Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 80 of 168
Found at i:23518453 original size:16 final size:16
Alignment explanation
Indices: 23518428--23518472 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
23518418 ACATTTGAAG
* *
23518428 AAATTATTATTTTTGG
1 AAATTGTTATTTTTGA
* *
23518444 ATATTTTTATTTTTGA
1 AAATTGTTATTTTTGA
23518460 AAATTGTTATTTT
1 AAATTGTTATTTT
23518473 CATAATATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (16 bp):
AAATTGTTATTTTTGA
Found at i:23522673 original size:38 final size:37
Alignment explanation
Indices: 23522595--23522700 Score: 108
Period size: 38 Copynumber: 2.8 Consensus size: 37
23522585 CTCTACTGTT
* * * *
23522595 TTACCGAATGCATGATAATTCATGCC-ACTGATTTTG
1 TTACTGAATGCATGATAAATCATGCCTACTAATTCTG
23522631 TTACT-AATCGCATGACTAAATCATGCCTACTAATTCTG
1 TTACTGAAT-GCATGA-TAAATCATGCCTACTAATTCTG
* * *
23522669 TTACTGAATGCATGTTTTAATCATGCTTACTA
1 TTACTGAATGCATG-ATAAATCATGCCTACTA
23522701 TTTTGTGTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
35 3 0.05
36 10 0.17
37 10 0.17
38 32 0.55
39 3 0.05
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (37 bp):
TTACTGAATGCATGATAAATCATGCCTACTAATTCTG
Found at i:23522854 original size:40 final size:40
Alignment explanation
Indices: 23522803--23522898 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
23522793 TGCAATTCTA
* * * *
23522803 GTGGTTTGTCCACATTACTGGTAGCTCATCTACAATAGTG
1 GTGGCTTGTCCACATTACTGGCAACTCATCTACAATACTG
* * * * *
23522843 GTGGCTTGTCCACATTTCTGGCAATTTATCTGCATTACTG
1 GTGGCTTGTCCACATTACTGGCAACTCATCTACAATACTG
23522883 GTGGCTTGTCCACATT
1 GTGGCTTGTCCACATT
23522899 TCTAGCAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (40 bp):
GTGGCTTGTCCACATTACTGGCAACTCATCTACAATACTG
Found at i:23522898 original size:20 final size:20
Alignment explanation
Indices: 23522803--23522898 Score: 57
Period size: 20 Copynumber: 4.8 Consensus size: 20
23522793 TGCAATTCTA
*
23522803 GTGGTTTGTCCACATTACTG
1 GTGGCTTGTCCACATTACTG
* ** * * *
23522823 GTAGCTCATCTACAATAGTG
1 GTGGCTTGTCCACATTACTG
*
23522843 GTGGCTTGTCCACATTTCTG
1 GTGGCTTGTCCACATTACTG
**** * **
23522863 GCAATTTATCTGCATTACTG
1 GTGGCTTGTCCACATTACTG
23522883 GTGGCTTGTCCACATT
1 GTGGCTTGTCCACATT
23522899 TCTAGCAATT
Statistics
Matches: 47, Mismatches: 29, Indels: 0
0.62 0.38 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
GTGGCTTGTCCACATTACTG
Found at i:23522899 original size:40 final size:40
Alignment explanation
Indices: 23522841--23522936 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
23522831 TCTACAATAG
*
23522841 TGGTGGCTTGTCCACATTTCTGGCAATTTATCTGCATTAC
1 TGGTGGCTTGTCCACATTTCTAGCAATTTATCTGCATTAC
* *
23522881 TGGTGGCTTGTCCACATTTCTAGCAATTTATTTGCATTAT
1 TGGTGGCTTGTCCACATTTCTAGCAATTTATCTGCATTAC
*
23522921 TGGTAGCTTGTCCACA
1 TGGTGGCTTGTCCACA
23522937 AATTGGTGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.41
Consensus pattern (40 bp):
TGGTGGCTTGTCCACATTTCTAGCAATTTATCTGCATTAC
Found at i:23528137 original size:18 final size:18
Alignment explanation
Indices: 23528116--23528159 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23528106 TCAGAGAACA
*
23528116 GAGAGAATAGAGAGAATG
1 GAGAGAATAGAGAAAATG
**
23528134 GAGAGTTTAGAGAAAATG
1 GAGAGAATAGAGAAAATG
*
23528152 GAAAGAAT
1 GAGAGAAT
23528160 TGGATTTGAG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.34, T:0.16
Consensus pattern (18 bp):
GAGAGAATAGAGAAAATG
Found at i:23530064 original size:38 final size:39
Alignment explanation
Indices: 23529970--23530070 Score: 132
Period size: 40 Copynumber: 2.6 Consensus size: 39
23529960 TGAATATAAT
* * *
23529970 AATTATAATTACCATAATTATAATGATATTTGACTGAAAA
1 AATTATAATTACAATAATTATAATAATATTCGAC-GAAAA
* * *
23530010 AAATATAATTACAATAATTATAATAATATTCGAC-CATA
1 AATTATAATTACAATAATTATAATAATATTCGACGAAAA
23530048 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
23530071 CAAGGATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 24 0.44
40 30 0.56
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (39 bp):
AATTATAATTACAATAATTATAATAATATTCGACGAAAA
Found at i:23535527 original size:16 final size:17
Alignment explanation
Indices: 23535490--23535539 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
23535480 CATTAATGGT
23535490 TAAAATGTAAAAAGAAA
1 TAAAATGTAAAAAGAAA
* *
23535507 TAAAATATAAAAAGGAA
1 TAAAATGTAAAAAGAAA
23535524 -AAAATGTAAAAAGAAA
1 TAAAATGTAAAAAGAAA
23535540 CAAGTAGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 14 0.48
17 15 0.52
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (17 bp):
TAAAATGTAAAAAGAAA
Found at i:23536097 original size:78 final size:78
Alignment explanation
Indices: 23536000--23536156 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
23535990 CTATAAAATG
23536000 TTAAATAAAGAGTCATATTCATATATTTATACTTTATAACTATTTGAAGTTGATAATTGAATTAA
1 TTAAATAAAGAGTCATATTCATATATTTATACTTTATAACTATTTGAAGTTGATAATTGAATTAA
23536065 ACTATTATATAGA
66 ACTATTATATAGA
23536078 TTAAATAAAGAGTCATATTCATATATTTATACTTTATAACTATTTGAAGTTGATAATTGAATTAA
1 TTAAATAAAGAGTCATATTCATATATTTATACTTTATAACTATTTGAAGTTGATAATTGAATTAA
23536143 ACTATTATATAGA
66 ACTATTATATAGA
23536156 T
1 T
23536157 CAAGAAACGG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (78 bp):
TTAAATAAAGAGTCATATTCATATATTTATACTTTATAACTATTTGAAGTTGATAATTGAATTAA
ACTATTATATAGA
Found at i:23549121 original size:24 final size:24
Alignment explanation
Indices: 23549076--23549126 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
23549066 AAGTTACAAT
*
23549076 ACAAATATTTTTAATTAAAAAGGA
1 ACAAATATTTTTAATTAAAAAGAA
* *
23549100 ACAAATAATTTTTTATT-GAAAGAA
1 ACAAAT-ATTTTTAATTAAAAAGAA
23549124 ACA
1 ACA
23549127 CTATGTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (24 bp):
ACAAATATTTTTAATTAAAAAGAA
Found at i:23556673 original size:28 final size:28
Alignment explanation
Indices: 23556642--23556721 Score: 124
Period size: 28 Copynumber: 2.9 Consensus size: 28
23556632 AATAGTACAG
23556642 TGTGGGCCTTAGCCCAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
**
23556670 TGTGGGCCTTAGCCCAATACAGTGGCAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
* *
23556698 TGTGGGCATTAGCCCATTACAGTA
1 TGTGGGCCTTAGCCCAATACAGTA
23556722 TCAGTTCAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAACAA
Found at i:23561136 original size:25 final size:25
Alignment explanation
Indices: 23561107--23561156 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23561097 CTTACTAAGC
23561107 ATTCATTACTTATATGGTTTTCTTT
1 ATTCATTACTTATATGGTTTTCTTT
23561132 ATTCATTACTTATATGGTTTTCTTT
1 ATTCATTACTTATATGGTTTTCTTT
23561157 CCTTTACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (25 bp):
ATTCATTACTTATATGGTTTTCTTT
Found at i:23562436 original size:22 final size:22
Alignment explanation
Indices: 23562408--23562451 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23562398 GATAGTTTTG
*
23562408 AAATGTAAACTCTGGTAATGCT
1 AAATGTAAACTCTAGTAATGCT
*
23562430 AAATGTAAACTCTAGTAGTGCT
1 AAATGTAAACTCTAGTAATGCT
23562452 CTATAACCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (22 bp):
AAATGTAAACTCTAGTAATGCT
Found at i:23562762 original size:34 final size:34
Alignment explanation
Indices: 23562719--23562785 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
23562709 ATGATTGGTA
23562719 CGATGCTATTCACCAAGATGACGTTTCTGGCGCG
1 CGATGCTATTCACCAAGATGACGTTTCTGGCGCG
23562753 CGATGCTATTCACCAAGATGACGTTTCTGGCGC
1 CGATGCTATTCACCAAGATGACGTTTCTGGCGC
23562786 ACTAGTGGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (34 bp):
CGATGCTATTCACCAAGATGACGTTTCTGGCGCG
Found at i:23564416 original size:20 final size:20
Alignment explanation
Indices: 23564388--23564438 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
23564378 ACTACGGTAT
*
23564388 CCCTATTTGCACATCCGTGC
1 CCCTGTTTGCACATCCGTGC
* *
23564408 CCCTGTTTGTACATCTGTGC
1 CCCTGTTTGCACATCCGTGC
*
23564428 CCTTGTTTGCA
1 CCCTGTTTGCA
23564439 TTTTGGTGCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.12, C:0.33, G:0.18, T:0.37
Consensus pattern (20 bp):
CCCTGTTTGCACATCCGTGC
Found at i:23569097 original size:16 final size:16
Alignment explanation
Indices: 23569076--23569145 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
23569066 TTTGGTTCGC
23569076 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
23569092 TGTAATGGAATA-ACGG
1 TGTAATGGAATAGA-GG
*
23569108 TGTAATGGAATAGATG
1 TGTAATGGAATAGAGG
23569124 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
23569140 CGTAAT
1 TGTAAT
23569146 AGGTAATTCT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
15 1 0.02
16 47 0.96
17 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.33, T:0.27
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:23569214 original size:44 final size:46
Alignment explanation
Indices: 23569127--23569219 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 46
23569117 ATAGATGTGT
23569127 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
*
23569173 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
23569217 AAT
1 AAT
23569220 AGAGGTGTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 24 0.52
45 3 0.07
46 19 0.41
ACGTcount: A:0.28, C:0.05, G:0.31, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
Found at i:23569215 original size:39 final size:44
Alignment explanation
Indices: 23569127--23569232 Score: 141
Period size: 39 Copynumber: 2.5 Consensus size: 44
23569117 ATAGATGTGT
23569127 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTT--ATGG
*
23569173 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTATGG
*
23569212 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
23569233 CATAAGGAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 19 0.33
40 2 0.04
43 1 0.02
44 13 0.23
45 3 0.05
46 19 0.33
ACGTcount: A:0.29, C:0.05, G:0.32, T:0.34
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTATGG
Found at i:23569400 original size:18 final size:17
Alignment explanation
Indices: 23569377--23569413 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
23569367 AATTATTATT
23569377 AAATATAT-A-TTAATTA
1 AAATATATAATTTAA-TA
23569393 AAATATATAATTTAATA
1 AAATATATAATTTAATA
23569410 AAAT
1 AAAT
23569414 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:23569407 original size:14 final size:15
Alignment explanation
Indices: 23569370--23569409 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
23569360 TTAACATAAT
23569370 TATT-ATTAAATATA
1 TATTAATTAAATATA
23569384 TATTAATTAAA-ATA
1 TATTAATTAAATATA
*
23569398 TA-TAATTTAATA
1 TATTAATTAAATA
23569410 AAATTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 10 0.43
15 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATTAAATATA
Found at i:23569425 original size:15 final size:16
Alignment explanation
Indices: 23569405--23569434 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23569395 ATATATAATT
23569405 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
23569420 TAATAAATATTCTTA
1 TAATAAATATTCTTA
23569435 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:23569437 original size:51 final size:52
Alignment explanation
Indices: 23569380--23569562 Score: 143
Period size: 55 Copynumber: 3.2 Consensus size: 52
23569370 TATTATTAAA
23569380 TATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTC
1 TATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTC
* * * * *
23569432 TTATATGAATTTATTAAAATCATAATATATGGTACTATAAAATATAATTTGAAATAATTATTATT
1 -TATAT--ATTAATTAAAAT-AT-ATA-AT-TTA--ATAAAAT-T--CTT--AATAATAAATATT
*
23569497 AAA
52 --C
*
23569500 TATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAACATTC
1 TATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTC
*
23569552 T-TATATGAATT
1 TATATATTAATT
23569563 TGCTAAAATC
Statistics
Matches: 101, Mismatches: 14, Indels: 32
0.69 0.10 0.22
Matches are distributed among these distances:
51 9 0.09
52 1 0.01
53 5 0.05
54 10 0.10
55 11 0.11
56 4 0.04
57 3 0.03
58 3 0.03
59 9 0.09
61 9 0.09
62 3 0.03
63 3 0.03
64 4 0.04
65 11 0.11
66 11 0.11
67 5 0.05
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (52 bp):
TATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTC
Found at i:23569472 original size:61 final size:61
Alignment explanation
Indices: 23569407--23569714 Score: 243
Period size: 57 Copynumber: 5.1 Consensus size: 61
23569397 ATATAATTTA
*
23569407 ATAAAATTCTTAATAATAAATATTCTTATATGAATTTATTAAAATCATAATATATGGTACT
1 ATAAAATTCTTAATAATAAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
* * * * * *
23569468 ATAAAATATAATTTGA-AATAATTATTATTAAATAT-ATATTAATTAAAAT-AT-ATA-AT-TTA
1 ATAAAAT-T--CTTAATAATAAATATTCTT--ATATGA-ATTTATTAAAATCATAATATATGATA
23569527 --
60 CT
* **
23569527 ATAAAATTCTTAATAATAAACATTCTTATATGAATTTGCTAAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATAAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
* * * * * *
23569588 ATAAAATATAATTTGA-AATAATTATTGTTAAATAT-ATTTTAATTAAAAT-AT-ATA-AT-TTA
1 ATAAAAT-T--CTTAATAATAAATATTCTT--ATATGAATTT-ATTAAAATCATAATATATGATA
23569647 --
60 CT
*
23569647 ATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATAAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
23569708 ATAAAAT
1 ATAAAAT
23569715 ATTTTTAATT
Statistics
Matches: 188, Mismatches: 31, Indels: 56
0.68 0.11 0.20
Matches are distributed among these distances:
55 24 0.13
56 15 0.08
57 27 0.14
58 6 0.03
59 18 0.10
61 25 0.13
62 6 0.03
63 27 0.14
64 15 0.08
65 25 0.13
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATAATAAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
Found at i:23569520 original size:18 final size:17
Alignment explanation
Indices: 23569497--23569533 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
23569487 AATTATTATT
23569497 AAATATAT-A-TTAATTA
1 AAATATATAATTTAA-TA
23569513 AAATATATAATTTAATA
1 AAATATATAATTTAATA
23569530 AAAT
1 AAAT
23569534 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:23569541 original size:120 final size:120
Alignment explanation
Indices: 23569365--23569716 Score: 650
Period size: 120 Copynumber: 2.9 Consensus size: 120
23569355 ATATTTTAAC
23569365 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
* *
23569430 TCTTATATGAATTTATTAAAATCATAATATATGGTACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
*
23569485 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAACAT
1 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
*
23569550 TCTTATATGAATTTGCTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
* *
23569605 ATAATTATTGTTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
23569670 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATAT
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATAT
23569717 TTTTAATTAA
Statistics
Matches: 224, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 224 1.00
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:23569545 original size:15 final size:16
Alignment explanation
Indices: 23569525--23569554 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23569515 ATATATAATT
23569525 TAATAAA-ATTCTTAA
1 TAATAAACATTCTTAA
23569540 TAATAAACATTCTTA
1 TAATAAACATTCTTA
23569555 TATGAATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAAACATTCTTAA
Found at i:23569646 original size:18 final size:17
Alignment explanation
Indices: 23569619--23569653 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23569609 TTATTGTTAA
*
23569619 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23569637 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23569654 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23569665 original size:15 final size:16
Alignment explanation
Indices: 23569645--23569674 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23569635 ATATATAATT
23569645 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
23569660 TAATAAATATTCTTA
1 TAATAAATATTCTTA
23569675 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:23574823 original size:25 final size:26
Alignment explanation
Indices: 23574788--23574838 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
23574778 ACACCAATAC
23574788 CGCAGCAAAGCTG-CAGTAACAGTAT
1 CGCAGCAAAGCTGCCAGTAACAGTAT
*
23574813 CGCAGCGAAGCTGCCAGTAACAGTAT
1 CGCAGCAAAGCTGCCAGTAACAGTAT
23574839 ATGTGGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAT
Found at i:23576001 original size:35 final size:35
Alignment explanation
Indices: 23575960--23576030 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
23575950 AGAGAAGGAT
*
23575960 ATTCGGCCAA-AGAAGAAGAAGAGAAGAGAAAG-AAG
1 ATTCGGCCAACAG-AGAAGAAAAG-AGAGAAAGTAAG
*
23575995 ATTCGGCCAACAGGGAAGAAAAGAGAGAAAGTAAG
1 ATTCGGCCAACAGAGAAGAAAAGAGAGAAAGTAAG
23576030 A
1 A
23576031 GAAGGGAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 8 0.25
35 22 0.69
36 2 0.06
ACGTcount: A:0.52, C:0.10, G:0.31, T:0.07
Consensus pattern (35 bp):
ATTCGGCCAACAGAGAAGAAAAGAGAGAAAGTAAG
Found at i:23584486 original size:22 final size:22
Alignment explanation
Indices: 23584460--23584504 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23584450 TTCGCCGCCT
23584460 AAGATTCAACTTCTTCTGAGTG
1 AAGATTCAACTTCTTCTGAGTG
23584482 AAGATTCAACTTCTTCTGAGTG
1 AAGATTCAACTTCTTCTGAGTG
23584504 A
1 A
23584505 GGAGGTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (22 bp):
AAGATTCAACTTCTTCTGAGTG
Found at i:23587582 original size:17 final size:18
Alignment explanation
Indices: 23587547--23587582 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23587537 ATCAAAAGTC
*
23587547 TCCCTACAGTTTCCAGTT
1 TCCCTACAGTCTCCAGTT
23587565 TCCCTACAGTCT-CAGTT
1 TCCCTACAGTCTCCAGTT
23587582 T
1 T
23587583 ACTCTAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.17, C:0.33, G:0.11, T:0.39
Consensus pattern (18 bp):
TCCCTACAGTCTCCAGTT
Found at i:23588602 original size:26 final size:26
Alignment explanation
Indices: 23588551--23588603 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
23588541 CCAACACACC
* *
23588551 AATATCGCAGCAAAGCTGCTAGTAAT
1 AATATCGCAGCAAAGCTGCCAATAAT
*
23588577 AATATCGCAGCGAAGCTGCCAATAAT
1 AATATCGCAGCAAAGCTGCCAATAAT
23588603 A
1 A
23588604 GTATATGTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (26 bp):
AATATCGCAGCAAAGCTGCCAATAAT
Found at i:23589756 original size:17 final size:17
Alignment explanation
Indices: 23589734--23589767 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23589724 GAAATAATAA
23589734 GAGGAGTTTGAATCGTC
1 GAGGAGTTTGAATCGTC
23589751 GAGGAGTTTGAATCGTC
1 GAGGAGTTTGAATCGTC
23589768 AGAGAAGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.29
Consensus pattern (17 bp):
GAGGAGTTTGAATCGTC
Found at i:23589828 original size:106 final size:106
Alignment explanation
Indices: 23589638--23589843 Score: 394
Period size: 106 Copynumber: 1.9 Consensus size: 106
23589628 ATACTCTTTA
23589638 AATCCTCGAGGAGTTTGAATCGTCAGAGAAGAGTGATATACAACTGAGCCACAGACAATAAAGAG
1 AATCCTCGAGGAGTTTGAATCGTCAGAGAAGAGTGATATACAACTGAGCCACAGACAATAAAGAG
*
23589703 TGATAGCTCTCGATCAAAAAGGAAATAATAAGAGGAGTTTG
66 AGATAGCTCTCGATCAAAAAGGAAATAATAAGAGGAGTTTG
*
23589744 AATCGTCGAGGAGTTTGAATCGTCAGAGAAGAGTGATATACAACTGAGCCACAGACAATAAAGAG
1 AATCCTCGAGGAGTTTGAATCGTCAGAGAAGAGTGATATACAACTGAGCCACAGACAATAAAGAG
23589809 AGATAGCTCTCGATCAAAAAGGAAATAATAAGAGG
66 AGATAGCTCTCGATCAAAAAGGAAATAATAAGAGG
23589844 TAGAAATTAA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 98 1.00
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (106 bp):
AATCCTCGAGGAGTTTGAATCGTCAGAGAAGAGTGATATACAACTGAGCCACAGACAATAAAGAG
AGATAGCTCTCGATCAAAAAGGAAATAATAAGAGGAGTTTG
Found at i:23594124 original size:20 final size:20
Alignment explanation
Indices: 23594081--23594124 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
23594071 ACTTTGATAT
*
23594081 CCCTGTTTGCACATCTGTGA
1 CCCTGTTTGCACATCGGTGA
* *
23594101 CCCTGTTTGCACTTCGGTGC
1 CCCTGTTTGCACATCGGTGA
23594121 CCCT
1 CCCT
23594125 AACTTCACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.36, G:0.20, T:0.34
Consensus pattern (20 bp):
CCCTGTTTGCACATCGGTGA
Found at i:23596494 original size:25 final size:26
Alignment explanation
Indices: 23596452--23596502 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
23596442 AGTTGTAAAT
23596452 AAGAAAAATATCTCTAGA-AATTTTC
1 AAGAAAAATATCTCTAGATAATTTTC
* * *
23596477 AAGAATAATCTCTTTAGATAATTTTC
1 AAGAAAAATATCTCTAGATAATTTTC
23596503 TCTCTACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (26 bp):
AAGAAAAATATCTCTAGATAATTTTC
Found at i:23596631 original size:16 final size:16
Alignment explanation
Indices: 23596610--23596664 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
23596600 TAATCACTAC
23596610 AATATTATATTAATCT
1 AATATTATATTAATCT
* * *
23596626 AATATTTATCTTGA-CA
1 AATA-TTATATTAATCT
*
23596642 AATATTATATTAATTT
1 AATATTATATTAATCT
23596658 AATATTA
1 AATATTA
23596665 AATCTTATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 7 0.23
16 16 0.53
17 7 0.23
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (16 bp):
AATATTATATTAATCT
Found at i:23596672 original size:23 final size:23
Alignment explanation
Indices: 23596641--23596711 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 23
23596631 TTATCTTGAC
*
23596641 AAATATTATATTAATTTAATATT
1 AAATCTTATATTAATTTAATATT
**
23596664 AAATC-T-TATTAAAATAATATAAT
1 AAATCTTATATTAATTTAATAT--T
*
23596687 AAA-CTTAAATTAAATTTAATATT
1 AAATCTTATATT-AATTTAATATT
23596710 AA
1 AA
23596712 GATAATGACT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
21 12 0.32
22 2 0.05
23 12 0.32
24 3 0.08
25 8 0.22
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATCTTATATTAATTTAATATT
Found at i:23598997 original size:19 final size:19
Alignment explanation
Indices: 23598973--23599010 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
23598963 AGTGTTATGA
23598973 ATATGTTATTAAGTGGATG
1 ATATGTTATTAAGTGGATG
23598992 ATATGTTATTAAGTGGATG
1 ATATGTTATTAAGTGGATG
23599011 TCCATCATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
ATATGTTATTAAGTGGATG
Found at i:23608961 original size:31 final size:31
Alignment explanation
Indices: 23608923--23608993 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
23608913 ATTAAAATTT
23608923 AAAACCCAAATTAAGGGCCTTATTACAAAAC
1 AAAACCCAAATTAAGGGCCTTATTACAAAAC
23608954 AAAACCCAAATTAAGGGCCTTATTACAAAAC
1 AAAACCCAAATTAAGGGCCTTATTACAAAAC
23608985 AAAACCCAA
1 AAAACCCAA
23608994 CTTATAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.51, C:0.24, G:0.08, T:0.17
Consensus pattern (31 bp):
AAAACCCAAATTAAGGGCCTTATTACAAAAC
Found at i:23611706 original size:27 final size:27
Alignment explanation
Indices: 23611641--23611934 Score: 297
Period size: 27 Copynumber: 10.9 Consensus size: 27
23611631 ATCTAAACCA
* *
23611641 AAATACCCTCATAGGGTAAAATGA-TCA
1 AAATACCCCCATAGGGTAAAATGACT-G
****
23611668 AAATTTTGCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
*
23611695 AAATACCCCCATATGGTAAAATGA-TAG
1 AAATACCCCCATAGGGTAAAATGACT-G
* * **
23611722 AAATACCCTCATAAGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACTG
* *
23611749 AAATACCCCTATAGGGTAAAATGATTG
1 AAATACCCCCATAGGGTAAAATGACTG
* *
23611776 AAATACCCCCAAAAGGTAAAATGA-TCG
1 AAATACCCCCATAGGGTAAAATGACT-G
* * *
23611803 AAATACCTCCATAAGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACTG
* *
23611830 AAATACCCTCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACTG
* * *
23611857 AAATACCCTCACAGGGTAAAATGACTA
1 AAATACCCCCATAGGGTAAAATGACTG
** *
23611884 AAATACCCTTATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACTG
*
23611911 AAATACCCCTATAGGGTAAAATGA
1 AAATACCCCCATAGGGTAAAATGA
23611935 TTGTTATACC
Statistics
Matches: 224, Mismatches: 38, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 221 0.99
28 1 0.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACTG
Found at i:23611740 original size:54 final size:54
Alignment explanation
Indices: 23611641--23611935 Score: 344
Period size: 54 Copynumber: 5.5 Consensus size: 54
23611631 ATCTAAACCA
* *** *
23611641 AAATACCCTCATAGGGTAAAATGATCA-AAATTTTGC-CATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGAT-AGAAA-TACCCTCATAGGGTAAAATGACCG
* * *
23611695 AAATACCCCCATATGGTAAAATGATAGAAATACCCTCATAAGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGATAGAAATACCCTCATAGGGTAAAATGACCG
* * * * * *
23611749 AAATACCCCTATAGGGTAAAATGATTGAAATACCCCCAAAAGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATAGAAATACCCTCATAGGGTAAAATGACCG
* * **
23611803 AAATACCTCCATAAGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGATAGAAATACCCTCATAGGGTAAAATGACCG
* * *
23611857 AAATACCCTCACAGGGTAAAATGACTA-AAATACCCTTATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGA-TAGAAATACCCTCATAGGGTAAAATGACCG
*
23611911 AAATACCCCTATAGGGTAAAATGAT
1 AAATACCCCCATAGGGTAAAATGAT
23611936 TGTTATACCC
Statistics
Matches: 204, Mismatches: 34, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
53 4 0.02
54 200 0.98
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.21
Consensus pattern (54 bp):
AAATACCCCCATAGGGTAAAATGATAGAAATACCCTCATAGGGTAAAATGACCG
Found at i:23611778 original size:81 final size:81
Alignment explanation
Indices: 23611641--23611934 Score: 371
Period size: 81 Copynumber: 3.6 Consensus size: 81
23611631 ATCTAAACCA
* * ***
23611641 AAATACCCTCATAGGGTAAAATGATCAAAATTTTGCC-ATAGGGTAAAATGACTGAAATACCCCC
1 AAATACCCTCATAAGGTAAAATGACCAAAA-TACCCCTATAGGGTAAAATGACTGAAATACCCCC
* *
23611705 ATATGGTAAAATGATAG
65 AAAAGGTAAAATGATAG
*
23611722 AAATACCCTCATAAGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGATTGAAATACCCCCA
1 AAATACCCTCATAAGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCA
*
23611787 AAAGGTAAAATGATCG
66 AAAGGTAAAATGATAG
* * *
23611803 AAATA-CCTCCATAAGGTAAAATGACCGAAATA-CCCTCATAGGGTAAAATGACCGAAATACCCT
1 AAATACCCT-CATAAGGTAAAATGACCAAAATACCCCT-ATAGGGTAAAATGACTGAAATACCCC
* *
23611866 CACAGGGTAAAATGACTA-
64 CAAAAGGTAAAATGA-TAG
* * *
23611884 AAATACCCTTATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGA
1 AAATACCCTCATAAGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGA
23611935 TTGTTATACC
Statistics
Matches: 189, Mismatches: 18, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
80 10 0.05
81 171 0.90
82 8 0.04
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (81 bp):
AAATACCCTCATAAGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCA
AAAGGTAAAATGATAG
Found at i:23612209 original size:26 final size:26
Alignment explanation
Indices: 23612174--23612248 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
23612164 ACATATATTG
*
23612174 TTACTCGCAGCTTTGCTGCGATACTGA
1 TTACTGGCAGCTTTGCTGCGATACT-A
* * *
23612201 -TACTGGCAGCTCTACTGC-AGTGCTA
1 TTACTGGCAGCTTTGCTGCGA-TACTA
*
23612226 TTATTGGCAGCTTTGCTGCGATA
1 TTACTGGCAGCTTTGCTGCGATA
23612249 TTGGTGTGTT
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
25 2 0.05
26 34 0.92
27 1 0.03
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCGATACTA
Found at i:23612401 original size:28 final size:28
Alignment explanation
Indices: 23612350--23612525 Score: 234
Period size: 28 Copynumber: 6.4 Consensus size: 28
23612340 TATTGCACTG
* *
23612350 CACT-ATTACTGTATTAGGCCAAGGCCCA
1 CACTGATT-CTGTATTGGGCTAAGGCCCA
*
23612378 CACTGATTCTGTGTTGGGCTAAGGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
* *
23612406 CACTGATTCTGTATTAGGCTGAGGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
*
23612434 CACTGATTCTGTATTGGGTTAA-GCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
*
23612461 CACTGATTATGTATTGGGCTAAGGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
*
23612489 GACT-ATTACTGTATTGGGCTAAGGCCCA
1 CACTGATT-CTGTATTGGGCTAAGGCCCA
23612517 CACTG-TTCT
1 CACTGATTCT
23612526 ATCACTGAGT
Statistics
Matches: 130, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
27 30 0.23
28 97 0.75
29 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (28 bp):
CACTGATTCTGTATTGGGCTAAGGCCCA
Found at i:23612514 original size:83 final size:82
Alignment explanation
Indices: 23612373--23612525 Score: 236
Period size: 83 Copynumber: 1.9 Consensus size: 82
23612363 TTAGGCCAAG
* * *
23612373 GCCCACACTGATTCTGTGTTGGGCTAAGGCCCACACTGATTCTGTATTAGGCTGAGGCCCACACT
1 GCCCACACTGATTATGTATTGGGCTAAGGCCCACACTGATTCTGTATTAGGCTAAGGCCCACACT
23612438 GATTCTGTATTGGGTTAA
66 G-TTCTGTATTGGGTTAA
* *
23612456 GCCCACACTGATTATGTATTGGGCTAAGGCCCAGACT-ATTACTGTATTGGGCTAAGGCCCACAC
1 GCCCACACTGATTATGTATTGGGCTAAGGCCCACACTGATT-CTGTATTAGGCTAAGGCCCACAC
23612520 TGTTCT
65 TGTTCT
23612526 ATCACTGAGT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
82 7 0.11
83 57 0.89
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (82 bp):
GCCCACACTGATTATGTATTGGGCTAAGGCCCACACTGATTCTGTATTAGGCTAAGGCCCACACT
GTTCTGTATTGGGTTAA
Found at i:23613724 original size:16 final size:16
Alignment explanation
Indices: 23613703--23613733 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23613693 TTATGCATGC
*
23613703 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
23613719 AAAATACAAAAGACA
1 AAAATACAAAAGACA
23613734 TAATAGTAAA
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:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:23614091 original size:28 final size:28
Alignment explanation
Indices: 23614060--23614142 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
23614050 ATGAAAGGGC
* * *
23614060 GCCTTTGTGGATATCTTTGGATAAGGAA
1 GCCTTTGTGGCTATATTTGGAAAAGGAA
* *
23614088 GCCTTTGTGGCTATTTTTGGAAAATGAA
1 GCCTTTGTGGCTATATTTGGAAAAGGAA
23614116 GCCTTTGTGGCTATATTT-GAAAAGGAA
1 GCCTTTGTGGCTATATTTGGAAAAGGAA
23614143 TGGCTTCGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
27 8 0.16
28 41 0.84
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.36
Consensus pattern (28 bp):
GCCTTTGTGGCTATATTTGGAAAAGGAA
Found at i:23614153 original size:28 final size:28
Alignment explanation
Indices: 23614060--23614154 Score: 93
Period size: 28 Copynumber: 3.4 Consensus size: 28
23614050 ATGAAAGGGC
* * * *
23614060 GCCTTTGTGGATATCTTTGGATAAGGAA
1 GCCTTCGTGGCTATATTTGGAAAAGGAA
* * *
23614088 GCCTTTGTGGCTATTTTTGGAAAATGAA
1 GCCTTCGTGGCTATATTTGGAAAAGGAA
*
23614116 GCCTTTGTGGCTATATTT-GAAAAGGAA
1 GCCTTCGTGGCTATATTTGGAAAAGGAA
*
23614143 TGGCTTCGTGGC
1 -GCCTTCGTGGC
23614155 ACCATCTAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 8 0.14
28 50 0.86
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (28 bp):
GCCTTCGTGGCTATATTTGGAAAAGGAA
Found at i:23617159 original size:29 final size:29
Alignment explanation
Indices: 23617127--23617268 Score: 169
Period size: 29 Copynumber: 4.9 Consensus size: 29
23617117 GGCTATCGAT
23617127 TATGAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
**
23617156 TATGAAAAGGGATGGTGGGGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
23617185 TATGAAAAGGGATGGTGACGACCATCGAT
1 TATGAAAAGGGATGGTGACGACCATCAAC
** *
23617214 TAATGAAAAGGGATGGTTTCGACTATCGAA-
1 T-ATGAAAAGGGATGGTGACGACCATC-AAC
* * *
23617244 TATAAAAAGGGACGGTTACGACCAT
1 TATGAAAAGGGATGGTGACGACCAT
23617269 TATTTAGTAC
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
29 73 0.75
30 23 0.24
31 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:23617252 original size:59 final size:58
Alignment explanation
Indices: 23617119--23617268 Score: 185
Period size: 59 Copynumber: 2.6 Consensus size: 58
23617109 ATAGCTTTGG
* *
23617119 CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGGGGA
1 CTATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGGCGA
* * * **
23617177 CCATC-AACTATGAAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATGGTTTCGA
1 CTATCGAA-TATGAAAAGGGATGGTGACGACCATCAACT-ATGAAAAGGGATGGTGGCGA
* * *
23617236 CTATCGAATATAAAAAGGGACGGTTACGACCAT
1 CTATCGAATATGAAAAGGGATGGTGACGACCAT
23617269 TATTTAGTAC
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
57 1 0.01
58 32 0.41
59 43 0.55
60 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (58 bp):
CTATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGGCGA
Found at i:23621442 original size:18 final size:18
Alignment explanation
Indices: 23621407--23621442 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23621397 ACACGGGTGT
*
23621407 AGGAAGAAGAAGATGAAA
1 AGGAAGAAGAAGAAGAAA
*
23621425 AGGAAGAAGATGAAGAAA
1 AGGAAGAAGAAGAAGAAA
23621443 GAAAATAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.33, T:0.06
Consensus pattern (18 bp):
AGGAAGAAGAAGAAGAAA
Found at i:23630339 original size:3 final size:3
Alignment explanation
Indices: 23630331--23630358 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23630321 GGTTGAAGCT
23630331 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
23630359 TATTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:23630363 original size:3 final size:3
Alignment explanation
Indices: 23630357--23630411 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
23630347 AATAATAATA
23630357 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
23630405 ATT ATT A
1 ATT ATT A
23630412 AGTATTNNNN
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:23638106 original size:34 final size:34
Alignment explanation
Indices: 23638054--23638121 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
23638044 ACATTTTTAA
* *
23638054 CACTATACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTATACTGAAAAGGGCTAAGGCCCAAGACTGT
*
23638087 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACT-ATACTGAAAAGGGCTAAGGCCCAAGACTGT
23638122 TTAACTATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 4 0.13
34 21 0.70
35 5 0.17
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.21
Consensus pattern (34 bp):
CACTATACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:23641893 original size:26 final size:26
Alignment explanation
Indices: 23641839--23641893 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
23641829 ATTTTTTATT
* ** **
23641839 AATTTGATCTTTATTTTTTAAAATTA
1 AATTTGACCTTTAACTTTTAAAAGAA
23641865 AATTTGACCTTTAACTTTTAAAAGAA
1 AATTTGACCTTTAACTTTTAAAAGAA
23641891 AAT
1 AAT
23641894 GTTAAACTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (26 bp):
AATTTGACCTTTAACTTTTAAAAGAA
Found at i:23642826 original size:196 final size:195
Alignment explanation
Indices: 23642493--23642884 Score: 739
Period size: 196 Copynumber: 2.0 Consensus size: 195
23642483 ATGTATTTGT
**
23642493 AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTTTAGTGTTTAATTCGGGTTTT
1 AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTTTAGTGTTTAATTCAAGTTTT
23642558 AGAGTTGATTTGATGAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCAAA
66 AGAGTTGATTTGATGAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCAAA
23642623 ATTAAATCACATCCATCAGACTATAACTGACAAGCTAAACACAAAATTAAACAAATTCACAATAA
131 ATTAAATCACATCCATCAGACTATAACTGACAAGCTAAACACAAAATTAAACAAATTCACAATAA
23642688 AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTTGTAGTGTTTAATTCAAGTTT
1 AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTT-TAGTGTTTAATTCAAGTTT
*
23642753 TAGAGTTGATTTGATGAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCGA
65 TAGAGTTGATTTGATGAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCAA
*
23642818 AATTAAATCACATCCATCAGACTATAACTGACAAGTTAAACACAAAATTAAACAAATTCACAATA
130 AATTAAATCACATCCATCAGACTATAACTGACAAGCTAAACACAAAATTAAACAAATTCACAATA
23642883 A
195 A
23642884 A
1 A
23642885 TACTAAATTT
Statistics
Matches: 192, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
195 45 0.23
196 147 0.77
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (195 bp):
AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTTTAGTGTTTAATTCAAGTTTT
AGAGTTGATTTGATGAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCAAA
ATTAAATCACATCCATCAGACTATAACTGACAAGCTAAACACAAAATTAAACAAATTCACAATAA
Found at i:23647699 original size:43 final size:43
Alignment explanation
Indices: 23647651--23647786 Score: 175
Period size: 43 Copynumber: 3.2 Consensus size: 43
23647641 TTATTTTTAT
*
23647651 AAACGCCGCTAAA-AGTCATGACCTTTAACGGCGCTTCTACCAC
1 AAACGCCGCTAAAGA-ACATGACCTTTAACGGCGCTTCTACCAC
* * *
23647694 AAACGCCGCGAAAGAACATGACCTTTAGCGGCGATTCTACCAC
1 AAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTCTACCAC
* * ** *
23647737 AAACGCCCCTAAAGAACATGATCTTTAACGATGCTTATACCAC
1 AAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTCTACCAC
23647780 AAACGCC
1 AAACGCC
23647787 ACTATAAGGA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 79 0.99
44 1 0.01
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTCTACCAC
Found at i:23649238 original size:27 final size:27
Alignment explanation
Indices: 23649208--23649263 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
23649198 ATTAATAACC
23649208 TGGGTATATATATAATTTATATTTACA
1 TGGGTATATATATAATTTATATTTACA
23649235 TGGGTATATATATAATTTATATTTACA
1 TGGGTATATATATAATTTATATTTACA
23649262 TG
1 TG
23649264 AAATTAATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (27 bp):
TGGGTATATATATAATTTATATTTACA
Found at i:23651736 original size:21 final size:21
Alignment explanation
Indices: 23651698--23651738 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23651688 NNNNNNNCCA
*
23651698 AGGGGGGAAATTAGGGATTTT
1 AGGGGGGAAATGAGGGATTTT
23651719 AGGGGGGAAGATGA-GGATTT
1 AGGGGGGAA-ATGAGGGATTT
23651739 CGGGGGGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.29, C:0.00, G:0.46, T:0.24
Consensus pattern (21 bp):
AGGGGGGAAATGAGGGATTTT
Found at i:23652230 original size:14 final size:15
Alignment explanation
Indices: 23652211--23652239 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23652201 ACCCTTGAAT
23652211 CCCTAAATC-CTAAC
1 CCCTAAATCACTAAC
23652225 CCCTAAATCACTAAC
1 CCCTAAATCACTAAC
23652240 TCTTAACCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCACTAAC
Found at i:23652295 original size:21 final size:21
Alignment explanation
Indices: 23652244--23652295 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
23652234 ACTAACTCTT
* * *
23652244 AACCCTTAACCCCTAACTACT
1 AACCCTTAAACCCTAAATACC
*
23652265 AATCCC-TAAACCTTAAATACC
1 AA-CCCTTAAACCCTAAATACC
23652286 AACCCTTAAA
1 AACCCTTAAA
23652296 TTAACCATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.12
21 19 0.76
22 3 0.12
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCCTTAAACCCTAAATACC
Found at i:23653145 original size:114 final size:113
Alignment explanation
Indices: 23652930--23653276 Score: 507
Period size: 114 Copynumber: 3.0 Consensus size: 113
23652920 CTGAGTATTA
* * * * *
23652930 GCGGCGCTTTTCCCAAAAACGTCGCTAAAGCCCTAAGCATTAGCCGCACTTTCTTAAAAACGCCA
1 GCGGCGC-TTTCCCAAAAACGCCGCTAAAG-CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCG
* *
23652995 CTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTATGTTTTTTT
64 CTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAAGTTTTTTT
23653045 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCC-TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* *
23653110 TAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTT
65 TAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAAGTTTTTTT
* * * *
23653159 GCGGCGCCTCCCCAAAAACGCCGCTAAAGACCTGAGCATTACCGGCGCTTTCTTAAAAACGCTGC
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAG-CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* * *
23653224 TAAATCCCTGAGAGCTCAGAAAACGACGTCGTTGGGCTTAAG-TTTTTT
65 TAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAAGTTTTTTT
23653272 GCGGC
1 GCGGC
23653277 TATTTTCAGC
Statistics
Matches: 213, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
113 13 0.06
114 191 0.90
115 9 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (113 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCT
AAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAAGTTTTTTT
Found at i:23653974 original size:12 final size:12
Alignment explanation
Indices: 23653938--23653984 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
23653928 AAGAATTATC
23653938 TTTTTAATTTAA
1 TTTTTAATTTAA
* *
23653950 -TTAT-ATATAA
1 TTTTTAATTTAA
23653960 TTTTTAATTTAA
1 TTTTTAATTTAA
*
23653972 TTTTTATTTTAA
1 TTTTTAATTTAA
23653984 T
1 T
23653985 AAAAATGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
10 5 0.18
11 6 0.21
12 17 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTTAATTTAA
Found at i:23654786 original size:2 final size:2
Alignment explanation
Indices: 23654779--23654807 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23654769 TTCTTGTGAT
23654779 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
23654808 TTTTTATAAT
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:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:23655232 original size:18 final size:18
Alignment explanation
Indices: 23655196--23655233 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23655186 TTTTTTTCCA
*
23655196 TTAATAATAATAAAGTTT
1 TTAATAATAATAAAATTT
23655214 TTAATAATAA-AAATATTT
1 TTAATAATAATAAA-ATTT
23655232 TT
1 TT
23655234 CATTTTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TTAATAATAATAAAATTT
Found at i:23656537 original size:17 final size:17
Alignment explanation
Indices: 23656498--23656529 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23656488 AGAAGTTGGG
23656498 ATAATTATACATTTAAA
1 ATAATTATACATTTAAA
23656515 ATAATTATA-ATTTAA
1 ATAATTATACATTTAA
23656530 TAGAAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAATTATACATTTAAA
Found at i:23656544 original size:43 final size:45
Alignment explanation
Indices: 23656487--23656576 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 45
23656477 TTAAGTAAAC
*
23656487 TAGAAGTTGGGATAATTA-TACA-TTT-AAAATAATTATAATTTAA
1 TAGAAATTGGGATAATTATTACACTTTAAAAAT-ATTATAATTTAA
*
23656530 TAGAAATTGTGATAATTATTACACTTTTAAAAATATTATAATTTAA
1 TAGAAATTGGGATAATTATTACAC-TTTAAAAATATTATAATTTAA
23656576 T
1 T
23656577 TTACAATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
43 16 0.39
44 4 0.10
46 16 0.39
47 5 0.12
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (45 bp):
TAGAAATTGGGATAATTATTACACTTTAAAAATATTATAATTTAA
Found at i:23656570 original size:46 final size:43
Alignment explanation
Indices: 23656487--23656576 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 43
23656477 TTAAGTAAAC
*
23656487 TAGAAGTTGGGATAATTATACATTTAAAATAATTATAATTTAA
1 TAGAAATTGGGATAATTATACATTTAAAATAATTATAATTTAA
*
23656530 TAGAAATTGTGATAATTATTACACTTTTAAAA-ATATTATAATTTAA
1 TAGAAATTGGGATAATTA-TACA--TTTAAAATA-ATTATAATTTAA
23656576 T
1 T
23656577 TTACAATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
43 16 0.39
44 4 0.10
45 1 0.02
46 20 0.49
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (43 bp):
TAGAAATTGGGATAATTATACATTTAAAATAATTATAATTTAA
Found at i:23658543 original size:42 final size:42
Alignment explanation
Indices: 23658474--23658554 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
23658464 ATTCGGATGC
* * *
23658474 CACAGGGCCTGGATACATGCCCATGTCCTTGCCCGTGTGGCT
1 CACACGGCCTGGATACACGCCCATGTCCTTGCCCATGTGGCT
*
23658516 CACACGGCCTAGG-TACACGCCTATGTCCTTGCCCATGTG
1 CACACGGCCT-GGATACACGCCCATGTCCTTGCCCATGTG
23658555 ATTTTAAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.16, C:0.35, G:0.26, T:0.23
Consensus pattern (42 bp):
CACACGGCCTGGATACACGCCCATGTCCTTGCCCATGTGGCT
Found at i:23658693 original size:36 final size:36
Alignment explanation
Indices: 23658626--23658694 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
23658616 GGCTCACACG
*
23658626 GCCTGGGCACACGCCCATATCCCTTGTCGTGTGAAC
1 GCCTGGGCACACGCCCATATCCCTTGCCGTGTGAAC
* *
23658662 GCCTGGGCATACGCCCATGT-CCTTGGCCGTGTG
1 GCCTGGGCACACGCCCATATCCCTT-GCCGTGTG
23658695 GTCCTAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 4 0.14
36 25 0.86
ACGTcount: A:0.13, C:0.35, G:0.29, T:0.23
Consensus pattern (36 bp):
GCCTGGGCACACGCCCATATCCCTTGCCGTGTGAAC
Found at i:23665524 original size:62 final size:62
Alignment explanation
Indices: 23665449--23665571 Score: 158
Period size: 62 Copynumber: 2.0 Consensus size: 62
23665439 GACCGTGCAA
* *
23665449 TCCTAAATCATAAACAGTAAGTTACACT-GCTTAGACATACGCCCAAGTCCTTGACCGTGTGG
1 TCCTAAATCATAAACAGTAAGTTACA-TGGCTTAGACACACGCCCAAGTCCTTAACCGTGTGG
** * * * *
23665511 TCCTAAATCATAAATTGTGAGTTACATGGCTTGGACACATGCCCATGTCCTTAACCGTGTG
1 TCCTAAATCATAAACAGTAAGTTACATGGCTTAGACACACGCCCAAGTCCTTAACCGTGTG
23665572 AACCCTGTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 1 0.02
62 51 0.98
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (62 bp):
TCCTAAATCATAAACAGTAAGTTACATGGCTTAGACACACGCCCAAGTCCTTAACCGTGTGG
Found at i:23666194 original size:10 final size:10
Alignment explanation
Indices: 23666179--23666207 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
23666169 GATAAATATA
23666179 AAAAGAAAAT
1 AAAAGAAAAT
23666189 AAAAGAAAAT
1 AAAAGAAAAT
23666199 AAAAGAAAA
1 AAAAGAAAA
23666208 AGGAAAGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (10 bp):
AAAAGAAAAT
Found at i:23677790 original size:27 final size:27
Alignment explanation
Indices: 23677751--23677836 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 27
23677741 GCATCACTTT
* *
23677751 CATTTCATGGATTGCCACAAAGGCTTC
1 CATTTCATAGATTGCCATAAAGGCTTC
**
23677778 CATTTCATAGATTGTTATAAAGGCTTC
1 CATTTCATAGATTGCCATAAAGGCTTC
* *
23677805 CTTTTCATAGATTTCCATAAAGGCTTC
1 CATTTCATAGATTGCCATAAAGGCTTC
23677832 CATTT
1 CATTT
23677837 TCTAGTGTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (27 bp):
CATTTCATAGATTGCCATAAAGGCTTC
Found at i:23680846 original size:8 final size:8
Alignment explanation
Indices: 23680829--23680864 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
23680819 AATAGGATTG
*
23680829 AATTGTAA
1 AATTTTAA
*
23680837 AATTTCAA
1 AATTTTAA
23680845 AATTTTAA
1 AATTTTAA
23680853 AATTTTAA
1 AATTTTAA
23680861 AATT
1 AATT
23680865 GGTATTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (8 bp):
AATTTTAA
Found at i:23681420 original size:16 final size:16
Alignment explanation
Indices: 23681399--23681430 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23681389 CATTTATAAC
23681399 ACCTTATAATAATGAT
1 ACCTTATAATAATGAT
23681415 ACCTTATAATAATGAT
1 ACCTTATAATAATGAT
23681431 TCAATATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
ACCTTATAATAATGAT
Found at i:23684034 original size:5 final size:5
Alignment explanation
Indices: 23684024--23684071 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
23684014 TTGAAGTTTT
* *
23684024 ATCGA ATCGA ATCGA GT-GA GATAGA ATTCGA ATCGA ATCGA ATCGA AT
1 ATCGA ATCGA ATCGA ATCGA -ATCGA A-TCGA ATCGA ATCGA ATCGA AT
23684072 ATATTTGTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.05
5 29 0.78
6 6 0.16
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (5 bp):
ATCGA
Found at i:23696031 original size:40 final size:40
Alignment explanation
Indices: 23695987--23696271 Score: 256
Period size: 40 Copynumber: 7.2 Consensus size: 40
23695977 ACTTGTTGTT
* **
23695987 TGAATGCACATTCGTGCCCTTGTTCGTACTTTAGTACCCC
1 TGAATGCACATTCGTGCCCTTGTTTGTACTTCGGTACCCC
*
23696027 TGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATTCGTGCCCTTGTTTGTACTTCGGTACCCC
* * * *
23696067 TGAATGCACATTCATGCCCCTGTTTTTACTTCGGTACCCT
1 TGAATGCACATTCGTGCCCTTGTTTGTACTTCGGTACCCC
* **
23696107 TGAATGCACATTCATGCCACTAT-TTT-TACTTCAATACCCC
1 TGAATGCACATTCGTGCC-CT-TGTTTGTACTTCGGTACCCC
* * * * *
23696147 TAAATGTACGTTCGTGCCCTTGTTTATACTTCGGTACCCT
1 TGAATGCACATTCGTGCCCTTGTTTGTACTTCGGTACCCC
* ** *
23696187 TGAATGCACATAT-GTGCTTCTT-TTTGTACTTCCATACCCT
1 TGAATGCACAT-TCGTGC-CCTTGTTTGTACTTCGGTACCCC
* * * * * **
23696227 TAAATGCACATACATGCCC-TGTTTATACTTTGGTAAACC
1 TGAATGCACATTCGTGCCCTTGTTTGTACTTCGGTACCCC
23696266 TGAATG
1 TGAATG
23696272 AAATAGTATA
Statistics
Matches: 200, Mismatches: 37, Indels: 17
0.79 0.15 0.07
Matches are distributed among these distances:
38 2 0.01
39 22 0.11
40 167 0.83
41 8 0.04
42 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.36
Consensus pattern (40 bp):
TGAATGCACATTCGTGCCCTTGTTTGTACTTCGGTACCCC
Found at i:23696048 original size:20 final size:20
Alignment explanation
Indices: 23695987--23696088 Score: 73
Period size: 20 Copynumber: 5.1 Consensus size: 20
23695977 ACTTGTTGTT
*
23695987 TGAATGCACATTCGTGCCCT
1 TGAATGCACATTCGTGCCCC
* * * * *
23696007 TG-TTCGTACTTTAGTACCCC
1 TGAAT-GCACATTCGTGCCCC
23696027 TGAATGCACATTCGTGCCCC
1 TGAATGCACATTCGTGCCCC
** * *
23696047 TGTTTGTAC-TTCGGTACCCC
1 TGAATGCACATTC-GTGCCCC
*
23696067 TGAATGCACATTCATGCCCC
1 TGAATGCACATTCGTGCCCC
23696087 TG
1 TG
23696089 TTTTTACTTC
Statistics
Matches: 58, Mismatches: 20, Indels: 8
0.67 0.23 0.09
Matches are distributed among these distances:
19 4 0.07
20 50 0.86
21 4 0.07
ACGTcount: A:0.18, C:0.31, G:0.19, T:0.32
Consensus pattern (20 bp):
TGAATGCACATTCGTGCCCC
Found at i:23696137 original size:80 final size:80
Alignment explanation
Indices: 23695987--23696261 Score: 284
Period size: 80 Copynumber: 3.5 Consensus size: 80
23695977 ACTTGTTGTT
** ** * * * *
23695987 TGAATGCACATTCGTGCCCTTGTTCGTACTTTAGTACCCCTGAATGCACATTCGTGCCCCTGTTT
1 TGAATGCACATTCGTGCCCTTGTTTATACTTCGGTACCCTTGAATGCACATTCATGCCACTATTT
**
23696052 GTACTTCGGTACCCC
66 GTACTTCAATACCCC
* * *
23696067 TGAATGCACATTCATGCCCCTGTTTTTACTTCGGTACCCTTGAATGCACATTCATGCCACTATTT
1 TGAATGCACATTCGTGCCCTTGTTTATACTTCGGTACCCTTGAATGCACATTCATGCCACTATTT
*
23696132 TTACTTCAATACCCC
66 GTACTTCAATACCCC
* * * * ** *
23696147 TAAATGTACGTTCGTGCCCTTGTTTATACTTCGGTACCCTTGAATGCACATAT-GTGCTTCTTTT
1 TGAATGCACATTCGTGCCCTTGTTTATACTTCGGTACCCTTGAATGCACAT-TCATGCCACTATT
* *
23696211 TGTACTTCCATACCCT
65 TGTACTTCAATACCCC
* * * *
23696227 TAAATGCACATACATGCCC-TGTTTATACTTTGGTA
1 TGAATGCACATTCGTGCCCTTGTTTATACTTCGGTA
23696262 AACCTGAATG
Statistics
Matches: 163, Mismatches: 31, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
79 15 0.09
80 147 0.90
81 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (80 bp):
TGAATGCACATTCGTGCCCTTGTTTATACTTCGGTACCCTTGAATGCACATTCATGCCACTATTT
GTACTTCAATACCCC
Found at i:23696217 original size:120 final size:120
Alignment explanation
Indices: 23695986--23696246 Score: 305
Period size: 120 Copynumber: 2.2 Consensus size: 120
23695976 TACTTGTTGT
* * * *
23695986 TTGAATGCACATTCGTGCCCTTGTTCGTACTTTAGTACCCCTGAATGCACATTCGTGCCCCTGTT
1 TTGAATGCACATTCATGCCCTTGTTCGTACTTCAATACCCCTAAATGCACATTCGTGCCCCTGTT
* **
23696051 TGTACTTCGGTACCCCTGAATGCACATTCATGCCCCTGTTTTTACTTCGGTACCC
66 TATACTTCGGTACCCCTGAATGCACATTCATGCCCCTGTTTTTACTTCCATACCC
* * * *
23696106 TTGAATGCACATTCATGCCACTAT-TT-TTACTTCAATACCCCTAAATGTACGTTCGTGCCCTTG
1 TTGAATGCACATTCATGCC-CT-TGTTCGTACTTCAATACCCCTAAATGCACATTCGTGCCCCTG
* * **
23696169 TTTATACTTCGGTACCCTTGAATGCACATAT-GTGCTTCT-TTTTGTACTTCCATACCC
64 TTTATACTTCGGTACCCCTGAATGCACAT-TCATGCCCCTGTTTT-TACTTCCATACCC
* *
23696226 TTAAATGCACATACATGCCCT
1 TTGAATGCACATTCATGCCCT
23696247 GTTTATACTT
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
119 6 0.05
120 108 0.90
121 5 0.04
122 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.36
Consensus pattern (120 bp):
TTGAATGCACATTCATGCCCTTGTTCGTACTTCAATACCCCTAAATGCACATTCGTGCCCCTGTT
TATACTTCGGTACCCCTGAATGCACATTCATGCCCCTGTTTTTACTTCCATACCC
Found at i:23706756 original size:40 final size:40
Alignment explanation
Indices: 23706623--23706989 Score: 380
Period size: 40 Copynumber: 9.2 Consensus size: 40
23706613 ATACTTGTTG
* * *
23706623 CCTGAATGCACATCCGTGCCCCTGTTTGTAC-TTAGTACC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
* * *
23706662 CCTAAATGCACATTCGTGCCCCTATTTGTAGTTCGGTAGCC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTA-CC
* * *
23706703 CCTGAATGCACATTCGTGCCTCTGTTTTTACTTTGGTACC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
* * *
23706743 CCTGAATGCACATTCGTGCCCCTATTTATAGTTCGGTACC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
* *
23706783 CTCTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACC
1 C-CTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
* *
23706824 CCTAAATGCACATTCGTGCCACTATTTGTACTTTGGTACC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
* * * * *
23706864 CTTGAATGCACATTTGTGCCTCTTTTTGTACTTTAGTACC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
* * * * * *
23706904 CTTAAATGCACATAT-GCGCTCCTATTTGTACTTCGATACC
1 CCTGAATGCACAT-TCGTGCCCCTATTTGTACTTTGGTACC
* * * * * *
23706944 CTTGAACGCACATACGTG-CCCTGTTTATACTTTGGTAAC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
*
23706983 CTTGAAT
1 CCTGAAT
23706990 CAAATATTAT
Statistics
Matches: 274, Mismatches: 49, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
39 48 0.18
40 154 0.56
41 72 0.26
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (40 bp):
CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
Found at i:23706768 original size:81 final size:80
Alignment explanation
Indices: 23706623--23706980 Score: 452
Period size: 81 Copynumber: 4.5 Consensus size: 80
23706613 ATACTTGTTG
* *
23706623 CCTGAATGCACATCCGTGCCCCTGTTTGTAC-TTAGTACCCCTAAATGCACATTCGTGCCCCTAT
1 CCTGAATGCACATTCGTGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACATTCGTGCCCCTAT
*
23706687 TTGTAGTTCGGTAGCC
66 TTGTACTTCGGTA-CC
* * *
23706703 CCTGAATGCACATTCGTGCCTCTGTTTTTACTTTGGTACCCCTGAATGCACATTCGTGCCCCTAT
1 CCTGAATGCACATTCGTGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACATTCGTGCCCCTAT
* *
23706768 TTATAGTTCGGTACC
66 TTGTACTTCGGTACC
* *
23706783 CTCTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATTCGTGCCACTA
1 C-CTGAATGCACATTCGTGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACATTCGTGCCCCTA
*
23706848 TTTGTACTTTGGTACC
65 TTTGTACTTCGGTACC
* * * * * * * *
23706864 CTTGAATGCACATTTGTGCCTCTTTTTGTACTTTAGTACCCTTAAATGCACATAT-GCGCTCCTA
1 CCTGAATGCACATTCGTGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACAT-TCGTGCCCCTA
*
23706928 TTTGTACTTCGATACC
65 TTTGTACTTCGGTACC
* * * *
23706944 CTTGAACGCACATACGTG-CCCTGTTTATACTTTGGTA
1 CCTGAATGCACATTCGTGCCCCTGTTTGTACTTTGGTA
23706981 ACCTTGAATC
Statistics
Matches: 242, Mismatches: 33, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
79 15 0.06
80 111 0.46
81 116 0.48
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.35
Consensus pattern (80 bp):
CCTGAATGCACATTCGTGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACATTCGTGCCCCTAT
TTGTACTTCGGTACC
Found at i:23707781 original size:11 final size:11
Alignment explanation
Indices: 23707765--23707789 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23707755 GACATGATAG
23707765 AAATACAGTAT
1 AAATACAGTAT
23707776 AAATACAGTAT
1 AAATACAGTAT
23707787 AAA
1 AAA
23707790 AATTTCGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (11 bp):
AAATACAGTAT
Found at i:23708911 original size:25 final size:25
Alignment explanation
Indices: 23708883--23708943 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
23708873 TTCAGGTCAT
23708883 ATGAGCTTACCAATACTCAGCTCGC
1 ATGAGCTTACCAATACTCAGCTCGC
* * * * *
23708908 ATGACCTTATCATTATTCAGCTCGG
1 ATGAGCTTACCAATACTCAGCTCGC
*
23708933 AGGAGCTTACC
1 ATGAGCTTACC
23708944 GTTTATAGCT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (25 bp):
ATGAGCTTACCAATACTCAGCTCGC
Found at i:23713755 original size:95 final size:94
Alignment explanation
Indices: 23713577--23713761 Score: 217
Period size: 95 Copynumber: 2.0 Consensus size: 94
23713567 TCGAGTTATG
* * * * *
23713577 AATCAGACATTAACCATTACAAGATGTTGCTCACACGGGTTTTGAAGAAGCTGCAACACATACAA
1 AATCAGACACTAACCAGTACAAGATGCTGCTCACACGAGTTGTGAAGAAGCTGCAACACATACAA
23713642 AATCTTAACCATCAGTAAGGTATCCTATA
66 AATCTTAACCATCAGTAAGGTATCCTATA
* * * * * * *
23713671 AATCAGGACACTAACCAGTACACGATGCTGCTCGCACGAGTTGTGAGGAATCTGCAATATATGCA
1 AATCA-GACACTAACCAGTACAAGATGCTGCTCACACGAGTTGTGAAGAAGCTGCAACACATACA
* ** *
23713736 AGATCTTTGCCATCGGTAAGGTATCC
65 AAATCTTAACCATCAGTAAGGTATCC
23713762 ACCACCGGTA
Statistics
Matches: 74, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
94 5 0.07
95 69 0.93
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (94 bp):
AATCAGACACTAACCAGTACAAGATGCTGCTCACACGAGTTGTGAAGAAGCTGCAACACATACAA
AATCTTAACCATCAGTAAGGTATCCTATA
Found at i:23721532 original size:57 final size:56
Alignment explanation
Indices: 23721465--23721575 Score: 154
Period size: 57 Copynumber: 2.0 Consensus size: 56
23721455 AATAGGAAAG
* *
23721465 ATTTGTAAATG-ATTATGGTTTTCTCCAGAA-TGAAAATAAAAATAGAGAAATGAAATC
1 ATTTGGAAATGAATT-TGGTTTTCTCCA-AACTGAAAATAAAAAT-GAAAAATGAAATC
*
23721522 ATTTGGAAATGAATTTGGTTTTCTCTAAACTGAAAATAAAAATGAAAAATGAAA
1 ATTTGGAAATGAATTTGGTTTTCTCCAAACTGAAAATAAAAATGAAAAATGAAA
23721576 AATGAAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
56 12 0.24
57 34 0.69
58 3 0.06
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (56 bp):
ATTTGGAAATGAATTTGGTTTTCTCCAAACTGAAAATAAAAATGAAAAATGAAATC
Found at i:23721571 original size:7 final size:7
Alignment explanation
Indices: 23721554--23721584 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
23721544 CTCTAAACTG
23721554 AAAAT-A
1 AAAATGA
23721560 AAAATGA
1 AAAATGA
23721567 AAAATGA
1 AAAATGA
23721574 AAAATGA
1 AAAATGA
23721581 AAAA
1 AAAA
23721585 ACAAAAGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (7 bp):
AAAATGA
Found at i:23721578 original size:14 final size:13
Alignment explanation
Indices: 23721554--23721605 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
23721544 CTCTAAACTG
23721554 AAAATAAAAATGA
1 AAAATAAAAATGA
23721567 AAAATGAAAAATGA
1 AAAAT-AAAAATGA
*
23721581 AAAA-ACAAAA-GC
1 AAAATA-AAAATGA
*
23721593 AAAATGAAAATGA
1 AAAATAAAAATGA
23721606 CCTGAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 10 0.31
13 10 0.31
14 12 0.38
ACGTcount: A:0.73, C:0.04, G:0.12, T:0.12
Consensus pattern (13 bp):
AAAATAAAAATGA
Found at i:23721581 original size:26 final size:26
Alignment explanation
Indices: 23721552--23721602 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
23721542 TTCTCTAAAC
*
23721552 TGAAAATAA-AAATGAAAAATGAAAAA
1 TGAAAA-AACAAAAGAAAAATGAAAAA
*
23721578 TGAAAAAACAAAAGCAAAATGAAAA
1 TGAAAAAACAAAAGAAAAATGAAAA
23721603 TGACCTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.73, C:0.04, G:0.12, T:0.12
Consensus pattern (26 bp):
TGAAAAAACAAAAGAAAAATGAAAAA
Found at i:23727819 original size:23 final size:23
Alignment explanation
Indices: 23727788--23727838 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
23727778 ACCTACTTTC
*
23727788 TTACTGTAGTAATTTTTAGGG-TA
1 TTACAGTAGTAATTTTT-GGGATA
23727811 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTTGGGATA
23727834 TTACA
1 TTACA
23727839 TTTCTCTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (23 bp):
TTACAGTAGTAATTTTTGGGATA
Found at i:23729116 original size:12 final size:11
Alignment explanation
Indices: 23729094--23729119 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23729084 TACATTGTTC
23729094 TTTTCTTTTTT
1 TTTTCTTTTTT
23729105 TTTTCTTTTTT
1 TTTTCTTTTTT
23729116 TTTT
1 TTTT
23729120 GTGCCATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:23729429 original size:19 final size:20
Alignment explanation
Indices: 23729387--23729429 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
23729377 TCAAGCTTTC
*
23729387 TATTCACATTTTCATATTCA
1 TATTCACATTTTCATAATCA
23729407 -ATTCACATTTTCA-AATCA
1 TATTCACATTTTCATAATCA
23729425 TATTC
1 TATTC
23729430 CACAATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTCACATTTTCATAATCA
Found at i:23730196 original size:25 final size:25
Alignment explanation
Indices: 23730121--23730243 Score: 99
Period size: 22 Copynumber: 5.4 Consensus size: 25
23730111 CAGTATTAAA
* *
23730121 CAGAGAGCACTAAAGTG-TTAT-A-
1 CAGAGAGCACTAATGTGCTAATAAT
*
23730143 CAGAGAGCACAAATGTGCT-A-AA-
1 CAGAGAGCACTAATGTGCTAATAAT
*
23730165 CAGAGAGCACTAATGTGATAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
*
23730190 CAGAGAG--C--A--TGCTAGTAAT
1 CAGAGAGCACTAATGTGCTAATAAT
* *
23730209 CAGAGAGCACTGACGTGCTAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
23730234 CAGAGAGCAC
1 CAGAGAGCAC
23730244 GCTAAACTCC
Statistics
Matches: 83, Mismatches: 7, Indels: 19
0.76 0.06 0.17
Matches are distributed among these distances:
19 15 0.18
21 2 0.02
22 34 0.41
23 4 0.05
24 2 0.02
25 26 0.31
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.19
Consensus pattern (25 bp):
CAGAGAGCACTAATGTGCTAATAAT
Found at i:23735211 original size:39 final size:39
Alignment explanation
Indices: 23735119--23735230 Score: 120
Period size: 39 Copynumber: 2.9 Consensus size: 39
23735109 ACACACCATA
*
23735119 TTGTGGCCAAGCCATTG-A-ATTGCAGTCAAGCTACACG
1 TTGTGGCCAAGCCACTGAATATTGCAGTCAAGCTACACG
* * * * * *
23735156 CTATGGTCAAGGCACTGAATATTGTAGTCAAGCTACATG
1 TTGTGGCCAAGCCACTGAATATTGCAGTCAAGCTACACG
* **
23735195 TTGTGACCAAGCCACTGAATATTGCAAACAAGCTAC
1 TTGTGGCCAAGCCACTGAATATTGCAGTCAAGCTAC
23735231 CAAATACGGG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
37 12 0.21
38 1 0.02
39 45 0.78
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (39 bp):
TTGTGGCCAAGCCACTGAATATTGCAGTCAAGCTACACG
Found at i:23738460 original size:26 final size:26
Alignment explanation
Indices: 23738409--23738460 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
23738399 ACCAATATCA
* *
23738409 CAGCATAGCTGCCAATAGTAATAATG
1 CAGCAGAGCTGCCAATAGTAAGAATG
* *
23738435 CAGCAGAGCTGCCAGTAGTCAGAATG
1 CAGCAGAGCTGCCAATAGTAAGAATG
23738461 GCTAAGAGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGCAGAGCTGCCAATAGTAAGAATG
Found at i:23738497 original size:22 final size:22
Alignment explanation
Indices: 23738454--23738518 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
23738444 TGCCAGTAGT
* *
23738454 CAGAATGGCTA-AGAGCCGTAAA
1 CAGAATAGCTACA-AGCCATAAA
* * *
23738476 CAGGATAGCTATAAGCTATAAA
1 CAGAATAGCTACAAGCCATAAA
*
23738498 CAGAATGGCTACAAGCCATAA
1 CAGAATAGCTACAAGCCATAA
23738519 GTATAGTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (22 bp):
CAGAATAGCTACAAGCCATAAA
Found at i:23738583 original size:32 final size:32
Alignment explanation
Indices: 23738538--23738744 Score: 191
Period size: 32 Copynumber: 6.5 Consensus size: 32
23738528 TGTGATTGGG
*
23738538 ACAAAGCCATCAGTAGCAGTGATATGATCGGC
1 ACAAAGCCATCAGTAACAGTGATATGATCGGC
* * ** * *
23738570 ACACAGCCATCAGTAACGGCAACATGATCGGT
1 ACAAAGCCATCAGTAACAGTGATATGATCGGC
* * * *
23738602 ACAAAGCCATCAATAGCAGAGATATGATCGGT
1 ACAAAGCCATCAGTAACAGTGATATGATCGGC
* * * *
23738634 ACACAGCCATCAGTAATAGTGAAATGATCGTC
1 ACAAAGCCATCAGTAACAGTGATATGATCGGC
* * * *
23738666 ACACAGGCATCGGTAACAGTAATATGATCGGC
1 ACAAAGCCATCAGTAACAGTGATATGATCGGC
* * *
23738698 ATAAAGCCATCAGTAACGGT-ACTATGACCGGC
1 ACAAAGCCATCAGTAACAGTGA-TATGATCGGC
*
23738730 ATAAAGCCATCAGTA
1 ACAAAGCCATCAGTA
23738745 GCATCGCAGC
Statistics
Matches: 140, Mismatches: 34, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
31 1 0.01
32 139 0.99
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.19
Consensus pattern (32 bp):
ACAAAGCCATCAGTAACAGTGATATGATCGGC
Found at i:23738619 original size:64 final size:63
Alignment explanation
Indices: 23738538--23738747 Score: 226
Period size: 64 Copynumber: 3.3 Consensus size: 63
23738528 TGTGATTGGG
23738538 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGCAACATGATCGGT
1 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGG-AACATGATCGGT
* * * *
23738602 ACAAAGCCATCAATAGCAGAGATATGATCGGTACACAGCCATCAGTAATAGTGAA-ATGATC-GT
1 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAA-CG-GAACATGATCGGT
* * * * * * * * * *
23738665 CACACAGGCATCGGTAACAGTAATATGATCGGCATAAAGCCATCAGTAACGGTACTATGACCGGC
1 -ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGAAC-ATGATCGGT
*
23738730 ATAAAGCCATCAGTAGCA
1 ACAAAGCCATCAGTAGCA
23738748 TCGCAGCAAA
Statistics
Matches: 117, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
62 2 0.02
63 3 0.03
64 107 0.91
65 4 0.03
66 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.19
Consensus pattern (63 bp):
ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGAACATGATCGGT
Found at i:23738724 original size:96 final size:96
Alignment explanation
Indices: 23738538--23738744 Score: 229
Period size: 96 Copynumber: 2.2 Consensus size: 96
23738528 TGTGATTGGG
* * * *
23738538 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGCAACATGATCGGTA
1 ACAAAGCCATCAGTAACAGTGAAATGATCGGCACACAGCCATCAGTAACAGCAACATGATCGGCA
* * *
23738603 CAAAGCCATCAATAGCAGAGATATGATCGGT
66 CAAAGCCATCAATAACAGAGATATGACCGGC
* * * * * * *
23738634 ACACAGCCATCAGTAATAGTGAAATGATCGTCACACAGGCATCGGTAACAGTAATATGATCGGCA
1 ACAAAGCCATCAGTAACAGTGAAATGATCGGCACACAGCCATCAGTAACAGCAACATGATCGGCA
* *
23738699 TAAAGCCATCAGTAAC-G-GTACTATGACCGGC
66 CAAAGCCATCAATAACAGAG-A-TATGACCGGC
*
23738730 ATAAAGCCATCAGTA
1 ACAAAGCCATCAGTA
23738745 GCATCGCAGC
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
94 1 0.01
95 2 0.02
96 88 0.97
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.19
Consensus pattern (96 bp):
ACAAAGCCATCAGTAACAGTGAAATGATCGGCACACAGCCATCAGTAACAGCAACATGATCGGCA
CAAAGCCATCAATAACAGAGATATGACCGGC
Found at i:23738819 original size:27 final size:27
Alignment explanation
Indices: 23738788--23738851 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
23738778 AACAAAGTTG
* *
23738788 CCAGTAATAGT-ATATGTGGCCCAGCCA
1 CCAGTAACAGTGAT-TGTGGCACAGCCA
*
23738815 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCACAGCCA
23738842 CCAGT-ACAGT
1 CCAGTAACAGT
23738852 ACTTCCTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 26 0.79
28 2 0.06
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCACAGCCA
Found at i:23738948 original size:24 final size:23
Alignment explanation
Indices: 23738916--23738974 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
23738906 CCATGCTCAG
23738916 AATCAGTCATTCAAATCACAAACA
1 AATCAGTCATTCAAA-CACAAACA
* *
23738940 AATCAGTCATACCAAACACAGACA
1 AATCAGTCAT-TCAAACACAAACA
23738964 AATCAGTCATT
1 AATCAGTCATT
23738975 TAACCATAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.47, C:0.25, G:0.07, T:0.20
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAAACA
Found at i:23739077 original size:27 final size:27
Alignment explanation
Indices: 23739038--23739203 Score: 165
Period size: 27 Copynumber: 6.2 Consensus size: 27
23739028 TCACCAGGGC
23739038 ATTACAGTCATTTTACCCTACAGGGGT
1 ATTACAGTCATTTTACCCTACAGGGGT
* * * *
23739065 ATTACAATTATTTTACCCTACAAGGAT
1 ATTACAGTCATTTTACCCTACAGGGGT
* * * *
23739092 ATTACGGTCATTTTATCCTATAGAGGT
1 ATTACAGTCATTTTACCCTACAGGGGT
* * *
23739119 ATTACGGTCATTTTACCTTACAGGGTT
1 ATTACAGTCATTTTACCCTACAGGGGT
* *
23739146 ATTA-AGATTATTTTACCCT-CAGGGGC
1 ATTACAG-TCATTTTACCCTACAGGGGT
* * *
23739172 ATTACGGTTATTTTACCTTACAGGGGT
1 ATTACAGTCATTTTACCCTACAGGGGT
23739199 ATTAC
1 ATTAC
23739204 CTTACAGTCG
Statistics
Matches: 111, Mismatches: 25, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
26 21 0.19
27 90 0.81
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (27 bp):
ATTACAGTCATTTTACCCTACAGGGGT
Found at i:23739102 original size:54 final size:54
Alignment explanation
Indices: 23739038--23739203 Score: 190
Period size: 54 Copynumber: 3.1 Consensus size: 54
23739028 TCACCAGGGC
* ** * *
23739038 ATTACAGTCATTTTACCCTACAGGGGTATTACAATTATTTTACCCTACAAGGAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTTATTTTACCTTACAGGGAT
* * * * *
23739092 ATTACGGTCATTTTATCCTATAGAGGTATTACGGTCATTTTACCTTACAGGGTT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTTATTTTACCTTACAGGGAT
* * * * *
23739146 ATTAAGATTATTTTACCCT-CAGGGGCATTACGGTTATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTTATTTTACCTTACAGGGAT
23739199 ATTAC
1 ATTAC
23739204 CTTACAGTCG
Statistics
Matches: 92, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
53 33 0.36
54 59 0.64
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (54 bp):
ATTACGGTCATTTTACCCTACAGGGGTATTACGGTTATTTTACCTTACAGGGAT
Found at i:23745574 original size:31 final size:27
Alignment explanation
Indices: 23745543--23745596 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
23745533 GGACTGGATA
23745543 GATAGCATATTAGTGTTTCAATCGGTT
1 GATAGCATATTAGTGTTTCAATCGGTT
23745570 GATAGCATATTAGTGTTTCAATCGGTT
1 GATAGCATATTAGTGTTTCAATCGGTT
23745597 TCCTAATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (27 bp):
GATAGCATATTAGTGTTTCAATCGGTT
Found at i:23753486 original size:13 final size:14
Alignment explanation
Indices: 23753468--23753497 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
23753458 CTACTCTTGA
23753468 AAAGAAAAAAA-AG
1 AAAGAAAAAAAGAG
23753481 AAAGAAAAAAAGAG
1 AAAGAAAAAAAGAG
23753495 AAA
1 AAA
23753498 TAAGAGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAGAG
Found at i:23757405 original size:38 final size:38
Alignment explanation
Indices: 23757360--23757439 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
23757350 AGTAGGTGAC
23757360 AAAGGAAAGGAGAGAACAAGGAGTGTAGGAAGAAGAAG
1 AAAGGAAAGGAGAGAACAAGGAGTGTAGGAAGAAGAAG
23757398 AAAGGAAAGGAGAGAACAAGGAGTGTAGGAAGAAGAAG
1 AAAGGAAAGGAGAGAACAAGGAGTGTAGGAAGAAGAAG
23757436 AAAG
1 AAAG
23757440 CTTTTCTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.54, C:0.03, G:0.39, T:0.05
Consensus pattern (38 bp):
AAAGGAAAGGAGAGAACAAGGAGTGTAGGAAGAAGAAG
Found at i:23762351 original size:19 final size:19
Alignment explanation
Indices: 23762329--23762366 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
23762319 TCAATCATCC
23762329 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
23762348 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
23762367 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:23764234 original size:19 final size:21
Alignment explanation
Indices: 23764206--23764244 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
23764196 ATTCACACCT
*
23764206 CAAGATTAAA-AA-ATAAAAG
1 CAAGACTAAATAAGATAAAAG
23764225 CAAGACTAAATAAGATAAAA
1 CAAGACTAAATAAGATAAAA
23764245 TTTAACCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 2 0.12
21 6 0.35
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (21 bp):
CAAGACTAAATAAGATAAAAG
Found at i:23768160 original size:37 final size:37
Alignment explanation
Indices: 23768105--23768175 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
23768095 TTTAAATTAC
*
23768105 AAGTATATGGTTACTTGATATGTG-AGCGAAAATGAAT
1 AAGTATATGGTTACTTGATATATGTA-CGAAAATGAAT
*
23768142 AAGTATATGGTTATTTGATATATGTACGAAAATG
1 AAGTATATGGTTACTTGATATATGTACGAAAATG
23768176 TTCAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (37 bp):
AAGTATATGGTTACTTGATATATGTACGAAAATGAAT
Found at i:23768525 original size:95 final size:95
Alignment explanation
Indices: 23768356--23768531 Score: 230
Period size: 95 Copynumber: 1.9 Consensus size: 95
23768346 TCCGATAGTG
* * * *
23768356 GATACCTTACTGATGGCTAAGATTCTGCATATAATACTTATTCTTCACAGCTCATATGAGTAGCA
1 GATACCTTACCGATGGCTAAGATTCTGCATATAATACTTATTCTTCACAGCTAATATGAGCAACA
*
23768421 TCATTTAATGGTTAATGTCCCAATTTACTA
66 TCATGTAATGGTTAATGTCCCAATTTACTA
* * * *
23768451 GATACCTTACCGATGGCTAAGATTCTGCATGT-GT-TTTGAATTCTTCACAGCTAATGTGAGCAA
1 GATACCTTACCGATGGCTAAGATTCTGCATATAATACTT--ATTCTTCACAGCTAATATGAGCAA
*
23768514 CATCGTGTAATGGTTAAT
64 CATCATGTAATGGTTAAT
23768532 AGTCAATTCA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
93 2 0.03
94 1 0.01
95 66 0.96
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (95 bp):
GATACCTTACCGATGGCTAAGATTCTGCATATAATACTTATTCTTCACAGCTAATATGAGCAACA
TCATGTAATGGTTAATGTCCCAATTTACTA
Found at i:23769733 original size:26 final size:26
Alignment explanation
Indices: 23769695--23769747 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
23769685 TTGAGGTGTC
23769695 AATTGTGGCATATTGGTTAGGCACTT
1 AATTGTGGCATATTGGTTAGGCACTT
*
23769721 AATTGTGGGATATTGGTTAGGCACTT
1 AATTGTGGCATATTGGTTAGGCACTT
23769747 A
1 A
23769748 GGATGAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.09, G:0.28, T:0.38
Consensus pattern (26 bp):
AATTGTGGCATATTGGTTAGGCACTT
Found at i:23774752 original size:29 final size:29
Alignment explanation
Indices: 23774707--23774825 Score: 116
Period size: 29 Copynumber: 4.1 Consensus size: 29
23774697 GTGTTAAATA
* * * *
23774707 ATGGTCGTAACCGTCCCTTTCCATATTCG
1 ATGGTCGAAACCATCCCTTTTCATAATCG
23774736 ATGGTCGAAACCATCCCTTTTCATTAATC-
1 ATGGTCGAAACCATCCCTTTTCA-TAATCG
* **
23774765 AGTGGTTGTCACCATCCCTTTTCATAATCG
1 A-TGGTCGAAACCATCCCTTTTCATAATCG
* *
23774795 ATAG-CTGAAACTATCCCTTTTCATAATCG
1 ATGGTC-GAAACCATCCCTTTTCATAATCG
23774824 AT
1 AT
23774826 AACCAAATCT
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
29 50 0.68
30 24 0.32
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.35
Consensus pattern (29 bp):
ATGGTCGAAACCATCCCTTTTCATAATCG
Found at i:23774873 original size:29 final size:29
Alignment explanation
Indices: 23774778--23774866 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 29
23774768 GGTTGTCACC
*
23774778 ATCCCTTTTCATAATCGATAGCTGAAACT
1 ATCCCTTTTCATAATCGATAGCCGAAACT
*
23774807 ATCCCTTTTCATAATCGATAACC-AAATCT
1 ATCCCTTTTCATAATCGATAGCCGAAA-CT
* *
23774836 ATCCCTTTTCATATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAACT
23774865 AT
1 AT
23774867 TGCTTTTTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
28 3 0.06
29 48 0.91
30 2 0.04
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCGAAACT
Found at i:23779426 original size:34 final size:34
Alignment explanation
Indices: 23779383--23779449 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
23779373 CAAGTATATT
* *
23779383 AAATAATAATTACTTATATT-AAATAAATAAATA
1 AAATAATAATTAATTAAATTAAAATAAATAAATA
*
23779416 AAATATATAATTAATTAAATTAAAATAATTAAAT
1 AAATA-ATAATTAATTAAATTAAAATAAATAAAT
23779450 CTATAAATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 13 0.45
35 11 0.38
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (34 bp):
AAATAATAATTAATTAAATTAAAATAAATAAATA
Found at i:23780647 original size:10 final size:10
Alignment explanation
Indices: 23780630--23780721 Score: 54
Period size: 10 Copynumber: 9.6 Consensus size: 10
23780620 TTGTAAACAA
23780630 TATTAATATAT
1 TATTAATA-AT
23780641 T-TTAATAAT
1 TATTAATAAT
*
23780650 TATTAATAAA
1 TATTAATAAT
*
23780660 TATAAATAA-
1 TATTAATAAT
23780669 TA--AA-AA-
1 TATTAATAAT
* *
23780675 TACTAAAAAT
1 TATTAATAAT
23780685 TATTAAATAAT
1 TATT-AATAAT
* *
23780696 TATAAAT-GT
1 TATTAATAAT
23780705 TATTAAATAAT
1 TATT-AATAAT
23780716 TATTAA
1 TATTAA
23780722 AAAAAGCGGA
Statistics
Matches: 65, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
6 4 0.06
7 2 0.03
8 2 0.03
9 11 0.17
10 32 0.49
11 14 0.22
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (10 bp):
TATTAATAAT
Found at i:23780698 original size:11 final size:11
Alignment explanation
Indices: 23780678--23780722 Score: 60
Period size: 10 Copynumber: 4.4 Consensus size: 11
23780668 ATAAAAATAC
23780678 TAAA-AATTAT
1 TAAATAATTAT
23780688 TAAATAATTA-
1 TAAATAATTAT
*
23780698 TAAAT-GTTAT
1 TAAATAATTAT
23780708 TAAATAATTAT
1 TAAATAATTAT
23780719 TAAA
1 TAAA
23780723 AAAAGCGGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.10
10 14 0.47
11 13 0.43
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
TAAATAATTAT
Found at i:23781251 original size:124 final size:124
Alignment explanation
Indices: 23781050--23781399 Score: 628
Period size: 124 Copynumber: 2.8 Consensus size: 124
23781040 TAATTTCGAG
* *
23781050 TTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTTTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
* * *
23781115 AAATCCCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTT
66 AAATCACACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTT
*
23781174 TTGACGTTTCTGAGGAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
*
23781239 AAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTT
66 AAATCACACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTT
*
23781298 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
23781363 AAATCACACCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCACACCCTCGTGGACGCGCTTTTGCTACAGTAG
23781400 CATGTTTAGG
Statistics
Matches: 217, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 217 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
AAATCACACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTT
Found at i:23784489 original size:64 final size:64
Alignment explanation
Indices: 23784411--23784539 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
23784401 TTTTTTCAAT
23784411 TATTTGTACAAATTAATTAAGCTCATGTTATTACATCAAAAAATATCAAAATAACTCAAAAAAA
1 TATTTGTACAAATTAATTAAGCTCATGTTATTACATCAAAAAATATCAAAATAACTCAAAAAAA
*
23784475 TATTTGTACAAATTAATTAAGCTCATGTTATTACATCAAATAATATCAAAATAACTCAAAAAAA
1 TATTTGTACAAATTAATTAAGCTCATGTTATTACATCAAAAAATATCAAAATAACTCAAAAAAA
23784539 T
1 T
23784540 TCTATTTTAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (64 bp):
TATTTGTACAAATTAATTAAGCTCATGTTATTACATCAAAAAATATCAAAATAACTCAAAAAAA
Done.