Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
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: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 50
Found at i:4422176 original size:19 final size:19
Alignment explanation
Indices: 4422149--4422193 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
4422139 TGAATAATTT
*
4422149 AATTGAATATATAAA-TTAA
1 AATTCAATATA-AAACTTAA
4422168 AATTCAATATAAAATCTTAA
1 AATTCAATATAAAA-CTTAA
4422188 AATTCA
1 AATTCA
4422194 TTAAAGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 10 0.43
20 10 0.43
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (19 bp):
AATTCAATATAAAACTTAA
Found at i:4424564 original size:20 final size:21
Alignment explanation
Indices: 4424539--4424577 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4424529 TGATTCTGAG
4424539 CATGAGAT-AAAACATGAGAT
1 CATGAGATGAAAACATGAGAT
*
4424559 CATGAGATGAAACCATGAG
1 CATGAGATGAAAACATGAG
4424578 TTAGACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.13, G:0.23, T:0.18
Consensus pattern (21 bp):
CATGAGATGAAAACATGAGAT
Found at i:4431958 original size:2 final size:2
Alignment explanation
Indices: 4431946--4432020 Score: 141
Period size: 2 Copynumber: 37.5 Consensus size: 2
4431936 TCTTTGAATT
*
4431946 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4431988 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4432021 TTGGTCAAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4441846 original size:22 final size:23
Alignment explanation
Indices: 4441821--4441874 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
4441811 ATGCTTAAAG
** *
4441821 AAAATAAAAGAAAAA-CGAAGGA
1 AAAATAAAAGAAAAATAAAAGAA
4441843 AAAAT-AAAGAAAAATAAAAGAA
1 AAAATAAAAGAAAAATAAAAGAA
4441865 AAAATAAAAG
1 AAAATAAAAG
4441875 GGGGGTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.33
22 14 0.52
23 4 0.15
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (23 bp):
AAAATAAAAGAAAAATAAAAGAA
Found at i:4441856 original size:11 final size:10
Alignment explanation
Indices: 4441816--4441872 Score: 53
Period size: 11 Copynumber: 5.4 Consensus size: 10
4441806 ATATTATGCT
4441816 TAAAG-AAAA
1 TAAAGAAAAA
4441825 TAAAAGAAAAA
1 T-AAAGAAAAA
* *
4441836 CGAAGGAAAAA
1 -TAAAGAAAAA
4441847 TAAAGAAAAA
1 TAAAGAAAAA
4441857 TAAAAGAAAAAA
1 T-AAAG-AAAAA
4441869 TAAA
1 TAAA
4441873 AGGGGGGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 1 0.03
10 13 0.33
11 19 0.49
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.09
Consensus pattern (10 bp):
TAAAGAAAAA
Found at i:4452552 original size:20 final size:21
Alignment explanation
Indices: 4452514--4452553 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4452504 CAAATGAGAA
*
4452514 TGATGTGGCAAAATGGAATGAC
1 TGATGTGG-AAAATAGAATGAC
4452536 TGATGTGG-AAATAGAATG
1 TGATGTGGAAAATAGAATG
4452554 GTGGTAGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.38, C:0.05, G:0.33, T:0.25
Consensus pattern (21 bp):
TGATGTGGAAAATAGAATGAC
Found at i:4454270 original size:14 final size:15
Alignment explanation
Indices: 4454251--4454288 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4454241 AATGAAGAAT
*
4454251 AAAAGAAAAA-TAAG
1 AAAAGAAAAAGAAAG
4454265 AAAAGAAAAAGAAAG
1 AAAAGAAAAAGAAAG
*
4454280 AAAATAAAA
1 AAAAGAAAA
4454289 GTGTAAACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (15 bp):
AAAAGAAAAAGAAAG
Found at i:4460405 original size:16 final size:18
Alignment explanation
Indices: 4460358--4460419 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 18
4460348 TGAAACCAAT
4460358 GTGTATGGATACACTACAGG
1 GTGTATGGATACACTA-A-G
**
4460378 GTGTATCAATACACT-A-
1 GTGTATGGATACACTAAG
4460394 GTGTATGGATACACTCATAG
1 GTGTATGGATACACT-A-AG
4460414 GTGTAT
1 GTGTAT
4460420 CAGTACTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 13 0.38
18 1 0.03
19 1 0.03
20 19 0.56
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (18 bp):
GTGTATGGATACACTAAG
Found at i:4460782 original size:21 final size:18
Alignment explanation
Indices: 4460753--4460811 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 18
4460743 ATGTTTAATG
4460753 AAAAAGATACAAATTGTTA
1 AAAAAGATAC-AATTGTTA
*
4460772 ACAAAAGGATATCAATTGTGA
1 A-AAAA-GATA-CAATTGTTA
4460793 AAAAAGATACCAATTGTTA
1 AAAAAGATA-CAATTGTTA
4460812 CCAATTGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 13 0.38
20 8 0.24
21 12 0.35
22 1 0.03
ACGTcount: A:0.53, C:0.08, G:0.14, T:0.25
Consensus pattern (18 bp):
AAAAAGATACAATTGTTA
Found at i:4464034 original size:16 final size:18
Alignment explanation
Indices: 4463985--4464055 Score: 56
Period size: 20 Copynumber: 3.8 Consensus size: 18
4463975 GAGCAGTCAT
*
4463985 AGGTGTATGGATACACCTAC
1 AGGTGTATGGATACA-C-GC
**
4464005 AGGGTGTACCGATACA-GC
1 A-GGTGTATGGATACACGC
4464023 A-GTGTATGGATACACTGC
1 AGGTGTATGGATACAC-GC
4464041 AGGGTGTATGGATAC
1 A-GGTGTATGGATAC
4464056 CCTTTGACAC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
16 11 0.27
18 5 0.12
20 13 0.32
21 12 0.29
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (18 bp):
AGGTGTATGGATACACGC
Found at i:4466534 original size:20 final size:20
Alignment explanation
Indices: 4466496--4466538 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4466486 CAAATGAGAA
*
4466496 TGATGTGGCAAAATGGAATGAC
1 TGATGTGG-AAAATAGAAT-AC
4466518 TGATGTGG-AAATAGAATAC
1 TGATGTGGAAAATAGAATAC
4466537 TG
1 TG
4466539 GTGATGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 8 0.40
22 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.30, T:0.26
Consensus pattern (20 bp):
TGATGTGGAAAATAGAATAC
Found at i:4468536 original size:14 final size:14
Alignment explanation
Indices: 4468517--4468582 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
4468507 ATGAAGAATT
4468517 AAAGAAAAATAAGA
1 AAAGAAAAATAAGA
*
4468531 AAAGAAAAAGAAAGA
1 AAAGAAAAA-TAAGA
* * *
4468546 AAACAGAAATGAGA
1 AAAGAAAAATAAGA
* *
4468560 AATGAGAAAAGAA-A
1 AAAGA-AAAATAAGA
4468574 AAAGAAAAA
1 AAAGAAAAA
4468583 GAAAGAATAA
Statistics
Matches: 39, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
13 4 0.10
14 20 0.51
15 15 0.38
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.05
Consensus pattern (14 bp):
AAAGAAAAATAAGA
Found at i:4471135 original size:36 final size:37
Alignment explanation
Indices: 4471074--4471144 Score: 126
Period size: 36 Copynumber: 1.9 Consensus size: 37
4471064 GTTGTCATAG
4471074 GTGTATGGATACACCTACAGGGTGTACCGATACACCA
1 GTGTATGGATACACCTACAGGGTGTACCGATACACCA
*
4471111 GTGTATGGATACA-CTACAGGGTGTACGGATACAC
1 GTGTATGGATACACCTACAGGGTGTACCGATACAC
4471145 TATAAGGTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 20 0.61
37 13 0.39
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (37 bp):
GTGTATGGATACACCTACAGGGTGTACCGATACACCA
Found at i:4471140 original size:20 final size:20
Alignment explanation
Indices: 4471073--4471165 Score: 104
Period size: 20 Copynumber: 4.8 Consensus size: 20
4471063 AGTTGTCATA
*
4471073 GGTGTATGGATACACCTACAG
1 GGTGTACGGATACA-CTACAG
*
4471094 GGTGTACCGATACAC--CA-
1 GGTGTACGGATACACTACAG
*
4471111 -GTGTATGGATACACTACAG
1 GGTGTACGGATACACTACAG
* *
4471130 GGTGTACGGATACACTATAA
1 GGTGTACGGATACACTACAG
4471150 GGTGTACGGATACACT
1 GGTGTACGGATACACT
4471166 GCATGGTTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
16 12 0.20
18 4 0.07
20 33 0.54
21 12 0.20
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (20 bp):
GGTGTACGGATACACTACAG
Found at i:4472676 original size:15 final size:15
Alignment explanation
Indices: 4472650--4472687 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4472640 AATTCCATTT
*
4472650 CTTTAA-TTTTAGTA
1 CTTTAATTTTTAGCA
4472664 CTTTAATTTTTAGCA
1 CTTTAATTTTTAGCA
*
4472679 TTTTAATTT
1 CTTTAATTT
4472688 CAACCCTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (15 bp):
CTTTAATTTTTAGCA
Found at i:4478690 original size:46 final size:46
Alignment explanation
Indices: 4478637--4479152 Score: 588
Period size: 46 Copynumber: 11.3 Consensus size: 46
4478627 CATTTTTAAA
* * * *
4478637 CATTTTCATTTATGCCATCCTTTCATGTCTTTAATGCCCCGTTATG
1 CATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATG
* * * * *
4478683 CATTTTCATTTATGACATCTTTTCATGCTTATAATTCACCCTTATG
1 CATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATG
* * * *
4478729 CATTTTCATTTTTGGCATTCTTTTATGCCTATAATGCACCATTATG
1 CATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATG
* * ** * *
4478775 CATTTTCATTTATAGAATTATTTCATGCCTATAATGCATCATTATG
1 CATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATG
* * * * * *
4478821 CATTTTTATTTATGGGATTCTTTCAAGCCTTTAATGCACCATTATG
1 CATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATG
* *
4478867 CATTTTCATTTATGGCATCCTTTCATACCAATAATGCACCGTTATG
1 CATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATG
* *
4478913 CATTTTCATTTATAGCATCGTTTCATGCC--T-ATGCACCGTTATG
1 CATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATG
* * *
4478956 CATTCTCATTTATGGAAACCTTTCATGCCTATAATGCACCGTTATG
1 CATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATG
* * * * ***
4479002 CATTTTCAATTATGGCATCCTTTAATTCCTTTAATGCACTACTATG
1 CATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATG
* * * *
4479048 CATTTTCATTTATGGTATCCTTTCATGCCTATAATTCACTGTTTTG
1 CATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATG
* * * *
4479094 CATTTTCATTTATGGAAACCTTTCATGCCTTTAATGCACTGTTATG
1 CATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATG
4479140 CATTTTCATTTAT
1 CATTTTCATTTAT
4479153 TCATTCATTT
Statistics
Matches: 398, Mismatches: 69, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
43 37 0.09
44 1 0.00
45 1 0.00
46 359 0.90
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.45
Consensus pattern (46 bp):
CATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATG
Found at i:4479690 original size:18 final size:18
Alignment explanation
Indices: 4479667--4479716 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
4479657 TACCTTTATC
4479667 TTAGTATCGATACTCACA
1 TTAGTATCGATACTCACA
*
4479685 TTAGTATCAATACTCACA
1 TTAGTATCGATACTCACA
4479703 TTAGTATCGATACT
1 TTAGTATCGATACT
4479717 AATTGCATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (18 bp):
TTAGTATCGATACTCACA
Found at i:4489005 original size:67 final size:67
Alignment explanation
Indices: 4488893--4489026 Score: 196
Period size: 67 Copynumber: 2.0 Consensus size: 67
4488883 GGTATGAAGA
** * *
4488893 CTCTGGCAGGTTCAGTCGCTGCTAGTAATTCCTTGTTTAGGTTCATCACCGATTGGTAATTCCTT
1 CTCTGGCAGGTTCAGTCGCTGCTAGTAATTCCTTGAATAGATTCATCACCAATTGGTAATTCCTT
4488958 AT
66 AT
* * * *
4488960 CTCTGGTAGGTTCAGTCGTTGCTGGTAATTCCTTGAATAGATTCATCACCAATTGGTAATTTCTT
1 CTCTGGCAGGTTCAGTCGCTGCTAGTAATTCCTTGAATAGATTCATCACCAATTGGTAATTCCTT
4489025 AT
66 AT
4489027 GGACCTAAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (67 bp):
CTCTGGCAGGTTCAGTCGCTGCTAGTAATTCCTTGAATAGATTCATCACCAATTGGTAATTCCTT
AT
Found at i:4490523 original size:3 final size:3
Alignment explanation
Indices: 4490515--4490574 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
4490505 AAACAAGTAC
4490515 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4490563 ATT ATT ATT ATT
1 ATT ATT ATT ATT
4490575 GGGCAGGCTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4496759 original size:16 final size:16
Alignment explanation
Indices: 4496738--4496768 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4496728 ATCCTACAAA
*
4496738 CAAAATTATTTGAACG
1 CAAAATTACTTGAACG
4496754 CAAAATTACTTGAAC
1 CAAAATTACTTGAAC
4496769 ATGGAGACCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (16 bp):
CAAAATTACTTGAACG
Found at i:4499194 original size:17 final size:17
Alignment explanation
Indices: 4499166--4499200 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4499156 ATGATACAAT
4499166 ATAAATAATATTA-AAA
1 ATAAATAATATTATAAA
4499182 ATAAATAAATATTATAAA
1 ATAAAT-AATATTATAAA
4499200 A
1 A
4499201 ACAATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 7 0.41
18 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAATAATATTATAAA
Found at i:4499574 original size:2 final size:2
Alignment explanation
Indices: 4499567--4499600 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4499557 TATTTATTTA
4499567 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4499601 GACATAACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4501387 original size:55 final size:54
Alignment explanation
Indices: 4501321--4501690 Score: 390
Period size: 55 Copynumber: 6.8 Consensus size: 54
4501311 ATATACAATA
* ** *
4501321 ATTCATCAACTCATAATGAATTACGTGGTTTTGCACACATAGTGCATGTACGACT
1 ATTCATCAACTCATGATGAATT-CGTGGAATTGCACACATAGTGCATGTACGATT
* * * *
4501376 ATTCACCAACTCATGATGAATTCTGTGGAATTGCA-ACATAGTGCCTATACGGTT
1 ATTCATCAACTCATGATGAATTC-GTGGAATTGCACACATAGTGCATGTACGATT
* * * * *
4501430 ATTCATCAACTCATGATCAATTCTGTGGAAGTGCATATATAGTGCATGTACGACT
1 ATTCATCAACTCATGATGAATTC-GTGGAATTGCACACATAGTGCATGTACGATT
*
4501485 ATTCATCAACTCATGATGAATTCCATGGAATTGCACACATAGTGCATGTAC-AGTT
1 ATTCATCAACTCATGATGAATT-CGTGGAATTGCACACATAGTGCATGTACGA-TT
* * * *
4501540 ATTCATCAACTCATGATCAATTTCGTGGAATTGCACACATAGTGCTTGTATGGTT
1 ATTCATCAACTCATGATGAA-TTCGTGGAATTGCACACATAGTGCATGTACGATT
* * * * *
4501595 ATTCATCAACTCATAATGAATTCTGTAGAATTGCTCACATAGTTCCTGTAC-AGTT
1 ATTCATCAACTCATGATGAATTC-GTGGAATTGCACACATAGTGCATGTACGA-TT
* *
4501650 ATTTATCAACT-ATTGATGAATTTCATGGAATTGCAC-CATAG
1 ATTCATCAACTCA-TGATGAA-TTCGTGGAATTGCACACATAG
4501691 CGCCTGTAGT
Statistics
Matches: 265, Mismatches: 40, Indels: 21
0.81 0.12 0.06
Matches are distributed among these distances:
54 58 0.22
55 201 0.76
56 6 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (54 bp):
ATTCATCAACTCATGATGAATTCGTGGAATTGCACACATAGTGCATGTACGATT
Found at i:4501598 original size:110 final size:110
Alignment explanation
Indices: 4501321--4501690 Score: 469
Period size: 110 Copynumber: 3.4 Consensus size: 110
4501311 ATATACAATA
* * * ** *
4501321 ATTCATCAACTCATAATGAATTACGTGGTTTTGCACACATAGTGCATGTACGACTATTCACCAAC
1 ATTCATCAACTCATGATCAATTTCGTGGAATTGCACACATAGTGCATGTACGACTATTCATCAAC
* *
4501386 TCATGATGAATTCTGTGGAATTGCA-ACATAGTGCCTATACGGTT
66 TCATGATGAATTCTGTGGAATTGCACACATAGTGCCTGTACAGTT
* * *
4501430 ATTCATCAACTCATGATCAA-TTCTGTGGAAGTGCATATATAGTGCATGTACGACTATTCATCAA
1 ATTCATCAACTCATGATCAATTTC-GTGGAATTGCACACATAGTGCATGTACGACTATTCATCAA
** *
4501494 CTCATGATGAATTCCATGGAATTGCACACATAGTGCATGTACAGTT
65 CTCATGATGAATTCTGTGGAATTGCACACATAGTGCCTGTACAGTT
* * **
4501540 ATTCATCAACTCATGATCAATTTCGTGGAATTGCACACATAGTGCTTGTATGGTTATTCATCAAC
1 ATTCATCAACTCATGATCAATTTCGTGGAATTGCACACATAGTGCATGTACGACTATTCATCAAC
* * * *
4501605 TCATAATGAATTCTGTAGAATTGCTCACATAGTTCCTGTACAGTT
66 TCATGATGAATTCTGTGGAATTGCACACATAGTGCCTGTACAGTT
* * *
4501650 ATTTATCAACT-ATTGATGAATTTCATGGAATTGCAC-CATAG
1 ATTCATCAACTCA-TGATCAATTTCGTGGAATTGCACACATAG
4501691 CGCCTGTAGT
Statistics
Matches: 226, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
108 2 0.01
109 82 0.36
110 139 0.62
111 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (110 bp):
ATTCATCAACTCATGATCAATTTCGTGGAATTGCACACATAGTGCATGTACGACTATTCATCAAC
TCATGATGAATTCTGTGGAATTGCACACATAGTGCCTGTACAGTT
Found at i:4501670 original size:165 final size:164
Alignment explanation
Indices: 4501321--4501690 Score: 455
Period size: 165 Copynumber: 2.3 Consensus size: 164
4501311 ATATACAATA
* * * **
4501321 ATTCATCAACTCATAATGAATTACGTGGTTTTGCACACATAGTGCATGTACGACTATTCACCAAC
1 ATTCATCAACTCATGATGAATTCCATGGAATTGCACACATAGTGCATGTACGACTATTCACCAAC
* *
4501386 TCATGATGAATTCTGTGGAATTGCAACATAGTGCCTATACGGTTATTCATCAACTCATGATCAAT
66 TCATGATCAATTCTGTGGAATTGCAACATAGTGCCTATACGGTTATTCATCAACTCATAATCAAT
* *
4501451 TCTGTGGAAGTGCATATATAGTGCATGTACGACT
131 TCTGTAGAAGTGCATACATAGTGCATGTACGACT
* *
4501485 ATTCATCAACTCATGATGAATTCCATGGAATTGCACACATAGTGCATGTAC-AGTTATTCATCAA
1 ATTCATCAACTCATGATGAATTCCATGGAATTGCACACATAGTGCATGTACGA-CTATTCACCAA
* * * *
4501549 CTCATGATCAATT-TCGTGGAATTGCACACATAGTGCTTGTATGGTTATTCATCAACTCATAATG
65 CTCATGATCAATTCT-GTGGAATTGCA-ACATAGTGCCTATACGGTTATTCATCAACTCATAATC
* * * *
4501613 AATTCTGTAGAATTGC-TCACATAGTTCCTGTAC-AGTT
128 AATTCTGTAGAAGTGCAT-ACATAGTGCATGTACGA-CT
* *
4501650 ATTTATCAACT-ATTGATGAATTTCATGGAATTGCAC-CATAG
1 ATTCATCAACTCA-TGATGAATTCCATGGAATTGCACACATAG
4501691 CGCCTGTAGT
Statistics
Matches: 179, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
163 2 0.01
164 86 0.48
165 91 0.51
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (164 bp):
ATTCATCAACTCATGATGAATTCCATGGAATTGCACACATAGTGCATGTACGACTATTCACCAAC
TCATGATCAATTCTGTGGAATTGCAACATAGTGCCTATACGGTTATTCATCAACTCATAATCAAT
TCTGTAGAAGTGCATACATAGTGCATGTACGACT
Found at i:4502160 original size:21 final size:20
Alignment explanation
Indices: 4502117--4502167 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
4502107 ATGTTGCCTA
* *
4502117 GTATCGATACCCTTACCATG
1 GTATCGATACACATACCATG
*
4502137 GTATCGATACTACATACTATG
1 GTATCGATAC-ACATACCATG
*
4502158 GTATTGATAC
1 GTATCGATAC
4502168 CTCATTCCGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (20 bp):
GTATCGATACACATACCATG
Found at i:4502167 original size:94 final size:94
Alignment explanation
Indices: 4502056--4502243 Score: 252
Period size: 94 Copynumber: 2.0 Consensus size: 94
4502046 CGATGCTTCT
* * ** * *
4502056 ATACTATGGTATCGATACCCCCTTCCGGCATCGGTACTGATTTTAGGTTCGATGTTGCCT-AGTA
1 ATACTATGGTATCGATACCCCATTCCGGCATCGATACCAATTTTAGATTCGACGTT-CCTCAGTA
4502120 TCGATACCCTTACCATGGTATCGATACTAC
65 TCGATACCCTTACCATGGTATCGATACTAC
* * * * * *
4502150 ATACTATGGTATTGATACCTCATTCCGGTATCGATGCCAATTTTAGATTCGGCGTTTCTCAGTAT
1 ATACTATGGTATCGATACCCCATTCCGGCATCGATACCAATTTTAGATTCGACGTTCCTCAGTAT
4502215 CGATACCCTTACCATGGTATCGATACTAC
66 CGATACCCTTACCATGGTATCGATACTAC
4502244 CTTGTTGATA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
93 2 0.02
94 79 0.98
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (94 bp):
ATACTATGGTATCGATACCCCATTCCGGCATCGATACCAATTTTAGATTCGACGTTCCTCAGTAT
CGATACCCTTACCATGGTATCGATACTAC
Found at i:4503848 original size:12 final size:12
Alignment explanation
Indices: 4503831--4503855 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4503821 CTCCAGAATT
4503831 TGAATAGCTCGC
1 TGAATAGCTCGC
4503843 TGAATAGCTCGC
1 TGAATAGCTCGC
4503855 T
1 T
4503856 CTAACTGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (12 bp):
TGAATAGCTCGC
Found at i:4508493 original size:55 final size:55
Alignment explanation
Indices: 4508262--4508493 Score: 320
Period size: 55 Copynumber: 4.2 Consensus size: 55
4508252 AAAGAATAAT
* * * * * **
4508262 TAGTGCATATACGGTCATTTATCAACTCATGATGAATTTCGTGGTTTTGCACACA
1 TAGTGCATGTATGGTTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
*
4508317 TAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
1 TAGTGCATGTATGGTTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
* * * * * *
4508372 TAGTTCCTATATGGTTATTCATCAACTCATGATCAATTCCGTGAAATTACACACA
1 TAGTGCATGTATGGTTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
* *
4508427 GAGTGTATGTATGGTTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
1 TAGTGCATGTATGGTTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
4508482 TAGTGCATGTAT
1 TAGTGCATGTAT
4508494 TACACTTAGT
Statistics
Matches: 154, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 154 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (55 bp):
TAGTGCATGTATGGTTATTCATCAACTCATGATGAATTCCGTGGAATTGCACACA
Found at i:4508963 original size:95 final size:95
Alignment explanation
Indices: 4508864--4509039 Score: 212
Period size: 95 Copynumber: 1.9 Consensus size: 95
4508854 TATGGTATCG
* * *
4508864 ATACCCCCTTCCGATATCGATACGGAATTTAGGTTCAATGTTGCGT-AGTATCGATA-CTCTTAC
1 ATACCCCCTTCCGATATCGATACCGAATTTAGATTCAATGTTGC-TCAATATCGATACCT-TTAC
*
4508927 CATGGTATTGATACTACCATACTATGGTACAA
64 CATGGTATCGATACTACCATACTATGGTACAA
* * * * * ** *
4508959 ATACCTCCTTCTGGTATCTATACCGATTTTAGATTTGATGTTTCTCAATATCGATACCTTTACCA
1 ATACCCCCTTCCGATATCGATACCGAATTTAGATTCAATGTTGCTCAATATCGATACCTTTACCA
4509024 TGGTATCGATACTACC
66 TGGTATCGATACTACC
4509040 TTGTTGATAT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
94 1 0.01
95 64 0.96
96 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (95 bp):
ATACCCCCTTCCGATATCGATACCGAATTTAGATTCAATGTTGCTCAATATCGATACCTTTACCA
TGGTATCGATACTACCATACTATGGTACAA
Found at i:4509965 original size:60 final size:60
Alignment explanation
Indices: 4509858--4509975 Score: 137
Period size: 60 Copynumber: 2.0 Consensus size: 60
4509848 TGGGATATTA
* * ** *
4509858 AATTCATCATTTTGTAACTTTTAATAGTCGAATGACTCAACAAAACAATGTCCTATAAGC
1 AATTCATCATTTTATAACTTTTAATAATCGAAAAACTCAACAAAACAATATCCTATAAGC
* * * * * *
4509918 AATTGATCCTTTTATAACTTTTAATAATTGAAAAACTTAATAAAACAATATCTTATAA
1 AATTCATCATTTTATAACTTTTAATAATCGAAAAACTCAACAAAACAATATCCTATAA
4509976 TCGATGATTG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.36
Consensus pattern (60 bp):
AATTCATCATTTTATAACTTTTAATAATCGAAAAACTCAACAAAACAATATCCTATAAGC
Found at i:4510772 original size:12 final size:12
Alignment explanation
Indices: 4510740--4510772 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4510730 TTTCATATAT
4510740 TTTAAAAT-ATA
1 TTTAAAATAATA
*
4510751 TTTAATATAATA
1 TTTAAAATAATA
4510763 TTTAAAATAA
1 TTTAAAATAA
4510773 AAATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TTTAAAATAATA
Found at i:4511564 original size:12 final size:12
Alignment explanation
Indices: 4511549--4511587 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
4511539 TTAGATTAGG
4511549 AATATGATTAAA
1 AATATGATTAAA
4511561 AATAT-ATTAAA
1 AATATGATTAAA
4511572 TAAT-TGATTAAA
1 -AATATGATTAAA
4511584 AATA
1 AATA
4511588 ATTATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (12 bp):
AATATGATTAAA
Found at i:4514542 original size:25 final size:23
Alignment explanation
Indices: 4514510--4514557 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
4514500 GAATTTTAAT
4514510 TTGATTATTATATTTTACTTAAGAA
1 TTGATTATTATA-TTTAC-TAAGAA
*
4514535 TTGATTATTTTATTTACTAAGAA
1 TTGATTATTATATTTACTAAGAA
4514558 CTCTTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 5 0.23
25 11 0.50
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (23 bp):
TTGATTATTATATTTACTAAGAA
Found at i:4514767 original size:13 final size:14
Alignment explanation
Indices: 4514744--4514772 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4514734 ATCTCCACTT
4514744 TTTTCATTATTTTC
1 TTTTCATTATTTTC
4514758 TTTT-ATTATTTTC
1 TTTTCATTATTTTC
4514771 TT
1 TT
4514773 ACCACAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCATTATTTTC
Found at i:4515407 original size:17 final size:18
Alignment explanation
Indices: 4515385--4515419 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4515375 CATTTTTCAT
*
4515385 TTATTTTTATT-ATTTTA
1 TTATTTTCATTAATTTTA
4515402 TTATTTTCATTAATTTTA
1 TTATTTTCATTAATTTTA
4515420 AACTCCCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTTTCATTAATTTTA
Found at i:4518292 original size:11 final size:10
Alignment explanation
Indices: 4518269--4518321 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 10
4518259 GAAGGTAACC
*
4518269 TATTTTTTGT
1 TATTTTTTTT
4518279 TATTTTTTCTT
1 TATTTTTT-TT
4518290 TATTTTATTTT
1 TATTTT-TTTT
**
4518301 TATTTTTGGT
1 TATTTTTTTT
4518311 TATTTGTTTTT
1 TATTT-TTTTT
4518322 CTTTCTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
10 15 0.43
11 18 0.51
12 2 0.06
ACGTcount: A:0.11, C:0.02, G:0.08, T:0.79
Consensus pattern (10 bp):
TATTTTTTTT
Found at i:4520038 original size:22 final size:22
Alignment explanation
Indices: 4520008--4520060 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
4519998 TATTCGGGTT
* *
4520008 GTATAGATACCCTCCCATAGGA
1 GTATCGATACCCTCCCATAAGA
*
4520030 GTATCGATA--CTCCGATAAGA
1 GTATCGATACCCTCCCATAAGA
*
4520050 GTATCTATACC
1 GTATCGATACC
4520061 GAATGTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 17 0.68
22 8 0.32
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (22 bp):
GTATCGATACCCTCCCATAAGA
Found at i:4523240 original size:18 final size:19
Alignment explanation
Indices: 4523202--4523241 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
4523192 GTGGAACGTA
*
4523202 AATCTATGCAAGTATATAT
1 AATCAATGCAAGTATATAT
4523221 AATCAATGCAAGTA-ATAT
1 AATCAATGCAAGTATATAT
4523239 AAT
1 AAT
4523242 AGTAAGTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (19 bp):
AATCAATGCAAGTATATAT
Found at i:4525477 original size:32 final size:32
Alignment explanation
Indices: 4525427--4525530 Score: 147
Period size: 32 Copynumber: 3.2 Consensus size: 32
4525417 AGGTCCTTAA
* *
4525427 GGACATATGGACATGATTACCTATGTCTTTCG
1 GGACATATAGACAGGATTACCTATGTCTTTCG
*
4525459 GGATATATAGACAGGATTACCTATGTCCTTT-G
1 GGACATATAGACAGGATTACCTATGT-CTTTCG
*
4525491 GGACATATAGACAGGATTACCTATGTCCTTCG
1 GGACATATAGACAGGATTACCTATGTCTTTCG
*
4525523 GAACATAT
1 GGACATAT
4525531 GGATAGGTCC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
31 3 0.05
32 57 0.89
33 4 0.06
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (32 bp):
GGACATATAGACAGGATTACCTATGTCTTTCG
Found at i:4528407 original size:26 final size:25
Alignment explanation
Indices: 4528377--4528426 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
4528367 ATTAAAGTTA
**
4528377 ATGAGTTTTTAAGTGAAATCTTGAAG
1 ATGAGTTGATAAGTGAAAT-TTGAAG
*
4528403 ATGAGTTGATAAGTTAAATTTGAA
1 ATGAGTTGATAAGTGAAATTTGAA
4528427 ACTAAATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (25 bp):
ATGAGTTGATAAGTGAAATTTGAAG
Found at i:4534043 original size:22 final size:22
Alignment explanation
Indices: 4534018--4534061 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4534008 CATTAAGGCC
* *
4534018 TTTGTTGAAGCCATGAAATCTT
1 TTTGTCGAAGCCATAAAATCTT
*
4534040 TTTGTCGAGGCCATAAAATCTT
1 TTTGTCGAAGCCATAAAATCTT
4534062 GCAATGAAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (22 bp):
TTTGTCGAAGCCATAAAATCTT
Found at i:4536770 original size:24 final size:24
Alignment explanation
Indices: 4536742--4536812 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
4536732 TCAATTTTTT
4536742 TAATGCATATGTTGCATTTTCGTA
1 TAATGCATATGTTGCATTTTCGTA
* *
4536766 TAATG-ATTATCGAT-CGATTTT-GTT
1 TAATGCA-TAT-GTTGC-ATTTTCGTA
* *
4536790 TAGTGCCTATGTTGCATTTTCGT
1 TAATGCATATGTTGCATTTTCGT
4536813 GTCAGTACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
23 8 0.22
24 21 0.58
25 7 0.19
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.48
Consensus pattern (24 bp):
TAATGCATATGTTGCATTTTCGTA
Found at i:4536779 original size:47 final size:48
Alignment explanation
Indices: 4536716--4536812 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
4536706 CATATTTTGT
* *
4536716 GTATGATGGTTATCGATCAATTTT-TTTAATGCATATGTTGCATTTTC
1 GTATAATGATTATCGATCAATTTTGTTTAATGCATATGTTGCATTTTC
* * *
4536763 GTATAATGATTATCGATCGATTTTGTTTAGTGCCTATGTTGCATTTTC
1 GTATAATGATTATCGATCAATTTTGTTTAATGCATATGTTGCATTTTC
4536811 GT
1 GT
4536813 GTCAGTACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 21 0.48
48 23 0.52
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.48
Consensus pattern (48 bp):
GTATAATGATTATCGATCAATTTTGTTTAATGCATATGTTGCATTTTC
Found at i:4536948 original size:54 final size:53
Alignment explanation
Indices: 4536857--4536982 Score: 135
Period size: 54 Copynumber: 2.4 Consensus size: 53
4536847 AAGCACACAT
* * * * *
4536857 AATTCATAATGAGTTTGTGAATTACCGTATCAACACTATGTGTACAACCTATGG
1 AATTCATAATGAGTTTATGAATGACCATATCAACACTATATCTACAACC-ATGG
* * ** * **
4536911 TATTCATAATGAGTTTATGAATGACCATTTCTGCACTATATCTGCATTCATGG
1 AATTCATAATGAGTTTATGAATGACCATATCAACACTATATCTACAACCATGG
4536964 AATTCATAATGAGTTTATG
1 AATTCATAATGAGTTTATG
4536983 GATTTCTATT
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
53 22 0.37
54 37 0.63
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (53 bp):
AATTCATAATGAGTTTATGAATGACCATATCAACACTATATCTACAACCATGG
Found at i:4540158 original size:32 final size:33
Alignment explanation
Indices: 4540057--4540163 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 33
4540047 TAGGTCCCGA
* * * *
4540057 AGAACCTAGGTAA-ACTGTCCATATG-CTTATT
1 AGAACATAGGTAATACTATCCATATGTCTCAAT
*
4540088 AGAACATAGGT-ATACTATCCATATGTCTCAAA
1 AGAACATAGGTAATACTATCCATATGTCTCAAT
* **
4540120 AG-ACATAGGTAATTCTATCCATATGT-TCCGT
1 AGAACATAGGTAATACTATCCATATGTCTCAAT
4540151 AGAACATAGGTAA
1 AGAACATAGGTAA
4540164 ACCCTTGACT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
30 1 0.02
31 33 0.52
32 29 0.46
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (33 bp):
AGAACATAGGTAATACTATCCATATGTCTCAAT
Found at i:4541533 original size:20 final size:20
Alignment explanation
Indices: 4541505--4541552 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
4541495 TTCCCATTAA
*
4541505 AGTGCATCGGTACATTCTAC
1 AGTGTATCGGTACATTCTAC
4541525 AGTGTATCGGTACATTCTAC
1 AGTGTATCGGTACATTCTAC
4541545 AGTGTATC
1 AGTGTATC
4541553 AATGTATCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (20 bp):
AGTGTATCGGTACATTCTAC
Found at i:4543101 original size:15 final size:15
Alignment explanation
Indices: 4543081--4543118 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
4543071 CCATTCGGTA
4543081 GCAGTAGATGGTTTT
1 GCAGTAGATGGTTTT
4543096 GCAGTAGATGGTTTT
1 GCAGTAGATGGTTTT
*
4543111 TCAGTAGA
1 GCAGTAGA
4543119 CACTAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.37
Consensus pattern (15 bp):
GCAGTAGATGGTTTT
Found at i:4548358 original size:24 final size:24
Alignment explanation
Indices: 4548331--4548383 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4548321 GAGTCGAGGG
4548331 TTCTATGCGGTCCA-TCGGGACAAA
1 TTCTATGCGGT-CATTCGGGACAAA
* *
4548355 TTCTATGTGGTCATTCGGGATAAA
1 TTCTATGCGGTCATTCGGGACAAA
4548379 TTCTA
1 TTCTA
4548384 AGCAGCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (24 bp):
TTCTATGCGGTCATTCGGGACAAA
Found at i:4549507 original size:13 final size:13
Alignment explanation
Indices: 4549489--4549527 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4549479 GTCATAAATC
*
4549489 TATGACGCGGATT
1 TATGACGCGCATT
* *
4549502 TATGACTCACATT
1 TATGACGCGCATT
4549515 TATGACGCGCATT
1 TATGACGCGCATT
4549528 GAGCGTCATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:4549604 original size:98 final size:99
Alignment explanation
Indices: 4549431--4549612 Score: 231
Period size: 98 Copynumber: 1.8 Consensus size: 99
4549421 ACACAAATTC
* * * * *
4549431 GCGTCATTGAAGTCACTGACATAAATATTAGATGACGCAAAATTGTGTGTCATAAATCTATGACG
1 GCGTCATTGAAGCCACCGACATAAATATAAGATGACACAAAATTGTGTGTCATAAATCTATGACA
* * *
4549496 CGGATTTATGACTCACATTTATGACGCGCATTGA
66 AGCATGTATGACTCACATTTATGACGCGCATTGA
* * * * *
4549530 GCGTCATTGAAGCCCCCGTCATAAAT-TAAGATGACACACATTTGTGTGTCATAAATTTATGACA
1 GCGTCATTGAAGCCACCGACATAAATATAAGATGACACAAAATTGTGTGTCATAAATCTATGACA
*
4549594 AGCATGTATGACTTACATT
66 AGCATGTATGACTCACATT
4549613 GCATGTCATT
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
98 47 0.68
99 22 0.32
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (99 bp):
GCGTCATTGAAGCCACCGACATAAATATAAGATGACACAAAATTGTGTGTCATAAATCTATGACA
AGCATGTATGACTCACATTTATGACGCGCATTGA
Found at i:4558513 original size:2 final size:2
Alignment explanation
Indices: 4558506--4558556 Score: 75
Period size: 2 Copynumber: 25.0 Consensus size: 2
4558496 TTTCTATGAG
*
4558506 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
4558549 TA AA TA TA
1 TA TA TA TA
4558557 CAAATTATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4559076 original size:19 final size:19
Alignment explanation
Indices: 4559052--4559088 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4559042 ACGCTGGGCT
*
4559052 AATTAAATAAATGGATATA
1 AATTAAACAAATGGATATA
*
4559071 AATTAAACAAATTGATAT
1 AATTAAACAAATGGATAT
4559089 GGATTGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (19 bp):
AATTAAACAAATGGATATA
Found at i:4567879 original size:23 final size:23
Alignment explanation
Indices: 4567853--4567897 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4567843 CACCACAGCT
*
4567853 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
4567876 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
4567898 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:4568656 original size:39 final size:42
Alignment explanation
Indices: 4568613--4568696 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 42
4568603 TGGCCTGACC
* *
4568613 TATTTAA-TAAAAAGGCCAGG-TCAGGCCTTTTTAAAAG-CT
1 TATTTAATTAAAAAGGCCAGGCTCAGGCCTATTAAAAAGCCT
* *
4568652 TATTTAATTAAACAGGCCAGGCTTAGGCCTATTAAAAAGCCT
1 TATTTAATTAAAAAGGCCAGGCTCAGGCCTATTAAAAAGCCT
4568694 TAT
1 TAT
4568697 ATGCCTGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 7 0.18
40 12 0.32
41 14 0.37
42 5 0.13
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (42 bp):
TATTTAATTAAAAAGGCCAGGCTCAGGCCTATTAAAAAGCCT
Found at i:4568847 original size:17 final size:17
Alignment explanation
Indices: 4568825--4568857 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4568815 TGTTAAACAG
4568825 GCTTTTAAACAGGCCAA
1 GCTTTTAAACAGGCCAA
4568842 GCTTTTAAACAGGCCA
1 GCTTTTAAACAGGCCA
4568858 GGCCAGGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (17 bp):
GCTTTTAAACAGGCCAA
Found at i:4572353 original size:8 final size:8
Alignment explanation
Indices: 4572327--4572373 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
4572317 TTTCTCATCA
4572327 ATTTT-TT
1 ATTTTATT
4572334 ATTTTTATTT
1 A-TTTTA-TT
4572344 ATTTTATT
1 ATTTTATT
4572352 ATTTTATT
1 ATTTTATT
*
4572360 ACTTTCATT
1 A-TTTTATT
4572369 ATTTT
1 ATTTT
4572374 TAAACCCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 1 0.03
8 18 0.53
9 12 0.35
10 3 0.09
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTATT
Found at i:4572356 original size:17 final size:16
Alignment explanation
Indices: 4572327--4572373 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
4572317 TTTCTCATCA
4572327 ATTTT-TTATTTTTATTT
1 ATTTTATTA-TTTTA-TT
4572344 ATTTTATTATTTTATT
1 ATTTTATTATTTTATT
*
4572360 ACTTTCATTATTTT
1 A-TTTTATTATTTT
4572374 TAAACCCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 3 0.11
17 21 0.78
18 3 0.11
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTATTATTTTATT
Found at i:4573132 original size:29 final size:29
Alignment explanation
Indices: 4573089--4573170 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
4573079 TAGAAAGGGT
**
4573089 CTTTCTATGCCGTGTTATTTAGCAGAGGC
1 CTTTCTATGTTGTGTTATTTAGCAGAGGC
4573118 CTTTCTATGTTGTGTTATTTAGCAGAGGC
1 CTTTCTATGTTGTGTTATTTAGCAGAGGC
4573147 CTTTCTATGTTGTGTTATTTAGCA
1 CTTTCTATGTTGTGTTATTTAGCA
4573171 TAGGACCTCG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (29 bp):
CTTTCTATGTTGTGTTATTTAGCAGAGGC
Found at i:4575366 original size:2 final size:2
Alignment explanation
Indices: 4575359--4575404 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
4575349 TATGACACTC
4575359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4575401 AT AT
1 AT AT
4575405 TAAAAAATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4589273 original size:18 final size:18
Alignment explanation
Indices: 4589250--4589298 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
4589240 CCTTTATATC
4589250 TAGAATAGGCACAAGTCT
1 TAGAATAGGCACAAGTCT
4589268 TAGAATAGGCACAAGTCT
1 TAGAATAGGCACAAGTCT
*
4589286 TAGAATAGTCACA
1 TAGAATAGGCACA
4589299 CTTGTATAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (18 bp):
TAGAATAGGCACAAGTCT
Found at i:4590660 original size:33 final size:33
Alignment explanation
Indices: 4590618--4590680 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
4590608 TTTTGATCCG
4590618 AAATTTATGTTAAAAGCTATAAAGTGTTAATAT
1 AAATTTATGTTAAAAGCTATAAAGTGTTAATAT
*
4590651 AAATTTATGTTAAAAGTTATAAAGTGTTAA
1 AAATTTATGTTAAAAGCTATAAAGTGTTAA
4590681 AGTCCGGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.46, C:0.02, G:0.13, T:0.40
Consensus pattern (33 bp):
AAATTTATGTTAAAAGCTATAAAGTGTTAATAT
Found at i:4594568 original size:21 final size:21
Alignment explanation
Indices: 4594544--4594600 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
4594534 TTTTCGTAAG
4594544 AGTACTTTGTGTACTTGAAGT
1 AGTACTTTGTGTACTTGAAGT
*
4594565 AGTACTTTGTGTACTTGTAGT
1 AGTACTTTGTGTACTTGAAGT
4594586 AGTACTTTGTGTACT
1 AGTACTTTGTGTACT
4594601 ATAGCACTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.46
Consensus pattern (21 bp):
AGTACTTTGTGTACTTGAAGT
Found at i:4601931 original size:30 final size:30
Alignment explanation
Indices: 4601860--4602010 Score: 124
Period size: 30 Copynumber: 4.9 Consensus size: 30
4601850 TACCATATAC
* * *
4601860 ACTAAGTGTCCTTACACACCATAATGTTGC
1 ACTAAGTGTCCTTACACACTATAATGCTGT
* * * *
4601890 ACTGAGCGTCCTTACACACTACAATGGTGT
1 ACTAAGTGTCCTTACACACTATAATGCTGT
* *
4601920 ACTAAGTGTCC-TACACACTATAGTACTGT
1 ACTAAGTGTCCTTACACACTATAATGCTGT
* * * *
4601949 ACTAAGTTTCCTTACATACTATAGTGCCATACGC
1 ACTAAGTGTCCTTACACACTATAATG-C-T--GT
* *
4601983 ACTAAGTGTCCTTACACAATATAGTGCT
1 ACTAAGTGTCCTTACACACTATAATGCT
4602011 AATTCGATTA
Statistics
Matches: 97, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
29 24 0.25
30 45 0.46
31 1 0.01
32 2 0.02
33 1 0.01
34 24 0.25
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (30 bp):
ACTAAGTGTCCTTACACACTATAATGCTGT
Found at i:4606197 original size:76 final size:73
Alignment explanation
Indices: 4606119--4606351 Score: 251
Period size: 78 Copynumber: 3.1 Consensus size: 73
4606109 TTTATATATA
***
4606119 TATATATATATTATAGTTTGTAAAGGGTTTTAGAAAATACGTATATAATATATAG-TTTTAAAA-
1 TATATA-ATA-TATAGTTT-TAAAAAATTTTAGAAAATA--TATATAATATATAGTTTTTAAAAT
4606182 CATTTTGAAAA-T
61 CATTTTGAAAACT
* * * *
4606194 ATATACAATATATAGTTTTTAAAACATTTT-GGAAATATATATAATAGATAGTTTTTAAAATCAT
1 -TATATAATATATAG-TTTTAAAAAATTTTAGAAAATATATATAATATATAGTTTTTAAAATCA-
4606258 TTTTTTGAAAACT
63 --TTTTGAAAACT
4606271 TATATAATATATAGTTTTAAAAAAAATTTTA-AAACATATATATAATATATAGTTTTTAAAATCA
1 TATATAATATATAGTTTT--AAAAAATTTTAGAAA-ATATATATAATATATAGTTTTTAAAATCA
4606335 TTTTGAAAACT
63 TTTTGAAAACT
4606346 TATATA
1 TATATA
4606352 GTTTTTAAAA
Statistics
Matches: 136, Mismatches: 10, Indels: 23
0.80 0.06 0.14
Matches are distributed among these distances:
71 13 0.10
72 8 0.06
73 8 0.06
74 13 0.10
75 27 0.20
76 27 0.20
77 12 0.09
78 28 0.21
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (73 bp):
TATATAATATATAGTTTTAAAAAATTTTAGAAAATATATATAATATATAGTTTTTAAAATCATTT
TGAAAACT
Found at i:4606221 original size:36 final size:36
Alignment explanation
Indices: 4606116--4606351 Score: 235
Period size: 36 Copynumber: 6.2 Consensus size: 36
4606106 TTTTTTATAT
* ***
4606116 ATATATATATATATTATAGTTTGTAAAGGGTTTTAGAAA
1 ATATATATA-ATA-TATAGTTTTTAAAACATTTT-GAAA
4606155 ATACGTATATAATATATAG-TTTTAAAACATTTTGAAA
1 ATA--TATATAATATATAGTTTTTAAAACATTTTGAAA
* *
4606192 ATATATACAATATATAGTTTTTAAAACATTTTGGAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
*
4606228 ATATATATAATAGATAGTTTTTAAAATCATTTTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAA-CA---TTTTGAAA
* * *
4606268 ACT-TATATAATATATAGTTTTAAAAAAAATTTTAAAA
1 A-TATATATAATATATAGTTTT-TAAAACATTTTGAAA
4606305 CATATATATAATATATAGTTTTTAAAATCATTTTGAAA
1 -ATATATATAATATATAGTTTTTAAAA-CATTTTGAAA
4606343 ACT-TATATA
1 A-TATATATA
4606352 GTTTTTAAAA
Statistics
Matches: 168, Mismatches: 16, Indels: 28
0.79 0.08 0.13
Matches are distributed among these distances:
35 13 0.08
36 41 0.24
37 28 0.17
38 38 0.23
39 8 0.05
40 29 0.17
41 11 0.07
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:4606370 original size:12 final size:12
Alignment explanation
Indices: 4606353--4606397 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
4606343 ACTTATATAG
4606353 TTTTTAAAAATA
1 TTTTTAAAAATA
4606365 TTTTTAGAAAATA
1 TTTTTA-AAAATA
** *
4606378 TTTTTGGAAACA
1 TTTTTAAAAATA
4606390 TTTTTAAA
1 TTTTTAAA
4606398 TATGTATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (12 bp):
TTTTTAAAAATA
Found at i:4606394 original size:13 final size:13
Alignment explanation
Indices: 4606353--4606387 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
4606343 ACTTATATAG
4606353 TTTTTA-AAAATA
1 TTTTTAGAAAATA
4606365 TTTTTAGAAAATA
1 TTTTTAGAAAATA
*
4606378 TTTTTGGAAA
1 TTTTTAGAAA
4606388 CATTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (13 bp):
TTTTTAGAAAATA
Found at i:4607513 original size:2 final size:2
Alignment explanation
Indices: 4607506--4607552 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
4607496 GACCCATTAT
4607506 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4607548 TA TA T
1 TA TA T
4607553 TTTTATTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4607647 original size:6 final size:6
Alignment explanation
Indices: 4607638--4607772 Score: 52
Period size: 6 Copynumber: 22.7 Consensus size: 6
4607628 CTTACACTTA
* * *
4607638 TTTTAT TTTTAT TTTATTT ATTTTAT TATT-T TTTTAGT TTTTAT TTCT-T
1 TTTTAT TTTTAT TTT-TAT -TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT
* * * * * *
4607687 TTTT-C TTTTA- ATTCAT TTTTGA- TATTAT TATTAT ATTT-T TTTT-T
1 TTTTAT TTTTAT TTTTAT TTTT-AT TTTTAT TTTTAT TTTTAT TTTTAT
* *
4607731 TTTTAT TTTTGTT TTTTGCCT TTTTAT TTTT-T TTTTAT TTTT
1 TTTTAT TTTT-AT TTTT--AT TTTTAT TTTTAT TTTTAT TTTT
4607773 CTATCTAACA
Statistics
Matches: 98, Mismatches: 19, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
5 30 0.31
6 44 0.45
7 16 0.16
8 8 0.08
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:4607651 original size:11 final size:11
Alignment explanation
Indices: 4607635--4607772 Score: 65
Period size: 11 Copynumber: 12.2 Consensus size: 11
4607625 ATCCTTACAC
4607635 TTATTTTATTT
1 TTATTTTATTT
4607646 TTATTTTA--T
1 TTATTTTATTT
4607655 TTATTTTATTAT
1 TTATTTTATT-T
4607667 TT-TTTTAGTTT
1 TTATTTTA-TTT
*
4607678 TTATTTCTTTTT
1 TTATTT-TATTT
*
4607690 TCTTTTAATTCATTT
1 T-TATT--TT-ATTT
*
4607705 TTGATATTATTAT
1 TT-ATTTTATT-T
4607718 TATATTTT-TTT
1 T-TATTTTATTT
4607729 TT-TTTTATTT
1 TTATTTTATTT
* *
4607739 TTGTTTT-TTGC
1 TTATTTTATT-T
*
4607750 CT-TTTTATTT
1 TTATTTTATTT
*
4607760 TTTTTTTATTT
1 TTATTTTATTT
4607771 TT
1 TT
4607773 CTATCTAACA
Statistics
Matches: 99, Mismatches: 10, Indels: 36
0.68 0.07 0.25
Matches are distributed among these distances:
9 13 0.13
10 13 0.13
11 35 0.35
12 17 0.17
13 12 0.12
14 3 0.03
15 6 0.06
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.78
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:4607760 original size:5 final size:5
Alignment explanation
Indices: 4607635--4607739 Score: 54
Period size: 5 Copynumber: 20.4 Consensus size: 5
4607625 ATCCTTACAC
*
4607635 TTATT TTATTT TTATT TTA-T TTATT TTATT ATTTTT TTAGTTT TTATT
1 TTATT TTA-TT TTATT TTATT TTATT TTATT -TTATT TTA--TT TTATT
* * * * * * * *
4607683 TCTTTT TTCTT TTAAT TCATT TT-TG ATATT ATTATT ATATT TT-TT TTTTT
1 T-TATT TTATT TTATT TTATT TTATT TTATT -TTATT TTATT TTATT TTATT
4607733 TTATT TT
1 TTATT TT
4607740 TGTTTTTTGC
Statistics
Matches: 75, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
4 10 0.13
5 43 0.57
6 17 0.23
7 5 0.07
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:4607765 original size:59 final size:54
Alignment explanation
Indices: 4607638--4607770 Score: 126
Period size: 55 Copynumber: 2.3 Consensus size: 54
4607628 CTTACACTTA
4607638 TTTTATTTTTATTTTATTTATTTTATTATTTTTTTAGTTTTTATTTCTTTTTTCT
1 TTTTATTTTT-TTTTATTTATTTTATTATTTTTTTAGTTTTTATTTCTTTTTTCT
* * * * *
4607693 TTTAATTCATTTTTGATATTATTATTA-TATTTTTTT-TTTTTTATTTTTGTTTTTTGCCT
1 TTTTATT-TTTTTTTAT-TTATT-TTATTATTTTTTTAGTTTTTA--TTTCTTTTTT--CT
4607752 TTTTATTTTTTTTTTATTT
1 TTTTA-TTTTTTTTTATTT
4607771 TTCTATCTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
55 17 0.27
56 16 0.26
57 12 0.19
58 2 0.03
59 13 0.21
60 2 0.03
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.78
Consensus pattern (54 bp):
TTTTATTTTTTTTTATTTATTTTATTATTTTTTTAGTTTTTATTTCTTTTTTCT
Found at i:4609026 original size:18 final size:18
Alignment explanation
Indices: 4608965--4609018 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
4608955 GAGATGAAAA
4608965 GCTCAGAAGTCCAGCTAT
1 GCTCAGAAGTCCAGCTAT
4608983 GCTCAGAAGTCCAGCTAT
1 GCTCAGAAGTCCAGCTAT
*
4609001 GCTCAGAAGTCCAACTAT
1 GCTCAGAAGTCCAGCTAT
4609019 TGTCAGAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (18 bp):
GCTCAGAAGTCCAGCTAT
Found at i:4610604 original size:95 final size:95
Alignment explanation
Indices: 4610431--4610673 Score: 310
Period size: 95 Copynumber: 2.5 Consensus size: 95
4610421 ATATTATAAT
* * **
4610431 ATTATATATATACAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACACCCTGACTTTA
1 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCAACTTTA
* *
4610496 TTGATAAGGTTCAGCTAGCCCGATAAAGG-TG
65 TGGATAAGATTCAGCTAGCCCGAT-AAGGATG
4610527 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCAACTTTAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCAACTTTAT
* *
4610592 GGATAATATTCAGCTAGCCTGATAAGGATG
66 GGATAAGATTCAGCTAGCCCGATAAGGATG
* * * * * *
4610622 ATTATAATAT-CTACAACGATATAGAGTTGTCCTTCTAGAGTAATTGGTTAAA
1 ATTATAATATACAATAAAGCT-T-GAGTTGTCCCTCTAGAGCAATTGGTTAAA
4610674 TGCCCCGGCT
Statistics
Matches: 130, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
94 10 0.08
95 87 0.67
96 33 0.25
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCAACTTTAT
GGATAAGATTCAGCTAGCCCGATAAGGATG
Found at i:4611750 original size:84 final size:84
Alignment explanation
Indices: 4611598--4613242 Score: 2060
Period size: 84 Copynumber: 19.6 Consensus size: 84
4611588 CTAGTACAGA
* * * ** * * * * * * *
4611598 ATAACTCAAGCCGATAAGGGTTATCTATCAAC-CAAGACCATCGAGTTTGATTACACTGAGCTCA
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* *
4611662 AAGGCATATCATTTGCAAC
66 AAGGCACATCATTTGCAGC
* * * *
4611681 ATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTCCGAGTTCGACTACGCTCAACTCC
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
4611746 AAGGCACATCATTTGCAGC
66 AAGGCACATCATTTGCAGC
* * *
4611765 ATAACTCAAGGCTAGAAGGGTTATCTGCCAGCAAAAGACCTTCGAGTTCGACTACACTCAGCTCC
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
4611830 AAGGCACATCATTTGCAAC
66 AAGGCACATCATTTGCAGC
* * * * * *
4611849 ATAGCTCAACGCAAGAAGGGCTATTTGACAACAAAAGAACTTCGAGTTCGACTACGCTCAGCTCC
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
**
4611914 AAGGCACATCATTTATAGC
66 AAGGCACATCATTTGCAGC
* * *
4611933 ATAACTCAAGGCTAGAAGGGTTATATGCCAACAAAATACCTTCGAGTTCGACTACGCTCAGCTCC
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
4611998 AAGGCACATTATTTGCAGC
66 AAGGCACATCATTTGCAGC
* *
4612017 ATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTTGACTACGCTCAGCTCC
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
4612082 AAGGCACATCATTTGCAAC
66 AAGGCACATCATTTGCAGC
* * * * * *
4612101 ATAGCTCAAGGCAAGAAAGGCTATTTGCCAACAAAATACCTTCGAGTTCGACTGCGCTCAGCTCC
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* * *
4612166 AAGACACATCATTTACAAC
66 AAGGCACATCATTTGCAGC
* * *
4612185 ATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCAACTACGCTCAGCTCC
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
4612250 AAGGCACATTCATTTGTAGC
66 AAGGCACA-TCATTTGCAGC
* * * * * * *
4612270 ATAACTCAAGGCTAGAAGGGGTATATGCCAACAAAAGACCTTTGAGTTCGACTGCGCTCTGCTCT
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
4612335 AAGGCACAACATTTGCAGC
66 AAGGCACATCATTTGCAGC
** * * ** * * *
4612354 ATAACTCAAGGTGATAAGGGTTATATGCCAACAAAAGATTTTCAAGTTCGACTATGTTCAGCTCC
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* *
4612419 AAGGAACATCATTTGTAGC
66 AAGGCACATCATTTGCAGC
* *
4612438 ATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCTGCTCC
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* *
4612503 AAGGCACATCATTTCCAAC
66 AAGGCACATCATTTGCAGC
* * * * *
4612522 ATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTTGACTATGCTCAGCTCC
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
4612587 AAGGCACATGATTTGCAGC
66 AAGGCACATCATTTGCAGC
* * * *
4612606 ATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAATACCTTCGAGTTTGACTATGCTCAGCTCC
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
4612671 AAGGCACATCATTTGCAAC
66 AAGGCACATCATTTGCAGC
* * * *
4612690 ATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCACC
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
4612755 AAGGCACATCATTTGCAGT
66 AAGGCACATCATTTGCAGC
* * * ** *
4612774 ATAACTCAAGGCTAGAAGGGTTATCTGCCAATAAAAGACCTTCGAGTTCGATTAAACTCAGCTCA
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* * * *
4612839 AAGACACAACATTTGTATC
66 AAGGCACATCATTTGCAGC
* * *
4612858 ATAGCTCAAGG-AGAAAAGGGTTATCTGCCAACAAAAGACCATCGAGTTCGACTACGCTCAGCTC
1 ATAACTCAAGGCA-AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
*
4612922 CAAGGCACATCATTTGTAGC
65 CAAGGCACATCATTTGCAGC
* *
4612942 ATAACTCAAGGCTAA-AAGGGTTATCTGCCAATAAAAGACCTTCGAGTTCGACTACACTCAGCTC
1 ATAACTCAAGGC-AAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* *
4613006 CAAGACACATCATTTGCAAC
65 CAAGGCACATCATTTGCAGC
* * * * * * * *
4613026 TTAGCTC-AGGGAAGGAAGGGTTATTTGCCAACGAAAGACCTTCAAGTTCGATTACACTCAGCTC
1 ATAACTCAAGGCAA-GAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
* **
4613090 CAAGGCACATCATTTGTATT
65 CAAGGCACATCATTTGCAGC
* * * * *
4613110 ATAACTCGAGG-ATAGAAGGGTCATCTGCCAACAAAAGACCTTCGAGTTTGATTACACTCAGCTC
1 ATAACTCAAGGCA-AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
4613174 CAAGGCACATCATTTGCAGC
65 CAAGGCACATCATTTGCAGC
* * * *
4613194 ATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCAAGTTCG
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCG
4613243 GTTACATTCA
Statistics
Matches: 1348, Mismatches: 204, Indels: 20
0.86 0.13 0.01
Matches are distributed among these distances:
82 2 0.00
83 43 0.03
84 1225 0.91
85 77 0.06
86 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (84 bp):
ATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
AAGGCACATCATTTGCAGC
Found at i:4613359 original size:85 final size:85
Alignment explanation
Indices: 4612778--4613429 Score: 238
Period size: 84 Copynumber: 7.7 Consensus size: 85
4612768 TGCAGTATAA
* ** * * * * *
4612778 CTCAAGGCTAGAAGGGTTATCTGCCAATAAAAGACCTTCGAGTTCGATTAAACTCAGCTCAAA-G
1 CTCAAGGCGAGAAGGGTTATCTATCAA-CAAAGACCTTCAAGTTCAATTACATTCAGCTCAAAGG
* * * * *
4612842 -ACA-CAACATTTGTATCATAG
65 CATATCAA-ATTTATAGCTTAT
* * ** * * * * ** *
4612862 CTCAAGGAGAAAAGGGTTATCTGCCAACAAAAGACCATCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCGAGAAGGGTTATCTATCAAC-AAAGACCTTCAAGTTCAATTACATTCAGCTCAAAGG
* * * *
4612927 CACATC--ATTTGTAGCATAA
65 CATATCAAATTTATAGCTTAT
* * ** * * * * * * *
4612946 CTCAAGGCTAAAAGGGTTATCTGCCAATAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGA
1 CTCAAGGCGAGAAGGGTTATCTATCAA-CAAAGACCTTCAAGTTCAATTACATTCAGCTCAAAGG
* ** * *
4613011 CACATC--ATTTGCAACTTAG
65 CATATCAAATTTATAGCTTAT
* ** * * *
4613030 CTC-AGG-GAAGGAAGGGTTATTTGCCAACGAAAGACCTTCAAGTTCGATTACACTCAGCTCCAA
1 CTCAAGGCG-A-GAAGGGTTATCTATCAAC-AAAGACCTTCAAGTTCAATTACATTCAGCTCAAA
* *
4613093 GGCACATC--ATTTGTA--TTAT
63 GGCATATCAAATTTATAGCTTAT
* ** * ** * ** * *
4613112 AACTCGAGGATAGAAGGGTCATCTGCCAACAAAAGACCTTCGAGTTTGATTACACTCAGCTCCAA
1 --CTCAAGGCGAGAAGGGTTATCTATCAAC-AAAGACCTTCAAGTTCAATTACATTCAGCTCAAA
* ** * *
4613177 GGCACATC--ATTTGCAGCATAG
63 GGCATATCAAATTTATAGCTTAT
* ** **
4613198 CTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCAAGTTCGGTTACATTCAGCTCAAAGTT
1 CTCAAGGCGAGAAGGGTTATCTATCAACAAAGACCTTCAAGTTCAATTACATTCAGCTCAAAGGC
4613263 ATATCAAATTTATAGCTTAT
66 ATATCAAATTTATAGCTTAT
* * * * *
4613283 CTCAAGGCGAGAA-GGTCTATCTATCATCAAATACCTTCGAGTTCAATTCCATTCAGCTCAAGGG
1 CTCAAGGCGAGAAGGGT-TATCTATCAACAAAGACCTTCAAGTTCAATTACATTCAGCTCAAAGG
* * * * * * *
4613347 CATGTTAGATTTACATCATAG
65 CATATCAAATTTATAGCTTAT
* * ** * * * * *
4613368 CTTAAGTCGAGAAAAGCTATCTATCAACAAAAAACTGTCAAGTTCGATTACATTCAACTCAA
1 CTCAAGGCGAGAAGGGTTATCTATCAACAAAGACCT-TCAAGTTCAATTACATTCAGCTCAA
4613430 TGACACATCC
Statistics
Matches: 465, Mismatches: 84, Indels: 36
0.79 0.14 0.06
Matches are distributed among these distances:
82 3 0.01
83 38 0.08
84 291 0.63
85 105 0.23
86 27 0.06
87 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (85 bp):
CTCAAGGCGAGAAGGGTTATCTATCAACAAAGACCTTCAAGTTCAATTACATTCAGCTCAAAGGC
ATATCAAATTTATAGCTTAT
Found at i:4615313 original size:84 final size:84
Alignment explanation
Indices: 4615208--4616555 Score: 1655
Period size: 84 Copynumber: 16.1 Consensus size: 84
4615198 GTTTTCATTC
* * *
4615208 CCAACAAAAGACCTTCAAGTTCGACTACACTCAGCTCCAAGGCACATTATTTGCAGCATAACTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
* * *
4615273 AGGCTAGAAGAGATATCTA
66 AGGCTAGAAGGGTTATCTG
* * * *
4615292 CCAAAAAAAGACCTTCGAGTTCGACTACGCTCAGTTCCAAGGCACATCATTTGCAACATAGCTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
* * * * * *
4615357 AGGCAATAAGTGCTATTTT
66 AGGCTAGAAGGGTTATCTG
* * *
4615376 CCAAAAAAAGACCTTCGAGTTTGACTACGCTCAACTCCAAGGCACATCATTTGCAGCATAACTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
* *
4615441 AGGCTAAAAAGGTTATCTG
66 AGGCTAGAAGGGTTATCTG
* * * *
4615460 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATAATTTGCAACATAGCTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
* * * *
4615525 AGGCAATAAGCGTTATTTG
66 AGGCTAGAAGGGTTATCTG
* * *
4615544 CCAACAAAAGACCTTCAAGTTCGACTACACTCAGCTCCAAGGCACATTATTTGCAGCATAACTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
* *
4615609 AGGCTAAAAGGGTTACCTG
66 AGGCTAGAAGGGTTATCTG
* * * * * * * * * *
4615628 CGAACAAAAGACCTCCGAGTTCGATTACACTCAACTCAAAGGCACAACATTTACAGTATAGCTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
* *
4615693 AGGCGAAAAGGGTTATCTG
66 AGGCTAGAAGGGTTATCTG
* * *
4615712 CCAATAAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
*
4615777 AGGCTAGAAGGGTTATCTA
66 AGGCTAGAAGGGTTATCTG
** * * * * *
4615796 TTAAGAAAAGACCTTCGAGTTTGACTACACTCAGCTTCAAGGCACATCATTTGCAGCATAACTTA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
*
4615861 AGGCTAGAAGGGTTATCTC
66 AGGCTAGAAGGGTTATCTG
* * *
4615880 CCAACAAAAGACCTTCGAGTTCTACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
* *
4615945 AGGCTAGAAGGGCTATTTG
66 AGGCTAGAAGGGTTATCTG
4615964 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
*
4616029 AGGCTAGAAGGGTTATCTA
66 AGGCTAGAAGGGTTATCTG
** * * * *
4616048 CCAACAAAAGACCTTCGAGTTTAACTATGTTCAACTCCAAGGCACATCATTTGCAACATAACTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
4616113 AGGCTAGAA-GG-TATCTG
66 AGGCTAGAAGGGTTATCTG
* * * *
4616130 CCAACAAAAGACCTTCGAGTTCGACTATGTTCAGCTCCAAGGCATATCATTTACAGCATAACTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
4616195 AGGCTAGAA-GG-TATCTAG
66 AGGCTAGAAGGGTTATCT-G
*
4616213 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
*
4616278 AGGCTAGAAGGGTTACCTG
66 AGGCTAGAAGGGTTATCTG
* * * * * ** * ** * *
4616297 TCAAC-AAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGAAACATCTTTTATAGCGTAACTTA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
* * ** *
4616361 AGTCGAGAAAAGCTATCTG
66 AGGCTAGAAGGGTTATCTG
* * * ** * *
4616380 TC-ACCAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCATTTGCAGCATAACTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
*
4616444 AGGCTAAAAGGGTTATCTG
66 AGGCTAGAAGGGTTATCTG
* * * * * * *
4616463 CCAACAAAAGACCTGCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACTGCATAGCTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
* *
4616528 AGGCAAGAAGGGCTATCTG
66 AGGCTAGAAGGGTTATCTG
4616547 CCAACAAAA
1 CCAACAAAA
4616556 TTTTCGAGTT
Statistics
Matches: 1094, Mismatches: 165, Indels: 10
0.86 0.13 0.01
Matches are distributed among these distances:
82 82 0.07
83 201 0.18
84 807 0.74
85 4 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (84 bp):
CCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCA
AGGCTAGAAGGGTTATCTG
Found at i:4616909 original size:6 final size:6
Alignment explanation
Indices: 4616895--4617891 Score: 414
Period size: 6 Copynumber: 166.7 Consensus size: 6
4616885 TATTTTATTT
* * * * * *
4616895 TATACA TATATA TATACA TATATA TGTATA TGTATA TGTATA TGTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
4616943 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
4616991 TGTATA TGTATA TGTATA TGATGTA TATGTA TATGTA TATATA TGTATA
1 TATATA TATATA TATATA T-ATATA TATATA TATATA TATATA TATATA
* * * * * * * * *
4617040 TGTATG TATATG TATATG TATATG TATATG TATGTA TATGTA TATGTA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
4617088 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
4617136 TGTATA TGTATA TGTATA TGTAT- TATATG TATATG TATATG TATATG
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
4617183 TATATG TATGTA TATGTA TATGTA TAGTATG TATATG TATATG TATATG
1 TATATA TATATA TATATA TATATA TA-TATA TATATA TATATA TATATA
* * * * * * *
4617232 TATATG TATATG TATGTA TATGTA TAGTATA TGTATA TGTATA GTATATG
1 TATATA TATATA TATATA TATATA TA-TATA TATATA TATATA -TATATA
* * * * * * * *
4617282 TATATG TATATG TAT-TG TATGTA TATGTA TATGTA TATGTA TATGTA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
4617329 -ATGTA TATGTA TATGTA TATGTA TGTATA TGTATA TGTATA TGTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
4617376 TGTATA TGTATA TGTATA TATATG TATATG TATATG TATATG TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
4617424 TATGTA TAGTATA TGTATA TGTA-A TGTATG TATATA TATGTA TATGTA
1 TATATA TA-TATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
4617472 -ATGTA TATGTA TATGTA -ATGTA TATGTA TATGTA TATGTA TAGTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TA-TATA
* * * * * * * * *
4617519 TGTATA TGTATA TGTATG TATATG TA-ATG TATATG TATATG TATATG
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
4617566 TATAGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TAGTATG
1 TATA-TA TATATA TATATA TATATA TATATA TATATA TATATA TA-TATA
* * * * * * * *
4617616 TATATG TATGTA TATGTA TATGTA TATGTA T-TGTA TATGTA TATGTA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
4617663 TATGTA TATGTA TATGTA TGTATA TGTATA TATGTA TATGTA TATGTA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * *
4617711 TATGTA TATGTA TATGTA TATGTA TATGT- TATGTA TATGTA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * * *
4617758 TGTATA TGTAT- TGTATG TATGTA TATGTA TGTATA TGTATA TGTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * * * *
4617805 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * *
4617853 TGTATA TGTATA TGTATA TGTATA TGTATA TATAT- TATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATA
4617892 GTTTGCAAAG
Statistics
Matches: 913, Mismatches: 60, Indels: 37
0.90 0.06 0.04
Matches are distributed among these distances:
5 53 0.06
6 828 0.91
7 32 0.04
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (6 bp):
TATATA
Found at i:4616924 original size:18 final size:18
Alignment explanation
Indices: 4616915--4617883 Score: 1483
Period size: 18 Copynumber: 56.6 Consensus size: 18
4616905 TATATACATA
4616915 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4616933 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4616951 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4616969 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4616987 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617005 TATATG---ATGTATATG
1 TATATGTATATGTATATG
4617020 TATATGTATA--TATATG
1 TATATGTATATGTATATG
4617036 TATATG--TATGTATATG
1 TATATGTATATGTATATG
4617052 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617070 --TATGTATATGTATATG
1 TATATGTATATGTATATG
4617086 --TATGTATATGTATATG
1 TATATGTATATGTATATG
4617102 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617120 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617138 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617156 --TAT-TATATGTATATG
1 TATATGTATATGTATATG
4617171 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617189 --TATGTATATGTATATG
1 TATATGTATATGTATATG
4617205 TATA-G--TATGTATATG
1 TATATGTATATGTATATG
4617220 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617238 TATATG--TATGTATATG
1 TATATGTATATGTATATG
4617254 TATA-GTATATGTATATG
1 TATATGTATATGTATATG
4617271 TATA-GTATATGTATATG
1 TATATGTATATGTATATG
4617288 TATATGTAT-TG--TATG
1 TATATGTATATGTATATG
4617303 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617321 TATATGTA-ATGTATATG
1 TATATGTATATGTATATG
4617338 TATATGTATATG--TATG
1 TATATGTATATGTATATG
4617354 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617372 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617390 TATA--TATATGTATATG
1 TATATGTATATGTATATG
4617406 TATATGTATATGTATA--
1 TATATGTATATGTATATG
4617422 TATATGTATA-GTATATG
1 TATATGTATATGTATATG
*
4617439 TATATGTA-ATGTATGTATA
1 TATATGTATATGTA--TATG
4617458 TATATGTATATGTA-ATG
1 TATATGTATATGTATATG
4617475 TATATGTATATGTA-ATG
1 TATATGTATATGTATATG
4617492 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617510 TATA-GTATATGTATATG
1 TATATGTATATGTATATG
4617527 TATATG--TATGTATATG
1 TATATGTATATGTATATG
4617543 TA-ATGTATATGTATATG
1 TATATGTATATGTATATG
4617560 TATATGTATA-GTATATG
1 TATATGTATATGTATATG
4617577 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617595 TATATGTATATGTATA-G
1 TATATGTATATGTATATG
4617612 --TATGTATATG--TATG
1 TATATGTATATGTATATG
4617626 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617644 TAT-TGTATATGTATATG
1 TATATGTATATGTATATG
4617661 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617679 --TATGTATATGTATATATG
1 TATATGTATATG--TATATG
4617697 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617715 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617733 TATATGT-TATGTATATG
1 TATATGTATATGTATATG
4617750 TATA--TATATGTATATG
1 TATATGTATATGTATATG
4617766 TAT-TGTATGTATGTATATG
1 TATATGTA--TATGTATATG
4617785 --TATGTATATGTATATG
1 TATATGTATATGTATATG
4617801 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617819 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617837 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617855 TATATGTATATGTATATG
1 TATATGTATATGTATATG
4617873 TATATGTATAT
1 TATATGTATAT
4617884 ATATTATAGT
Statistics
Matches: 891, Mismatches: 2, Indels: 116
0.88 0.00 0.11
Matches are distributed among these distances:
13 2 0.00
14 3 0.00
15 74 0.08
16 190 0.21
17 179 0.20
18 407 0.46
19 21 0.02
20 15 0.02
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (18 bp):
TATATGTATATGTATATG
Found at i:4616930 original size:12 final size:12
Alignment explanation
Indices: 4616915--4617883 Score: 1483
Period size: 12 Copynumber: 84.9 Consensus size: 12
4616905 TATATACATA
4616915 TATATGTATATG
1 TATATGTATATG
4616927 TATATGTATATG
1 TATATGTATATG
4616939 TATATGTATATG
1 TATATGTATATG
4616951 TATATGTATATG
1 TATATGTATATG
4616963 TATATGTATATG
1 TATATGTATATG
4616975 TATATGTATATG
1 TATATGTATATG
4616987 TATATGTATATG
1 TATATGTATATG
4616999 TATATGTATATG
1 TATATGTATATG
4617011 ---ATGTATATG
1 TATATGTATATG
4617020 TATATGTATA--
1 TATATGTATATG
4617030 TATATGTATATG
1 TATATGTATATG
4617042 --TATGTATATG
1 TATATGTATATG
4617052 TATATGTATATG
1 TATATGTATATG
4617064 TATATG--TATG
1 TATATGTATATG
4617074 TATATGTATATG
1 TATATGTATATG
4617086 --TATGTATATG
1 TATATGTATATG
4617096 TATATGTATATG
1 TATATGTATATG
4617108 TATATGTATATG
1 TATATGTATATG
4617120 TATATGTATATG
1 TATATGTATATG
4617132 TATATGTATATG
1 TATATGTATATG
4617144 TATATGTATATG
1 TATATGTATATG
4617156 --TAT-TATATG
1 TATATGTATATG
4617165 TATATGTATATG
1 TATATGTATATG
4617177 TATATGTATATG
1 TATATGTATATG
4617189 --TATGTATATG
1 TATATGTATATG
4617199 TATATGTATA-G
1 TATATGTATATG
4617210 --TATGTATATG
1 TATATGTATATG
4617220 TATATGTATATG
1 TATATGTATATG
4617232 TATATGTATATG
1 TATATGTATATG
4617244 --TATGTATATG
1 TATATGTATATG
4617254 TATA-GTATATG
1 TATATGTATATG
4617265 TATATGTATA-G
1 TATATGTATATG
4617276 TATATGTATATG
1 TATATGTATATG
4617288 TATATGTAT-TG
1 TATATGTATATG
4617299 --TATGTATATG
1 TATATGTATATG
4617309 TATATGTATATG
1 TATATGTATATG
4617321 TATATGTA-ATG
1 TATATGTATATG
4617332 TATATGTATATG
1 TATATGTATATG
4617344 TATATG--TATG
1 TATATGTATATG
4617354 TATATGTATATG
1 TATATGTATATG
4617366 TATATGTATATG
1 TATATGTATATG
4617378 TATATGTATATG
1 TATATGTATATG
4617390 TATA--TATATG
1 TATATGTATATG
4617400 TATATGTATATG
1 TATATGTATATG
4617412 TATATGTATA--
1 TATATGTATATG
4617422 TATATGTATA-G
1 TATATGTATATG
4617433 TATATGTATATG
1 TATATGTATATG
*
4617445 TA-ATGTATGTATA
1 TATATGTA--TATG
4617458 TATATGTATATG
1 TATATGTATATG
4617470 TA-ATGTATATG
1 TATATGTATATG
4617481 TATATGTA-ATG
1 TATATGTATATG
4617492 TATATGTATATG
1 TATATGTATATG
4617504 TATATGTATA-G
1 TATATGTATATG
4617515 TATATGTATATG
1 TATATGTATATG
4617527 TATATG--TATG
1 TATATGTATATG
4617537 TATATGTA-ATG
1 TATATGTATATG
4617548 TATATGTATATG
1 TATATGTATATG
4617560 TATATGTATA-G
1 TATATGTATATG
4617571 TATATGTATATG
1 TATATGTATATG
4617583 TATATGTATATG
1 TATATGTATATG
4617595 TATATGTATATG
1 TATATGTATATG
4617607 TATA-G--TATG
1 TATATGTATATG
4617616 TATATG--TATG
1 TATATGTATATG
4617626 TATATGTATATG
1 TATATGTATATG
4617638 TATATGTAT-TG
1 TATATGTATATG
4617649 TATATGTATATG
1 TATATGTATATG
4617661 TATATGTATATG
1 TATATGTATATG
4617673 TATATG--TATG
1 TATATGTATATG
4617683 TATATGTATATATG
1 TATATG--TATATG
4617697 TATATGTATATG
1 TATATGTATATG
4617709 TATATGTATATG
1 TATATGTATATG
4617721 TATATGTATATG
1 TATATGTATATG
4617733 TATATGT-TATG
1 TATATGTATATG
4617744 TATATGTATA--
1 TATATGTATATG
4617754 TATATGTATATG
1 TATATGTATATG
4617766 TAT-TGTATGTATG
1 TATATGTA--TATG
4617779 TATATG--TATG
1 TATATGTATATG
4617789 TATATGTATATG
1 TATATGTATATG
4617801 TATATGTATATG
1 TATATGTATATG
4617813 TATATGTATATG
1 TATATGTATATG
4617825 TATATGTATATG
1 TATATGTATATG
4617837 TATATGTATATG
1 TATATGTATATG
4617849 TATATGTATATG
1 TATATGTATATG
4617861 TATATGTATATG
1 TATATGTATATG
4617873 TATATGTATAT
1 TATATGTATAT
4617884 ATATTATAGT
Statistics
Matches: 896, Mismatches: 2, Indels: 118
0.88 0.00 0.12
Matches are distributed among these distances:
9 38 0.04
10 147 0.16
11 136 0.15
12 546 0.61
13 12 0.01
14 17 0.02
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (12 bp):
TATATGTATATG
Found at i:4617946 original size:37 final size:37
Alignment explanation
Indices: 4617905--4618049 Score: 172
Period size: 37 Copynumber: 3.9 Consensus size: 37
4617895 TGCAAAGGGT
4617905 TTTTGAAAATACATATATAATATATAGTTTTAAAACA
1 TTTTGAAAATACATATATAATATATAGTTTTAAAACA
*
4617942 TTTTGGAAAT--ATATATAATATATAGTTTTAAAAACA
1 TTTTGAAAATACATATATAATATATAGTTTT-AAAACA
* * * * *
4617978 TTTTAAAAACAAATATATAATATATAATTTTTATAATCA
1 TTTTGAAAATACATATATAATATAT-AGTTTTA-AAACA
*
4618017 TTTT-AAAA-ACTTATATAATATATAGTTTTAAAA
1 TTTTGAAAATACATATATAATATATAGTTTTAAAA
4618050 ACATATATAA
Statistics
Matches: 93, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
35 21 0.23
36 19 0.20
37 22 0.24
38 18 0.19
39 13 0.14
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (37 bp):
TTTTGAAAATACATATATAATATATAGTTTTAAAACA
Found at i:4617956 original size:35 final size:35
Alignment explanation
Indices: 4617917--4618049 Score: 160
Period size: 35 Copynumber: 3.7 Consensus size: 35
4617907 TTGAAAATAC
**
4617917 ATATATAATATATAGTTTTAAAACATTTTGGAAAT
1 ATATATAATATATAGTTTTAAAACATTTTAAAAAT
*
4617952 ATATATAATATATAGTTTTAAAAACATTTTAAAAACAA
1 ATATATAATATATAGTTTT-AAAACATTTT-AAAA-AT
* *
4617990 ATATATAATATATAATTTTTATAATCATTTTAAAAACT
1 ATATATAATATAT-AGTTTTA-AAACATTTTAAAAA-T
4618028 -TATATAATATATAGTTTTAAAA
1 ATATATAATATATAGTTTTAAAA
4618050 ACATATATAA
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
35 21 0.25
36 16 0.19
37 15 0.18
38 19 0.23
39 13 0.15
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (35 bp):
ATATATAATATATAGTTTTAAAACATTTTAAAAAT
Found at i:4618021 original size:39 final size:37
Alignment explanation
Indices: 4617905--4618053 Score: 153
Period size: 36 Copynumber: 4.0 Consensus size: 37
4617895 TGCAAAGGGT
*
4617905 TTTTGAAAATACATATATAATATAT-AGTTTT-AAAACA
1 TTTT-AAAA-ACATATATAATATATAATTTTTAAAAACA
** * *
4617942 TTTTGGAAATATATATAATATAT-AGTTTTAAAAACA
1 TTTTAAAAACATATATAATATATAATTTTTAAAAACA
* *
4617978 TTTTAAAAACAAATATATAATATATAATTTTTATAATCA
1 TTTTAAAAAC--ATATATAATATATAATTTTTAAAAACA
* *
4618017 TTTTAAAAACTTATATAATATAT-AGTTTTAAAAACA
1 TTTTAAAAACATATATAATATATAATTTTTAAAAACA
4618053 T
1 T
4618054 ATATAATATA
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
35 20 0.21
36 26 0.27
37 16 0.17
38 13 0.14
39 20 0.21
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (37 bp):
TTTTAAAAACATATATAATATATAATTTTTAAAAACA
Found at i:4618062 original size:23 final size:25
Alignment explanation
Indices: 4618017--4618075 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
4618007 TTTATAATCA
*
4618017 TTTTAAAAACTTATATAATATATAG
1 TTTTAAAAACATATATAATATATAG
4618042 TTTTAAAAACATATATAATATATAG
1 TTTTAAAAACATATATAATATATAG
4618067 TTTTAAAAA
1 TTTTAAAAA
4618076 TATTTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (25 bp):
TTTTAAAAACATATATAATATATAG
Found at i:4618103 original size:30 final size:29
Alignment explanation
Indices: 4618058--4618151 Score: 109
Period size: 30 Copynumber: 3.2 Consensus size: 29
4618048 AAACATATAT
*
4618058 AATATATAGTTTTAAAAATATTTT-AAAA
1 AATATATAGTTTTTAAAATATTTTGAAAA
*
4618086 ACATATATAGTTTTTAAAATCATTTTGACAA
1 A-ATATATAGTTTTTAAAAT-ATTTTGAAAA
* * *
4618117 ATTATATAGTTTTTTAAAATATTTTTAGAA
1 AATATATAG-TTTTTAAAATATTTTGAAAA
4618147 AATAT
1 AATAT
4618152 TTTTCAAAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.02
29 17 0.30
30 24 0.43
31 14 0.25
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (29 bp):
AATATATAGTTTTTAAAATATTTTGAAAA
Found at i:4618237 original size:15 final size:12
Alignment explanation
Indices: 4618208--4618267 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
4618198 ATATAATATA
4618208 TATTTTTTTTAT
1 TATTTTTTTTAT
4618220 TATTTGTTTTTAT
1 TATTT-TTTTTAT
4618233 T-TTATTTTTTAT
1 TATT-TTTTTTAT
**
4618245 T-CGTTTTTTATT
1 TATTTTTTTTA-T
4618257 TATTTTATTTT
1 TATTTT-TTTT
4618268 TTTCAAGTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 7 0.18
12 17 0.44
13 11 0.28
14 4 0.10
ACGTcount: A:0.15, C:0.02, G:0.03, T:0.80
Consensus pattern (12 bp):
TATTTTTTTTAT
Found at i:4618244 original size:22 final size:23
Alignment explanation
Indices: 4618208--4618265 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 23
4618198 ATATAATATA
*
4618208 TATTTT-TTTTATTATTTGTTTT
1 TATTTTATTTTATTATTCGTTTT
4618230 TATTTTATTTT-TTATTCGTTTT
1 TATTTTATTTTATTATTCGTTTT
4618252 T-TATTTATTTTATT
1 TAT-TTTATTTTATT
4618266 TTTTTCAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 1 0.03
22 25 0.78
23 6 0.19
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (23 bp):
TATTTTATTTTATTATTCGTTTT
Found at i:4618258 original size:27 final size:25
Alignment explanation
Indices: 4618212--4618269 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 25
4618202 AATATATATT
4618212 TTTTTTATTATTTGTTTTTATTTTA
1 TTTTTTATTATTTGTTTTTATTTTA
* *
4618237 TTTTTTATTCGTTTTTTATTTATTTTA
1 TTTTTTATT-ATTTGTT-TTTATTTTA
4618264 TTTTTT
1 TTTTTT
4618270 TCAAGTCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 9 0.31
26 5 0.17
27 15 0.52
ACGTcount: A:0.14, C:0.02, G:0.03, T:0.81
Consensus pattern (25 bp):
TTTTTTATTATTTGTTTTTATTTTA
Found at i:4618269 original size:18 final size:17
Alignment explanation
Indices: 4618208--4618270 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 17
4618198 ATATAATATA
4618208 TATTTTTTTTATTATTT
1 TATTTTTTTTATTATTT
4618225 GT-TTTTATTTTATT-TTT
1 -TATTTT-TTTTATTATTT
4618242 TATTCGTTTTTTATTTATTT
1 TATT--TTTTTTA-TTATTT
4618262 TATTTTTTT
1 TATTTTTTT
4618271 CAAGTCCAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 1 0.03
17 9 0.23
18 18 0.46
19 4 0.10
20 7 0.18
ACGTcount: A:0.14, C:0.02, G:0.03, T:0.81
Consensus pattern (17 bp):
TATTTTTTTTATTATTT
Found at i:4619337 original size:2 final size:2
Alignment explanation
Indices: 4619332--4619363 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4619322 AATGCTTTAC
4619332 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4619364 TATTCTTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4619384 original size:22 final size:22
Alignment explanation
Indices: 4619357--4619403 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
4619347 TATATATATA
*
4619357 TATATATTATTCTTACTCTTATTT
1 TATAT-TTATT-TTACTATTATTT
*
4619381 TATATTTATTTTATTATTATTT
1 TATATTTATTTTACTATTATTT
4619403 T
1 T
4619404 TAGTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 5 0.24
24 5 0.24
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (22 bp):
TATATTTATTTTACTATTATTT
Found at i:4627766 original size:42 final size:42
Alignment explanation
Indices: 4627719--4627835 Score: 198
Period size: 42 Copynumber: 2.8 Consensus size: 42
4627709 CTTAGTAATG
* *
4627719 ATATTGTTCATCCAATACCGATATTGTTCTTGTTCAGTATCA
1 ATATTGTTCATCCAATACCCATACTGTTCTTGTTCAGTATCA
*
4627761 ATATTGTTCATCCAGTACCCATACTGTTCTTGTTCAGTATCA
1 ATATTGTTCATCCAATACCCATACTGTTCTTGTTCAGTATCA
*
4627803 ATATTGTTCATCCAATACCCATACTATTCTTGT
1 ATATTGTTCATCCAATACCCATACTGTTCTTGT
4627836 AGCCTTGATA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (42 bp):
ATATTGTTCATCCAATACCCATACTGTTCTTGTTCAGTATCA
Found at i:4627767 original size:22 final size:22
Alignment explanation
Indices: 4627739--4627811 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
4627729 TCCAATACCG
4627739 ATATTGTTCTTGTTCAGTATCA
1 ATATTGTTCTTGTTCAGTATCA
* * * *
4627761 ATATTGTTC--ATCCAGTACCC
1 ATATTGTTCTTGTTCAGTATCA
*
4627781 ATACTGTTCTTGTTCAGTATCA
1 ATATTGTTCTTGTTCAGTATCA
4627803 ATATTGTTC
1 ATATTGTTC
4627812 ATCCAATACC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
20 15 0.38
22 24 0.62
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.45
Consensus pattern (22 bp):
ATATTGTTCTTGTTCAGTATCA
Found at i:4629917 original size:16 final size:16
Alignment explanation
Indices: 4629890--4629935 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
4629880 GATATGAGAA
4629890 AAATTCAATTTAAATTT
1 AAATT-AATTTAAATTT
*
4629907 AAATTAATTTAATTTT
1 AAATTAATTTAAATTT
*
4629923 AAAATAATGTTAA
1 AAATTAAT-TTAA
4629936 TAAATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 17 0.65
17 9 0.35
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
AAATTAATTTAAATTT
Found at i:4631341 original size:14 final size:14
Alignment explanation
Indices: 4631297--4631344 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
4631287 TACATGTCAA
*
4631297 AAATATTTTTATATA
1 AAATA-TTTTATATT
4631312 AAATATATTTACTATT
1 AAATAT-TTTA-TATT
*
4631328 GAATATTTTATATT
1 AAATATTTTATATT
4631342 AAA
1 AAA
4631345 AATAAGAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.25
15 13 0.46
16 8 0.29
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
AAATATTTTATATT
Found at i:4631852 original size:155 final size:153
Alignment explanation
Indices: 4631569--4631873 Score: 592
Period size: 155 Copynumber: 2.0 Consensus size: 153
4631559 AGGATTATGG
4631569 TTATTCTTCTTATAATATCATCTCTAAAATTTGATCTATGCCCTCTCTTTAAGAGGGCAACATGT
1 TTATTCTTCTTATAATATCATCTCTAAAATTTGATCTATGCCCTCTCTTTAAGAGGGCAACATGT
4631634 CTTATCAAACATCCAACAAGTATTTGTAATGAAATTATATTTTATCTAAATTATGTTTCTTATTT
66 CTTATCAAACATCCAACAAGTATTTGTAATGAAATTATATTTTATCTAAATTATGTTTCTTATTT
4631699 TTAAGACTTAACGAATTATTTTA
131 TTAAGACTTAACGAATTATTTTA
4631722 TTATTCTTCTTATAATATCATCTCTAAAATTTGATCTATGCCCTCTCTTTAAGAGGTGCAACATG
1 TTATTCTTCTTATAATATCATCTCTAAAATTTGATCTATGCCCTCTCTTTAAGAGG-GCAACATG
4631787 TCTTATCAATACATCCAACAAGTATTTGTAATGAAATTATATTTTATCTAAATTATGTTTCTTAT
65 TCTTATCAA-ACATCCAACAAGTATTTGTAATGAAATTATATTTTATCTAAATTATGTTTCTTAT
4631852 TTTTAAGACTTAACGAATTATT
129 TTTTAAGACTTAACGAATTATT
4631874 CATCCCTAAA
Statistics
Matches: 150, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
153 56 0.37
154 17 0.11
155 77 0.51
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (153 bp):
TTATTCTTCTTATAATATCATCTCTAAAATTTGATCTATGCCCTCTCTTTAAGAGGGCAACATGT
CTTATCAAACATCCAACAAGTATTTGTAATGAAATTATATTTTATCTAAATTATGTTTCTTATTT
TTAAGACTTAACGAATTATTTTA
Found at i:4633772 original size:35 final size:35
Alignment explanation
Indices: 4633732--4633802 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
4633722 TGCACTACAG
*
4633732 GTGCATCATCAATTAACAATAATATGAACTCAAAA
1 GTGCATCATCAATAAACAATAATATGAACTCAAAA
4633767 GTGCATCATCAATAAACAATAATATGAACTCAAAA
1 GTGCATCATCAATAAACAATAATATGAACTCAAAA
4633802 G
1 G
4633803 AGTCTCAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.24
Consensus pattern (35 bp):
GTGCATCATCAATAAACAATAATATGAACTCAAAA
Found at i:4633942 original size:29 final size:29
Alignment explanation
Indices: 4633909--4633997 Score: 151
Period size: 29 Copynumber: 3.1 Consensus size: 29
4633899 CCAGTTGTAC
4633909 CTAAGACTCTCAAAACAACATGCAATGGG
1 CTAAGACTCTCAAAACAACATGCAATGGG
* *
4633938 CTAAGACTCTGAAAGCAACATGCAATGGG
1 CTAAGACTCTCAAAACAACATGCAATGGG
*
4633967 CTAAGACTCTCAAAACAACATACAATGGG
1 CTAAGACTCTCAAAACAACATGCAATGGG
4633996 CT
1 CT
4633998 TTAAGATGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (29 bp):
CTAAGACTCTCAAAACAACATGCAATGGG
Found at i:4638866 original size:31 final size:31
Alignment explanation
Indices: 4638799--4638871 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
4638789 TAAAATATAT
* * *
4638799 AACTTTTAAAATTTTATATTTTTGATATCTA
1 AACTTTTAAAAGTTTATACTTTGGATATCTA
*
4638830 AACTTTTACAAAGTTTATACTTTGGCTAT-TA
1 AACTTTTA-AAAGTTTATACTTTGGATATCTA
* *
4638861 TACTTTCAAAA
1 AACTTTTAAAA
4638872 CATACATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
30 3 0.09
31 16 0.46
32 16 0.46
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (31 bp):
AACTTTTAAAAGTTTATACTTTGGATATCTA
Found at i:4641294 original size:22 final size:23
Alignment explanation
Indices: 4641230--4641296 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
4641220 TATGTAAATA
4641230 ATTTAATTTAAAATGTTTTTAAT
1 ATTTAATTTAAAATGTTTTTAAT
4641253 ATTTAATTTAAAATGTTTTTAAT
1 ATTTAATTTAAAATGTTTTTAAT
* *
4641276 ATTTAATTTAAATTATTTTTA
1 ATTTAATTTAAAATGTTTTTA
4641297 CTTTTATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (23 bp):
ATTTAATTTAAAATGTTTTTAAT
Found at i:4641355 original size:20 final size:20
Alignment explanation
Indices: 4641326--4641366 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
4641316 GTCTAAATAA
4641326 TTTTAATATAATTT-TATAT
1 TTTTAATATAATTTATATAT
4641345 TTTTCAATATAATTTATATAT
1 TTTT-AATATAATTTATATAT
4641366 T
1 T
4641367 ATTATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAATATAATTTATATAT
Found at i:4641401 original size:12 final size:12
Alignment explanation
Indices: 4641384--4641408 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4641374 TAAAATAATC
4641384 ATAAAACATTAA
1 ATAAAACATTAA
4641396 ATAAAACATTAA
1 ATAAAACATTAA
4641408 A
1 A
4641409 CTCTATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAAACATTAA
Found at i:4641456 original size:2 final size:2
Alignment explanation
Indices: 4641449--4641528 Score: 144
Period size: 2 Copynumber: 40.5 Consensus size: 2
4641439 TAACTATAAT
4641449 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4641491 TA TA T- TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4641529 GTGTGTGTGT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 74 0.99
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4641533 original size:2 final size:2
Alignment explanation
Indices: 4641528--4641556 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4641518 TATATATATA
4641528 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
4641557 TTGTTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4643352 original size:121 final size:120
Alignment explanation
Indices: 4643213--4643436 Score: 394
Period size: 121 Copynumber: 1.9 Consensus size: 120
4643203 AGTTTAATAT
*
4643213 TTTTTTACAATTATTTTTAAATAACAATATATAAATTATATTAAAAATAAAATTTTATTAAAATT
1 TTTTTTACAATTATTTTTAAATAACAATATATAAATTATATTAAAAATAAAATTATATTAAAATT
*
4643278 ATTTAGAGAATCCAAATCACAAAATAGAAATAAATTTAATATTTTTATTTAAATTA
66 ATTTAGAGAATCCAAATCACAAAATAAAAAT-AATTTAATATTTTTATTTAAATTA
** *
4643334 TTTTTTACAATTATTTTTAAATAGTAATATATAAATTATATTAAAAATTAAATTATATTAAAATT
1 TTTTTTACAATTATTTTTAAATAACAATATATAAATTATATTAAAAATAAAATTATATTAAAATT
4643399 ATTTAGAGAATCCAAATCACAAAATAAAAATAATTTAA
66 ATTTAGAGAATCCAAATCACAAAATAAAAATAATTTAA
4643437 ATTAAAAATA
Statistics
Matches: 98, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 7 0.07
121 91 0.93
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
TTTTTTACAATTATTTTTAAATAACAATATATAAATTATATTAAAAATAAAATTATATTAAAATT
ATTTAGAGAATCCAAATCACAAAATAAAAATAATTTAATATTTTTATTTAAATTA
Found at i:4648266 original size:46 final size:46
Alignment explanation
Indices: 4648109--4648274 Score: 266
Period size: 46 Copynumber: 3.7 Consensus size: 46
4648099 ATAAAGTGGC
* *
4648109 AAATAAGCTTACGAGCTTATGG-AAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTGGTA
*
4648153 AAATAAGCTTACGAGCTTATGATATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTGGTA
*
4648199 AAATAAGATTACGAGCTTATGGTATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTGGTA
*
4648245 AAATAAGCTTACGAGCTTATGGGA-TAAATG
1 AAATAAGCTTACGAGCTTATGGTATTAAATG
4648275 CTAAAAGATT
Statistics
Matches: 113, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
44 21 0.19
45 8 0.07
46 84 0.74
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTGGTA
Found at i:4649770 original size:22 final size:22
Alignment explanation
Indices: 4649745--4649791 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
4649735 GAACTATGGC
4649745 TACATGATATGTGTTCTCTGGT
1 TACATGATATGTGTTCTCTGGT
4649767 TACATGATATGTGTTCTCTGGT
1 TACATGATATGTGTTCTCTGGT
4649789 TAC
1 TAC
4649792 TATTTTTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (22 bp):
TACATGATATGTGTTCTCTGGT
Found at i:4652822 original size:23 final size:23
Alignment explanation
Indices: 4652770--4652824 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
4652760 GGGTATGCTC
4652770 AACCGTTGAGTGGTCTGACCATT
1 AACCGTTGAGTGGTCTGACCATT
* * *
4652793 GATCGTTG-GTCGGTCTGACCGTT
1 AACCGTTGAGT-GGTCTGACCATT
4652816 AACCGTTGA
1 AACCGTTGA
4652825 CTTCGACAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (23 bp):
AACCGTTGAGTGGTCTGACCATT
Found at i:4662748 original size:20 final size:21
Alignment explanation
Indices: 4662718--4662757 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4662708 AGCCGTTGGG
4662718 GCCTGATGGTATCGAGACTAT
1 GCCTGATGGTATCGAGACTAT
*
4662739 GCCT-ATGGTATCGATACTA
1 GCCTGATGGTATCGAGACTA
4662758 CTACATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (21 bp):
GCCTGATGGTATCGAGACTAT
Found at i:4665349 original size:15 final size:15
Alignment explanation
Indices: 4665311--4665341 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4665301 AAAAATTTAA
4665311 GAGCAAAATGTTTTT
1 GAGCAAAATGTTTTT
4665326 GAGCAAAATGTTTTT
1 GAGCAAAATGTTTTT
4665341 G
1 G
4665342 GACTAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (15 bp):
GAGCAAAATGTTTTT
Found at i:4667080 original size:12 final size:11
Alignment explanation
Indices: 4667034--4667088 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 11
4667024 CAAACCCTTT
4667034 TAAATA-AATA
1 TAAATATAATA
*
4667044 TCAATATAATA
1 TAAATATAATA
4667055 GTAAGCAT-TAATA
1 -TAA--ATATAATA
4667068 TAAATGATAATA
1 TAAAT-ATAATA
4667080 TAAATATAA
1 TAAATATAA
4667089 CAATAGTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
10 7 0.19
11 8 0.22
12 15 0.41
13 5 0.14
14 2 0.05
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (11 bp):
TAAATATAATA
Found at i:4670043 original size:20 final size:20
Alignment explanation
Indices: 4670018--4670086 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
4670008 AGATCGTTGG
*
4670018 GTCTCCATACGAAAAAACTA
1 GTCTCCATACCAAAAAACTA
* ** *
4670038 GTCTCCATACCAGAGGACTT
1 GTCTCCATACCAAAAAACTA
4670058 GTCTCCATACCAAAAAAC-A
1 GTCTCCATACCAAAAAACTA
4670077 GGTCTCCATA
1 -GTCTCCATA
4670087 TTAGAGGACT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.36, C:0.29, G:0.13, T:0.22
Consensus pattern (20 bp):
GTCTCCATACCAAAAAACTA
Found at i:4670063 original size:40 final size:40
Alignment explanation
Indices: 4670017--4670108 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
4670007 GAGATCGTTG
*
4670017 GGTCTCCATACGAAAAAACTA-GTCTCCATACCAGAGGACT
1 GGTCTCCATACCAAAAAAC-AGGTCTCCATACCAGAGGACT
* **
4670057 TGTCTCCATACCAAAAAACAGGTCTCCATATTAGAGGACT
1 GGTCTCCATACCAAAAAACAGGTCTCCATACCAGAGGACT
4670097 GGTCTCCATACC
1 GGTCTCCATACC
4670109 GGAGGATTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.02
40 45 0.98
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (40 bp):
GGTCTCCATACCAAAAAACAGGTCTCCATACCAGAGGACT
Found at i:4670113 original size:20 final size:20
Alignment explanation
Indices: 4670038--4670134 Score: 95
Period size: 20 Copynumber: 4.8 Consensus size: 20
4670028 GAAAAAACTA
*
4670038 GTCTCCATACCAGAGGACTT
1 GTCTCCATACCAGAGGACTG
* ** *
4670058 GTCTCCATACCAAAAAACAG
1 GTCTCCATACCAGAGGACTG
**
4670078 GTCTCCATATTAGAGGACTG
1 GTCTCCATACCAGAGGACTG
* *
4670098 GTCTCCATACCGGAGGATTG
1 GTCTCCATACCAGAGGACTG
* *
4670118 GTATCCATACCAAAGGA
1 GTCTCCATACCAGAGGA
4670135 TTGATATCAA
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (20 bp):
GTCTCCATACCAGAGGACTG
Found at i:4670135 original size:20 final size:20
Alignment explanation
Indices: 4670091--4670153 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
4670081 TCCATATTAG
* * **
4670091 AGGACTGGTCTCCATACCGG
1 AGGATTGGTATCCATACCAA
4670111 AGGATTGGTATCCATACCAA
1 AGGATTGGTATCCATACCAA
* *
4670131 AGGATTGATATCAATACCTAA
1 AGGATTGGTATCCATACC-AA
4670152 AG
1 AG
4670154 TAGTTGAGTG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 32 0.89
21 4 0.11
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (20 bp):
AGGATTGGTATCCATACCAA
Found at i:4671995 original size:19 final size:20
Alignment explanation
Indices: 4671968--4672008 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4671958 ATTGAAAATG
*
4671968 ATTTAATTT-TGAAAGCAAA
1 ATTTAATTTCTAAAAGCAAA
*
4671987 ATTTGATTTCTAAAAGCAAA
1 ATTTAATTTCTAAAAGCAAA
4672007 AT
1 AT
4672009 GAAATTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (20 bp):
ATTTAATTTCTAAAAGCAAA
Found at i:4672021 original size:20 final size:20
Alignment explanation
Indices: 4671972--4672021 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
4671962 AAAATGATTT
**
4671972 AATTTTG-AAAGCAAAATTT
1 AATTTTGAAAAGCAAAATGA
*
4671991 GATTTCT-AAAAGCAAAATGA
1 AATTT-TGAAAAGCAAAATGA
4672011 AATTTTGAAAA
1 AATTTTGAAAA
4672022 ATGATTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (20 bp):
AATTTTGAAAAGCAAAATGA
Found at i:4677629 original size:32 final size:31
Alignment explanation
Indices: 4677542--4677666 Score: 103
Period size: 31 Copynumber: 4.0 Consensus size: 31
4677532 ACCCTAAGGG
*
4677542 AACATCTTAGGGCCTG-AGAGCCTACCCAAGA
1 AACATCTTAGGGCC-GCAGAGCCTACCTAAGA
* * * *
4677573 TAGAT-TTCGGGCC-CATGGGGCCTACCTAAGA
1 AACATCTTAGGGCCGCA--GAGCCTACCTAAGA
* **
4677604 ACACATCTTAGGGCCGCATAGCCTACCCGAGA
1 A-ACATCTTAGGGCCGCAGAGCCTACCTAAGA
**
4677636 ATGATCTTAGGGCCGCAGAGCCTACCTAAGA
1 AACATCTTAGGGCCGCAGAGCCTACCTAAGA
4677667 GTCACATTAG
Statistics
Matches: 71, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
29 1 0.01
30 7 0.10
31 40 0.56
32 14 0.20
33 7 0.10
34 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.25, T:0.18
Consensus pattern (31 bp):
AACATCTTAGGGCCGCAGAGCCTACCTAAGA
Found at i:4677677 original size:31 final size:30
Alignment explanation
Indices: 4677592--4677677 Score: 75
Period size: 31 Copynumber: 2.7 Consensus size: 30
4677582 GGCCCATGGG
* *
4677592 GCCTACCTAAGAACACATCTTAGGGCCGCATA
1 GCCTACCTAAGATCACA--TTAGGGCCGCAGA
** *
4677624 GCCTACCCGAGAATGATC-TTAGGGCCGCAGA
1 GCCTACCTAAG-ATCA-CATTAGGGCCGCAGA
4677655 GCCTACCTAAGAGTCACATTAGG
1 GCCTACCTAAGA-TCACATTAGG
4677678 TCCGTAAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
30 2 0.05
31 28 0.67
32 9 0.21
33 2 0.05
34 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (30 bp):
GCCTACCTAAGATCACATTAGGGCCGCAGA
Done.