Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 139 of 295
Found at i:47329103 original size:43 final size:44
Alignment explanation
Indices: 47329055--47329209 Score: 135
Period size: 43 Copynumber: 3.6 Consensus size: 44
47329045 AGCTCGTACA
*
47329055 ATGCCAACATCCCAGACGTGGTCTTACATGTAAA-CAAATATCG
1 ATGCCAACATCCCAAACGTGGTCTTACATGTAAATCAAATATCG
*
47329098 ATGCC-ACTATCCCAAACAG-GGTCTTACACG-AAATCAAATA-CG
1 ATGCCAAC-ATCCCAAAC-GTGGTCTTACATGTAAATCAAATATCG
** ** * * *
47329140 ATGCTGATGTCCCAAACATTGTTTTACATGTAAATC--ATGAGTCG
1 ATGCCAACATCCCAAACGTGGTCTTACATGTAAATCAAAT-A-TCG
*
47329184 ATGCCAACGTCCCAAACGTGGTCTTA
1 ATGCCAACATCCCAAACGTGGTCTTA
47329210 TATTATAACA
Statistics
Matches: 88, Mismatches: 15, Indels: 17
0.73 0.12 0.14
Matches are distributed among these distances:
41 2 0.02
42 28 0.32
43 35 0.40
44 23 0.26
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (44 bp):
ATGCCAACATCCCAAACGTGGTCTTACATGTAAATCAAATATCG
Found at i:47329769 original size:28 final size:29
Alignment explanation
Indices: 47329712--47329771 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
47329702 TGTTTCATTT
*
47329712 ATTTCACATTTTAGTCCCACAATTTACAA
1 ATTTCACAATTTAGTCCCACAATTTACAA
*
47329741 ATTTCACAATTTA-TCCCA-AATTATTCAA
1 ATTTCACAATTTAGTCCCACAATT-TACAA
47329769 ATT
1 ATT
47329772 CATCAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 4 0.14
28 12 0.43
29 12 0.43
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.40
Consensus pattern (29 bp):
ATTTCACAATTTAGTCCCACAATTTACAA
Found at i:47336819 original size:42 final size:43
Alignment explanation
Indices: 47336753--47336870 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 43
47336743 AAGAAATATT
* *
47336753 GATGCCACTGTCCCAGACAGGGTCTTACACGAAATCA-AA-TAC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAAGT-C
* * *
47336795 GATGTCGATGTCCCAGACATGGTCTTACACATAAATCATAAGTC
1 GATGCCAATGTCCCAGACATGGTCTTACAC-GAAATCATAAGTC
*
47336839 GATGCCAACGTCCCAGACATGGTCTTACACGA
1 GATGCCAATGTCCCAGACATGGTCTTACACGA
47336871 TAACAATTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 26 0.41
43 7 0.11
44 30 0.47
45 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAAGTC
Found at i:47338481 original size:11 final size:11
Alignment explanation
Indices: 47338450--47338589 Score: 71
Period size: 11 Copynumber: 12.7 Consensus size: 11
47338440 CATTTTCTCA
*
47338450 TTTTCTTTTCC
1 TTTTCTTTTCT
*
47338461 TTTTC-CTTCT
1 TTTTCTTTTCT
47338471 TTTTCTTTTCT
1 TTTTCTTTTCT
*
47338482 CATTTTCTTTTCA
1 --TTTTCTTTTCT
*
47338495 CTTTCTTTTGC-
1 TTTTCTTTT-CT
* *
47338506 TATT-TTTCCT
1 TTTTCTTTTCT
47338516 TTATT-TTTCTCT
1 TT-TTCTTT-TCT
47338528 TTTTCTTTTCTT
1 TTTTCTTTTC-T
47338540 TTTTCATTTTC-
1 TTTTC-TTTTCT
47338551 TTTTC-TTTCT
1 TTTTCTTTTCT
* *
47338561 TTTACAATTTC-
1 TTTTC-TTTTCT
*
47338572 -ATTCTTTTCT
1 TTTTCTTTTCT
47338582 TTTTCTTT
1 TTTTCTTT
47338590 CAATTGATCT
Statistics
Matches: 99, Mismatches: 15, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
9 9 0.09
10 18 0.18
11 39 0.39
12 18 0.18
13 15 0.15
ACGTcount: A:0.06, C:0.21, G:0.01, T:0.72
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:47338535 original size:18 final size:18
Alignment explanation
Indices: 47338442--47338558 Score: 87
Period size: 18 Copynumber: 6.2 Consensus size: 18
47338432 ATCAAAGTCA
*
47338442 TTTTCTCATTTTCTTTTCC
1 TTTTCTCTTTTTCTTTT-C
47338461 TTTTCCTTCTTTTTCTTTTC
1 TTTT-C-TCTTTTTCTTTTC
*
47338481 TCATTT-TC-TTTTCACTTTC
1 T--TTTCTCTTTTTC-TTTTC
*
47338500 TTTTGCTATTTTTCCTTTAT-
1 TTTT-CTCTTTTT-CTTT-TC
47338520 TTTTCTCTTTTTCTTTTC
1 TTTTCTCTTTTTCTTTTC
* *
47338538 TTTTTTCATTTTCTTTTC
1 TTTTCTCTTTTTCTTTTC
47338556 TTT
1 TTT
47338559 CTTTTACAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
17 4 0.05
18 28 0.35
19 19 0.24
20 13 0.16
21 13 0.16
22 3 0.04
ACGTcount: A:0.05, C:0.21, G:0.01, T:0.73
Consensus pattern (18 bp):
TTTTCTCTTTTTCTTTTC
Found at i:47338548 original size:27 final size:27
Alignment explanation
Indices: 47338518--47338589 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
47338508 TTTTTCCTTT
**
47338518 ATTTTTCTCTTTTTCTTTT-CTTTTTTC
1 ATTTTTCTCTTTTTCTTTTAC-AATTTC
*
47338545 A-TTTTCTTTTCTTTCTTTTACAATTTC
1 ATTTTTCTCTT-TTTCTTTTACAATTTC
47338572 ATTCTTT-TCTTTTTCTTT
1 ATT-TTTCTCTTTTTCTTT
47338590 CAATTGATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
26 8 0.22
27 21 0.57
28 5 0.14
29 3 0.08
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (27 bp):
ATTTTTCTCTTTTTCTTTTACAATTTC
Found at i:47338570 original size:22 final size:18
Alignment explanation
Indices: 47338442--47338558 Score: 76
Period size: 19 Copynumber: 6.2 Consensus size: 18
47338432 ATCAAAGTCA
*
47338442 TTTTCTCATTTTCTTTTCC
1 TTTTTTCATTTTCTTTT-C
*
47338461 TTTTCCTTCTTTTTCTTTTC
1 TTTT--TTCATTTTCTTTTC
* *
47338481 TCATTTTC-TTTTCACTTTC
1 T-TTTTTCATTTTC-TTTTC
* * *
47338500 -TTTTGCTATTTTTCCTTTA
1 TTTTTTC-A-TTTTCTTTTC
*
47338519 TTTTTCTCTTTTTCTTTTC
1 TTTTT-TCATTTTCTTTTC
47338538 TTTTTTCATTTTCTTTTC
1 TTTTTTCATTTTCTTTTC
47338556 TTT
1 TTT
47338559 CTTTTACAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
17 4 0.05
18 20 0.26
19 28 0.36
20 11 0.14
21 14 0.18
ACGTcount: A:0.05, C:0.21, G:0.01, T:0.73
Consensus pattern (18 bp):
TTTTTTCATTTTCTTTTC
Found at i:47344120 original size:14 final size:14
Alignment explanation
Indices: 47344101--47344148 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
47344091 GCAATCAAAG
47344101 TCATTTTTTCATTT
1 TCATTTTTTCATTT
*
47344115 TCATTTTCTTCTTTT
1 TCATTTT-TTCATTT
*
47344130 TC-TTTTCTCATTT
1 TCATTTTTTCATTT
47344143 T-ATTTT
1 TCATTTT
47344149 CCCTTTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 10 0.34
14 11 0.38
15 8 0.28
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (14 bp):
TCATTTTTTCATTT
Found at i:47344165 original size:19 final size:19
Alignment explanation
Indices: 47344143--47344197 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
47344133 TTTCTCATTT
*
47344143 TATTTTCCCTTTCTTTTGC
1 TATTTTTCCTTTCTTTTGC
*
47344162 TATTTTTCCTTTCTTTTTC
1 TATTTTTCCTTTCTTTTGC
*
47344181 TCATTTTTCTTTTCTTT
1 T-ATTTTTCCTTTCTTT
47344198 CCTTTACAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.05, C:0.22, G:0.02, T:0.71
Consensus pattern (19 bp):
TATTTTTCCTTTCTTTTGC
Found at i:47344168 original size:20 final size:21
Alignment explanation
Indices: 47344145--47344197 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
47344135 TCTCATTTTA
47344145 TTTTCCCTTTCTTTTGCT-AT
1 TTTTCCCTTTCTTTTGCTCAT
*
47344165 TTTT-CCTTTCTTTTTCTCAT
1 TTTTCCCTTTCTTTTGCTCAT
*
47344185 TTTT-CTTTTCTTT
1 TTTTCCCTTTCTTT
47344198 CCTTTACAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.04, C:0.23, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTCCCTTTCTTTTGCTCAT
Found at i:47354488 original size:29 final size:29
Alignment explanation
Indices: 47354418--47354530 Score: 97
Period size: 29 Copynumber: 3.9 Consensus size: 29
47354408 ATGAATATAT
* *
47354418 TATG-ATTCGGGCTTAATGGGCCTTATGAA
1 TATGAATT-GGGCCTAATGGGCCATATGAA
* * *
47354447 TGTGAATTAGGCCTAATGGGCCATAAGAA
1 TATGAATTGGGCCTAATGGGCCATATGAA
* * *
47354476 TATGAACTGGGCC-AGACGGGCCATTTGAA
1 TATGAATTGGGCCTA-ATGGGCCATATGAA
* *
47354505 TAAG-ATTGGGCCTAGTGGGCCATATG
1 TATGAATTGGGCCTAATGGGCCATATG
47354531 CATGTATGTA
Statistics
Matches: 65, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
28 17 0.26
29 45 0.69
30 3 0.05
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
TATGAATTGGGCCTAATGGGCCATATGAA
Found at i:47358305 original size:16 final size:17
Alignment explanation
Indices: 47358284--47358316 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
47358274 AATCGATTGG
*
47358284 TTGGTTTTG-GGAAATT
1 TTGGTTGTGAGGAAATT
47358300 TTGGTTGTGAGGAAATT
1 TTGGTTGTGAGGAAATT
47358317 ATATTTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (17 bp):
TTGGTTGTGAGGAAATT
Found at i:47363225 original size:30 final size:30
Alignment explanation
Indices: 47363191--47363252 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
47363181 CATTCTTCCT
47363191 TGTTATCCAAACTTATCACTTCCCAAAGTG
1 TGTTATCCAAACTTATCACTTCCCAAAGTG
* *
47363221 TGTTATCCGAACTTATCACTTCTCAAAGTG
1 TGTTATCCAAACTTATCACTTCCCAAAGTG
47363251 TG
1 TG
47363253 GCGTTCGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.35
Consensus pattern (30 bp):
TGTTATCCAAACTTATCACTTCCCAAAGTG
Found at i:47365521 original size:53 final size:53
Alignment explanation
Indices: 47365441--47365546 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
47365431 AAATTTTTAA
47365441 AAATTTTAAAACATCAGGTTTTTTTATTAATTAGAGTAAGAGTTATTGCCTAT
1 AAATTTTAAAACATCAGGTTTTTTTATTAATTAGAGTAAGAGTTATTGCCTAT
* * *
47365494 AAATTTTTAAACATCGGGTTTTTTTATTATTTAGAGTAAGAGTTATTGCCTAT
1 AAATTTTAAAACATCAGGTTTTTTTATTAATTAGAGTAAGAGTTATTGCCTAT
47365547 CTTTTTGAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (53 bp):
AAATTTTAAAACATCAGGTTTTTTTATTAATTAGAGTAAGAGTTATTGCCTAT
Found at i:47368006 original size:55 final size:55
Alignment explanation
Indices: 47367920--47368029 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
47367910 TATTCATTGG
* *
47367920 ATGATAAATCATCACTTTTAATTTGATTAGTGCTTATGAATAATTAATTTGCAAT
1 ATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGCAAT
47367975 ATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGCAAT
1 ATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGCAAT
47368030 CTATAATTCC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (55 bp):
ATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGCAAT
Found at i:47368025 original size:26 final size:26
Alignment explanation
Indices: 47367937--47368025 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
47367927 ATCATCACTT
* *
47367937 TTAATTTGATTAGTGCTTATGAATAA
1 TTAATTTGAATAGTGCTCATGAATAA
** * * *
47367963 TTAATTTGCAATATGATAAATCATCACT-T
1 TTAATTTG-AATA-G-T-GCTCATGAATAA
47367992 TTAATTTGAATAGTGCTCATGAATAA
1 TTAATTTGAATAGTGCTCATGAATAA
47368018 TTAATTTG
1 TTAATTTG
47368026 CAATCTATAA
Statistics
Matches: 46, Mismatches: 12, Indels: 10
0.68 0.18 0.15
Matches are distributed among these distances:
25 6 0.13
26 17 0.37
27 4 0.09
28 5 0.11
29 9 0.20
30 5 0.11
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (26 bp):
TTAATTTGAATAGTGCTCATGAATAA
Found at i:47374425 original size:46 final size:46
Alignment explanation
Indices: 47374367--47374630 Score: 172
Period size: 46 Copynumber: 5.7 Consensus size: 46
47374357 TCACTTGTGT
47374367 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTA-GA
* * *
47374413 GAGCCAGTGTAAGAGCATGTCTGGGACATGGCATCGG---TATTGAGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACATT-AGA
* * * * *
47374458 CGAGTGCTAGTGTAAGA-CATGTGTGGGGCATGCATCAGCCTC--GAGA
1 -GA--GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTAGA
* *
47374504 CGTAAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCTAC--GAGA
1 -G--AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTAGA
* * * *
47374550 TGTG-TCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAAATATACTA
1 -GAGCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CACAT-TA-GA
* *
47374601 GAACTTGTGTAAGACCATGTCTGGGACATG
1 GAGCTAGTGTAAGACCATGTCTGGGACATG
47374631 GCGTCGACGT
Statistics
Matches: 175, Mismatches: 23, Indels: 37
0.74 0.10 0.16
Matches are distributed among these distances:
43 1 0.01
44 10 0.06
45 19 0.11
46 71 0.41
47 27 0.15
48 19 0.11
49 1 0.01
50 25 0.14
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTAGA
Found at i:47377358 original size:24 final size:24
Alignment explanation
Indices: 47377315--47377364 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
47377305 TGCGATTATT
47377315 TTATTTGGACTAAAATAAAACAAC
1 TTATTTGGACTAAAATAAAACAAC
*
47377339 TTATTATGGA-TATAAA-AAAATAAC
1 TTATT-TGGACTA-AAATAAAACAAC
47377363 TT
1 TT
47377365 TTGAAGTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (24 bp):
TTATTTGGACTAAAATAAAACAAC
Found at i:47377648 original size:26 final size:25
Alignment explanation
Indices: 47377582--47377668 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 25
47377572 AATAGTATAG
* ** *
47377582 AACAATGTAAAATAAATAATGTGCA
1 AACAATTTAAAATAAATAACATACA
*
47377607 AA-AATTTAAAACAAATAACATACA
1 AACAATTTAAAATAAATAACATACA
*
47377631 AAGCAATTTAAAATAAATAACATATA
1 AA-CAATTTAAAATAAATAACATACA
*
47377657 AGATAATTTAAA
1 A-ACAATTTAAA
47377669 GTAACATATA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 19 0.37
25 2 0.04
26 29 0.57
27 1 0.02
ACGTcount: A:0.61, C:0.08, G:0.06, T:0.25
Consensus pattern (25 bp):
AACAATTTAAAATAAATAACATACA
Found at i:47377782 original size:28 final size:28
Alignment explanation
Indices: 47377731--47377788 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
47377721 CATAATGTAC
*
47377731 AAAACAGTTTAAAGATAAATAATACATA
1 AAAACAGTTTAAAGATAAACAATACATA
* *
47377759 AAAACATGTTTAAA-ATAAGCAATATATA
1 AAAACA-GTTTAAAGATAAACAATACATA
47377787 AA
1 AA
47377789 GTAATTGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (28 bp):
AAAACAGTTTAAAGATAAACAATACATA
Found at i:47379535 original size:89 final size:87
Alignment explanation
Indices: 47379308--47379825 Score: 333
Period size: 88 Copynumber: 5.9 Consensus size: 87
47379298 ATACTTCGAT
* * * * * * *
47379308 CTGCTCCAATGTAATTTTTGGGAGATAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATCTGTTATATTCA-TCTGCTCCACTGCAACTTCAG
*
47379373 AGAGATAAGACTTTCTA-TTTCAAC
65 AGAGATAAGACTTT-AACTTT-AAC
* * * * * * *
47379397 CT-CTTCACTGCAACTTTAGGGAGATAAGGTTTGTATATTTTTATCCTGCTCTACTGCAAATTCA
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATCTGT-TATATTCAT-CTGCTCCACTGCAACTTCA
** * *
47379461 GAGAGATAAGGA-TTGTGGCTTTGAT
64 GAGAGATAA-GACTT-TAACTTTAAC
*
47379486 CTGCTCCACTGCAACTTTAGGGAGATAAGATCTGTTATATTCAGTCTGCTCCACTACAACTTCAG
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATCTGTTATATTCA-TCTGCTCCACTGCAACTTCAG
47379551 AGAGATAAGACTTTAACTTTAAC
65 AGAGATAAGACTTTAACTTTAAC
* * * * *
47379574 CTGCTTCACTGCAACTTCAGGGAGATAAG--GT-TTACTA-TGATCTGCTCTACTGCAACTTCAG
1 CTGCTCCACTGCAACTTTAGGGAGATAAGATCTGTTA-TATTCATCTGCTCCACTGCAACTTCAG
* *
47379635 AGAGATAAGATCTGTTTATGTATAGCTTCAAT
65 AGAGATAAGA-C----T-T-TA-A-CTTTAAC
* * * * * ** **
47379667 ATGTTCCACTACAA-TTTCAGGGAAATAAGAT-TCGTTATCTTCAGTCTATTCCACTATAACTTC
1 CTGCTCCACTGCAACTTT-AGGGAGATAAGATCT-GTTATATTCA-TCTGCTCCACTGCAACTTC
* *
47379730 AGGGAGATAAGACTTTAACTTCAAC
63 AGAGAGATAAGACTTTAACTTTAAC
* * * * * * * *
47379755 CTGCTCCGCTGCTACTTCAGGGAGATAAAGTTC-G--CTA-TGATCTGCTCTACTGCAACTTCAA
1 CTGCTCCACTGCAACTTTAGGGAGAT-AAGATCTGTTATATTCATCTGCTCCACTGCAACTTCAG
47379816 AGAGATAAGA
65 AGAGATAAGA
47379826 TCTATTTATT
Statistics
Matches: 331, Mismatches: 70, Indels: 61
0.72 0.15 0.13
Matches are distributed among these distances:
84 53 0.16
85 8 0.02
86 4 0.01
88 83 0.25
89 79 0.24
90 39 0.12
91 3 0.01
92 4 0.01
93 25 0.08
94 1 0.00
95 1 0.00
96 6 0.02
97 25 0.08
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (87 bp):
CTGCTCCACTGCAACTTTAGGGAGATAAGATCTGTTATATTCATCTGCTCCACTGCAACTTCAGA
GAGATAAGACTTTAACTTTAAC
Found at i:47379592 original size:43 final size:43
Alignment explanation
Indices: 47379353--47379644 Score: 177
Period size: 43 Copynumber: 6.7 Consensus size: 43
47379343 TATCTTCAGT
* * *
47379353 CTGCTCCACTGCAACTTCATAGAGATAAGACTTTCTA-TTTCAAC
1 CTGCTTCACTGCAACTTCAGAGAGATAAGACTTT-AACTTT-AAC
* * ** * *
47379397 CT-CTTCACTGCAACTTTAGGGAGATAAGGTTTGTATATTTTTATC
1 CTGCTTCACTGCAACTTCAGAGAGATAAGACTT-TA-A-CTTTAAC
* ** * *
47379442 CTGC-TCTACTGCAAATTCAGAGAGATAAGGA-TTGTGGCTTTGAT
1 CTGCTTC-ACTGCAACTTCAGAGAGATAA-GACTT-TAACTTTAAC
* * * * **
47379486 CTGCTCCACTGCAACTTTAGGGAGATAAGATCTGTTATA-TTCAGT
1 CTGCTTCACTGCAACTTCAGAGAGATAAGA-CT-TTA-ACTTTAAC
* *
47379531 CTGCTCCACTACAACTTCAGAGAGATAAGACTTTAACTTTAAC
1 CTGCTTCACTGCAACTTCAGAGAGATAAGACTTTAACTTTAAC
* * * * *
47379574 CTGCTTCACTGCAACTTCAGGGAGATAAG-GTTT-ACTATGAT
1 CTGCTTCACTGCAACTTCAGAGAGATAAGACTTTAACTTTAAC
47379615 CTGC-TCTACTGCAACTTCAGAGAGATAAGA
1 CTGCTTC-ACTGCAACTTCAGAGAGATAAGA
47379645 TCTGTTTATG
Statistics
Matches: 192, Mismatches: 41, Indels: 32
0.72 0.15 0.12
Matches are distributed among these distances:
40 2 0.01
41 30 0.16
42 4 0.02
43 58 0.30
44 31 0.16
45 39 0.20
46 27 0.14
47 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (43 bp):
CTGCTTCACTGCAACTTCAGAGAGATAAGACTTTAACTTTAAC
Found at i:47379742 original size:181 final size:181
Alignment explanation
Indices: 47379343--47379965 Score: 655
Period size: 181 Copynumber: 3.5 Consensus size: 181
47379333 TAAGATCTGC
* * * *
47379343 TATCTTCAGTCTGCTCCACTGCAACTTCATAGAGATAAGACTTTCTATTTCAACCT-CTTCACTG
1 TATCTTCAGTCTGCTCCACTACAACTTCAGAGAGATAAGACTTT-AACTTCAACCTGCTTCACTG
* * *
47379407 CAACTTTAGGGAGATAAGGTTTGTA-TATTTTTATCCTGCTCTACTGCAAATTCAGAGAGATAAG
65 CAACTTCAGGGAGATAAGG-TT-TACTA---TGAT-CTGCTCTACTGCAACTTCAGAGAGATAA-
** * * *
47379471 GAT-TG----TG----GCTTTGATCTGCTCCACTGCAACTTT-AGGGAGATAAGA-TCTGT
123 GATCTGTTTATGTATAGCTTCAATCTGTTCCACTACAA-TTTCAGGGAAATAAGATTC-GT
* *
47379521 TATATTCAGTCTGCTCCACTACAACTTCAGAGAGATAAGACTTTAACTTTAACCTGCTTCACTGC
1 TATCTTCAGTCTGCTCCACTACAACTTCAGAGAGATAAGACTTTAACTTCAACCTGCTTCACTGC
47379586 AACTTCAGGGAGATAAGGTTTACTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTT
66 AACTTCAGGGAGATAAGGTTTACTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTT
*
47379651 TATGTATAGCTTCAATATGTTCCACTACAATTTCAGGGAAATAAGATTCGT
131 TATGTATAGCTTCAATCTGTTCCACTACAATTTCAGGGAAATAAGATTCGT
** * * * *
47379702 TATCTTCAGTCTATTCCACTATAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCGCTGC
1 TATCTTCAGTCTGCTCCACTACAACTTCAGAGAGATAAGACTTTAACTTCAACCTGCTTCACTGC
* * ** * *
47379767 TACTTCAGGGAGATAAAGTTCGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTATT
66 AACTTCAGGGAGATAAGGTTTACTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTT
* * * * **
47379832 TATTTATAGCTTCCATCTATTCCACTACAACTTCAGGGAAATAAGATTCAC
131 TATGTATAGCTTCAATCTGTTCCACTACAATTTCAGGGAAATAAGATTCGT
* * * * ** * *
47379883 TATCTTTAGTCTGCTCCGCTGCAACTTTA-AGGAGATAAGACTTGTGGCTTCAACCTAC-TCTAT
1 TATCTTCAGTCTGCTCCACTACAACTTCAGA-GAGATAAGACTT-TAACTTCAACCTGCTTC-AC
47379946 TGCAACTTCAGGGAGATAAG
63 TGCAACTTCAGGGAGATAAG
47379966 ACTTGCCATG
Statistics
Matches: 377, Mismatches: 52, Indels: 28
0.82 0.11 0.06
Matches are distributed among these distances:
172 3 0.01
173 29 0.08
174 3 0.01
176 2 0.01
177 14 0.04
178 67 0.18
180 3 0.01
181 225 0.60
182 31 0.08
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (181 bp):
TATCTTCAGTCTGCTCCACTACAACTTCAGAGAGATAAGACTTTAACTTCAACCTGCTTCACTGC
AACTTCAGGGAGATAAGGTTTACTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTT
TATGTATAGCTTCAATCTGTTCCACTACAATTTCAGGGAAATAAGATTCGT
Found at i:47381717 original size:47 final size:47
Alignment explanation
Indices: 47381643--47381908 Score: 144
Period size: 47 Copynumber: 5.7 Consensus size: 47
47381633 GGGGTAAGAT
* **
47381643 GTCGATGCCATGTCTCAGACACAGTCTTACACTAGCTTAT-ATCTTAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GCTTATAATCTTAA
* *
47381690 GTCGAAGCCATGTCCCAGACATGGTCTTACACTGAC-TATAATCTCGTCA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTG-CTTATAATCT--TAA
* * *
47381739 -CCAACG-CATGTCCCAGACATGGTCTTACACTGAC-TATAATCTCGTAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTG-CTTATAATCT--TAA
* * * * * *
47381786 -CCGACG-CATGTCCCA-AAAT-GTCTTACACTAGCTTA-CATCTCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GCTTATAATCT-TAA
* * * ** *
47381830 GCCGATG-CATGTCCCAGAAAT-GTCTTACACTG-GTACTCGTCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGCTTA-TAATCTTAA
* *
47381875 TGTTGATGCCATGTCCCTGACATGGTCTTACACT
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACT
47381909 AGCTCTCACA
Statistics
Matches: 182, Mismatches: 24, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
44 3 0.02
45 31 0.17
46 33 0.18
47 100 0.55
48 13 0.07
49 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGCTTATAATCTTAA
Found at i:47381826 original size:45 final size:47
Alignment explanation
Indices: 47381698--47381861 Score: 205
Period size: 47 Copynumber: 3.6 Consensus size: 47
47381688 AAGTCGAAGC
* * *
47381698 CATGTCCCAGACATGGTCTTACACTGACTATAATCTCGTCACCAACG
1 CATGTCCCAGAAATGGTCTTACACTGACTATAATCTCGTAACCGACG
*
47381745 CATGTCCCAGACATGGTCTTACACTGACTATAATCTCGTAACCGACG
1 CATGTCCCAGAAATGGTCTTACACTGACTATAATCTCGTAACCGACG
* *
47381792 CATGTCCCA-AAAT-GTCTTACACT-AGCT-TACATCTCG-AGGCCGATG
1 CATGTCCCAGAAATGGTCTTACACTGA-CTATA-ATCTCGTA-ACCGACG
47381837 CATGTCCCAGAAAT-GTCTTACACTG
1 CATGTCCCAGAAATGGTCTTACACTG
47381862 GTACTCGTCT
Statistics
Matches: 107, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
44 4 0.04
45 32 0.30
46 17 0.16
47 54 0.50
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGAAATGGTCTTACACTGACTATAATCTCGTAACCGACG
Found at i:47388559 original size:13 final size:13
Alignment explanation
Indices: 47388541--47388567 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47388531 TAAGAAAAAG
47388541 GAAAGGAGAAGGA
1 GAAAGGAGAAGGA
47388554 GAAAGGAGAAGGA
1 GAAAGGAGAAGGA
47388567 G
1 G
47388568 TAAGCATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (13 bp):
GAAAGGAGAAGGA
Found at i:47389024 original size:46 final size:46
Alignment explanation
Indices: 47388939--47389062 Score: 128
Period size: 46 Copynumber: 2.7 Consensus size: 46
47388929 TACATTGAGT
* * * *
47388939 CGATGCATGTCCCAGACATTTCTTACACTAGCTTACGTCTCGAGGC
1 CGATGCATGTTCCAGACATGTCTTACACTAGCTTACGTCTCAAGAC
*
47388985 CGATGCATGTTCCAGACATGTCTTACACTAGAAC-T-CGTCTCAATAC
1 CGATGCATGTTCCAGACATGTCTTACACTAG--CTTACGTCTCAAGAC
*
47389031 TGATGCCATG-TCCTAGACATGGTCTTACACTA
1 CGATG-CATGTTCC-AGACAT-GTCTTACACTA
47389063 ACTCTCACAA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
46 44 0.66
47 11 0.16
48 12 0.18
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
CGATGCATGTTCCAGACATGTCTTACACTAGCTTACGTCTCAAGAC
Found at i:47389984 original size:46 final size:46
Alignment explanation
Indices: 47389934--47390024 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
47389924 TCTTACATCC
*
47389934 ATCCCACTACAACTCAGGGATATAGGATTTGTACCATCTTCAATCA
1 ATCCCACTACAACTCAGGGATATAGAATTTGTACCATCTTCAATCA
* * * * *
47389980 ATCCCATTACAGCTCAGGGCTATAGAATTTGTATCTTCTTCAATC
1 ATCCCACTACAACTCAGGGATATAGAATTTGTACCATCTTCAATC
47390025 CATTGATCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (46 bp):
ATCCCACTACAACTCAGGGATATAGAATTTGTACCATCTTCAATCA
Found at i:47401894 original size:26 final size:26
Alignment explanation
Indices: 47401843--47402167 Score: 106
Period size: 26 Copynumber: 12.8 Consensus size: 26
47401833 AACAGTATAG
* * *
47401843 AACAATTT-AAATAAATATTGTGCAA
1 AACAATTTAAAATAAATAATATACAA
*
47401868 AACAATTTAAAACAAATAATATACAA
1 AACAATTTAAAATAAATAATATACAA
*
47401894 AACAATTTAAAATAAATAATATATAA
1 AACAATTTAAAATAAATAATATACAA
* * * *
47401920 GATAATTTAAAGT-AA-CATAT--AA
1 AACAATTTAAAATAAATAATATACAA
** * * **
47401942 AA-GGTTTAAGATAAACAATATGTGAA
1 AACAATTTAAAATAAATAATAT-ACAA
* * * *
47401968 GAGAAGTTTAAAATACATAATGTACAA
1 AACAA-TTTAAAATAAATAATATACAA
* * *
47401995 AACAATTTAAAGATAAAAAAATATATAG
1 AACAATTTAAA-AT-AAATAATATACAA
* * *
47402023 AACATTTTGAAATAAGT-A-AT--AA
1 AACAATTTAAAATAAATAATATACAA
**
47402045 AACTGTTTTAAAATAAATAATACATA-AA
1 AAC-AATTTAAAATAAATAAT--ATACAA
* ** *
47402073 AACAGGTTTAAAATAAGCAATATATAA
1 AACA-ATTTAAAATAAATAATATACAA
* ** *
47402100 AGCAATTTAAGGTAAATAGTAT---A
1 AACAATTTAAAATAAATAATATACAA
* * *
47402123 AGCAATTTTAAAT-AAT-ATATAGTAA
1 AACAATTTAAAATAAATAATATA-CAA
*
47402148 AACAATTTACAATAAATAAT
1 AACAATTTAAAATAAATAAT
47402168 GCATAAGTAC
Statistics
Matches: 218, Mismatches: 58, Indels: 46
0.68 0.18 0.14
Matches are distributed among these distances:
21 9 0.04
22 12 0.06
23 26 0.12
24 7 0.03
25 22 0.10
26 76 0.35
27 18 0.08
28 48 0.22
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (26 bp):
AACAATTTAAAATAAATAATATACAA
Found at i:47401933 original size:101 final size:102
Alignment explanation
Indices: 47401801--47402026 Score: 230
Period size: 101 Copynumber: 2.2 Consensus size: 102
47401791 AAAGAAAATG
* *
47401801 AAATAAAATAATATATAAAACAAATCGAAGTAAACAGTATAGAACA-ATTTAA-ATAAA-TAT-T
1 AAATAAAATAATATATAAAACAAATCAAAGT-AACA-TATA-AA-AGATTTAAGATAAACAATAT
47401862 GTGCAAAACAA-TTTAAAACAAATAATATACAAAACAATTTA
62 GTG-AAAACAAGTTTAAAACAAATAATATACAAAACAATTTA
* * * * *
47401903 AAAT-AAATAATATATAAGATAATTTAAAGTAACATATAAAAGGTTTAAGATAAACAATATGTGA
1 AAATAAAATAATATATAAAACAAATCAAAGTAACATATAAAAGATTTAAGATAAACAATATGTGA
* * * * *
47401967 AGAGAAGTTTAAAATACATAATGTACAAAACAATTTA
66 AAACAAGTTTAAAACAAATAATATACAAAACAATTTA
* *
47402004 AAGATAAAAAAATATATAGAACA
1 AA-ATAAAATAATATATAAAACA
47402027 TTTTGAAATA
Statistics
Matches: 101, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
97 1 0.01
98 7 0.07
99 9 0.09
100 11 0.11
101 54 0.53
102 6 0.06
103 13 0.13
ACGTcount: A:0.59, C:0.07, G:0.08, T:0.26
Consensus pattern (102 bp):
AAATAAAATAATATATAAAACAAATCAAAGTAACATATAAAAGATTTAAGATAAACAATATGTGA
AAACAAGTTTAAAACAAATAATATACAAAACAATTTA
Found at i:47410378 original size:54 final size:55
Alignment explanation
Indices: 47410317--47410443 Score: 166
Period size: 56 Copynumber: 2.3 Consensus size: 55
47410307 AAAAGAACCT
* * * *
47410317 GGACCTAGCATGCATCACATAATCACA-CCTCTCAACGTGGCTACATAAGCTTCC
1 GGACCTAGCATGTATCACATAATCACAGCCTCTCAACGGGGCTACACAAGCTCCC
* * *
47410371 GGACCTAGCGTGTACCACATAATTACATGCCTCTCAACGGGGCTACACAAGCTCCC
1 GGACCTAGCATGTATCACATAATCACA-GCCTCTCAACGGGGCTACACAAGCTCCC
*
47410427 GGGCCTAGCATGTATCA
1 GGACCTAGCATGTATCA
47410444 TGCCATCAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
54 23 0.38
56 38 0.62
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (55 bp):
GGACCTAGCATGTATCACATAATCACAGCCTCTCAACGGGGCTACACAAGCTCCC
Found at i:47429965 original size:55 final size:55
Alignment explanation
Indices: 47429878--47429987 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
47429868 GTATTCATTG
* *
47429878 GATGATAAATCATCACTTTTAATTTGATTAGTGCTTATGAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGCAA
*
47429933 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCGTGAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGCAA
47429988 TCTATAATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGCAA
Found at i:47435830 original size:19 final size:18
Alignment explanation
Indices: 47435808--47435847 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
47435798 TGAATAAAAC
47435808 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
47435827 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
47435845 TTA
1 TTA
47435848 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:47439610 original size:41 final size:43
Alignment explanation
Indices: 47439551--47439633 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 43
47439541 AATCCTAATT
*
47439551 GGGAAAATAATTCCCTTATTCT-A-AAGCTACTAAAACATAAG
1 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAG
* *
47439592 GGGAAAATAATTCTCTTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
47439634 AATAAAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 21 0.57
42 1 0.03
43 15 0.41
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (43 bp):
GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAG
Found at i:47439686 original size:19 final size:18
Alignment explanation
Indices: 47439664--47439703 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
47439654 TGAATAAAAC
47439664 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
* *
47439683 TTATGTATCTAAATAAAT
1 TTATCTACCTAAATAAAT
47439701 TTA
1 TTA
47439704 AAATATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:47444244 original size:59 final size:60
Alignment explanation
Indices: 47444192--47444366 Score: 193
Period size: 58 Copynumber: 2.9 Consensus size: 60
47444182 GTTCAAAGAT
*
47444192 TAACTTGGACAAAAAAAAAAGTTCAAGCCCTTATG-G-GAACAATTGTCAAGTTCAGGAAC
1 TAACTTGGA-AAAAAAAAAAGTTCAAGCCCTTATGTGAGAACAATTGTCAAGTTCAAGAAC
* *
47444251 TAACTTAGG-TAAAAAGAAA-TTCAA-CCCTTAATGTGAGAACAATTG-CAAGTTCAAGAAC
1 TAACTT-GGAAAAAAAAAAAGTTCAAGCCCTT-ATGTGAGAACAATTGTCAAGTTCAAGAAC
* * *
47444309 TAACTTGGATGAAAAAAAAAAGTT-TAGCCCTCCATGTGAGAACCATTGTCAAGTTCAA
1 TAACTTGGA--AAAAAAAAAAGTTCAAGCCCT-TATGTGAGAACAATTGTCAAGTTCAA
47444367 ACCCCAAAAA
Statistics
Matches: 97, Mismatches: 8, Indels: 19
0.78 0.06 0.15
Matches are distributed among these distances:
56 5 0.05
57 10 0.10
58 27 0.28
59 15 0.15
60 11 0.11
61 20 0.21
62 9 0.09
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (60 bp):
TAACTTGGAAAAAAAAAAAGTTCAAGCCCTTATGTGAGAACAATTGTCAAGTTCAAGAAC
Found at i:47444422 original size:16 final size:17
Alignment explanation
Indices: 47444401--47444439 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
47444391 AATCATTTTA
*
47444401 TTTATATTGTGT-TTGT
1 TTTATATTGTGTGTTGC
*
47444417 TTTATATTTTGTGTTGC
1 TTTATATTGTGTGTTGC
47444434 TTTATA
1 TTTATA
47444440 ATTATTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (17 bp):
TTTATATTGTGTGTTGC
Found at i:47447875 original size:17 final size:17
Alignment explanation
Indices: 47447853--47447899 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
47447843 ATTCATAAGA
*
47447853 AATAACAGTTTATACAT
1 AATAACAGTTCATACAT
47447870 AATAACAGTTCATACA-
1 AATAACAGTTCATACAT
*
47447886 ATTTAACAGTTCAT
1 A-ATAACAGTTCAT
47447900 TTAGTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 1 0.04
17 26 0.96
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (17 bp):
AATAACAGTTCATACAT
Found at i:47449044 original size:28 final size:28
Alignment explanation
Indices: 47448981--47449050 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
47448971 AAATCCATTA
* * *
47448981 ATATATACTATGTAAAATAAAGCCTTGC
1 ATATATATTATATAAAATAAAGCCATGC
* *
47449009 ATATATATTATATAAGATAAAGTCATGC
1 ATATATATTATATAAAATAAAGCCATGC
*
47449037 ATATATATAATATA
1 ATATATATTATATA
47449051 TGTATAACCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (28 bp):
ATATATATTATATAAAATAAAGCCATGC
Found at i:47455672 original size:21 final size:21
Alignment explanation
Indices: 47455643--47455689 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
47455633 CAAGAATGAG
*
47455643 TTTTGGCTTCAGGAAGTTGGA
1 TTTTTGCTTCAGGAAGTTGGA
47455664 TTTTTGCTTCAGGAAGTTGGA
1 TTTTTGCTTCAGGAAGTTGGA
47455685 TTTTT
1 TTTTT
47455690 AGATCATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.09, G:0.28, T:0.47
Consensus pattern (21 bp):
TTTTTGCTTCAGGAAGTTGGA
Found at i:47456280 original size:17 final size:17
Alignment explanation
Indices: 47456258--47456291 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
47456248 GTTAATCAAG
47456258 GATTACGAACTGATTAT
1 GATTACGAACTGATTAT
47456275 GATTACGAACTGATTAT
1 GATTACGAACTGATTAT
47456292 TGACTATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
GATTACGAACTGATTAT
Found at i:47459287 original size:35 final size:34
Alignment explanation
Indices: 47459217--47459288 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 34
47459207 TGCATTATTG
* *
47459217 ATTTAGCCTGGACGGGTAATTCGATTAGGATCTCA
1 ATTTAGCCTGGACGGGTAATTCGATCA-GAGCTCA
*
47459252 ATTTAGCCTGGACTGGTAATTCAGATCCA-AGCTCA
1 ATTTAGCCTGGACGGGTAATTC-GAT-CAGAGCTCA
47459287 AT
1 AT
47459289 AAAGGTGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 28 0.88
36 3 0.09
37 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (34 bp):
ATTTAGCCTGGACGGGTAATTCGATCAGAGCTCA
Found at i:47462898 original size:43 final size:43
Alignment explanation
Indices: 47462848--47463014 Score: 176
Period size: 43 Copynumber: 3.9 Consensus size: 43
47462838 TATCATAGGT
* *
47462848 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
* * * * *
47462891 AGGGTCTTAGATGAAATCGAC-TAACGATGCCAATATCCCAGAC
1 ATGGTCTTACATGTAATC-ACATATCGATGCCAATGTCCCAGAC
** * *
47462934 ATGGTCTTACACATAATCTCA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAGAC
* *
47462977 ATGGTCTTACATGTAATCACATATTGATACCTAATGTC
1 ATGGTCTTACATGTAATCACATATCGATGCC-AATGTC
47463015 ATGACATATG
Statistics
Matches: 97, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
42 2 0.02
43 85 0.88
44 10 0.10
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:47467513 original size:43 final size:43
Alignment explanation
Indices: 47467455--47467603 Score: 153
Period size: 42 Copynumber: 3.5 Consensus size: 43
47467445 CAATGCCAAC
*
47467455 GTCCCAGAC-GTGGTCTTACATGTAATTCGATATCGATGCCTCT
1 GTCCCAGACAG-GGTCTTACATGTAATTCGATATCGATGCCTAT
* * *
47467498 GTCCCAGACAGGGTCTTACATG-AAATCAGATAT-GATGTCGAT
1 GTCCCAGACAGGGTCTTACATGTAATTC-GATATCGATGCCTAT
* * * *
47467540 GTCCCAGACATGGTCTTACATGTAAATCTC-AAATCGAAGCCTGT
1 GTCCCAGACAGGGTCTTACATGT-AAT-TCGATATCGATGCCTAT
*
47467584 GTCCCAGACACGGTCTTACA
1 GTCCCAGACAGGGTCTTACA
47467604 CGATATTTCA
Statistics
Matches: 88, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
42 31 0.35
43 28 0.32
44 27 0.31
45 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACATGTAATTCGATATCGATGCCTAT
Found at i:47467555 original size:42 final size:43
Alignment explanation
Indices: 47467455--47467603 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 43
47467445 CAATGCCAAC
* * **
47467455 GTCCCAGACGTGGTCTTACATGTAATTCGATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACATGTAAATCGATATCGATGCCGAT
* *
47467498 GTCCCAGACAGGGTCTTACATG-AAATCAGATAT-GATGTCGAT
1 GTCCCAGACATGGTCTTACATGTAAATC-GATATCGATGCCGAT
* * *
47467540 GTCCCAGACATGGTCTTACATGTAAATCTCAAATCGAAGCCTG-T
1 GTCCCAGACATGGTCTTACATGTAAATC-GATATCGATGCC-GAT
*
47467584 GTCCCAGACACGGTCTTACA
1 GTCCCAGACATGGTCTTACA
47467604 CGATATTTCA
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 31 0.35
43 33 0.37
44 24 0.27
45 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGTAAATCGATATCGATGCCGAT
Found at i:47472365 original size:45 final size:45
Alignment explanation
Indices: 47472262--47472455 Score: 196
Period size: 45 Copynumber: 4.3 Consensus size: 45
47472252 TTTGACCTGA
* * * *
47472262 GAAACGAGA-AAGACCATGGTTGAAAGATACCACGGCATTATACCCG
1 GAAACGA-ATAAGACTATAGTTGAAAGATACTATGGCATTATA-CCG
* * * *
47472308 G-AACTAGA-AAGACCATAGTTGAAAGATACTATGGCATTATTCTG
1 GAAACGA-ATAAGACTATAGTTGAAAGATACTATGGCATTATACCG
* * *
47472352 GAGATGAATAAGACTATAGTTGAAAGATACTATGGCACTATACCG
1 GAAACGAATAAGACTATAGTTGAAAGATACTATGGCATTATACCG
* * ***
47472397 GAAACGAATAAGACTATAGTTGAAAGATACTATGACATTAAATTT
1 GAAACGAATAAGACTATAGTTGAAAGATACTATGGCATTATACCG
47472442 GAAACGAATAAGAC
1 GAAACGAATAAGAC
47472456 CATATGTAAT
Statistics
Matches: 125, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
44 4 0.03
45 120 0.96
46 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (45 bp):
GAAACGAATAAGACTATAGTTGAAAGATACTATGGCATTATACCG
Found at i:47472391 original size:24 final size:23
Alignment explanation
Indices: 47472363--47472430 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 23
47472353 AGATGAATAA
47472363 GACTATAGTTGAAAGATACTATG
1 GACTATAGTTGAAAGATACTATG
*** *
47472386 GCACTATACCGGAAACGA-A-TA-A
1 G-ACTATAGTTGAAA-GATACTATG
47472408 GACTATAGTTGAAAGATACTATG
1 GACTATAGTTGAAAGATACTATG
47472431 ACATTAAATT
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
20 2 0.06
21 11 0.34
22 3 0.09
23 3 0.09
24 11 0.34
25 2 0.06
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (23 bp):
GACTATAGTTGAAAGATACTATG
Found at i:47472424 original size:90 final size:90
Alignment explanation
Indices: 47472271--47472436 Score: 228
Period size: 90 Copynumber: 1.8 Consensus size: 90
47472261 AGAAACGAGA
* * *
47472271 AAGACCATGGTTGAAAGATACCACGGCATTATACCCGGAACTAGAAAGACCATAGTTGAAAGATA
1 AAGACCATAGTTGAAAGATACCACGGCACTATACCCGGAACGAGAAAGACCATAGTTGAAAGATA
*
47472336 CTATGGCATTATTCTGGAGATGAAT
66 CTATGACATTATTCTGGAGATGAAT
* * * *
47472361 AAGACTATAGTTGAAAGATACTATGGCACTATA-CCGGAAACGA-ATAAGACTATAGTTGAAAGA
1 AAGACCATAGTTGAAAGATACCACGGCACTATACCCGG-AACGAGA-AAGACCATAGTTGAAAGA
47472424 TACTATGACATTA
64 TACTATGACATTA
47472437 AATTTGAAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
89 5 0.08
90 61 0.92
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.24
Consensus pattern (90 bp):
AAGACCATAGTTGAAAGATACCACGGCACTATACCCGGAACGAGAAAGACCATAGTTGAAAGATA
CTATGACATTATTCTGGAGATGAAT
Found at i:47472451 original size:90 final size:90
Alignment explanation
Indices: 47472262--47472459 Score: 226
Period size: 90 Copynumber: 2.2 Consensus size: 90
47472252 TTTGACCTGA
* * *
47472262 GAAACGAGA-AAGACCATGGTTGAAAGATACCACGGCATTATACCCGGAACTAGAAAGACCATAG
1 GAAACGA-ATAAGACCATAGTTGAAAGATACCACGGCACTATACCCGGAACGAGAAAGACCATAG
*
47472326 TTGAAAGATACTATGGCATTATTCTG
65 TTGAAAGATACTATGACATTATTCTG
* * * * * *
47472352 GAGATGAATAAGACTATAGTTGAAAGATACTATGGCACTATA-CCGGAAACGA-ATAAGACTATA
1 GAAACGAATAAGACCATAGTTGAAAGATACCACGGCACTATACCCGG-AACGAGA-AAGACCATA
47472415 GTTGAAAGATACTATGACATTAAATT-T-
64 GTTGAAAGATACTATGACATT--ATTCTG
47472442 GAAACGAATAAGACCATA
1 GAAACGAATAAGACCATA
47472460 TGTAATATCC
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
89 6 0.07
90 80 0.89
91 1 0.01
92 3 0.03
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (90 bp):
GAAACGAATAAGACCATAGTTGAAAGATACCACGGCACTATACCCGGAACGAGAAAGACCATAGT
TGAAAGATACTATGACATTATTCTG
Found at i:47473776 original size:46 final size:46
Alignment explanation
Indices: 47473726--47473901 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
47473716 TGGTTGAGCA
47473726 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
47473772 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
47473817 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
47473865 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47473902 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47473882 original size:93 final size:93
Alignment explanation
Indices: 47473723--47473893 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
47473713 GGATGGTTGA
* *
47473723 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47473788 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
47473816 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47473881 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
47473894 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:47481281 original size:46 final size:46
Alignment explanation
Indices: 47481231--47481406 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
47481221 TGGTTGAGCA
47481231 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
47481277 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
47481322 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
47481370 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47481407 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 63 0.57
47 29 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47481387 original size:93 final size:93
Alignment explanation
Indices: 47481228--47481398 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
47481218 GGATGGTTGA
*
47481228 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
47481293 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
47481321 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
47481385 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
47481399 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:47490040 original size:19 final size:16
Alignment explanation
Indices: 47490021--47490054 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
47490011 AGATTAAATT
47490021 AATTAA-CTAAATGCA
1 AATTAATCTAAATGCA
47490036 AATTAATCTAAATGCA
1 AATTAATCTAAATGCA
47490052 AAT
1 AAT
47490055 AAAATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (16 bp):
AATTAATCTAAATGCA
Found at i:47490048 original size:16 final size:15
Alignment explanation
Indices: 47490021--47490068 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
47490011 AGATTAAATT
47490021 AATTAACTAAATGCA
1 AATTAACTAAATGCA
47490036 AATTAATCTAAATGCA
1 AATTAA-CTAAATGCA
* *
47490052 AATAAAATGAAATGCA
1 AATTAACT-AAATGCA
47490068 A
1 A
47490069 GGCGATGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 7 0.24
16 22 0.76
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.25
Consensus pattern (15 bp):
AATTAACTAAATGCA
Found at i:47495022 original size:88 final size:91
Alignment explanation
Indices: 47494874--47495073 Score: 241
Period size: 88 Copynumber: 2.2 Consensus size: 91
47494864 AGCCTCTATT
** * *
47494874 TTTTTTTTTTGCACTCAATT-GTATTCTTAAACTTTCAACATGCATAAAAAATGCCCTC-AAACT
1 TTTTTTTTTTGCACTCAATTGGTA-TCTTAAACTACCAAAATACATAAAAAATGCCCTCAAAACT
47494937 TTTTAAAAAAAGGCAATTAAGCC-TT-C
65 TTTTAAAAAAA-GCAATTAAGCCATTGC
* * * *
47494963 TTTTTTTTTTGCATTCAATTGGTA-CTTGAACTACCAAAATACATCAAAAA-GACCCTCAAAATT
1 TTTTTTTTTTGCACTCAATTGGTATCTTAAACTACCAAAATACATAAAAAATG-CCCTCAAAACT
* *
47495026 TTTTCAAAAAAGCAATTAAGCCATTGT
65 TTTTAAAAAAAGCAATTAAGCCATTGC
47495053 TTTTTTTTTTGCACTCAATTG
1 TTTTTTTTTTGCACTCAATTG
47495074 CCAAAATGCA
Statistics
Matches: 95, Mismatches: 11, Indels: 9
0.83 0.10 0.08
Matches are distributed among these distances:
87 1 0.01
88 36 0.38
89 35 0.37
90 23 0.24
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.40
Consensus pattern (91 bp):
TTTTTTTTTTGCACTCAATTGGTATCTTAAACTACCAAAATACATAAAAAATGCCCTCAAAACTT
TTTAAAAAAAGCAATTAAGCCATTGC
Found at i:47495229 original size:20 final size:19
Alignment explanation
Indices: 47495204--47495283 Score: 69
Period size: 20 Copynumber: 4.2 Consensus size: 19
47495194 ATGACAAACA
47495204 ATAAAAAT-TAGAAAAATATT
1 ATAAAAATATA-AAAAATA-T
*
47495224 ATAAAAATCGTAAAAAATA-
1 ATAAAAAT-ATAAAAAATAT
*
47495243 A-AAAAAT-TATAAAATAT
1 ATAAAAATATAAAAAATAT
*
47495260 ATAGAAATATAGAAAAATAT
1 ATAAAAATATA-AAAAATAT
47495280 ATAA
1 ATAA
47495284 TTTTATAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
16 8 0.16
17 1 0.02
18 11 0.22
19 3 0.06
20 18 0.36
21 7 0.14
22 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (19 bp):
ATAAAAATATAAAAAATAT
Found at i:47495499 original size:27 final size:28
Alignment explanation
Indices: 47495466--47495594 Score: 115
Period size: 27 Copynumber: 4.6 Consensus size: 28
47495456 TTATCTGAAG
47495466 AATTTTATAAT-TTTTTATATTCTT-TTA
1 AATTTTATAATATTTTTATATT-TTATTA
** * *
47495493 CGTTTTATATATATTTCTATTTTTTATTA
1 AATTTTATA-ATATTTTTATATTTTATTA
47495522 AATTTTA-AATATTTTTATATTTTATTA
1 AATTTTATAATATTTTTATATTTTATTA
47495549 AATTTT-TAAT-TTTTTATAACTTTTATTGA
1 AATTTTATAATATTTTTAT-A-TTTTATT-A
** *
47495578 TTTTTTATAATTTTTTT
1 AATTTTATAATATTTTT
47495595 GTCATATGTG
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
26 7 0.08
27 34 0.41
28 12 0.14
29 21 0.25
30 4 0.05
31 5 0.06
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (28 bp):
AATTTTATAATATTTTTATATTTTATTA
Found at i:47495555 original size:18 final size:18
Alignment explanation
Indices: 47495468--47495592 Score: 76
Period size: 20 Copynumber: 6.7 Consensus size: 18
47495458 ATCTGAAGAA
47495468 TTTTATAATTTTTTATATT
1 TTTTATAA-TTTTTATATT
* **
47495487 CTTT-TACGTTTTATATAT
1 TTTTATAATTTTTATAT-T
* * * **
47495505 ATTTCTATTTTTTATTAAA
1 TTTTATAATTTTTA-TATT
*
47495524 TTTTAAATATTTTTATATT
1 TTTTATA-ATTTTTATATT
47495543 TTATTA-AATTTTTA-ATT
1 TT-TTATAATTTTTATATT
*
47495560 TTTTATAACTTTTATTGATT
1 TTTTATAATTTTTA-T-ATT
47495580 TTTTATAATTTTT
1 TTTTATAATTTTT
47495593 TTGTCATATG
Statistics
Matches: 81, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
16 3 0.04
17 20 0.25
18 13 0.16
19 19 0.23
20 26 0.32
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATAATTTTTATATT
Found at i:47495555 original size:19 final size:20
Alignment explanation
Indices: 47495526--47495565 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
47495516 TTATTAAATT
*
47495526 TTAAATATTTTTATATTTTA
1 TTAAATATTTTAATATTTTA
*
47495546 TTAAAT-TTTTAATTTTTTA
1 TTAAATATTTTAATATTTTA
47495565 T
1 T
47495566 AACTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTAAATATTTTAATATTTTA
Found at i:47497412 original size:24 final size:26
Alignment explanation
Indices: 47497365--47497416 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
47497355 TTTTATTATT
* *
47497365 AAGATTTTAGGTTGTTTAGGGTTTTA
1 AAGATTTTAGGGTGTTTAGAGTTTTA
47497391 AAGA-TTTAGGGT-TTTAGAGTTTTA
1 AAGATTTTAGGGTGTTTAGAGTTTTA
47497415 AA
1 AA
47497417 TTGATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
25 7 0.29
26 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (26 bp):
AAGATTTTAGGGTGTTTAGAGTTTTA
Found at i:47498623 original size:33 final size:33
Alignment explanation
Indices: 47498581--47498692 Score: 147
Period size: 33 Copynumber: 3.4 Consensus size: 33
47498571 CAGTTCTGTG
*
47498581 AAATGATAACAAATATTAGCTTTTCATTTTGTA
1 AAATGATAACAAATATCAGCTTTTCATTTTGTA
* * *
47498614 AAATTATAACAAAT-TACAAC-TTTAATTTTGTA
1 AAATGATAACAAATAT-CAGCTTTTCATTTTGTA
*
47498646 AAATGATAACAAATATCAGCTTTTCATTTTGTG
1 AAATGATAACAAATATCAGCTTTTCATTTTGTA
*
47498679 AAATTATAACAAAT
1 AAATGATAACAAAT
47498693 TAAAACTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 28 0.42
33 39 0.58
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (33 bp):
AAATGATAACAAATATCAGCTTTTCATTTTGTA
Found at i:47498646 original size:32 final size:32
Alignment explanation
Indices: 47498606--47498722 Score: 137
Period size: 32 Copynumber: 3.6 Consensus size: 32
47498596 TTAGCTTTTC
*
47498606 ATTTTGTAAAATTATAACAAATTACAACTTTA
1 ATTTTGTAAAATGATAACAAATTACAACTTTA
* *
47498638 ATTTTGTAAAATGATAACAAA-TATCAGCTTTTC
1 ATTTTGTAAAATGATAACAAATTA-CAAC-TTTA
* * *
47498671 ATTTTGTGAAATTATAACAAATTAAAACTTTA
1 ATTTTGTAAAATGATAACAAATTACAACTTTA
* *
47498703 ATTTAGTTAAATGATAACAA
1 ATTTTGTAAAATGATAACAA
47498723 TATTCCACTA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
31 2 0.03
32 43 0.61
33 24 0.34
34 2 0.03
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (32 bp):
ATTTTGTAAAATGATAACAAATTACAACTTTA
Found at i:47498660 original size:65 final size:65
Alignment explanation
Indices: 47498581--47498726 Score: 240
Period size: 65 Copynumber: 2.3 Consensus size: 65
47498571 CAGTTCTGTG
* *
47498581 AAATGATAACAAATATTAGCTTTTCATTTTGTAAAATTATAACAAATTACAACTTTAATTTTGTA
1 AAATGATAACAAATATTAGCTTTTCATTTTGTAAAATTATAACAAATTAAAACTTTAATTTAGTA
* * *
47498646 AAATGATAACAAATATCAGCTTTTCATTTTGTGAAATTATAACAAATTAAAACTTTAATTTAGTT
1 AAATGATAACAAATATTAGCTTTTCATTTTGTAAAATTATAACAAATTAAAACTTTAATTTAGTA
47498711 AAATGATAAC-AATATT
1 AAATGATAACAAATATT
47498727 CCACTAAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
64 5 0.07
65 70 0.93
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.40
Consensus pattern (65 bp):
AAATGATAACAAATATTAGCTTTTCATTTTGTAAAATTATAACAAATTAAAACTTTAATTTAGTA
Found at i:47511642 original size:27 final size:27
Alignment explanation
Indices: 47511612--47511789 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47511602 ATATTGAGTC
* * * *
47511612 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
47511639 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47511666 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
47511694 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
47511721 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
47511748 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47511775 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47511790 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:47511751 original size:82 final size:81
Alignment explanation
Indices: 47511633--47511788 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
47511623 TGCTATATAA
* *
47511633 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
47511698 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
47511715 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
47511779 CACTTAGTGC
65 CACTTAGTGC
47511789 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:47519845 original size:27 final size:27
Alignment explanation
Indices: 47519815--47519992 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47519805 ATATTGAGTC
* * * *
47519815 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
47519842 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47519869 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
47519897 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
47519924 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
47519951 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47519978 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47519993 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:47519954 original size:82 final size:81
Alignment explanation
Indices: 47519836--47519991 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
47519826 TGCTATATAA
* *
47519836 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
47519901 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
47519918 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
47519982 CACTTAGTGC
65 CACTTAGTGC
47519992 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:47523398 original size:16 final size:16
Alignment explanation
Indices: 47523377--47523408 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47523367 GGCAAATCCT
*
47523377 GAAATGCTGAAAAGCC
1 GAAATGCCGAAAAGCC
47523393 GAAATGCCGAAAAGCC
1 GAAATGCCGAAAAGCC
47523409 AGAAGTTTGT
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:0.44, C:0.22, G:0.25, T:0.09
Consensus pattern (16 bp):
GAAATGCCGAAAAGCC
Found at i:47523715 original size:29 final size:28
Alignment explanation
Indices: 47523624--47523715 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
47523614 ATTGCATGAC
* *
47523624 TATGAATGAGATTGGGCCTGATGGGCCA
1 TATGAATGAGATTGGGCCTAAAGGGCCA
* * * *
47523652 TATAAATGTGATTGGGGCCGATA-GGCCA
1 TATGAATGAGATT-GGGCCTAAAGGGCCA
47523680 TATGAATGAGATTGGGCCTAAAGGGGCCA
1 TATGAATGAGATTGGGCCTAAA-GGGCCA
*
47523709 AATGAAT
1 TATGAAT
47523716 AAGTGTGGAT
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
27 7 0.14
28 27 0.54
29 16 0.32
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.24
Consensus pattern (28 bp):
TATGAATGAGATTGGGCCTAAAGGGCCA
Found at i:47524734 original size:17 final size:18
Alignment explanation
Indices: 47524701--47524734 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47524691 TCTTTTGAAG
47524701 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
47524719 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
47524735 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:47525707 original size:15 final size:15
Alignment explanation
Indices: 47525666--47525709 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
47525656 TCAAGAGAAG
*
47525666 TATGTGGGTGCGAGT
1 TATGTGGGTGCTAGT
47525681 TATGTGGGTGCTAGT
1 TATGTGGGTGCTAGT
*
47525696 TATGTGGATGCTAG
1 TATGTGGGTGCTAG
47525710 AAGAAAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.16, C:0.07, G:0.41, T:0.36
Consensus pattern (15 bp):
TATGTGGGTGCTAGT
Found at i:47529467 original size:21 final size:21
Alignment explanation
Indices: 47529396--47529467 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 21
47529386 CCATGGTATC
*
47529396 TTTCAACCATGGTCTTATTCA
1 TTTCAACCATGGTCTTATTCT
* * * * *
47529417 TTTCATATCAGGTTGTCATGTTAT
1 TTTCA-ACCA--TGGTCTTATTCT
47529441 CTTTCAACCATGGTCTTATTCT
1 -TTTCAACCATGGTCTTATTCT
47529463 TTTCA
1 TTTCA
47529468 TGTCACATTG
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
21 10 0.28
22 11 0.31
24 10 0.28
25 5 0.14
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (21 bp):
TTTCAACCATGGTCTTATTCT
Found at i:47529657 original size:46 final size:46
Alignment explanation
Indices: 47529336--47529657 Score: 473
Period size: 46 Copynumber: 7.0 Consensus size: 46
47529326 TTTCTGTAAT
* * * *
47529336 GTTGCCATGGTATCTTTCAACTATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
47529382 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* * * * *
47529428 GTTGTCATGTTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* *
47529474 ATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
47529520 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* * **
47529566 GTTGCCATGGTATCGTTCAACCACGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
47529612 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
47529658 AGAGCACACT
Statistics
Matches: 254, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 254 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:47531761 original size:16 final size:16
Alignment explanation
Indices: 47531740--47531778 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
47531730 ATTTTTCCCC
*
47531740 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
47531756 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
47531772 TCTTTCC
1 TTTTTCC
47531779 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:47531843 original size:2 final size:2
Alignment explanation
Indices: 47531838--47531868 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
47531828 TTTTTTTTCT
47531838 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47531869 ATAACTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47535597 original size:46 final size:46
Alignment explanation
Indices: 47535322--47535596 Score: 442
Period size: 46 Copynumber: 6.0 Consensus size: 46
47535312 TTTCTGTCAT
* *
47535322 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
*
47535368 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
* * *
47535414 GTTGCCATGTTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
47535460 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
** *
47535506 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
* **
47535552 GTTGCCATGGTATATTTCAACCATGGTCTTACACATTTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCA
47535597 GAGAGCACAC
Statistics
Matches: 215, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 215 1.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
Found at i:47537646 original size:16 final size:16
Alignment explanation
Indices: 47537625--47537663 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
47537615 ATTTTTCCCC
*
47537625 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
47537641 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
47537657 TCTTTCC
1 TTTTTCC
47537664 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:47542274 original size:17 final size:18
Alignment explanation
Indices: 47542241--47542274 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47542231 TCTTTTGAAG
47542241 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
47542259 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
47542275 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:47556286 original size:5 final size:5
Alignment explanation
Indices: 47556276--47556302 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
47556266 GGTTGTTAAG
47556276 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
47556303 TAAAAGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:47561617 original size:19 final size:21
Alignment explanation
Indices: 47561593--47561635 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
47561583 TAGCTTCGAT
47561593 TTTTCA-CACATTTTTTAG-A
1 TTTTCATCACATTTTTTAGTA
*
47561612 TTTTCATGACATTTTTTAGTA
1 TTTTCATCACATTTTTTAGTA
47561633 TTT
1 TTT
47561636 ACGAGTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.58
Consensus pattern (21 bp):
TTTTCATCACATTTTTTAGTA
Found at i:47563719 original size:6 final size:6
Alignment explanation
Indices: 47563710--47563737 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
47563700 TATCTATTCC
47563710 TATATT TATATT TATATT TATATT TATA
1 TATATT TATATT TATATT TATATT TATA
47563738 AAATTACGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:47565043 original size:27 final size:27
Alignment explanation
Indices: 47565005--47565058 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
47564995 ACTTTGGAGT
47565005 TTGCATTTACTAGTTTACCTTCATCAC
1 TTGCATTTACTAGTTTACCTTCATCAC
47565032 TTGCATTTACTAGTTTACCTTCATCAC
1 TTGCATTTACTAGTTTACCTTCATCAC
47565059 CAGTCTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.07, T:0.44
Consensus pattern (27 bp):
TTGCATTTACTAGTTTACCTTCATCAC
Found at i:47569981 original size:11 final size:11
Alignment explanation
Indices: 47569965--47570008 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
47569955 TGGAAACAAG
47569965 AAAAAAGAAAA
1 AAAAAAGAAAA
47569976 AAAAAAGAAAA
1 AAAAAAGAAAA
*
47569987 AAGGAAAGAAAA
1 AA-AAAAGAAAA
*
47569999 CAAAAAGAAA
1 AAAAAAGAAA
47570009 CAATGGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:47569994 original size:23 final size:24
Alignment explanation
Indices: 47569968--47570017 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
47569958 AAACAAGAAA
47569968 AAAGAAAAAAAAAAGAAA-AAAGG
1 AAAGAAAAAAAAAAGAAACAAAGG
* *
47569991 AAAGAAAACAAAAAGAAACAATGG
1 AAAGAAAAAAAAAAGAAACAAAGG
47570015 AAA
1 AAA
47570018 TTAGTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (24 bp):
AAAGAAAAAAAAAAGAAACAAAGG
Found at i:47569998 original size:18 final size:18
Alignment explanation
Indices: 47569957--47569998 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
47569947 ATCAATTATG
47569957 GAAACAAGAAAAAAGAAAA
1 GAAA-AAGAAAAAAGAAAA
* *
47569976 AAAAAAGAAAAAAGGAAA
1 GAAAAAGAAAAAAGAAAA
47569994 GAAAA
1 GAAAA
47569999 CAAAAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (18 bp):
GAAAAAGAAAAAAGAAAA
Found at i:47570004 original size:18 final size:18
Alignment explanation
Indices: 47569958--47570004 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
47569948 TCAATTATGG
47569958 AAACAAGAAAAAAGAAAAA
1 AAACAA-AAAAAAGAAAAA
*
47569977 AAA-AAGAAAAAAGGAAAGA
1 AAACAA-AAAAAA-GAAAAA
47569996 AAACAAAAA
1 AAACAAAAA
47570005 GAAACAATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 9 0.36
19 14 0.56
20 2 0.08
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (18 bp):
AAACAAAAAAAAGAAAAA
Found at i:47574828 original size:42 final size:42
Alignment explanation
Indices: 47574767--47574930 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
47574757 CTTCGTTTTC
**
47574767 TCGATGCCATAGTTCAGCTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* *
47574810 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
*
47574851 TCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
47574900 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
47574931 GAATCACATA
Statistics
Matches: 105, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 63 0.60
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.34
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:47574911 original size:49 final size:48
Alignment explanation
Indices: 47574850--47575020 Score: 190
Period size: 47 Copynumber: 3.6 Consensus size: 48
47574840 ATATTCATAT
* *
47574850 ATCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* *
47574898 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * *
47574946 CT-GATGCCATATCCCAGATATGGTCTTATCTA-GT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTA-C-ACGTAATCACATATCACA
* *
47574992 ACCGATGCCATATCCCAGATATGGTCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
47575021 TACGGAAAAC
Statistics
Matches: 108, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
46 24 0.22
47 38 0.35
48 14 0.13
49 32 0.30
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:47575085 original size:31 final size:31
Alignment explanation
Indices: 47575042--47575128 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
47575032 CTTGTCACTT
* * *
47575042 GTAGCAGAAGCTACCACTATTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
47575073 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
47575104 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
47575129 TGTCATTTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:47575205 original size:50 final size:51
Alignment explanation
Indices: 47575104--47575232 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
47575094 CACTGATCAG
* * * *
47575104 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAACTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
* *
47575155 GTAGCCGAACCTATCACTTATCACTT-TCACTTGTCTTTGATCAGATAAGT
1 GTAGCCGAAACTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
47575205 GTAGCCGAAACTATCACTTATCACTTGT
1 GTAGCCGAAACTATCACTTATCACTTGT
47575233 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 47 0.66
51 24 0.34
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAACTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:47577826 original size:278 final size:282
Alignment explanation
Indices: 47577321--47577888 Score: 1029
Period size: 278 Copynumber: 2.0 Consensus size: 282
47577311 CTAACTTCTC
* *
47577321 AGAATTACAATTCAGTTTAACCTCGAATATTATTTATTATTTTTTTCTAGTCACCTTTGAACTCT
1 AGAATTACAATTCAGTTTAACCTCG-AGATTATTTATTATTTTTTTCCAGTCACCTTTGAACTCT
47577386 AGAATAAATGTTGGAACTTATTGTTAAAATTCTAAATTACCCTAGTAGGAACACATATACTTAGC
65 AGAATAAATGTTGGAACTTATTGTTAAAATTCTAAATTACCCTAGTAGGAACACATATACTTAGC
47577451 TGATCTATCAAATAAAAATTCTGTACCTATTGAAATGATCATACAGATCTTTCTTTGTCAAATGA
130 TGATCTATCAAATAAAAATTCTGTACCTATTGAAATGATCATACAGATCTTTCTTTGTCAAATGA
*
47577516 TTAACCATAAACTAAATAACATTTTTCTTTCTGATGTTAATGACAATCCCAATTCGAAATCTATA
195 TTAACCATAAACAAAATAACATTTTTCTTTCTGATGTTAATGACAATCCCAATTCGAAATCTATA
47577581 GCCATTTTATCTCATATCACACT
260 GCCATTTTATCTCATATCACACT
*
47577604 AGAATTACAATTCAGTTTAACCTCG-GA-TA-TTATT-TTTTTTTCCAGTCACCTTTGAACTTTA
1 AGAATTACAATTCAGTTTAACCTCGAGATTATTTATTATTTTTTTCCAGTCACCTTTGAACTCTA
*
47577665 GAATAAATGTTGGAACTTATTGTTAAAATTCTAAATTACCCTATTAGGAACACATATACTTAGCT
66 GAATAAATGTTGGAACTTATTGTTAAAATTCTAAATTACCCTAGTAGGAACACATATACTTAGCT
47577730 GATCTATCAAATAAAAATTCTGTACCTATTGAAATGATCATACAGATCTTTCTTTGTCAAATGAT
131 GATCTATCAAATAAAAATTCTGTACCTATTGAAATGATCATACAGATCTTTCTTTGTCAAATGAT
47577795 TAACCATAAACAAAATAAC-TTTTTCCTTTCTGATGTTAATGACAATCCCAATTCGAAATCTATA
196 TAACCATAAACAAAATAACATTTTT-CTTTCTGATGTTAATGACAATCCCAATTCGAAATCTATA
47577859 GCCATTTTATCTCATATCACACT
260 GCCATTTTATCTCATATCACACT
*
47577882 AGTATTA
1 AGAATTA
47577889 TCACTGACTG
Statistics
Matches: 278, Mismatches: 6, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
277 5 0.02
278 240 0.86
279 5 0.02
280 2 0.01
281 1 0.00
283 25 0.09
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.38
Consensus pattern (282 bp):
AGAATTACAATTCAGTTTAACCTCGAGATTATTTATTATTTTTTTCCAGTCACCTTTGAACTCTA
GAATAAATGTTGGAACTTATTGTTAAAATTCTAAATTACCCTAGTAGGAACACATATACTTAGCT
GATCTATCAAATAAAAATTCTGTACCTATTGAAATGATCATACAGATCTTTCTTTGTCAAATGAT
TAACCATAAACAAAATAACATTTTTCTTTCTGATGTTAATGACAATCCCAATTCGAAATCTATAG
CCATTTTATCTCATATCACACT
Found at i:47580364 original size:42 final size:42
Alignment explanation
Indices: 47580301--47580465 Score: 179
Period size: 42 Copynumber: 3.8 Consensus size: 42
47580291 CTTCATGTTC
** *
47580301 TCGATGCCATAGTTCATCTATGGTCTTACACATTTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATTTTCACAT-A
* * *
47580344 T-GATGCCATAGCCCAGCTATGGTCTTATACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATTTTCACATA
* *
47580385 TCGATGCCATAACCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT----TTTCACATA
47580434 TCGATGCCATAGCCCAGCTATGGTCTTACACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACA
47580466 AATCACATAT
Statistics
Matches: 102, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
41 2 0.02
42 60 0.59
43 1 0.01
45 2 0.02
46 1 0.01
49 36 0.35
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATTTTCACATA
Found at i:47580451 original size:91 final size:93
Alignment explanation
Indices: 47580336--47580566 Score: 256
Period size: 95 Copynumber: 2.5 Consensus size: 93
47580326 TTACACATTT
* *
47580336 TCACATAATGATGCCATAGCCCAGCTATGGTCTTATACATAT-TCATATAT-C-GATGCCATAAC
1 TCACAT-ATGATGCCATAGCCCAGCTATGGTCTTATACAAATCACATATATACTGATGCCATAAC
** *
47580398 CCAGCTATGGTCTTACAC-GTAATCACATA
65 CCAAATATGGTCTTACACAGT-AGCACATA
* * *
47580427 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAAATCACATATCTCACTGATGCCATAT
1 TCACATAT-GATGCCATAGCCCAGCTATGGTCTTATACAAATCACATATAT-ACTGATGCCATAA
* *
47580492 CCCAAATATGGTCTTATACAGTAGCATATA
64 CCCAAATATGGTCTTACACAGTAGCACATA
* * *
47580522 TCACA-CTGATGCCATATCCCAGATATGGTCTTATACGGAAATCAC
1 TCACATATGATGCCATAGCCCAGCTATGGTCTTATAC--AAATCAC
47580567 TTGTCACTTG
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
90 2 0.02
91 37 0.31
92 6 0.05
93 26 0.22
94 2 0.02
95 43 0.36
96 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (93 bp):
TCACATATGATGCCATAGCCCAGCTATGGTCTTATACAAATCACATATATACTGATGCCATAACC
CAAATATGGTCTTACACAGTAGCACATA
Found at i:47580536 original size:47 final size:47
Alignment explanation
Indices: 47580387--47580554 Score: 196
Period size: 47 Copynumber: 3.6 Consensus size: 47
47580377 TTCATATATC
* * *
47580387 GATGCCATAACCCAGCTATGGTCTTACAC-GTAATCACATATCACATAT
1 GATGCCATATCCCAGATATGGTCTTACACAGT-ATCACATATCACA-CT
* * * *
47580435 CGATGCCATAGCCCAGCTATGGTCTTACACA-AATCACATATCTCACT
1 -GATGCCATATCCCAGATATGGTCTTACACAGTATCACATATCACACT
* * * *
47580482 GATGCCATATCCCAAATATGGTCTTATACAGTAGCATATATCACACT
1 GATGCCATATCCCAGATATGGTCTTACACAGTATCACATATCACACT
47580529 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATATCCCAGATATGGTCTTA
47580555 TACGGAAATC
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
46 26 0.25
47 38 0.37
48 12 0.12
49 28 0.27
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.28
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGGTCTTACACAGTATCACATATCACACT
Found at i:47580574 original size:93 final size:95
Alignment explanation
Indices: 47580336--47580554 Score: 238
Period size: 91 Copynumber: 2.4 Consensus size: 95
47580326 TTACACATTT
* * * * *
47580336 TCACATAAT-GATGCCATAGCCCAGCTATGGTCTTATACATAT-TCATATAT--C-GATGCCATA
1 TCACAT-ATCGATGCCATAGCCCAGATATGGTCTTACACAAATCACATATCTCACTGATGCCATA
** *
47580396 ACCCAGCTATGGTCTTACACGTAATCACATA
65 ACCCAAATATGGTCTTACACGTAAGCACATA
* *
47580427 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAAATCACATATCTCACTGATGCCATAT
1 TCACATATCGATGCCATAGCCCAGATATGGTCTTACACAAATCACATATCTCACTGATGCCATAA
* *
47580492 CCCAAATATGGTCTTATACAGT-AGCATATA
66 CCCAAATATGGTCTTACAC-GTAAGCACATA
* *
47580522 TCACA-CT-GATGCCATATCCCAGATATGGTCTTA
1 TCACATATCGATGCCATAGCCCAGATATGGTCTTA
47580555 TACGGAAATC
Statistics
Matches: 109, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
90 2 0.02
91 37 0.34
92 6 0.06
93 24 0.22
94 2 0.02
95 36 0.33
96 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (95 bp):
TCACATATCGATGCCATAGCCCAGATATGGTCTTACACAAATCACATATCTCACTGATGCCATAA
CCCAAATATGGTCTTACACGTAAGCACATA
Found at i:47580611 original size:31 final size:31
Alignment explanation
Indices: 47580576--47580662 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
47580566 CTTGTCACTT
* * *
47580576 GTAGCAGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTCATCAG
47580607 GTAGCCGAAGCTACCACTTTTCACTCATCAG
1 GTAGCCGAAGCTACCACTTTTCACTCATCAG
47580638 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
47580663 TGTCATTTGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTCATCAG
Found at i:47580744 original size:50 final size:51
Alignment explanation
Indices: 47580638--47580766 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
47580628 CACTCATCAG
* * * *
47580638 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGC
* * *
47580689 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCTTTGATTAGGTAAGC
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGC
47580739 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
47580767 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 45 0.64
51 25 0.36
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGC
Found at i:47586799 original size:19 final size:19
Alignment explanation
Indices: 47586775--47586821 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
47586765 CGACACCTTT
*
47586775 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
47586794 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
47586813 TATGCATTA
1 TTTGCATTA
47586822 AAGTCCATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:47594039 original size:42 final size:41
Alignment explanation
Indices: 47593976--47594059 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 41
47593966 TCTCCAGAGG
* *
47593976 AGTATTAATTCTGGCTGAAATGGATGGGAAAAAACTTGCACA
1 AGTATTAATTCTGGCTAAAATGGATGGG-AAAAACCTGCACA
47594018 AGTATTAATTCTGGCTAAAATGGATGGGAAAAACCTGCACA
1 AGTATTAATTCTGGCTAAAATGGATGGGAAAAACCTGCACA
47594059 A
1 A
47594060 TCCTGTGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 13 0.32
42 27 0.68
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (41 bp):
AGTATTAATTCTGGCTAAAATGGATGGGAAAAACCTGCACA
Found at i:47595586 original size:44 final size:45
Alignment explanation
Indices: 47595538--47595640 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 45
47595528 TGCCACCATC
* * *
47595538 CTTATCTCTCTAAGGTAGCAA-GAGAGTAGGCTGAAGATTGTAG-T
1 CTTATCTCTCTAAGGTAGCAAGGA-AATAGACTGAAGATTGCAGAT
*
47595582 CTTATCT-TCCTAAGGTATCAAGGAAATAGACTGAAGATTGCAGAT
1 CTTATCTCT-CTAAGGTAGCAAGGAAATAGACTGAAGATTGCAGAT
* *
47595627 TTTATCTCCCTAAG
1 CTTATCTCTCTAAG
47595641 CAGTAGTGGA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.02
44 34 0.69
45 14 0.29
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (45 bp):
CTTATCTCTCTAAGGTAGCAAGGAAATAGACTGAAGATTGCAGAT
Found at i:47595766 original size:177 final size:176
Alignment explanation
Indices: 47595436--47596256 Score: 1087
Period size: 177 Copynumber: 4.6 Consensus size: 176
47595426 GCAACATCGG
* * * ***
47595436 TGAAG-TTGCAGATCTTATCT-CC-AAGAAGTAGCAATGGAGCAGATCAAAAATGGTGAATCTTA
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAG---TGGAGCAGATCGAAAATGACAAATCTTA
* * * * *
47595498 TCTTCCCGAGGTAGTAGGGGAGCAAATTTTTGCCACCATCCTTATCTCTCTAAGGTAGCAAGAGA
63 TCTT-CCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGA
* * * *
47595563 GTAGGCTGAAGATTGTAGTCTTATCTTCCTAAGGTATCAAGGAAATAGAC
127 GTAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGAC
* * * * *
47595613 TGAAGATTGCAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGACGAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGACAAATCTTATCT
* * * *
47595678 TCACAAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTTTCTCTCTGAGGTAGCAAGGGAATA
66 TC-CGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTA
47595743 GGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGAC
130 GGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGAC
* * *
47595790 TGAAGATTGTAGATCTTATCTCCTTAAGCAATAGTGGAGCAGATTGAAAATGGA-AAATCTTATC
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAT-GACAAATCTTATC
* *
47595854 TTCCGGAGGGAGCAGGGGAGCAGATTTTAGCTACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGT
65 TTCC-GAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGT
* * *
47595919 AGGTTGAAGATTATATTCTTATCTTTCTGAGGTAGCAAGGAAGTAGAC
129 AGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGAC
* * * * *
47595967 TAGAA-ACTGTAGATCTTATCTCCCTAAACACTAGTGGAGTAGATCGAAAATGGCAAATCTTATC
1 T-GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGACAAATCTTATC
* * *
47596031 TTCCCGAGGTAGCAAGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGAGAGC
65 TT-CCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGT
*
47596096 AGGTTGGAA-ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAAAC
129 AGGTT-GAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGAC
* * *
47596144 TAAAGATTGTAGATCTTATCTCTCTAGGCAGTAGTGGAGCAGATCGAAAATGACAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGACAAATCTTATCT
* *
47596209 TCCAGAGGTAGCAGGGGAGCAGATTTTAGCTACCAGCCTTATTTCTCT
66 TCC-GAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCT
47596257 AAGTAGTGGA
Statistics
Matches: 570, Mismatches: 62, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
176 7 0.01
177 529 0.93
178 24 0.04
179 2 0.00
180 8 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (176 bp):
TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGACAAATCTTATCT
TCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAG
GTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGAC
Found at i:47595772 original size:44 final size:45
Alignment explanation
Indices: 47595724--47595810 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 45
47595714 CCTTTTCTCT
**
47595724 CTGAGGTAGCAAGGGAA-TAGGTTGAAGATTGTAG-TCTTATCTTC
1 CTGAGGTAGCAA-GGAAGTAGACTGAAGATTGTAGATCTTATCTTC
47595768 CTGAGGTAGCAAGGAAGTAGACTGAAGATTGTAGATCTTATCT
1 CTGAGGTAGCAAGGAAGTAGACTGAAGATTGTAGATCTTATCT
47595811 CCTTAAGCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
43 4 0.10
44 27 0.69
45 8 0.21
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (45 bp):
CTGAGGTAGCAAGGAAGTAGACTGAAGATTGTAGATCTTATCTTC
Found at i:47596288 original size:85 final size:85
Alignment explanation
Indices: 47595821--47596318 Score: 297
Period size: 89 Copynumber: 5.7 Consensus size: 85
47595811 CCTTAAGCAA
* * * * *
47595821 TAGTGGAGCAGATTGAAAATGGAAAATCTTATCTTCCGGAGGGAGCAGGGGAGCAGATTTTAGCT
1 TAGTGGAGCAGATCGAAAATGGCAAATCTTATCTTCCAGAGGTAGCAAGGGAGCAGATTTTAGCT
*
47595886 ACCAGCCTTATCTCTCTGAGG
66 ACCAGCCTTATCTCTCT-AAG
* * * * * * * * * * * *
47595907 TAGCAAGAGAGTAGGTTGAAGAT--TATATTCTTATCTTTCTGAGGTAGCAAGGAAGTAGA--CT
1 TAG--TG-GAGCAGATCGAAAATGGCA-AATCTTATCTTCCAGAGGTAGCAAGGGAGCAGATTTT
** * * * *
47595968 AGAAACTGTAGATCTTATCTCCCTAAACAC
62 AGCTAC--CAG-CCTTATCTCTCT--A-AG
* * *
47595998 TAGTGGAGTAGATCGAAAATGGCAAATCTTATCTTCCCGAGGTAGCAAGGGAGCAGATTTTAGCC
1 TAGTGGAGCAGATCGAAAATGGCAAATCTTATCTTCCAGAGGTAGCAAGGGAGCAGATTTTAGCT
47596063 ACCAGCCTTATCTCTCTGAAG
66 ACCAGCCTTATCTCTCT-AAG
* * * * * * * * * * * * **
47596084 TAGCAAGAGAGCAGGTTGGAAATTG-TAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAAACTAAA
1 TAG--TG-GAGCAGATCGAAAATGGCAAATCTTATCTTCCAGAGGTAGCAAGGGAGCAGATTTTA
* *** *
47596148 GATTGTAGATCTTATCTCTCTAGGCAG
63 GCTACCAG-CCTTATCTCTCTA---AG
* *
47596175 TAGTGGAGCAGATCGAAAATGACAAATCTTATCTTCCAGAGGTAGCAGGGGAGCAGATTTTAGCT
1 TAGTGGAGCAGATCGAAAATGGCAAATCTTATCTTCCAGAGGTAGCAAGGGAGCAGATTTTAGCT
*
47596240 ACCAGCCTTATTTCTCTAAG
66 ACCAGCCTTATCTCTCTAAG
* * * *
47596260 TAGTGGAGCAGATCGAACATGGCGAATCTTATCTTCCCA-AGGTAGTAGGGGAGCAGATT
1 TAGTGGAGCAGATCGAAAATGGCAAATCTTATCTT-CCAGAGGTAGCAAGGGAGCAGATT
47596319 GAAGCCACTA
Statistics
Matches: 304, Mismatches: 86, Indels: 45
0.70 0.20 0.10
Matches are distributed among these distances:
85 53 0.17
86 15 0.05
87 2 0.01
88 109 0.36
89 110 0.36
90 2 0.01
91 13 0.04
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (85 bp):
TAGTGGAGCAGATCGAAAATGGCAAATCTTATCTTCCAGAGGTAGCAAGGGAGCAGATTTTAGCT
ACCAGCCTTATCTCTCTAAG
Found at i:47596332 original size:85 final size:85
Alignment explanation
Indices: 47595998--47596333 Score: 246
Period size: 85 Copynumber: 3.9 Consensus size: 85
47595988 CCCTAAACAC
* * * * **
47595998 TAGTGGAGTAGATCGAAAATGGCAAATCTTATCTTCCCGAGGTAGCAAGGGAGCAGATTTTAGCC
1 TAGTGGAGCAGATCGAAAATGACAAATCTTATCTTCCAGAGGTAGCAGGGGAGCAGATTGAAGCC
*
47596063 ACCAGCCTTATCTCTCTGAAG
66 ACCAGCCTTATTTCTCT-AAG
* * * * * * * * * * * * *
47596084 TAGCAAGAGAGCAGGTTGGAAATTG--TAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAAACTAA
1 TAG--TG-GAGCA-GATCGAAAATGACAAATCTTATCTTCCAGAGGTAGCAGGGGAGCAGATTGA
***** * *
47596147 AGATTGTAGATCTTATCTCTCTAGGCAG
62 AGCCACCAG-CCTTATTTCTCTA---AG
** *
47596175 TAGTGGAGCAGATCGAAAATGACAAATCTTATCTTCCAGAGGTAGCAGGGGAGCAGATTTTAGCT
1 TAGTGGAGCAGATCGAAAATGACAAATCTTATCTTCCAGAGGTAGCAGGGGAGCAGATTGAAGCC
47596240 ACCAGCCTTATTTCTCTAAG
66 ACCAGCCTTATTTCTCTAAG
* * * *
47596260 TAGTGGAGCAGATCGAACATGGCGAATCTTATCTTCCCA-AGGTAGTAGGGGAGCAGATTGAAGC
1 TAGTGGAGCAGATCGAAAATGACAAATCTTATCTT-CCAGAGGTAGCAGGGGAGCAGATTGAAGC
*
47596324 CACTAGCCTT
65 CACCAGCCTT
47596334 GTTGAAATCA
Statistics
Matches: 191, Mismatches: 48, Indels: 23
0.73 0.18 0.09
Matches are distributed among these distances:
85 64 0.34
86 6 0.03
87 8 0.04
88 51 0.27
89 49 0.26
90 8 0.04
91 5 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (85 bp):
TAGTGGAGCAGATCGAAAATGACAAATCTTATCTTCCAGAGGTAGCAGGGGAGCAGATTGAAGCC
ACCAGCCTTATTTCTCTAAG
Found at i:47596608 original size:14 final size:14
Alignment explanation
Indices: 47596586--47596624 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
47596576 ATTATCCAAA
47596586 AATAAATAAATAAAT
1 AATAAATAAA-AAAT
*
47596601 TA-AAATAAAAAAT
1 AATAAATAAAAAAT
47596614 AATAAATAAAA
1 AATAAATAAAA
47596625 GTACATTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 5 0.24
14 15 0.71
15 1 0.05
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAAATAAAAAAT
Found at i:47602189 original size:56 final size:56
Alignment explanation
Indices: 47602098--47602220 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
47602088 GAGATTGGCG
* * *
47602098 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
47602155 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
47602210 CTGAGTGTGCG
1 CTAAGTGTGCG
47602221 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:47602207 original size:27 final size:28
Alignment explanation
Indices: 47602098--47602220 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
47602088 GAGATTGGCG
* * * *
47602098 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
47602127 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
47602155 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
47602183 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
47602210 CTGAGTGTGCG
1 CTAAGTGTGCG
47602221 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:47602231 original size:27 final size:27
Alignment explanation
Indices: 47602123--47602233 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
47602113 TAAATTGTAC
* * *
47602123 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
47602151 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
47602179 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
47602206 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
47602233 A
1 A
47602234 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:47604572 original size:49 final size:49
Alignment explanation
Indices: 47604500--47604673 Score: 240
Period size: 49 Copynumber: 3.5 Consensus size: 49
47604490 TGAGGTCACG
* * *
47604500 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATAATTGGCCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCA
** ***
47604549 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCGCA
* * *
47604599 TGTGTAGTACTAAGTGCAGGTTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCA
47604648 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
47604674 TGCGTACCAA
Statistics
Matches: 107, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 67 0.63
50 40 0.37
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCA
Found at i:47604663 original size:99 final size:99
Alignment explanation
Indices: 47604492--47604673 Score: 301
Period size: 99 Copynumber: 1.8 Consensus size: 99
47604482 ATCTATTGTG
* **
47604492 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATAATTGGCCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGTGTAGT
47604557 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
* * * *
47604591 AGGTCATGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGTGTAGT
47604656 ACTAAGTGCAGGCTACTA
66 ACTAAGTGCAGGCTACTA
47604674 TGCGTACCAA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 76 1.00
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (99 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGTGTAGT
ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
Found at i:47609041 original size:18 final size:17
Alignment explanation
Indices: 47608996--47609044 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
47608986 GCTCAGGCAA
47608996 ATGGGCCGTGTGGGCCAC
1 ATGGG-CGTGTGGGCCAC
* *
47609014 ACGGGTGTGTGGGCCCAC
1 ATGGGCGTGTGGG-CCAC
47609032 ATGGGCGTGTGGG
1 ATGGGCGTGTGGG
47609045 AATTTGGGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.10, C:0.22, G:0.49, T:0.18
Consensus pattern (17 bp):
ATGGGCGTGTGGGCCAC
Found at i:47609493 original size:40 final size:40
Alignment explanation
Indices: 47609438--47609554 Score: 191
Period size: 40 Copynumber: 2.9 Consensus size: 40
47609428 ACAGTAGCTT
47609438 TTGGTGTGTCGGGTTGGATGGGTTGATTATATCCCCATAC
1 TTGGTGTGTCGGGTTGGATGGGTTGATTATATCCCCATAC
47609478 TTGGTGTGTCGGGTTGGATGGGTTGATTATATCCCCATAC
1 TTGGTGTGTCGGGTTGGATGGGTTGATTATATCCCCATAC
* * *
47609518 TTGGTGTGTAGGGTTGGGTGGGTCGA-TACTATCCCCA
1 TTGGTGTGTCGGGTTGGATGGGTTGATTA-TATCCCCA
47609555 CATAGTTTTT
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
39 2 0.03
40 71 0.97
ACGTcount: A:0.15, C:0.15, G:0.34, T:0.36
Consensus pattern (40 bp):
TTGGTGTGTCGGGTTGGATGGGTTGATTATATCCCCATAC
Found at i:47618930 original size:49 final size:49
Alignment explanation
Indices: 47618800--47618932 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
47618790 GCACATCAAA
* * *
47618800 GTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAG
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAG
* * * * * *
47618849 GCCTATGTCGTGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCG-G
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAG
*
47618897 TGTCGATGCCATGCCCCAAACAGGTCTTACACTGAC
1 -GTCGATGCCATGTCCCAAACAGGTCTTACACTGAC
47618933 ACACAACAAG
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
48 1 0.01
49 67 0.99
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAG
Found at i:47619034 original size:46 final size:47
Alignment explanation
Indices: 47618960--47619089 Score: 156
Period size: 46 Copynumber: 2.8 Consensus size: 47
47618950 TTTATATTTT
* *
47618960 AAGGCCAATGCATGTCCCAGACATGTCTTACACTAGCTCT-T-GTCTC
1 AAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TATAATCTC
* * * *
47619006 AATGCCGATGCATGTCCCTGACATGTCTTACATTGGCTTATAATCTC
1 AAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATAATCTC
* * *
47619053 GAGGCTGATGTATGTCCCAGACATGTCTTACACTAGC
1 AAGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
47619090 ACACATATCA
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
45 1 0.01
46 34 0.49
47 34 0.49
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
AAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATAATCTC
Found at i:47620431 original size:12 final size:12
Alignment explanation
Indices: 47620414--47620443 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
47620404 CAGGCTGTTA
47620414 CACACGGCCTGT
1 CACACGGCCTGT
47620426 CACACGGCCTGT
1 CACACGGCCTGT
47620438 CACACG
1 CACACG
47620444 CCCGTGTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.20, C:0.43, G:0.23, T:0.13
Consensus pattern (12 bp):
CACACGGCCTGT
Found at i:47629073 original size:44 final size:44
Alignment explanation
Indices: 47629003--47629093 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
47628993 AACTCTGTTT
* * * *
47629003 TTAGTTTTCTACTTAAACTTTGATTAGTGTAGGTTACTTTAATA
1 TTAGTTTCCTACTTAAACTCTAATTAGTGTAAGTTACTTTAATA
* *
47629047 TTAGTTTCCTATTTAAACTCTAATTAGTGTAAGTTATTTTAATA
1 TTAGTTTCCTACTTAAACTCTAATTAGTGTAAGTTACTTTAATA
47629091 TTA
1 TTA
47629094 TTTGACCCAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.51
Consensus pattern (44 bp):
TTAGTTTCCTACTTAAACTCTAATTAGTGTAAGTTACTTTAATA
Found at i:47631193 original size:47 final size:46
Alignment explanation
Indices: 47631134--47631255 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 46
47631124 TGTGCTAGTT
*
47631134 TAAGACATGCCTGGGACATGCATCGGCCACAT-CATGAGAGCCAGTG
1 TAAGACATGCCTGGGACATGCATCGGCCA-ATACACGAGAGCCAGTG
* * * *
47631180 TAAGACCATGCCTGGGACATGGTATCGG-CATTGAGACGAGAGCTAGTG
1 TAAGA-CATGCCTGGGACAT-GCATCGGCCAAT-ACACGAGAGCCAGTG
*
47631228 TAAGACATGTCTGGGACATGCATCGGCC
1 TAAGACATGCCTGGGACATGCATCGGCC
47631256 TTGCGATGCA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
46 12 0.19
47 30 0.47
48 22 0.34
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (46 bp):
TAAGACATGCCTGGGACATGCATCGGCCAATACACGAGAGCCAGTG
Found at i:47631228 original size:48 final size:47
Alignment explanation
Indices: 47631127--47631538 Score: 174
Period size: 46 Copynumber: 8.7 Consensus size: 47
47631117 TTATTTGTGT
* * * * *
47631127 GCTAGTTTAAGACATGCCTGGGACAT-GCATCGGCCA--CATCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGG-CATTGA-GACGAGA
* * *
47631173 GCCAGTGTAAGACCATGCCTGGGACATGGTATCGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGACGAGA
* * *
47631221 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGCGATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACG-AGA
* * * * *
47631267 GCTAGTGTAAGACATGTTTGGGACAT-GCATCAGC-TATGAAATGTG-
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCAT-TGAGACGAGA
* * * * *
47631312 TC-AGAGTAAGACCATGTCTGGGACATGACATCTGCA-TGTATA-GAG-
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTG-AGACGAGA
* * * * * *
47631357 GTGTCAGTGTAAGACCATATTTGGGACATGGCATCGGCA-CGAATATGTGAGA
1 G-CT-AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTG-AGA--CGAGA
* * * * * ** *
47631409 GCTAGTGTAAGACCATGTCTAGGACATGACGTCGGCCTCGATTTCGATA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGA-GACGAGA
* * ** *
47631458 G-TGGGTGAAACCCATGTCTGGGACATGGCATC-GCCTTGATG--GATGA
1 GCT-AGTGTAAGACATGTCTGGGACATGGCATCGGCATTGA-GACGA-GA
47631504 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGG
47631539 TATTATACCC
Statistics
Matches: 284, Mismatches: 57, Indels: 48
0.73 0.15 0.12
Matches are distributed among these distances:
44 8 0.03
45 21 0.07
46 76 0.27
47 58 0.20
48 74 0.26
49 10 0.04
50 29 0.10
51 7 0.02
52 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACGAGA
Found at i:47631270 original size:46 final size:46
Alignment explanation
Indices: 47631127--47631297 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
47631117 TTATTTGTGT
* *
47631127 GCTAGTTTAAGACATGCCTGGGACATGCATCGGCCACAT-C-ATGAGA
1 GCTAGTGTAAGACATGCCTGGGACATGCATCGG-C-CTTGCGATGAGA
* * * * *
47631173 GCCAGTGTAAGACCATGCCTGGGACATGGTATCGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGCCTGGGACAT-GCATCGGCCTTGCGATGAGA
*
47631221 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGCGATGCA-A
1 GCTAGTGTAAGACATGCCTGGGACATGCATCGGCCTTGCGATG-AGA
**
47631267 GCTAGTGTAAGACATGTTTGGGACATGCATC
1 GCTAGTGTAAGACATGCCTGGGACATGCATC
47631298 AGCTATGAAA
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
46 55 0.52
47 29 0.27
48 22 0.21
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGCCTGGGACATGCATCGGCCTTGCGATGAGA
Done.