 0.15
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (18 bp):
AAATTTTTAATATTTTAC
Found at i:7379906 original size:20 final size:20
Alignment explanation
Indices: 7379821--7379906 Score: 65
Period size: 20 Copynumber: 4.3 Consensus size: 20
7379811 TTAACCATTT
7379821 AAATTTTTAATGA-TTTTAAC
1 AAATTTTTAAT-ATTTTTAAC
7379841 AAATTTTTAAT-TTTTT--C
1 AAATTTTTAATATTTTTAAC
* *
7379858 AAGTTTTTTAAATAGATTTT-AC
1 AA-ATTTTT-AATA-TTTTTAAC
* *
7379880 AACTTTTTAATATTTTTAAT
1 AAATTTTTAATATTTTTAAC
7379900 AAATTTT
1 AAATTTT
7379907 AAAATTTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
17 3 0.06
18 5 0.09
19 11 0.21
20 22 0.42
21 9 0.17
22 3 0.06
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (20 bp):
AAATTTTTAATATTTTTAAC
Found at i:7380058 original size:14 final size:15
Alignment explanation
Indices: 7380032--7380061 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
7380022 TTTCTAGTTA
7380032 TATATATTTTAAATT
1 TATATATTTTAAATT
7380047 TATATA-TTTAAATT
1 TATATATTTTAAATT
7380061 T
1 T
7380062 TTTAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATATTTTAAATT
Found at i:7382880 original size:27 final size:27
Alignment explanation
Indices: 7382834--7382885 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
7382824 ATTTTTTATG
7382834 AAATGAGCTATTTGGGCTAAATTGTAA
1 AAATGAGCTATTTGGGCTAAATTGTAA
7382861 AAATGAG-T-TTTGGGGACTAAATTGT
1 AAATGAGCTATTT-GGG-CTAAATTGT
7382886 GAATTAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 3 0.13
26 4 0.17
27 16 0.70
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.35
Consensus pattern (27 bp):
AAATGAGCTATTTGGGCTAAATTGTAA
Found at i:7382908 original size:30 final size:27
Alignment explanation
Indices: 7382834--7382908 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
7382824 ATTTTTTATG
* *
7382834 AAATGAGCTATTTGGGCTAAATTGTAA
1 AAATGAGTTATTTGGACTAAATTGTAA
*
7382861 AAATGAGTT-TTGGGGACTAAATTGTGAA
1 AAATGAGTTATT-TGGACTAAATTGT-AA
*
7382889 TTAAATGTGTTATTTGGACT
1 --AAATGAGTTATTTGGACT
7382909 TTTATGGAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 2 0.05
27 19 0.50
28 2 0.05
30 13 0.34
31 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (27 bp):
AAATGAGTTATTTGGACTAAATTGTAA
Found at i:7384770 original size:22 final size:21
Alignment explanation
Indices: 7384744--7384785 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
7384734 TTAGTGATTA
7384744 TTATT-TTTTACAATATATTTAT
1 TTATTCTTTTA-AATA-ATTTAT
7384766 TTATTCTTTTAAATAATTTA
1 TTATTCTTTTAAATAATTTA
7384786 GTAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTCTTTTAAATAATTTAT
Found at i:7388188 original size:3 final size:3
Alignment explanation
Indices: 7388180--7388298 Score: 66
Period size: 3 Copynumber: 39.3 Consensus size: 3
7388170 AGTCTTATAC
*
7388180 TTA TTA TTA TGT- TTA TTA TTA TT- TTGA GTA TTA TTA TT- TCTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA TTA
* * * * * * * * *
7388225 TTG CTA TTA CTA TTG TTT TTA TT- TGTA TTA TTA CTG TCA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
*
7388270 TTA CTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
7388299 GTTTAAACTT
Statistics
Matches: 86, Mismatches: 21, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
2 5 0.06
3 74 0.86
4 7 0.08
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:7388377 original size:30 final size:30
Alignment explanation
Indices: 7388351--7388438 Score: 176
Period size: 30 Copynumber: 2.9 Consensus size: 30
7388341 TGTATATACA
7388351 TTACTTATTCTAGATTTTGTCATATATTAT
1 TTACTTATTCTAGATTTTGTCATATATTAT
7388381 TTACTTATTCTAGATTTTGTCATATATTAT
1 TTACTTATTCTAGATTTTGTCATATATTAT
7388411 TTACTTATTCTAGATTTTGTCATATATT
1 TTACTTATTCTAGATTTTGTCATATATT
7388439 TTTTTTTAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.26, C:0.10, G:0.07, T:0.57
Consensus pattern (30 bp):
TTACTTATTCTAGATTTTGTCATATATTAT
Found at i:7392788 original size:44 final size:44
Alignment explanation
Indices: 7392740--7392900 Score: 214
Period size: 44 Copynumber: 3.5 Consensus size: 44
7392730 TTTGAGTACT
*
7392740 TCTGATCAGTGACAAGTGATAAGTGGTAGTTTTAGCTATACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTA
**
7392784 TCTGATCAGTGACAAGTGATAAATGATAAGTGGTACCTTTAGCTACACTTA
1 TCTGATCAGTGACAA--G-----TGATAAGTGGTAGTTTTAGCTACACTTA
*
7392835 TCTGATCAATGACAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTA
*
7392879 TCTGATCAGTGACAAGTAATAA
1 TCTGATCAGTGACAAGTGATAA
7392901 ATGTGATCAG
Statistics
Matches: 102, Mismatches: 8, Indels: 14
0.82 0.06 0.11
Matches are distributed among these distances:
44 61 0.60
46 1 0.01
49 1 0.01
51 39 0.38
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (44 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTA
Found at i:7392825 original size:51 final size:51
Alignment explanation
Indices: 7392747--7392903 Score: 202
Period size: 51 Copynumber: 3.2 Consensus size: 51
7392737 ACTTCTGATC
* * *
7392747 AGTGACAAGTGATAAGTGGTAGTTTTAGCTATACTTATCTGATCAGTGACA
1 AGTGATAAATGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
** *
7392798 AGTGATAAATGATAAGTGGTACCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGATAAATGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
7392849 A--G-----TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAATGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
*
7392893 AGTAATAAATG
1 AGTGATAAATG
7392904 TGATCAGTGT
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
44 40 0.45
49 1 0.01
51 48 0.54
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (51 bp):
AGTGATAAATGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
Found at i:7400823 original size:24 final size:23
Alignment explanation
Indices: 7400766--7400824 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
7400756 CAACCAAATC
7400766 AATTCA-ACATATTTTCAAGATA
1 AATTCATACATATTTTCAAGATA
* *
7400788 AATTCATGCATATTTTTAAGAT-
1 AATTCATACATATTTTCAAGATA
7400810 AATGTCATCACATAT
1 AAT-TCAT-ACATAT
7400825 CTAAAACCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 9 0.29
23 17 0.55
24 5 0.16
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (23 bp):
AATTCATACATATTTTCAAGATA
Found at i:7403675 original size:11 final size:11
Alignment explanation
Indices: 7403659--7403683 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7403649 GGCTGAATTA
7403659 ACCCCGAAGGT
1 ACCCCGAAGGT
7403670 ACCCCGAAGGT
1 ACCCCGAAGGT
7403681 ACC
1 ACC
7403684 TGATGTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.40, G:0.24, T:0.08
Consensus pattern (11 bp):
ACCCCGAAGGT
Found at i:7407524 original size:22 final size:23
Alignment explanation
Indices: 7407499--7407544 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7407489 CAACCAAATC
7407499 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
7407521 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
7407544 A
1 A
7407545 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:7407550 original size:23 final size:23
Alignment explanation
Indices: 7407506--7407550 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7407496 ATCAATTCAA
*
7407506 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
7407529 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
7407551 CACATATCTA
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:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:7412589 original size:22 final size:23
Alignment explanation
Indices: 7412564--7412609 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7412554 CAACCAAATC
7412564 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
7412586 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
7412609 A
1 A
7412610 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:7412615 original size:23 final size:23
Alignment explanation
Indices: 7412571--7412615 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7412561 ATCAATTCAA
*
7412571 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
7412594 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
7412616 CACATATCTA
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:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:7414360 original size:21 final size:21
Alignment explanation
Indices: 7414331--7414374 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7414321 GCCATTACAC
*
7414331 TTATTCTGAGCAAATATTCTT
1 TTATCCTGAGCAAATATTCTT
*
7414352 TTATCCTGAGCAAATGTTCTT
1 TTATCCTGAGCAAATATTCTT
7414373 TT
1 TT
7414375 TTTGTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (21 bp):
TTATCCTGAGCAAATATTCTT
Found at i:7419166 original size:87 final size:87
Alignment explanation
Indices: 7419049--7419341 Score: 263
Period size: 87 Copynumber: 3.4 Consensus size: 87
7419039 AGACGCCGAA
* * * *
7419049 TCTTATCTCCATGTAGTGGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGGTTGCA
1 TCTTATCTCCATGAAGTGGTAATGGAGCAGATTTAAGCCAC-AGACTTATCTCCCTGAAGTTGCA
7419114 GTGGAGCAGGCTCAAGATAC-AG
65 GTGGAGCAGGCTCAAGATACAAG
* * * ** *** * ** *
7419136 TCTTATCTCCCTGAAGTTGTAACGGAGCAGACTGAAAGTTGCAGATCTTATCT-CCTTAAGCAGT
1 TCTTATCTCCATGAAGTGGTAATGGAGCAGA-TTTAAGCCACAGA-CTTATCTCCCTGAAGTTGC
* * *
7419200 AGTGGAGCA-GATCGAAGATGGCAAA
64 AGTGGAGCAGGCTC-AAGAT-ACAAG
* * * *
7419225 TCCTATCTCTATGTAGCGGTAATGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCATGAAGTGGTAATGGAGCAGATTTAAGCCA-CAGACTTATCTCCCTGAAGTTGCA
*
7419290 GTAGAGCAGGCTCAAGATACAAG
65 GTGGAGCAGGCTCAAGATACAAG
* *
7419313 TCTTATC-CC-TGAAGTTGTAGTGGAGCAGA
1 TCTTATCTCCATGAAGTGGTAATGGAGCAGA
7419342 CTGAAAATTG
Statistics
Matches: 153, Mismatches: 45, Indels: 17
0.71 0.21 0.08
Matches are distributed among these distances:
86 19 0.12
87 49 0.32
88 33 0.22
89 49 0.32
90 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (87 bp):
TCTTATCTCCATGAAGTGGTAATGGAGCAGATTTAAGCCACAGACTTATCTCCCTGAAGTTGCAG
TGGAGCAGGCTCAAGATACAAG
Found at i:7419379 original size:44 final size:45
Alignment explanation
Indices: 7419094--7419385 Score: 174
Period size: 44 Copynumber: 6.7 Consensus size: 45
7419084 AGCCACTAGC
* * * * * *
7419094 CTTATCTCCCTGAGGTTGCAGTGGAGCAGGCTCAAGA-TACAG-T
1 CTTATCTCCCTGAAGCTGTAGTGGAGCAGACTGAAGATTGCAGAT
* **
7419137 CTTATCTCCCTGAAGTTGTAACGGAGCAGACTGAA-AGTTGCAGAT
1 CTTATCTCCCTGAAGCTGTAGTGGAGCAGACTGAAGA-TTGCAGAT
* * * *
7419182 CTTATCT-CCTTAAGCAGTAGTGGAGCAGA-TCGAAGATGGCAAAT
1 CTTATCTCCCTGAAGCTGTAGTGGAGCAGACT-GAAGATTGCAGAT
* ** * * * * * ****
7419226 CCTATCTCTATGTAGCGGTAATGGAGCAGATTTAAGCCACCAGA-
1 CTTATCTCCCTGAAGCTGTAGTGGAGCAGACTGAAGATTGCAGAT
* * * * * *
7419270 CTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTCAAGA-TACA-AGT
1 CTTATCTCCCTGAAGCTGTAGTGGAGCAGACTGAAGATTGCAGA-T
* *
7419314 CTTA--TCCCTGAAGTTGTAGTGGAGCAGACTGAAAATTGCAGAT
1 CTTATCTCCCTGAAGCTGTAGTGGAGCAGACTGAAGATTGCAGAT
*
7419357 CTTATCTCCCT-AAGCAGTAGTGGAGCAGA
1 CTTATCTCCCTGAAGCTGTAGTGGAGCAGA
7419386 TCGAAGACGG
Statistics
Matches: 186, Mismatches: 50, Indels: 25
0.71 0.19 0.10
Matches are distributed among these distances:
42 28 0.15
43 40 0.22
44 81 0.44
45 36 0.19
46 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAAGCTGTAGTGGAGCAGACTGAAGATTGCAGAT
Found at i:7419381 original size:175 final size:175
Alignment explanation
Indices: 7419001--7419452 Score: 627
Period size: 175 Copynumber: 2.6 Consensus size: 175
7418991 GGTGAATTCA
* * * * * *
7419001 CAGATCTTATCTCCATAAGCAGTAGTGAAGTAGGTCAAAGACGCCGAATCTTATCTCCATGTAGT
1 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCATGTAGC
* * * *
7419066 GGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGCTCAAGA
66 GGCAATGGAGCAGATTTAAGCCACAAGACTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTCAAGA
*
7419131 TACAGTCTTATCTCCCTGAAGTTGTAACGGAGCAGACTGAAAGTTG
131 TACAGTCTTA-CTCCCTGAAGTTGTAACGGAGCAGACTGAAAATTG
* * * * *
7419177 CAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCCTATCTCTATGTAGC
1 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCATGTAGC
* *
7419242 GGTAATGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTCAAGA
66 GGCAATGGAGCAGATTTAAGCCACAAGACTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTCAAGA
**
7419307 TACAAGTCTTA-TCCCTGAAGTTGTAGTGGAGCAGACTGAAAATTG
131 TAC-AGTCTTACTCCCTGAAGTTGTAACGGAGCAGACTGAAAATTG
* * *
7419352 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGGATCTTATCTCCATGTAGC
1 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCATGTAGC
* * * * *
7419417 GACAATGAAGCAGATCTAAGCTACAAGTCTTATCTC
66 GGCAATGGAGCAGATTTAAGCCACAAGACTTATCTC
7419453 TCTAAAAGTT
Statistics
Matches: 242, Mismatches: 33, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
175 118 0.49
176 117 0.48
177 7 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (175 bp):
CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCATGTAGC
GGCAATGGAGCAGATTTAAGCCACAAGACTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTCAAGA
TACAGTCTTACTCCCTGAAGTTGTAACGGAGCAGACTGAAAATTG
Found at i:7421099 original size:3 final size:3
Alignment explanation
Indices: 7421091--7421203 Score: 79
Period size: 3 Copynumber: 37.3 Consensus size: 3
7421081 AGTCTTATAT
* *
7421091 TTA TTA TTA TTT TTA TTA TTA TT- TTGA GTA TTA TTA TT- TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA TTA
* * * * * * * *
7421136 TTG CTA TTA TTA TTG TTT TTA TT- TGTA TTA TTA CTG TCA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
7421181 TTA TTA TTA TTA TTTA TTA TTA T
1 TTA TTA TTA TTA -TTA TTA TTA T
7421204 GTTTAAACTT
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
2 4 0.05
3 74 0.88
4 6 0.07
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:7421135 original size:36 final size:36
Alignment explanation
Indices: 7421072--7421149 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
7421062 TATACAATTA
* * * **
7421072 ATTAATTTGAGTCTTATATTTATTATTATTTTTATT
1 ATTATTTTGAGTATTATATTTACTATTATTGCTATT
7421108 ATTATTTTGAGTATTATTATTT-CTATTATTGCTATT
1 ATTATTTTGAGTATTA-TATTTACTATTATTGCTATT
7421144 ATTATT
1 ATTATT
7421150 GTTTTTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 31 0.86
37 5 0.14
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (36 bp):
ATTATTTTGAGTATTATATTTACTATTATTGCTATT
Found at i:7423434 original size:14 final size:14
Alignment explanation
Indices: 7423415--7423445 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
7423405 CTAAGAGCCT
7423415 TTATGTTCTTAAAA
1 TTATGTTCTTAAAA
7423429 TTATGTTCTTAAAA
1 TTATGTTCTTAAAA
7423443 TTA
1 TTA
7423446 CTAAACCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (14 bp):
TTATGTTCTTAAAA
Found at i:7425427 original size:2 final size:2
Alignment explanation
Indices: 7425422--7425446 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7425412 TTTTTTCTTT
7425422 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
7425447 TTTTCTTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7438253 original size:18 final size:17
Alignment explanation
Indices: 7438214--7438255 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
7438204 CGACGAACTT
*
7438214 TAAAAAAAATTGACAAG
1 TAAAAAAAATTGAAAAG
7438231 -AAAAAAAAGTTGAAAAAG
1 TAAAAAAAA-TTG-AAAAG
7438249 TAAAAAA
1 TAAAAAA
7438256 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.38
17 3 0.14
18 4 0.19
19 6 0.29
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.14
Consensus pattern (17 bp):
TAAAAAAAATTGAAAAG
Found at i:7442960 original size:23 final size:26
Alignment explanation
Indices: 7442916--7442962 Score: 73
Period size: 23 Copynumber: 1.9 Consensus size: 26
7442906 GACTTAAAAT
7442916 AATAATAAATAACTTTTATTAAATGC
1 AATAATAAATAACTTTTATTAAATGC
7442942 AATAA-AAATAA-TTTT-TTAAAT
1 AATAATAAATAACTTTTATTAAAT
7442963 AATATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 4 0.19
25 6 0.29
26 5 0.24
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (26 bp):
AATAATAAATAACTTTTATTAAATGC
Found at i:7444664 original size:6 final size:6
Alignment explanation
Indices: 7444653--7444677 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7444643 AGTGAAACTT
7444653 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
7444678 TATGAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:7445137 original size:2 final size:2
Alignment explanation
Indices: 7445132--7445187 Score: 60
Period size: 2 Copynumber: 28.5 Consensus size: 2
7445122 ATGTATATAT
* *
7445132 AG AG AG AG AT AG AG GG A- AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * *
7445173 GG GG AG GG AG AG AG A
1 AG AG AG AG AG AG AG A
7445188 TGGTGGGCTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.45, C:0.00, G:0.54, T:0.02
Consensus pattern (2 bp):
AG
Found at i:7460356 original size:15 final size:15
Alignment explanation
Indices: 7460336--7460365 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7460326 ATTTATTAAC
7460336 TTATGTTGTAACTCA
1 TTATGTTGTAACTCA
7460351 TTATGTTGTAACTCA
1 TTATGTTGTAACTCA
7460366 CTCATTGATG
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:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
TTATGTTGTAACTCA
Found at i:7469317 original size:10 final size:10
Alignment explanation
Indices: 7469283--7469320 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
7469273 CATTAACACT
7469283 AAAAAAACAA
1 AAAAAAACAA
*
7469293 AACAAAACAA
1 AAAAAAACAA
7469303 AAAAAAA-AA
1 AAAAAAACAA
7469312 AAAAAAACA
1 AAAAAAACA
7469321 GGAGGGGTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:7476192 original size:20 final size:21
Alignment explanation
Indices: 7476153--7476196 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
7476143 TCTAAAATAA
*
7476153 TAAATATTAGTTAGATTTATT
1 TAAATATTAGTAAGATTTATT
*
7476174 TAAATATTAG-AATATTTATT
1 TAAATATTAGTAAGATTTATT
7476194 TAA
1 TAA
7476197 GCTCGAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
TAAATATTAGTAAGATTTATT
Found at i:7478740 original size:19 final size:21
Alignment explanation
Indices: 7478716--7478754 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
7478706 ATTCGCGTGA
7478716 CTTATTGTA-AAAT-TTTTTG
1 CTTATTGTATAAATGTTTTTG
*
7478735 CTTATTTTATAAATGTTTTT
1 CTTATTGTATAAATGTTTTT
7478755 CTTTACAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (21 bp):
CTTATTGTATAAATGTTTTTG
Done.