Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 172 of 230
Found at i:51274505 original size:16 final size:15
Alignment explanation
Indices: 51274474--51274513 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
51274464 TTAAAAATCA
*
51274474 ATTTTTAACTTAAAAT
1 ATTTTTAA-ATAAAAT
51274490 ATATTTTAAATAAAAT
1 AT-TTTTAAATAAAAT
51274506 ATTTTTAA
1 ATTTTTAA
51274514 TGACATTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 10 0.45
17 6 0.27
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTTTAAATAAAAT
Found at i:51274510 original size:32 final size:31
Alignment explanation
Indices: 51274442--51274513 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 31
51274432 TATTTAGTAC
* *
51274442 TTTTTAAACTTAAAATGTATTTTTAAAAATCAA
1 TTTTT-AACTTAAAATATATTTTAAAAAAT-AA
51274475 TTTTTAACTTAAAATATATTTTAAATAAA-ATA
1 TTTTTAACTTAAAATATATTTTAAA-AAATA-A
51274507 TTTTTAA
1 TTTTTAA
51274514 TGACATTGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 1 0.03
32 26 0.74
33 8 0.23
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (31 bp):
TTTTTAACTTAAAATATATTTTAAAAAATAA
Found at i:51274904 original size:63 final size:61
Alignment explanation
Indices: 51274801--51274920 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 61
51274791 ATGTGATATC
*
51274801 TGTATTTTAAAAATGTCCAATGACTGTACCTGAACTATCAATATGTATTTTATTATGATGCA
1 TGTATTTTAAAAATGTCCAATGA-TGTACCTGAACTATCAATATATATTTTATTATGATGCA
* *
51274863 TGTACTTTTATAAAATGTCCAATG-TGGTACTTGAACTATCAATATATGTTTTATTATG
1 TGTA-TTTTA-AAAATGTCCAATGAT-GTACCTGAACTATCAATATATATTTTATTATG
51274921 GTACCGTTAG
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
62 5 0.10
63 34 0.65
64 13 0.25
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (61 bp):
TGTATTTTAAAAATGTCCAATGATGTACCTGAACTATCAATATATATTTTATTATGATGCA
Found at i:51275121 original size:30 final size:31
Alignment explanation
Indices: 51275042--51275125 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 31
51275032 AAAATCAAAT
* *
51275042 TTAATTAAAAAAGACAAATAACTAAACATATGG
1 TTAA-TAAAAAA-ATAAATAACTAAAAATATGG
*
51275075 CTAATAAAAAAGAAATAAATAA-TAAAAATATGG
1 TTAAT--AAAA-AAATAAATAACTAAAAATATGG
51275108 TTAATAAAAAAATAAATA
1 TTAATAAAAAAATAAATA
51275126 TAATACCATC
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
30 9 0.20
31 4 0.09
32 1 0.02
33 17 0.39
34 11 0.25
35 2 0.05
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (31 bp):
TTAATAAAAAAATAAATAACTAAAAATATGG
Found at i:51275296 original size:23 final size:22
Alignment explanation
Indices: 51275268--51275310 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
51275258 TAACTATATG
51275268 TTTAATTATTATTTTTAATTTAA
1 TTTAATT-TTATTTTTAATTTAA
*
51275291 TTTAATTTTTTTTTTAATTT
1 TTTAATTTTATTTTTAATTT
51275311 TTCACATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTAATTTTATTTTTAATTTAA
Found at i:51275300 original size:17 final size:17
Alignment explanation
Indices: 51275268--51275310 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
51275258 TAACTATATG
*
51275268 TTTAATTATTATTTTTAA
1 TTTAATT-TAATTTTTAA
**
51275286 TTTAATTTAATTTTTTT
1 TTTAATTTAATTTTTAA
51275303 TTTAATTT
1 TTTAATTT
51275311 TTCACATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTAATTTAATTTTTAA
Found at i:51275718 original size:20 final size:20
Alignment explanation
Indices: 51275673--51275720 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
51275663 TTTTTATATA
51275673 GTTATTA-TGAATTTATTAT
1 GTTATTATTGAATTTATTAT
*
51275692 GTAATTATTGAATTTATTAT
1 GTTATTATTGAATTTATTAT
*
51275712 TTTATTATT
1 GTTATTATT
51275721 TTAACCATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.60
Consensus pattern (20 bp):
GTTATTATTGAATTTATTAT
Found at i:51281093 original size:3 final size:3
Alignment explanation
Indices: 51281085--51281110 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
51281075 TGTAGTCTCT
51281085 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
51281111 GATTTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:51285630 original size:29 final size:27
Alignment explanation
Indices: 51285612--51285681 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
51285602 ATATTAAGTC
51285612 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
51285639 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
51285667 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
51285682 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:51285675 original size:28 final size:28
Alignment explanation
Indices: 51285612--51285709 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
51285602 ATATTAAGTC
*
51285612 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
51285639 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51285667 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
51285696 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51285710 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51290434 original size:143 final size:144
Alignment explanation
Indices: 51290176--51290469 Score: 518
Period size: 143 Copynumber: 2.0 Consensus size: 144
51290166 GATATGGTTG
* * *
51290176 ATCAAGATAGGATTTGTCCTTCCTACATAATGGGAGCAATATCTTAGGCCTCTTGATTGAGTGAG
1 ATCAAGATAGGATTTGTCCCTCCTACATAATGGGAGCAATATCTTAGGCCTCTAGATGGAGTGAG
51290241 ACTAGAAATGCATGGCCATGCTCGAATAAGTTGATATGAGATATCACACTTA-TTTTTTTATTAT
66 ACTAGAAATGCATGGCCATGCTCGAATAAGTTGATATGAGATATCACACTTATTTTTTTTATTAT
51290305 AGTCTACACAGAAT
131 AGTCTACACAGAAT
* *
51290319 ATCAAGATAGGATTTGTCCCTCCTACATAATGGGAGGAATATTTTAGGCCTCTAGATGGAGTGAG
1 ATCAAGATAGGATTTGTCCCTCCTACATAATGGGAGCAATATCTTAGGCCTCTAGATGGAGTGAG
* *
51290384 ACTAGAAATGGATGGCCATGCTCGAATAAGTTGATATGAGATATCACACTTATTTTTTTTATTGT
66 ACTAGAAATGCATGGCCATGCTCGAATAAGTTGATATGAGATATCACACTTATTTTTTTTATTAT
51290449 AGTCTACACAGAAT
131 AGTCTACACAGAAT
51290463 ATCAAGA
1 ATCAAGA
51290470 AATATGAGAT
Statistics
Matches: 143, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
143 111 0.78
144 32 0.22
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (144 bp):
ATCAAGATAGGATTTGTCCCTCCTACATAATGGGAGCAATATCTTAGGCCTCTAGATGGAGTGAG
ACTAGAAATGCATGGCCATGCTCGAATAAGTTGATATGAGATATCACACTTATTTTTTTTATTAT
AGTCTACACAGAAT
Found at i:51298617 original size:39 final size:39
Alignment explanation
Indices: 51298563--51298641 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
51298553 AAAGTTCAAG
51298563 ATAATTTCGTTGTTCATTCTTTGACTAAGTGGATTATGT
1 ATAATTTCGTTGTTCATTCTTTGACTAAGTGGATTATGT
*
51298602 ATAATTTCGTTGTTCATTCTTTGACTGAGTGGATTATGT
1 ATAATTTCGTTGTTCATTCTTTGACTAAGTGGATTATGT
51298641 A
1 A
51298642 GAGGCTGAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (39 bp):
ATAATTTCGTTGTTCATTCTTTGACTAAGTGGATTATGT
Found at i:51309639 original size:25 final size:25
Alignment explanation
Indices: 51309593--51309666 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
51309583 AGATAACACG
* *
51309593 CCACAAA-GCTTTCAAGTG-AATTCG
1 CCACAAAGGCTTTCCA-TGAAATTCA
*
51309617 CCACAGAGGCTTTCCATGAAATTCA
1 CCACAAAGGCTTTCCATGAAATTCA
* * *
51309642 CCATAAAGGTTTTTCATGAAATTCA
1 CCACAAAGGCTTTCCATGAAATTCA
51309667 TGTTTACTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
24 8 0.20
25 33 0.80
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (25 bp):
CCACAAAGGCTTTCCATGAAATTCA
Found at i:51310537 original size:16 final size:17
Alignment explanation
Indices: 51310516--51310551 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
51310506 TCAATCATCC
51310516 CTCATCCCTCATCC-CT
1 CTCATCCCTCATCCTCT
*
51310532 CTCATCTCTCATCCTCT
1 CTCATCCCTCATCCTCT
51310549 CTC
1 CTC
51310552 TCAACTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.11, C:0.53, G:0.00, T:0.36
Consensus pattern (17 bp):
CTCATCCCTCATCCTCT
Found at i:51316896 original size:7 final size:7
Alignment explanation
Indices: 51316884--51316913 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
51316874 ACTTTTTCAA
51316884 TCATCCC
1 TCATCCC
51316891 TCATCCC
1 TCATCCC
51316898 TCATCCC
1 TCATCCC
51316905 TCATCCC
1 TCATCCC
51316912 TC
1 TC
51316914 TCATCTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.57, G:0.00, T:0.30
Consensus pattern (7 bp):
TCATCCC
Found at i:51320469 original size:15 final size:14
Alignment explanation
Indices: 51320449--51320483 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
51320439 ACAGATATGA
51320449 TTTTTATTTTTATTT
1 TTTTTA-TTTTATTT
51320464 TTTTTATTTTATTT
1 TTTTTATTTTATTT
51320478 TCTTTT
1 T-TTTT
51320484 TAGGTTGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTATTTTATTT
Found at i:51322852 original size:81 final size:81
Alignment explanation
Indices: 51322717--51322915 Score: 229
Period size: 81 Copynumber: 2.5 Consensus size: 81
51322707 GGAAAGGATG
* * * * * ** *
51322717 CCTATGTGGCTCAAGATGAAAGGAACGTCTTTATGGTGAATCATGAAAAGGTAGTCTTTGTGGCA
1 CCTATGTGGCACAAAATGAAAGGAACGCCTTTGTGGCGAATCATGAAAAGGTAGTCCCTATGGCA
51322782 AACCCTGCAATAATAA
66 AACCCTGCAATAATAA
* * * *
51322798 CCTATATGGCACAATATGAAAGGAACGCCTTTGTGGCGAATTATGAAAGGGTAGTCCCTATGGCA
1 CCTATGTGGCACAAAATGAAAGGAACGCCTTTGTGGCGAATCATGAAAAGGTAGTCCCTATGGCA
* *
51322863 AACCCTGCAATGATCA
66 AACCCTGCAATAATAA
* * *
51322879 CCTTTGTGGCGA-AAAATGAAAGGAATGCATTTGTGGC
1 CCTATGTGGC-ACAAAATGAAAGGAACGCCTTTGTGGC
51322916 AAACTCCATA
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 98 0.99
82 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (81 bp):
CCTATGTGGCACAAAATGAAAGGAACGCCTTTGTGGCGAATCATGAAAAGGTAGTCCCTATGGCA
AACCCTGCAATAATAA
Found at i:51327251 original size:29 final size:30
Alignment explanation
Indices: 51327191--51327251 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
51327181 GCCTTTTAAA
* * **
51327191 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACAACCAAAATTT
51327221 AATATTTACAAAAAGAG-CAACCAAAATTT
1 AATATTTACAAAAAGAGACAACCAAAATTT
51327250 AA
1 AA
51327252 AAATAATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAAAATTT
Found at i:51334640 original size:16 final size:16
Alignment explanation
Indices: 51334621--51334662 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
51334611 ATTAATTTGG
51334621 ATTAAAATTAAAATTA
1 ATTAAAATTAAAATTA
*
51334637 ATT-ATATTATAAATTA
1 ATTAAAATTA-AAATTA
51334653 A-TAAAATTAA
1 ATTAAAATTAA
51334663 TTTGGACAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTAAAATTAAAATTA
Found at i:51338045 original size:20 final size:20
Alignment explanation
Indices: 51338020--51338067 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
51338010 TATCATCATA
51338020 ACAGATACCCTTCTTGACAT
1 ACAGATACCCTTCTTGACAT
51338040 ACAGATACCCTTCTTGACAT
1 ACAGATACCCTTCTTGACAT
51338060 ACAGATAC
1 ACAGATAC
51338068 ACATCTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.27
Consensus pattern (20 bp):
ACAGATACCCTTCTTGACAT
Found at i:51340474 original size:40 final size:40
Alignment explanation
Indices: 51340418--51340507 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
51340408 AGGGGCACCA
* ** *
51340418 AAGTGCAAACATAGGCATTATTGTACAATCATAGGCATCG
1 AAGTGCAAACAGAGGCACGATTGTACAATCAAAGGCATCG
* * **
51340458 AAGTGCAAATAGAGGCACGATTGTGCAATCAAAGTTATCG
1 AAGTGCAAACAGAGGCACGATTGTACAATCAAAGGCATCG
51340498 AAGTGCAAAC
1 AAGTGCAAAC
51340508 TTGTACAAGC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (40 bp):
AAGTGCAAACAGAGGCACGATTGTACAATCAAAGGCATCG
Found at i:51353554 original size:19 final size:20
Alignment explanation
Indices: 51353530--51353571 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
51353520 CAAACACCAG
*
51353530 AAAAGTAAATTA-TTTTCAA
1 AAAAGTAAATCATTTTTCAA
51353549 AAAAGTAAATCATTTTTCAA
1 AAAAGTAAATCATTTTTCAA
51353569 AAA
1 AAA
51353572 TTATTTTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAAGTAAATCATTTTTCAA
Found at i:51354414 original size:9 final size:9
Alignment explanation
Indices: 51354400--51354427 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
51354390 TTTTGTTACA
51354400 ACAATTAAT
1 ACAATTAAT
51354409 ACAATTAAT
1 ACAATTAAT
51354418 ACAATTAAT
1 ACAATTAAT
51354427 A
1 A
51354428 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:51354449 original size:68 final size:68
Alignment explanation
Indices: 51354370--51354570 Score: 298
Period size: 59 Copynumber: 3.1 Consensus size: 68
51354360 TCAAGTTTGT
*
51354370 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
51354435 AAA
66 AAA
*
51354438 TTTACTAATCAAATGTTAGATTCTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
51354494 AAA
66 AAA
51354497 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
51354560 AAT
66 AAA
51354563 TTTACTAA
1 TTTACTAA
51354571 CAATTAATTT
Statistics
Matches: 120, Mismatches: 4, Indels: 20
0.83 0.03 0.14
Matches are distributed among these distances:
59 55 0.46
60 1 0.01
62 2 0.02
65 2 0.02
66 27 0.22
67 2 0.02
68 31 0.26
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:51354580 original size:16 final size:16
Alignment explanation
Indices: 51354559--51354600 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
51354549 AATAATTTGA
*
51354559 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
51354575 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
51354591 TAGTTTTAAT
1 TAATTTTAAT
51354601 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:51354584 original size:22 final size:22
Alignment explanation
Indices: 51354574--51354628 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
51354564 TTACTAACAA
* * *
51354574 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
51354596 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
51354618 TTAATTTTAAT
1 TTAATTTTAAT
51354629 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:51354589 original size:59 final size:63
Alignment explanation
Indices: 51354399--51354592 Score: 217
Period size: 59 Copynumber: 3.1 Consensus size: 63
51354389 ATTTTGTTAC
* *
51354399 AACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATC-A--AATGTTAGAT
1 AACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAATTAATTTTATAT
* *
51354459 -TCTATTACA-ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTA
1 AACAATTA-ATACAATTAATACAATTAATAATTTGATAAATTTACTAATC-AA--TTA-ATTTTA
*
51354522 TTAC
61 -TAT
*
51354526 AACAATTAATACAATT-A-ACAATTAATAATTTGATAATTTTACTAA-CAATTAATTTTA-AT
1 AACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAATTAATTTTATAT
51354585 AACAATTA
1 AACAATTA
51354593 GTTTTAATTT
Statistics
Matches: 114, Mismatches: 9, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
59 53 0.46
60 1 0.01
61 7 0.06
62 3 0.03
64 2 0.02
65 2 0.02
66 32 0.28
67 3 0.03
68 11 0.10
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (63 bp):
AACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAATTAATTTTATAT
Found at i:51357335 original size:29 final size:28
Alignment explanation
Indices: 51357302--51357357 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
51357292 CTTTGCTCCT
51357302 AATAATGTTA-CTTCCAAGATTTGAAACCC
1 AATAATGTTACCTT-CAAGATTT-AAACCC
*
51357331 AATAATGTTACCTTCAATATTTAAACC
1 AATAATGTTACCTTCAAGATTTAAACC
51357358 TATATTCTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.20
29 17 0.68
30 3 0.12
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (28 bp):
AATAATGTTACCTTCAAGATTTAAACCC
Found at i:51357569 original size:14 final size:14
Alignment explanation
Indices: 51357532--51357575 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
51357522 GAATTTAAAT
51357532 ATAAATATAATTACA
1 ATAAATATAATTA-A
*
51357547 ATAAATATATTTAA
1 ATAAATATAATTAA
*
51357561 ATAACTATAATTAA
1 ATAAATATAATTAA
51357575 A
1 A
51357576 ATTAATTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAAATATAATTAA
Found at i:51357616 original size:25 final size:25
Alignment explanation
Indices: 51357536--51357619 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
51357526 TTAAATATAA
* *
51357536 ATATAATTACAATAAATATATTTAAAT
1 ATATAATTA-AATTAATA-ATTAAAAT
** *
51357563 AACTATAATTAAAATTAATTGTTATAAT
1 -A-TATAATT-AAATTAATAATTAAAAT
51357591 ATATAATTAAATTAATAATTAAAAT
1 ATATAATTAAATTAATAATTAAAAT
51357616 ATAT
1 ATAT
51357620 TTAACCTCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
25 18 0.39
26 7 0.15
27 1 0.02
28 6 0.13
29 13 0.28
30 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (25 bp):
ATATAATTAAATTAATAATTAAAAT
Found at i:51358078 original size:36 final size:36
Alignment explanation
Indices: 51358036--51358106 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
51358026 TATTTTTAAA
* *
51358036 ATTTTTTTTTTGAAATATAAAGAGTTTATTTATTTAT
1 ATTTTTTATTTGAAAAAT-AAGAGTTTATTTATTTAT
* * *
51358073 ATTTTTTATTTTAAAAATATGATTTTATTTATTT
1 ATTTTTTATTTGAAAAATAAGAGTTTATTTATTT
51358107 TTAAAAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 14 0.48
37 15 0.52
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (36 bp):
ATTTTTTATTTGAAAAATAAGAGTTTATTTATTTAT
Found at i:51358895 original size:30 final size:30
Alignment explanation
Indices: 51358842--51358908 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
51358832 AAGCATATTT
51358842 TTTAAAA-TAAAAATTATAAAAAATAAACTC
1 TTTAAAATTAAAAATTATAAAAAATAAA-TC
* *
51358872 TTTAAAATTCAAAAA-TAT-AAAAATTAATT
1 TTTAAAATT-AAAAATTATAAAAAATAAATC
51358901 TTTAAAAT
1 TTTAAAAT
51358909 ATATAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 9 0.27
30 15 0.45
31 4 0.12
32 5 0.15
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (30 bp):
TTTAAAATTAAAAATTATAAAAAATAAATC
Found at i:51358917 original size:31 final size:33
Alignment explanation
Indices: 51358848--51358917 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 33
51358838 ATTTTTTAAA
51358848 ATAAAAATTATAAAAAATAAACTCTTTAAAATT
1 ATAAAAATTATAAAAAATAAACTCTTTAAAATT
* * *
51358881 -CAAAAA-TAT-AAAAATTAA-TTTTTAAAATAT
1 ATAAAAATTATAAAAAATAAACTCTTTAAAAT-T
51358911 ATAAAAA
1 ATAAAAA
51358918 AATTCTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
29 9 0.29
30 9 0.29
31 8 0.26
32 5 0.16
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (33 bp):
ATAAAAATTATAAAAAATAAACTCTTTAAAATT
Found at i:51360433 original size:17 final size:18
Alignment explanation
Indices: 51360411--51360449 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
51360401 AGAAGGGAAA
51360411 AAGATA-AAAAGAAAAAG-
1 AAGATAGAAAA-AAAAAGC
51360428 AAGATAGAAAAAAAAAGC
1 AAGATAGAAAAAAAAAGC
51360446 AAGA
1 AAGA
51360450 AGTTAGGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.05
Consensus pattern (18 bp):
AAGATAGAAAAAAAAAGC
Found at i:51375831 original size:5 final size:5
Alignment explanation
Indices: 51375821--51375861 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
51375811 TAAGAGGCAT
51375821 ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA A
1 ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA A
51375862 CATACAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (5 bp):
ATCTA
Found at i:51380182 original size:16 final size:17
Alignment explanation
Indices: 51380152--51380185 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
51380142 TAGGGTAATT
51380152 TAAAAAAGAAAAAGAAA
1 TAAAAAAGAAAAAGAAA
*
51380169 TAAAAAA-AAGAAGAAA
1 TAAAAAAGAAAAAGAAA
51380185 T
1 T
51380186 CAGCCACCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
TAAAAAAGAAAAAGAAA
Found at i:51384349 original size:43 final size:42
Alignment explanation
Indices: 51384299--51384436 Score: 145
Period size: 43 Copynumber: 3.3 Consensus size: 42
51384289 TATCCCGGAT
* * * *
51384299 ATGGTCTTACATGTTAACACATTTTGATGCCACTGTACCAGAC
1 ATGGTCTTACACGTT-ACTCATTTTGATGCCAATGTCCCAGAC
* * * *
51384342 AGGGTCTTATACG--ACTCATATATGATGCCAATATCCCAGAC
1 ATGGTCTTACACGTTACTCAT-TTTGATGCCAATGTCCCAGAC
* *
51384383 ATGGTCTTACACGTTCTCTCATTTCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTT-ACTCATTTTGATGCCAATGTCCCAGAC
51384426 ATGGTCTTACA
1 ATGGTCTTACA
51384437 TGAAATCACA
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
40 5 0.06
41 28 0.36
43 39 0.51
44 5 0.06
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGGTCTTACACGTTACTCATTTTGATGCCAATGTCCCAGAC
Found at i:51386656 original size:14 final size:15
Alignment explanation
Indices: 51386621--51386658 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
51386611 GTAGCTTGTT
*
51386621 CGGTTC-ACTAGATT
1 CGGTTCAACTAGATG
51386635 CGGTTCAACTA-ATG
1 CGGTTCAACTAGATG
51386649 CGGTTCAACT
1 CGGTTCAACT
51386659 GAACCCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (15 bp):
CGGTTCAACTAGATG
Found at i:51390692 original size:40 final size:40
Alignment explanation
Indices: 51390648--51390734 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
51390638 CAAAGTCTTA
51390648 CTGGATACTAAATTCTCACATACATAAGAATGAGTTGATC
1 CTGGATACTAAATTCTCACATACATAAGAATGAGTTGATC
*
51390688 CTGGACACTAAATTCTCACATACATAAGAATGAGTTGATC
1 CTGGATACTAAATTCTCACATACATAAGAATGAGTTGATC
51390728 CTGGATA
1 CTGGATA
51390735 TATCAATGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (40 bp):
CTGGATACTAAATTCTCACATACATAAGAATGAGTTGATC
Found at i:51397706 original size:17 final size:16
Alignment explanation
Indices: 51397671--51397729 Score: 86
Period size: 15 Copynumber: 3.8 Consensus size: 16
51397661 TATAGTCTCA
*
51397671 TATAGTGTCACAA-TC
1 TATAGTTTCACAAGTC
51397686 TATAGTTTTCACAAGTC
1 TATAG-TTTCACAAGTC
51397703 TATAGTTTCA-AAGTC
1 TATAGTTTCACAAGTC
51397718 TATAGTTTCACA
1 TATAGTTTCACA
51397730 TCTAAACAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
15 20 0.50
16 13 0.32
17 7 0.17
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (16 bp):
TATAGTTTCACAAGTC
Found at i:51398753 original size:22 final size:21
Alignment explanation
Indices: 51398704--51398754 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
51398694 TGGATAAGCC
*
51398704 ACCACATAATTGCCGATAACG
1 ACCACATAATTGCCAATAACG
*
51398725 ACCACATAATTG-CAATTAAACT
1 ACCACATAATTGCCAA-T-AACG
51398747 ACCACATA
1 ACCACATA
51398755 GCTTCCTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 13 0.50
22 11 0.42
ACGTcount: A:0.43, C:0.27, G:0.08, T:0.22
Consensus pattern (21 bp):
ACCACATAATTGCCAATAACG
Found at i:51409751 original size:67 final size:67
Alignment explanation
Indices: 51409641--51409781 Score: 255
Period size: 67 Copynumber: 2.1 Consensus size: 67
51409631 ATACTATGGA
*
51409641 TTAGGGATTAATTGTGAAAATAAGCTTGTTTTAGTTTTAGGGACTAAATTAAACAAATTGAAAAA
1 TTAGGGATTAATTGTGAAAATAAGCTTGTTTCAGTTTTAGGGACTAAATTAAACAAATTGAAAAA
51409706 CT
66 CT
* *
51409708 TTAGGGATTATTTGTGAAAATAAGCTTGTTTCAGTTTTTGGGACTAAATTAAACAAATTGAAAAA
1 TTAGGGATTAATTGTGAAAATAAGCTTGTTTCAGTTTTAGGGACTAAATTAAACAAATTGAAAAA
51409773 CT
66 CT
51409775 TTAGGGA
1 TTAGGGA
51409782 AATTATGAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 71 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.36
Consensus pattern (67 bp):
TTAGGGATTAATTGTGAAAATAAGCTTGTTTCAGTTTTAGGGACTAAATTAAACAAATTGAAAAA
CT
Found at i:51418929 original size:34 final size:34
Alignment explanation
Indices: 51418891--51418963 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
51418881 CACATTCAAG
* *
51418891 CCAATATTGGACGTTATGTCACCACATGGGAGAT
1 CCAATATTGGACATTATGTCACCACATGGGAGAC
51418925 CCAATATTGGACATTATGTCACCACATGGGAGAC
1 CCAATATTGGACATTATGTCACCACATGGGAGAC
51418959 CCAAT
1 CCAAT
51418964 GTCGCAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (34 bp):
CCAATATTGGACATTATGTCACCACATGGGAGAC
Found at i:51424244 original size:17 final size:17
Alignment explanation
Indices: 51424199--51424246 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
51424189 CATTGTCCCC
*
51424199 AATGCATTGAC-ATGAA
1 AATGCAATGACAATGAA
* * *
51424215 TATGTAATTACAATGAA
1 AATGCAATGACAATGAA
51424232 AATGCAATGACAATG
1 AATGCAATGACAATG
51424247 TATACTTATC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (17 bp):
AATGCAATGACAATGAA
Found at i:51438914 original size:19 final size:19
Alignment explanation
Indices: 51438890--51438929 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
51438880 ATCTCACCTC
51438890 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTAG-TTA
51438909 ATTCATTTGCATTTAGTTA
1 ATTCATTTGCATTTAGTTA
51438928 AT
1 AT
51438930 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTCATTTGCATTTAGTTA
Found at i:51452125 original size:58 final size:58
Alignment explanation
Indices: 51452003--51452132 Score: 156
Period size: 58 Copynumber: 2.2 Consensus size: 58
51451993 CATCTTAAAT
** *
51452003 TTAAATTTAATTTAATATTTATGTTCTTGATAAATATTATATTAATATAATAGATTTAGTA
1 TTAAATTTAATCAAATATTTA--TTCTTGATAAATATTATATTAATATAATA-ATTAAGTA
*
51452064 TTAAATTTAATCAAATATTTA-TCTTGATAAATATTATATTAATTTAAT-ATTAAAGTGA
1 TTAAATTTAATCAAATATTTATTCTTGATAAATATTATATTAATATAATAATT-AAGT-A
*
51452122 TTAAGTTTAAT
1 TTAAATTTAAT
51452133 TATAGTTGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
56 3 0.05
57 3 0.05
58 37 0.60
61 19 0.31
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (58 bp):
TTAAATTTAATCAAATATTTATTCTTGATAAATATTATATTAATATAATAATTAAGTA
Found at i:51456006 original size:31 final size:31
Alignment explanation
Indices: 51455968--51456027 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
51455958 TCAAACTTTG
*
51455968 GACATAGGTATCGATACCCAGATCAGGTACC
1 GACATAGGTATCGATACACAGATCAGGTACC
51455999 GACATAGGTATCGATACACAGATCAGGTA
1 GACATAGGTATCGATACACAGATCAGGTA
51456028 TCGATACCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (31 bp):
GACATAGGTATCGATACACAGATCAGGTACC
Found at i:51456028 original size:19 final size:19
Alignment explanation
Indices: 51456004--51456042 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
51455994 GTACCGACAT
51456004 AGGTATCGATACACAGATC
1 AGGTATCGATACACAGATC
*
51456023 AGGTATCGATACCCAGATC
1 AGGTATCGATACACAGATC
51456042 A
1 A
51456043 AGTACCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (19 bp):
AGGTATCGATACACAGATC
Found at i:51456216 original size:20 final size:19
Alignment explanation
Indices: 51456174--51456221 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
51456164 AAGTCAATTC
*
51456174 GTATTGATACCTTTATAAA
1 GTATTGATACCTTGATAAA
51456193 GTATTGAT-CCTTGATGATAA
1 GTATTGATACCTTGAT-A-AA
*
51456213 GTATCGATA
1 GTATTGATA
51456222 TTGTATACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (19 bp):
GTATTGATACCTTGATAAA
Found at i:51459086 original size:13 final size:12
Alignment explanation
Indices: 51459059--51459092 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
51459049 CCTTTTTACA
51459059 TTATTTTAATTT
1 TTATTTTAATTT
*
51459071 TTATTTTAGTTTT
1 TTATTTTA-ATTT
51459084 TTATTTTAA
1 TTATTTTAA
51459093 ATCCATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTATTTTAATTT
Found at i:51461660 original size:23 final size:23
Alignment explanation
Indices: 51461634--51461684 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
51461624 TTTGTTGAAG
*
51461634 TTAAATGAAAATATTCGTGAACA
1 TTAAATGAAAATATTCGTAAACA
* * *
51461657 TTAAATTAATATGTTCGTAAACA
1 TTAAATGAAAATATTCGTAAACA
51461680 TTAAA
1 TTAAA
51461685 CAAATATGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (23 bp):
TTAAATGAAAATATTCGTAAACA
Found at i:51461690 original size:23 final size:23
Alignment explanation
Indices: 51461647--51461694 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
51461637 AATGAAAATA
* **
51461647 TTCGTGAACATTAAATTAATATG
1 TTCGTAAACATTAAACAAATATG
51461670 TTCGTAAACATTAAACAAATATG
1 TTCGTAAACATTAAACAAATATG
51461693 TT
1 TT
51461695 TAGTAACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (23 bp):
TTCGTAAACATTAAACAAATATG
Found at i:51461703 original size:23 final size:23
Alignment explanation
Indices: 51461653--51461700 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
51461643 AATATTCGTG
** *
51461653 AACATTAAATTAATATGTTCGTA
1 AACATTAAACAAATATGTTAGTA
51461676 AACATTAAACAAATATGTTTAGTA
1 AACATTAAACAAATATG-TTAGTA
51461700 A
1 A
51461701 CATATTCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (23 bp):
AACATTAAACAAATATGTTAGTA
Found at i:51467963 original size:7 final size:8
Alignment explanation
Indices: 51467946--51467972 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
51467936 TCTCTCTCTC
51467946 TTTTTCTT
1 TTTTTCTT
51467954 TTTTTCTT
1 TTTTTCTT
51467962 TTTTTCTT
1 TTTTTCTT
51467970 TTT
1 TTT
51467973 GTAATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTCTT
Found at i:51470942 original size:28 final size:28
Alignment explanation
Indices: 51470911--51471062 Score: 90
Period size: 28 Copynumber: 5.2 Consensus size: 28
51470901 GAAAGCTTTC
51470911 TTTTCAGAGATTTGCCACAAAGGCATCA
1 TTTTCAGAGATTTGCCACAAAGGCATCA
* * * * * * * *
51470939 TTTTTATTCAGTACTCGCTAAAAAGGCTTCCC
1 TTTTCA--GAG-ATTTGCCACAAAGGCAT-CA
51470971 TTTT-AGAGATTTGCCACAAAGGCATCA
1 TTTTCAGAGATTTGCCACAAAGGCATCA
* * * * * **
51470998 TTTTCATTCAGTACTCGCCAAAAAGGCTTTT
1 TTTTCA--GAG-ATTTGCCACAAAGGCATCA
*
51471029 TTTTTAGAGATTTGCCACAAAGGCATCA
1 TTTTCAGAGATTTGCCACAAAGGCATCA
51471057 TTTTCA
1 TTTTCA
51471063 TTCAATACTC
Statistics
Matches: 85, Mismatches: 31, Indels: 16
0.64 0.23 0.12
Matches are distributed among these distances:
27 5 0.06
28 36 0.42
29 4 0.05
30 4 0.05
31 31 0.36
32 5 0.06
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (28 bp):
TTTTCAGAGATTTGCCACAAAGGCATCA
Found at i:51470964 original size:31 final size:31
Alignment explanation
Indices: 51470924--51471083 Score: 91
Period size: 31 Copynumber: 5.4 Consensus size: 31
51470914 TCAGAGATTT
*
51470924 GCCACAAAGGCATCATTTTTATTCAGTACTC
1 GCCAAAAAGGCATCATTTTTATTCAGTACTC
* * ** * * *
51470955 GCTAAAAAGGCTTCCCTTTTA--GAG-ATTT
1 GCCAAAAAGGCATCATTTTTATTCAGTACTC
* *
51470983 GCCACAAAGGCATCATTTTCATTCAGTACTC
1 GCCAAAAAGGCATCATTTTTATTCAGTACTC
* * * *
51471014 GCCAAAAAGGC-T--TTTTT-TTTAGAGATTT
1 GCCAAAAAGGCATCATTTTTATTCAG-TACTC
* * *
51471042 GCCACAAAGGCATCATTTTCATTCAATACTC
1 GCCAAAAAGGCATCATTTTTATTCAGTACTC
* *
51471073 TCCACAAAGGC
1 GCCAAAAAGGC
51471084 TTTCTTTTAA
Statistics
Matches: 90, Mismatches: 31, Indels: 16
0.66 0.23 0.12
Matches are distributed among these distances:
27 4 0.04
28 33 0.37
29 3 0.03
30 3 0.03
31 44 0.49
32 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (31 bp):
GCCAAAAAGGCATCATTTTTATTCAGTACTC
Found at i:51470979 original size:59 final size:59
Alignment explanation
Indices: 51470896--51471459 Score: 605
Period size: 59 Copynumber: 9.7 Consensus size: 59
51470886 AACAGAGGTA
*
51470896 GCCACGAAA-GCTTT-CTTTTCAGAGATTTGCCACAAAGGCATCATTTTTATTCAGTACTC
1 GCCAC-AAAGGCTTTCCTTTT-AGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * *
51470955 GCTAAAAAGGCTTCCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* ** *
51471014 GCCAAAAAGGCTTTTTTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAATACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * *
51471073 TCCACAAAGGCTTT-CTTTTAAGTGATTTTCCACAAAATGCATCACTTTT-ATTTAGTACTC
1 GCCACAAAGGCTTTCCTTTT-AGAGATTTGCCAC-AAAGGCATCA-TTTTCATTCAGTACTC
* * * *
51471133 GTCACAAAGGCTTTCCTTTAAGAGATTTGCCACAAAGGTATCCTTTTCATTCAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * *
51471192 GCCACAAATGCTTTCCTTTCAAAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * *
51471251 GCCACAAAGGCTTTCCTTTAAGAGATTTTCCACAAAGGCATCCTTTTCATTCAATATTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * * *
51471310 GCCACAAAGGCTCTCCTTTCAAAGATTTGCCACAAAGACATCCTTTTCATTCAGTACTT
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * * *
51471369 GCCACAAA-G--TT-C----A-ATGATTTTCTACAAATGAATCATTTTCTTTTAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGA-GATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* *
51471420 GCCACAAAGGCTTTCCTTTTTGTAGGTTTGCCACAAAGGC
1 GCCACAAAGGCTTTCCTTTTAG-AGATTTGCCACAAAGGC
51471460 TTTCCTTTTC
Statistics
Matches: 426, Mismatches: 61, Indels: 35
0.82 0.12 0.07
Matches are distributed among these distances:
50 1 0.00
51 36 0.08
52 1 0.00
54 2 0.00
55 2 0.00
56 1 0.00
58 12 0.03
59 305 0.72
60 57 0.13
61 9 0.02
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (59 bp):
GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
Found at i:51471170 original size:28 final size:28
Alignment explanation
Indices: 51471135--51471355 Score: 130
Period size: 28 Copynumber: 7.6 Consensus size: 28
51471125 TAGTACTCGT
*
51471135 CACAAAGGCTTTCCTTT-AAGAGATTTGC
1 CACAAAGGCTATCCTTTCAA-AGATTTGC
* * *
51471163 CACAAAGG-TATCCTTTTCATTCAGTACTCGC
1 CACAAAGGCTATCC-TTTCA--AAG-ATTTGC
* * *
51471194 CACAAATGCTTTCCTTTCAAAGATTTTC
1 CACAAAGGCTATCCTTTCAAAGATTTGC
* * *
51471222 CACAAAGGC-ATCCTTTTCATTCAGTACTCGC
1 CACAAAGGCTATCC-TTTCA--AAG-ATTTGC
* *
51471253 CACAAAGGCTTTCCTTT-AAGAGATTTTC
1 CACAAAGGCTATCCTTTCAA-AGATTTGC
* *
51471281 CACAAAGGC-ATCCTTTTCATTCAATATTCGC
1 CACAAAGGCTATCC-TTTCA---AAGATTTGC
*
51471312 CACAAAGGCTCTCCTTTCAAAGATTTGC
1 CACAAAGGCTATCCTTTCAAAGATTTGC
*
51471340 CACAAAGAC-ATCCTTT
1 CACAAAGGCTATCCTTT
51471356 TCATTCAGTA
Statistics
Matches: 145, Mismatches: 30, Indels: 37
0.68 0.14 0.17
Matches are distributed among these distances:
27 16 0.11
28 57 0.39
29 6 0.04
30 5 0.03
31 50 0.34
32 11 0.08
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (28 bp):
CACAAAGGCTATCCTTTCAAAGATTTGC
Found at i:51471198 original size:31 final size:31
Alignment explanation
Indices: 51471157--51471377 Score: 142
Period size: 31 Copynumber: 7.4 Consensus size: 31
51471147 CCTTTAAGAG
51471157 ATTTGCCACAAAGGTATCCTTTTCATTCAGT
1 ATTTGCCACAAAGGTATCCTTTTCATTCAGT
* * * * *
51471188 ACTCGCCACAAATGCTTTCC-TTTCA--AAG-
1 ATTTGCCACAAA-GGTATCCTTTTCATTCAGT
* *
51471216 ATTTTCCACAAAGGCATCCTTTTCATTCAGT
1 ATTTGCCACAAAGGTATCCTTTTCATTCAGT
* * * **
51471247 ACTCGCCACAAAGGCTTTCC-TTT-A-AGAG-
1 ATTTGCCACAAAGG-TATCCTTTTCATTCAGT
* * *
51471275 ATTTTCCACAAAGGCATCCTTTTCATTCAAT
1 ATTTGCCACAAAGGTATCCTTTTCATTCAGT
* * *
51471306 ATTCGCCACAAAGGCTCTCC-TTTCA--AAG-
1 ATTTGCCACAAAGG-TATCCTTTTCATTCAGT
**
51471334 ATTTGCCACAAAGACATCCTTTTCATTCAGT
1 ATTTGCCACAAAGGTATCCTTTTCATTCAGT
*
51471365 ACTTGCCACAAAG
1 ATTTGCCACAAAG
51471378 TTCAATGATT
Statistics
Matches: 136, Mismatches: 39, Indels: 30
0.66 0.19 0.15
Matches are distributed among these distances:
27 10 0.07
28 45 0.33
29 6 0.04
30 6 0.04
31 58 0.43
32 11 0.08
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.32
Consensus pattern (31 bp):
ATTTGCCACAAAGGTATCCTTTTCATTCAGT
Found at i:51471345 original size:237 final size:237
Alignment explanation
Indices: 51470905--51471345 Score: 641
Period size: 237 Copynumber: 1.9 Consensus size: 237
51470895 AGCCACGAAA
* * * *
51470905 GCTTTCTTTTCAGAGATTTGCCACAAAGGCATCATTTTTATTCAGTACTCGCTAAAAAGGCTTCC
1 GCTTTCCTTTAAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTCC
* * ** *
51470970 CTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTTTTTTTTA
66 CTTTCAAAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTTCCTTTAA
* * * *
51471035 GAGATTTGCCACAAAGGCATCATTTTCATTCAATACTCTCCACAAAGGCTTTCTTTTAAGTGATT
131 GAGATTTGCCACAAAGGCATCATTTTCATTCAATACTCGCCACAAAGGCTTCCTTTCAAGAGATT
*
51471100 TTCCACAAAATGCATCACTTTTATTTAGTACTCGTCACAAAG
196 TGCCACAAAATGCATCACTTTTATTTAGTACTCGTCACAAAG
* * * * *
51471142 GCTTTCCTTTAAGAGATTTGCCACAAAGGTATCCTTTTCATTCAGTACTCGCCACAAATGCTTTC
1 GCTTTCCTTTAAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTCC
* * *
51471207 CTTTCAAAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTCGCCACAAAGGCTTTCCTTTAA
66 CTTTCAAAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTTCCTTTAA
* * *
51471272 GAGATTTTCCACAAAGGCATCCTTTTCATTCAATATTCGCCACAAAGGCTCTCCTTTCAA-AGAT
131 GAGATTTGCCACAAAGGCATCATTTTCATTCAATACTCGCCACAAAGGCT-TCCTTTCAAGAGAT
51471336 TTGCCACAAA
195 TTGCCACAAA
51471346 GACATCCTTT
Statistics
Matches: 178, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
237 171 0.96
238 7 0.04
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (237 bp):
GCTTTCCTTTAAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTCC
CTTTCAAAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCTTTCCTTTAA
GAGATTTGCCACAAAGGCATCATTTTCATTCAATACTCGCCACAAAGGCTTCCTTTCAAGAGATT
TGCCACAAAATGCATCACTTTTATTTAGTACTCGTCACAAAG
Found at i:51471408 original size:51 final size:51
Alignment explanation
Indices: 51471327--51471428 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 51
51471317 AGGCTCTCCT
* *
51471327 TTCAAAGATTTGCCACAAAGACATCCTTTTCATTCAGTACTTGCCACAAAG
1 TTCAAAGATTTGCCACAAAGACATCATTTTCATTCAGTACTCGCCACAAAG
* * * * *
51471378 TTCAATGATTTTCTACAAATGA-ATCATTTTCTTTTAGTACTCGCCACAAAG
1 TTCAAAGATTTGCCACAAA-GACATCATTTTCATTCAGTACTCGCCACAAAG
51471429 GCTTTCCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 41 0.95
52 2 0.05
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (51 bp):
TTCAAAGATTTGCCACAAAGACATCATTTTCATTCAGTACTCGCCACAAAG
Found at i:51471482 original size:29 final size:29
Alignment explanation
Indices: 51471421--51471498 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
51471411 TTAGTACTCG
** * **
51471421 CCACAAAGGCTTTCCTTTTTGTAGGTTTG
1 CCACAAAGGCTTTCCTTTTCATAAGTTCA
51471450 CCACAAAGGCTTTCCTTTTCATAAGTTCA
1 CCACAAAGGCTTTCCTTTTCATAAGTTCA
* *
51471479 CCACAAAGGTTTTTCTTTTC
1 CCACAAAGGCTTTCCTTTTC
51471499 TGACGTGTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (29 bp):
CCACAAAGGCTTTCCTTTTCATAAGTTCA
Found at i:51489892 original size:13 final size:14
Alignment explanation
Indices: 51489867--51489897 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
51489857 GAAGCAACAG
51489867 AGAAAAGAAAAGCC
1 AGAAAAGAAAAGCC
51489881 AGAAAA-AAAAGCC
1 AGAAAAGAAAAGCC
51489894 AGAA
1 AGAA
51489898 TAAAGTCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.68, C:0.13, G:0.19, T:0.00
Consensus pattern (14 bp):
AGAAAAGAAAAGCC
Found at i:51490172 original size:15 final size:18
Alignment explanation
Indices: 51490139--51490173 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
51490129 TTTTATAGCC
51490139 AAAAATACAGAAAGAAAA
1 AAAAATACAGAAAGAAAA
51490157 AAAAAT-CA-AAAGAAAA
1 AAAAATACAGAAAGAAAA
51490173 A
1 A
51490174 GGAATCCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 2 0.12
18 6 0.35
ACGTcount: A:0.80, C:0.06, G:0.09, T:0.06
Consensus pattern (18 bp):
AAAAATACAGAAAGAAAA
Found at i:51491062 original size:45 final size:45
Alignment explanation
Indices: 51491006--51491138 Score: 155
Period size: 44 Copynumber: 3.0 Consensus size: 45
51490996 TCAATCGGCT
* * **
51491006 CCACTGTAACTTAAGGGAGATAAGATTTGCCATCTTCGATCTGCC
1 CCACTGCAACTTCAGGGAGATAAGACCTGCCATCTTCGATCTGCC
* * *
51491051 CCACTGCAACTTCAGGGGGATAAGACCTG-CTTGC-TC-AGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACCTGCCAT-CTTCGA-TCTGCC
*
51491095 CCGCTGCAACTTCAGGGAGATAAGACCTGCCATCTTCGATCTGC
1 CCACTGCAACTTCAGGGAGATAAGACCTGCCATCTTCGATCTGC
51491139 TCCGCTACTG
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 37 0.51
45 34 0.47
46 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACCTGCCATCTTCGATCTGCC
Found at i:51491158 original size:44 final size:45
Alignment explanation
Indices: 51490994--51491144 Score: 164
Period size: 45 Copynumber: 3.4 Consensus size: 45
51490984 GAATTATCGG
* * * * * **
51490994 CTTCAATCGGCTCCACTGTAACTTAAGGGAGATAAGATTTGCCAT
1 CTTCGATCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGCCAT
* * * *
51491039 CTTCGATCTGCCCCACTGCAACTTCAGGGGGATAAGACCTG-CTT
1 CTTCGATCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGCCAT
51491083 GC-TC-AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGCCAT
1 -CTTCGA-TCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGCCAT
51491128 CTTCGATCTGCTCCGCT
1 CTTCGATCTGCTCCGCT
51491145 ACTGCTTAGG
Statistics
Matches: 88, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
43 1 0.01
44 37 0.42
45 49 0.56
46 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (45 bp):
CTTCGATCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGCCAT
Found at i:51491270 original size:131 final size:131
Alignment explanation
Indices: 51491127--51491606 Score: 759
Period size: 131 Copynumber: 3.7 Consensus size: 131
51491117 AGACCTGCCA
* * *
51491127 TCTTCGATCTGCTCCGCTACT-GCTTAGGGAGACCAA-ATCTGTAATTTCCAACCTATTCCACTA
1 TCTTCGATCTGCTCCACTA-TAGCTTAGGGAGA-TAAGATCTGTAGTTTCCAACCTATTCCACTA
* * **
51491190 CTGAC-CAGGGACATAGGACTTGTGGCTTGAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTC
64 CTG-CTCAGGGAAATAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTC
*
51491254 ACCG
128 GCCG
** *
51491258 TCTTCGATCTGCTCCACTATTTCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCT
1 TCTTCGATCTGCTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
*
51491323 GCTCAGGGAAATAAGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCC
66 GCTCAGGGAAATAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCC
51491388 G
131 G
*
51491389 TCTTCGATCTGCTCCACTATAGCTTACGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
1 TCTTCGATCTGCTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
* *
51491454 GCTCAGGGAAATAGAACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCT
66 GCTCAGGGAAATAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCC
51491519 G
131 G
* *
51491520 TCTTCGATCTACTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCT
1 TCTTCGATCTGCTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
51491585 GCTCAGGGAAATAGGACTTGTG
66 GCTCAGGGAAATAGGACTTGTG
51491607 ATTTCACCAA
Statistics
Matches: 324, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
130 4 0.01
131 320 0.99
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (131 bp):
TCTTCGATCTGCTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
GCTCAGGGAAATAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCC
G
Found at i:51491331 original size:44 final size:43
Alignment explanation
Indices: 51491283--51491593 Score: 149
Period size: 44 Copynumber: 7.1 Consensus size: 43
51491273 ACTATTTCTT
* *
51491283 AGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTGCTC
1 AGGGAGATAAGATCTGTAGTTT-CAATCTATTCCACTACTGCTC
* * * * *
51491327 AGGGAAATAAGA-CTTGTGGCTTAAATCTATTTCC-CTACTCCT-
1 AGGGAGATAAGATC-TGTAGTTTCAATCTA-TTCCACTACTGCTC
* ** * ** *
51491369 GGGGAAGATAAGAT-TCGCCGTCTTCGATCTGCTCCACTA-TAGCTT
1 AGGG-AGATAAGATCT-GTAGT-TTCAATCTATTCCACTACT-GCTC
* *
51491414 ACGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACTGCTC
1 AGGGAGATAAGATCTGTAGTTT-CAATCTATTCCACTACTGCTC
* * * * * *
51491458 AGGGAAAT-AGAACTTGTGGCTTAAATCTATTTCC-CTACTCCT-
1 AGGGAGATAAGATC-TGTAGTTTCAATCTA-TTCCACTACTGCTC
* * * *
51491500 GGGGAAGATAAGAT-TCGCT-GTCTTCGATCTACTCCACTA-TAGCTT
1 AGGG-AGATAAGATCT-G-TAGT-TTCAATCTATTCCACTACT-GCTC
* *
51491545 AGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTGCTC
1 AGGGAGATAAGATCTGTAGTTT-CAATCTATTCCACTACTGCTC
51491589 AGGGA
1 AGGGA
51491594 AATAGGACTT
Statistics
Matches: 193, Mismatches: 48, Indels: 52
0.66 0.16 0.18
Matches are distributed among these distances:
42 8 0.04
43 55 0.28
44 121 0.63
45 9 0.05
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
AGGGAGATAAGATCTGTAGTTTCAATCTATTCCACTACTGCTC
Found at i:51492847 original size:7 final size:7
Alignment explanation
Indices: 51492826--51492882 Score: 73
Period size: 7 Copynumber: 8.0 Consensus size: 7
51492816 CCTTAGCCTC
51492826 TTCATTT
1 TTCATTT
51492833 TT-ACTTT
1 TTCA-TTT
51492840 TTCATTT
1 TTCATTT
51492847 TTCATTT
1 TTCATTT
51492854 TTCA-TT
1 TTCATTT
51492860 TTCATTTTT
1 TTCA--TTT
51492869 TTCATTT
1 TTCATTT
51492876 TTCATTT
1 TTCATTT
51492883 CTTTTTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
6 7 0.16
7 31 0.69
8 1 0.02
9 6 0.13
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCATTT
Found at i:51492850 original size:21 final size:21
Alignment explanation
Indices: 51492826--51492890 Score: 80
Period size: 22 Copynumber: 3.1 Consensus size: 21
51492816 CCTTAGCCTC
*
51492826 TTCATTTTTACTTTTTCA-TTT
1 TTCATTTTT-CATTTTCATTTT
51492847 TTCATTTTTCATTTTCATTTTT
1 TTCATTTTTCATTTTCA-TTTT
*
51492869 TTCATTTTTCA-TTTCTTTTT
1 TTCATTTTTCATTTTCATTTT
51492889 TT
1 TT
51492891 TTTGACTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
20 13 0.32
21 13 0.32
22 14 0.35
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCATTTTTCATTTTCATTTT
Found at i:51492893 original size:16 final size:16
Alignment explanation
Indices: 51492837--51492887 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
51492827 TCATTTTTAC
51492837 TTTTTCATTTTTCA--
1 TTTTTCATTTTTCATT
51492851 TTTTTCA-TTTTCATT
1 TTTTTCATTTTTCATT
51492866 TTTTTCATTTTTCATT
1 TTTTTCATTTTTCATT
51492882 TCTTTT
1 T-TTTT
51492888 TTTTTTGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.18
14 7 0.21
15 7 0.21
16 9 0.27
17 4 0.12
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTCATTTTTCATT
Found at i:51493814 original size:6 final size:6
Alignment explanation
Indices: 51493805--51493845 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
51493795 TTTCTCTCAT
* *
51493805 TTTTTA TTTTGA TTTTTTA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA -TTTTGA TTTTGA TTTTGA TTTTGA TTTT
51493846 TTTCCTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.76
Consensus pattern (6 bp):
TTTTGA
Found at i:51493819 original size:13 final size:13
Alignment explanation
Indices: 51493803--51493847 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
51493793 TTTTTCTCTC
51493803 ATTTTTTATTTTG
1 ATTTTTTATTTTG
51493816 ATTTTTTATTTTG
1 ATTTTTTATTTTG
*
51493829 A-TTTTGATTTTG
1 ATTTTTTATTTTG
51493841 ATTTTTT
1 ATTTTTT
51493848 TCCTTCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.76
Consensus pattern (13 bp):
ATTTTTTATTTTG
Found at i:51493820 original size:12 final size:12
Alignment explanation
Indices: 51493805--51493846 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
51493795 TTTCTCTCAT
51493805 TTTTTATTTTGA
1 TTTTTATTTTGA
51493817 TTTTTTATTTTGA
1 -TTTTTATTTTGA
*
51493830 TTTTGATTTTGA
1 TTTTTATTTTGA
51493842 TTTTT
1 TTTTT
51493847 TTCCTTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:51493858 original size:25 final size:25
Alignment explanation
Indices: 51493804--51493858 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
51493794 TTTTCTCTCA
* * *
51493804 TTTTTTATTTTGATTTTTTATTTTG
1 TTTTTGATTTTGATTTTTTATCTTC
*
51493829 ATTTTGATTTTGATTTTTT-TCCTTC
1 TTTTTGATTTTGATTTTTTAT-CTTC
51493854 TTTTT
1 TTTTT
51493859 TTTTCTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.11, C:0.05, G:0.07, T:0.76
Consensus pattern (25 bp):
TTTTTGATTTTGATTTTTTATCTTC
Found at i:51496037 original size:22 final size:22
Alignment explanation
Indices: 51496020--51496070 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
51496010 TCCCAAATAT
51496020 CCAAAGAAAGACAACCAAACAAC
1 CCAAA-AAAGACAACCAAACAAC
*
51496043 CCAAAATAGACAACCAAACAAC
1 CCAAAAAAGACAACCAAACAAC
51496065 CCAAAA
1 CCAAAA
51496071 TAGTGATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.61, C:0.31, G:0.06, T:0.02
Consensus pattern (22 bp):
CCAAAAAAGACAACCAAACAAC
Found at i:51496071 original size:22 final size:22
Alignment explanation
Indices: 51496028--51496073 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
51496018 ATCCAAAGAA
51496028 AGACAACCAAACAACCCAAAAT
1 AGACAACCAAACAACCCAAAAT
51496050 AGACAACCAAACAACCCAAAAT
1 AGACAACCAAACAACCCAAAAT
51496072 AG
1 AG
51496074 TGATATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.59, C:0.30, G:0.07, T:0.04
Consensus pattern (22 bp):
AGACAACCAAACAACCCAAAAT
Found at i:51501536 original size:30 final size:30
Alignment explanation
Indices: 51501502--51501580 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
51501492 GGTTGACATG
* **
51501502 TCCCTTTTCATAATTTGATAGCCGAAGTTA
1 TCCCTTTTCATAATTTGATAACCGAAGCAA
** * *
51501532 TCCCTTAACATAGTTTGATAATCGAAGCAA
1 TCCCTTTTCATAATTTGATAACCGAAGCAA
*
51501562 TCCCTTTTTATAATTTGAT
1 TCCCTTTTCATAATTTGAT
51501581 GGTTGTCACC
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (30 bp):
TCCCTTTTCATAATTTGATAACCGAAGCAA
Found at i:51501596 original size:30 final size:30
Alignment explanation
Indices: 51501561--51501720 Score: 112
Period size: 30 Copynumber: 5.3 Consensus size: 30
51501551 AATCGAAGCA
*
51501561 ATCCCTTTTTATAATTTGATGGT-TGTCACC
1 ATCCCTTTTCATAATTTGATGGTCT-TCACC
* **
51501591 GTCCCTTTTCATAATTCAATGGTCTTCACC
1 ATCCCTTTTCATAATTTGATGGTCTTCACC
***
51501621 ATCCCTTTTCATAATTTGATGG-CAGAAGCC
1 ATCCCTTTTCATAATTTGATGGTCTTCA-CC
* * * ***
51501651 ATCCCTTTTCA-AAGATCGATAG-CCAAAGCC
1 ATCCCTTTTCATAA-TTTGATGGTCTTCA-CC
* * *
51501681 ATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCTTCACC
51501711 ATCCCTTTTC
1 ATCCCTTTTC
51501721 TTGAACGATA
Statistics
Matches: 104, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
29 4 0.04
30 96 0.92
31 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.37
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCTTCACC
Found at i:51514912 original size:129 final size:129
Alignment explanation
Indices: 51514668--51515156 Score: 782
Period size: 129 Copynumber: 3.8 Consensus size: 129
51514658 GTGAAGATAG
*
51514668 CAGATCTTGTCACCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* *
51514733 AGGAAGCAGATTTAAGGCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGAGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTGGAATAGGTTGAGAAATTA
*
51514797 CAGATCTTGCCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* * * ** *
51514862 AAGAAGCAGATTTAAGCCATAAGTCCTATATCCCTGATCAGTAGCAGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTGGAATAGGTTGAGAAATTA
* *
51514926 CAGATCTTGTCTCTCTAAGCAGTAGCGGAGCAGATCAAAGACGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* * *
51514991 AGGAAGGAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAGTGGAATAGGTT-AGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTGGAATAGGTTGA-GAAATTA
* * *
51515055 CAGATTTTGTCTCCCTATGCAGTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* *
51515120 AGGAAGCAGATTTAAGCCACAAATCCTATCTCCCTGA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGA
51515157 AGTTGTAGTG
Statistics
Matches: 327, Mismatches: 32, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
129 327 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (129 bp):
CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTGGAATAGGTTGAGAAATTA
Found at i:51515219 original size:44 final size:44
Alignment explanation
Indices: 51515146--51515384 Score: 172
Period size: 44 Copynumber: 5.6 Consensus size: 44
51515136 CCACAAATCC
* * * *
51515146 TATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCA
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCAATAGATCT
* * * *
51515190 TATCTCTCTGAAGTTGCAGTAGAGTGGATC---GCATTAAATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCAATAGATCT
* * * * *
51515231 TATCTCCCTGAGGTTGCAGT-GAAGCAGATTAAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTAG-AGCGGATCAAAG-CAATAGATCT
* * * * * *
51515275 TATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCAATAGATCT
* * *
51515319 TATCTCTCTGAAGTTGCAGTAGAGTGGATC---GC-ATCAGGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCAAT-AGATCT
* *
51515360 TATCTCCCTGAGGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTAGAGC
51515385 ACACTGAGAA
Statistics
Matches: 152, Mismatches: 35, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
40 3 0.02
41 58 0.38
43 3 0.02
44 84 0.55
45 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCAATAGATCT
Found at i:51515418 original size:129 final size:129
Alignment explanation
Indices: 51515141--51515418 Score: 398
Period size: 129 Copynumber: 2.2 Consensus size: 129
51515131 TTAAGCCACA
51515141 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTG
* * * *
51515206 CAGTAGAGTGGATCGCATTAAATCTTATCTCCCTGAGGTTGCAGTGAAGCAGATTAAAGCCGAT
66 CAGTAGAGTGGATCGCATCAAATCTTATCTCCCTGAGGTTGCAGTGAAGCACATGAAAGACGAT
* * * *
51515270 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGGTCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTG
** *
51515335 CAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCACACTGAGAAGAC-A
66 CAGTAGAGTGGATCGCATCAAATCTTATCTCCCTGAGGTTGCAGTGAAGCACA-TGA-AAGACGA
51515399 -
129 T
* * *
51515399 AGTCTTATCCCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTT
51515419 ATAGCGTGGC
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
129 125 0.95
130 3 0.02
131 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTG
CAGTAGAGTGGATCGCATCAAATCTTATCTCCCTGAGGTTGCAGTGAAGCACATGAAAGACGAT
Found at i:51523068 original size:106 final size:106
Alignment explanation
Indices: 51522882--51523509 Score: 738
Period size: 106 Copynumber: 5.9 Consensus size: 106
51522872 TGTGTTTCTA
* * * * * * *
51522882 GTAGGTCATCGAGCCGTTTTAGAATTTTCGATATTAAATCAGCTAACT-AAAAAAAGCTTGGGTT
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAA-CTTAGGTT
* *
51522946 GCAATCTTAAATCAACTAAACTTTATAATATCAGTTATGAAT
65 GCGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
*
51522988 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATTAGCTAACTCAAAGAAACTTAGGTTG
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
* * *
51523053 CGATATTAAACCAACTAACCTTTATAATATCAATTATGAAT
66 CGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
** * * * *
51523094 GTAGGTCATCGATTTTTTTTAAGAGTTGCAATCTTAAATCAGCTAACTCAATGAAACTTAGGTTG
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
* * ** * **
51523159 AGATCTTAAATCAGCTAACCTTTATAATATCAACTGTGAGC
66 CGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
* * * * * * * *
51523200 ATAGGTCATCGAACTGTTTTTGGATTTGCAATCTTAAATTAGTTACCTCAAAGAAACTTAGGTTG
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
* * * * * *
51523265 CAATCCTAAATTAGCTAACCTTTATAATATCAGTTGTGAAC
66 CGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
* * * * * * *
51523306 ATGGGTCATCAAGTTGTTTTAGGAGTTGCGATATTAAATCATCTAACTCAAAGAAACTTAGGTTA
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
*** *
51523371 CGATCTTCGGTCAACTAACCTTTATAATATCAGCTA-GTAAT
66 CGATCTTAAATCAACTAACCTTTATAATATCAGTTATG-AAT
* *
51523412 GTAGATCATCGAGCTATTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
*
51523477 CGATCTTAAATCAACTAACTTTTATAATATCAG
66 CGATCTTAAATCAACTAACCTTTATAATATCAG
51523510 CACTTTTAAA
Statistics
Matches: 438, Mismatches: 82, Indels: 4
0.84 0.16 0.01
Matches are distributed among these distances:
105 1 0.00
106 431 0.98
107 6 0.01
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (106 bp):
GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
CGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
Found at i:51541759 original size:25 final size:25
Alignment explanation
Indices: 51541731--51541786 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
51541721 AAGCCCTTGG
*
51541731 GGCGAAATCTTTGAAAATCC-TATGT
1 GGCGAAATATTTGAAAATCCTTA-GT
***
51541756 GGCGTGTTATTTGAAAATCCTTAGT
1 GGCGAAATATTTGAAAATCCTTAGT
51541781 GGCGAA
1 GGCGAA
51541787 GTTATCTGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (25 bp):
GGCGAAATATTTGAAAATCCTTAGT
Found at i:51541928 original size:72 final size:71
Alignment explanation
Indices: 51541802--51541940 Score: 188
Period size: 72 Copynumber: 1.9 Consensus size: 71
51541792 CTGGAAAGCC
* * * * *
51541802 TTTGTGTCAAGTCATTTGGAAACCCGTATGGCAAATTCTGCGATGCCTACGTGGCGAGTTGTTAC
1 TTTGTGGCAAGTCATTTGCAAACCCGTATGGCAAATTCTACAATGCCTAAGTGGCGAGTTGTTAC
51541867 TCCATA
66 TCCATA
* ** *
51541873 TTTGTGGCAAGTCATTTGCAAAGCCTGTATGGTGAATTCTACAATGCGTAAGTGGCGAGTTGTTA
1 TTTGTGGCAAGTCATTTGCAAA-CCCGTATGGCAAATTCTACAATGCCTAAGTGGCGAGTTGTTA
51541938 CTC
65 CTC
51541941 TGCCTTTGTA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
71 20 0.34
72 38 0.66
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (71 bp):
TTTGTGGCAAGTCATTTGCAAACCCGTATGGCAAATTCTACAATGCCTAAGTGGCGAGTTGTTAC
TCCATA
Found at i:51544491 original size:18 final size:19
Alignment explanation
Indices: 51544457--51544492 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
51544447 TTCTAATTAG
*
51544457 TTTTAAATGTTAATTATTC
1 TTTTAAATGTGAATTATTC
51544476 TTTTAAA-GTGAATTATT
1 TTTTAAATGTGAATTATT
51544493 AGTCATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTTAAATGTGAATTATTC
Found at i:51545808 original size:39 final size:39
Alignment explanation
Indices: 51545749--51545867 Score: 159
Period size: 39 Copynumber: 3.1 Consensus size: 39
51545739 AACATGTTTT
* *
51545749 TGAGTGTTACGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
* * *
51545788 TGAGTATTGTGATATGTGCTTGAACGTTATGT-ACTTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGA-TTATA
* *
51545827 TGAGTATTGCAATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
51545866 TG
1 TG
51545868 TGTCATATGA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 66 0.97
40 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.44
Consensus pattern (39 bp):
TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
Found at i:51545881 original size:39 final size:37
Alignment explanation
Indices: 51545759--51545889 Score: 147
Period size: 39 Copynumber: 3.4 Consensus size: 37
51545749 TGAGTGTTAC
*
51545759 GATATATGCTTGAATGTTATGTGATTATATGAGTATTGT
1 GATATATGCTTAAATGTTATGTGATTATATGAGTA-T-T
* * *
51545798 GATATGTGCTTGAACGTTATGT-ACTTATATGAGTATT
1 GATATATGCTTAAATGTTATGTGA-TTATATGAGTATT
*
51545835 GCAATATATGCTTAAATGTTATGTGATTATATGTGTCATAT
1 G--ATATATGCTTAAATGTTATGTGATTATATGAGT-AT-T
51545876 GATATATGCTTAAA
1 GATATATGCTTAAA
51545890 AGTGAATATG
Statistics
Matches: 80, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
37 2 0.03
38 2 0.03
39 71 0.89
40 3 0.04
41 2 0.03
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.44
Consensus pattern (37 bp):
GATATATGCTTAAATGTTATGTGATTATATGAGTATT
Found at i:51547255 original size:24 final size:23
Alignment explanation
Indices: 51547202--51547255 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
51547192 TTAGAATAAT
*
51547202 TTTGTA-TTAGTTTATTTTTCTT
1 TTTGTATTTAGTTTATTTTTCTC
* *
51547224 TTTATATTTAGTGTTATTTTTGTC
1 TTTGTATTTAGT-TTATTTTTCTC
51547248 TTTGTATT
1 TTTGTATT
51547256 GAAGTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 5 0.19
23 5 0.19
24 16 0.62
ACGTcount: A:0.15, C:0.04, G:0.11, T:0.70
Consensus pattern (23 bp):
TTTGTATTTAGTTTATTTTTCTC
Found at i:51558263 original size:41 final size:42
Alignment explanation
Indices: 51558218--51558303 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 42
51558208 AAGCATAAAG
*
51558218 CTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTG-AT
1 CTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGAAT
* *
51558259 CTGAATCAGGCTATAAGCCTAGCGGGCTAAGTGCCGGTGAAT
1 CTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGAAT
51558301 CTG
1 CTG
51558304 TTAAATTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 36 0.88
42 5 0.12
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (42 bp):
CTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGAAT
Found at i:51565464 original size:41 final size:41
Alignment explanation
Indices: 51565407--51565515 Score: 191
Period size: 41 Copynumber: 2.6 Consensus size: 41
51565397 GACTATACAT
*
51565407 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
51565448 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
51565489 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
51565516 TTAAATTAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 60 0.92
42 5 0.08
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:51571650 original size:12 final size:12
Alignment explanation
Indices: 51571621--51571657 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
51571611 TGTCATTTTT
51571621 TTTATT-TT-TA
1 TTTATTATTATA
*
51571631 TATATTATTATA
1 TTTATTATTATA
51571643 TTTATTATTATA
1 TTTATTATTATA
51571655 TTT
1 TTT
51571658 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 5 0.22
11 2 0.09
12 16 0.70
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATTATTATA
Found at i:51571659 original size:37 final size:35
Alignment explanation
Indices: 51571592--51571661 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
51571582 AAAATTTACA
* * *
51571592 TTTATATATTATTATTTCTTGTCATTTTTTTTATT
1 TTTATATATTATTATTTATTATCATATTTTTTATT
*
51571627 TTTATATATTATTATATTTATTATTATATTTTTTA
1 TTTATATATTA-T-TATTTATTATCATATTTTTTA
51571662 AAAAATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 11 0.38
36 1 0.03
37 17 0.59
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (35 bp):
TTTATATATTATTATTTATTATCATATTTTTTATT
Found at i:51572570 original size:27 final size:29
Alignment explanation
Indices: 51572538--51572615 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 29
51572528 ATATTTTTTT
*
51572538 TAAAAATTATATAAACTTATAATG-ATTA
1 TAAAAATTATATAAACTTATAAGGTATTA
51572566 TAAAAATTATA-AAACTTAT-AGGTATTA
1 TAAAAATTATATAAACTTATAAGGTATTA
51572593 TAAAAATTTATAATAAA-TTATAA
1 TAAAAA-TTAT-ATAAACTTATAA
51572616 AAATAATAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
26 2 0.05
27 18 0.41
28 15 0.34
29 5 0.11
30 4 0.09
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (29 bp):
TAAAAATTATATAAACTTATAAGGTATTA
Found at i:51572574 original size:9 final size:9
Alignment explanation
Indices: 51572538--51572697 Score: 88
Period size: 9 Copynumber: 17.0 Consensus size: 9
51572528 ATATTTTTTT
51572538 TAAAAATTA
1 TAAAAATTA
*
51572547 TATAAACTTA
1 TA-AAAATTA
**
51572557 TAATGATTA
1 TAAAAATTA
51572566 TAAAAATTA
1 TAAAAATTA
*
51572575 TAAAACTTA
1 TAAAAATTA
***
51572584 TAGGTATTA
1 TAAAAATTA
51572593 TAAAAATTTA
1 TAAAAA-TTA
51572603 TAATAAATTA
1 TAA-AAATTA
*
51572613 TAAAAATAA
1 TAAAAATTA
51572622 TAAAAA-TA
1 TAAAAATTA
* * *
51572630 TTTAAGATTT
1 -TAAAAATTA
*
51572640 TAAAATTTTA
1 TAAAA-ATTA
*
51572650 TATAAATTA
1 TAAAAATTA
*
51572659 TAAAAAATCA
1 T-AAAAATTA
* *
51572669 CACAAACTTA
1 TA-AAAATTA
*
51572679 TAAATATTA
1 TAAAAATTA
51572688 TAAAATATTA
1 TAAAA-ATTA
51572698 CAAGAAGAAA
Statistics
Matches: 108, Mismatches: 34, Indels: 17
0.68 0.21 0.11
Matches are distributed among these distances:
8 1 0.01
9 61 0.56
10 43 0.40
11 3 0.03
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.38
Consensus pattern (9 bp):
TAAAAATTA
Found at i:51574407 original size:18 final size:19
Alignment explanation
Indices: 51574360--51574407 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
51574350 TTATTTCAAA
51574360 ATTATAAAA-TATTAAAAT
1 ATTATAAAAGTATTAAAAT
* *
51574378 ATTAAAAAAAGTATTATAAT
1 ATT-ATAAAAGTATTAAAAT
51574398 -TTATAAAAGT
1 ATTATAAAAGT
51574408 GTTCAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 10 0.40
19 7 0.28
20 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATTATAAAAGTATTAAAAT
Found at i:51575296 original size:30 final size:32
Alignment explanation
Indices: 51575240--51575305 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 32
51575230 TTCTTATAGA
*
51575240 TTGATGGATTTTTATTTGTTATGTTAATTTT-
1 TTGATGGATTTTTATTTGTGATGTTAATTTTC
51575271 TTGATGGATTTTGT-TTT-TGATGTTAATTTTC
1 TTGATGGATTTT-TATTTGTGATGTTAATTTTC
51575302 TTGA
1 TTGA
51575306 GTTTTTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 12 0.38
31 19 0.59
32 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.18, T:0.62
Consensus pattern (32 bp):
TTGATGGATTTTTATTTGTGATGTTAATTTTC
Found at i:51581135 original size:47 final size:47
Alignment explanation
Indices: 51581057--51581561 Score: 823
Period size: 47 Copynumber: 10.7 Consensus size: 47
51581047 CCCTTCGGGA
* * * * * * *
51581057 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51581104 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51581151 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51581198 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51581245 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51581292 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51581339 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51581386 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51581433 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51581480 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
51581527 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
51581562 AGAATCCTAA
Statistics
Matches: 431, Mismatches: 26, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
46 1 0.00
47 430 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51584357 original size:25 final size:25
Alignment explanation
Indices: 51584301--51584419 Score: 93
Period size: 25 Copynumber: 4.8 Consensus size: 25
51584291 GCTCTCTCTT
* *
51584301 GAGCCATATAATGGGAAGCTCATAT
1 GAGCCATATAACGGGAAGCTCATAA
* *
51584326 GAACCATATAACGGGAAGCTTATAA
1 GAGCCATATAACGGGAAGCTCATAA
* ** **
51584351 GAGCCATA-ATCAAGAAGCTCATGC
1 GAGCCATATAACGGGAAGCTCATAA
* *
51584375 GAGCCA-ATAATGGGTAGCTC-TGAA
1 GAGCCATATAACGGGAAGCTCAT-AA
51584399 GAGCCAT-TAATCGGGAAGCTC
1 GAGCCATATAA-CGGGAAGCTC
51584420 CGGATAGCCA
Statistics
Matches: 70, Mismatches: 20, Indels: 8
0.71 0.20 0.08
Matches are distributed among these distances:
23 2 0.03
24 32 0.46
25 36 0.51
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAA
Found at i:51588680 original size:14 final size:15
Alignment explanation
Indices: 51588663--51588691 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
51588653 TTAATTTAAG
51588663 TAATTTTA-TTAATC
1 TAATTTTACTTAATC
51588677 TAATTTTACTTAATC
1 TAATTTTACTTAATC
51588692 AAAATTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATTTTACTTAATC
Found at i:51595707 original size:26 final size:26
Alignment explanation
Indices: 51595638--51595707 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
51595628 TTTAAAGCAC
* *
51595638 AAAAGTATATATAC-ATAAATATTTTT
1 AAAAATATATA-ACAATAAATATTATT
*
51595664 AAAAATATCATAAAAATAAA-ATTATT
1 AAAAATAT-ATAACAATAAATATTATT
51595690 AAAAATATATAGACAATA
1 AAAAATATATA-ACAATA
51595708 TTAGATTAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
25 3 0.08
26 26 0.70
27 8 0.22
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (26 bp):
AAAAATATATAACAATAAATATTATT
Found at i:51599729 original size:37 final size:37
Alignment explanation
Indices: 51599688--51599809 Score: 144
Period size: 37 Copynumber: 3.3 Consensus size: 37
51599678 TCCATTTGAA
51599688 AACACGCCAAATGCTCATAAGAACTCATCCACCTGAT
1 AACACGCCAAATGCTCATAAGAACTCATCCACCTGAT
* * * *
51599725 AACACGCCAATTGCTC-TGAAGAGCT-AGTGCAACC-GAA
1 AACACGCCAAATGCTCAT-AAGAACTCA-T-CCACCTGAT
51599762 AACACGCCAAATGCTCATAA-AAGCTCATCCACCTGAT
1 AACACGCCAAATGCTCATAAGAA-CTCATCCACCTGAT
51599799 AACACGCCAAA
1 AACACGCCAAA
51599810 ACAAGGAGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
36 7 0.10
37 57 0.81
38 6 0.09
ACGTcount: A:0.39, C:0.31, G:0.14, T:0.16
Consensus pattern (37 bp):
AACACGCCAAATGCTCATAAGAACTCATCCACCTGAT
Found at i:51603939 original size:9 final size:9
Alignment explanation
Indices: 51603927--51603967 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
51603917 TTTTGGTTAA
51603927 AATTAACCG
1 AATTAACCG
*
51603936 AATTACCCG
1 AATTAACCG
51603945 AATTAACCG
1 AATTAACCG
*
51603954 AATTACCCG
1 AATTAACCG
51603963 AATTA
1 AATTA
51603968 TATGTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:51603950 original size:18 final size:18
Alignment explanation
Indices: 51603927--51603967 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
51603917 TTTTGGTTAA
51603927 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
51603945 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
51603963 AATTA
1 AATTA
51603968 TATGTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:51604002 original size:25 final size:26
Alignment explanation
Indices: 51603974--51604023 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
51603964 ATTATATGTT
*
51603974 TTTTATTTTTA-AACTTTAATTTTAG
1 TTTTAGTTTTAGAACTTTAATTTTAG
* *
51603999 TTTTAGTTTTAGAATTTTATTTTTA
1 TTTTAGTTTTAGAACTTTAATTTTA
51604024 TTTATTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (26 bp):
TTTTAGTTTTAGAACTTTAATTTTAG
Found at i:51604066 original size:5 final size:5
Alignment explanation
Indices: 51604056--51604098 Score: 59
Period size: 5 Copynumber: 8.0 Consensus size: 5
51604046 TTATGATTGT
51604056 GTTGG GTTGG GTTGG GTTGG GTTGG GTAATTGG GTTGG GTTGG
1 GTTGG GTTGG GTTGG GTTGG GTTGG G---TTGG GTTGG GTTGG
51604099 ATACTTGGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 30 0.86
8 5 0.14
ACGTcount: A:0.05, C:0.00, G:0.56, T:0.40
Consensus pattern (5 bp):
GTTGG
Found at i:51604090 original size:18 final size:18
Alignment explanation
Indices: 51604051--51604119 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
51604041 AATTTTTATG
*
51604051 ATTGTGTTGGGTTGGG--
1 ATTGGGTTGGGTTGGGTA
51604067 -TTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
*
51604084 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGGTA
* *
51604102 CTTGGGTTTGGATTGGGT
1 ATTGGG-TTGGGTTGGGT
51604120 TTAGGTGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
15 14 0.32
18 21 0.48
19 9 0.20
ACGTcount: A:0.09, C:0.01, G:0.48, T:0.42
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:51604828 original size:43 final size:43
Alignment explanation
Indices: 51604751--51604883 Score: 151
Period size: 43 Copynumber: 3.1 Consensus size: 43
51604741 AGCATATTGT
* ** * *
51604751 GGCATTTGTAGCTAGAATTGCCGCAAAAGATCATGTTCTTTAGC
1 GGCATTTGTAG-TAAAAGCGCCGCTAAAGATCATGTTCTATAGC
*
51604795 GGCATTTGTAGTAAAAGCGCCGCTAAATATCATGTTCTATAGC
1 GGCATTTGTAGTAAAAGCGCCGCTAAAGATCATGTTCTATAGC
* ** *
51604838 GGCGA-TTGTAATAAAAGCGTTGTTAAAGATCATGTTCTATAGC
1 GGC-ATTTGTAGTAAAAGCGCCGCTAAAGATCATGTTCTATAGC
51604881 GGC
1 GGC
51604884 GTTTTCCCAC
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
43 65 0.84
44 12 0.16
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GGCATTTGTAGTAAAAGCGCCGCTAAAGATCATGTTCTATAGC
Found at i:51604884 original size:43 final size:44
Alignment explanation
Indices: 51604770--51604884 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 44
51604760 AGCTAGAATT
* * *
51604770 GCCGCAAAAGATCATGTTCTTTAGCGGC-ATTTGTAGTAAAAGC
1 GCCGCTAAAGATCATGTTCTATAGCGGCGATTTGTAATAAAAGC
*
51604813 GCCGCTAAATATCATGTTCTATAGCGGCGA-TTGTAATAAAAGC
1 GCCGCTAAAGATCATGTTCTATAGCGGCGATTTGTAATAAAAGC
** *
51604856 GTTGTTAAAGATCATGTTCTATAGCGGCG
1 GCCGCTAAAGATCATGTTCTATAGCGGCG
51604885 TTTTCCCACA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 62 0.98
44 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
GCCGCTAAAGATCATGTTCTATAGCGGCGATTTGTAATAAAAGC
Found at i:51607841 original size:41 final size:42
Alignment explanation
Indices: 51607781--51607890 Score: 125
Period size: 41 Copynumber: 2.6 Consensus size: 42
51607771 AAAAATATTC
* *
51607781 GTGGCGTTTATGGGCAAAACGCCGCTATTG-CTTT-ACCTTTA
1 GTGGCGTTTAT-GGAAAAACGCCGCTATCGTCTTTAACCTTTA
* * *
51607822 GTGGCATTTATGAGAAAAACGCCGCTATCGTTTTTAACCTTTT
1 GTGGCGTTTATG-GAAAAACGCCGCTATCGTCTTTAACCTTTA
* *
51607865 GCGGCGTTTATGCAAAAACGCCGCTA
1 GTGGCGTTTATGGAAAAACGCCGCTA
51607891 ACGTTGCTCC
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
40 1 0.02
41 25 0.43
42 16 0.28
43 16 0.28
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (42 bp):
GTGGCGTTTATGGAAAAACGCCGCTATCGTCTTTAACCTTTA
Found at i:51610554 original size:44 final size:44
Alignment explanation
Indices: 51610506--51611085 Score: 330
Period size: 44 Copynumber: 13.6 Consensus size: 44
51610496 TACCTTGGGA
** * * *
51610506 AGATAAGATTCGCCGTCTTCGATCTGTTCCACTACTGCTTAGGG
1 AGATAAGATTCGCAATCTTCAACCTATTCCACTACTGCTTAGGG
* * * *
51610550 AGATAAGA-TCTGTAATTTTCAACCTATTCCACTGCTGCTCAGGG
1 AGATAAGATTC-GCAATCTTCAACCTATTCCACTACTGCTTAGGG
*
51610594 AGATAAGATTCACAATCTTCAACCTATTCCACTACTGAC-TAGGG
1 AGATAAGATTCGCAATCTTCAACCTATTCCACTACTG-CTTAGGG
* *
51610638 AGAT-AG----G--A--TTC-ACCAATTCCACTACTGAC-CAGGG
1 AGATAAGATTCGCAATCTTCAACCTATTCCACTACTG-CTTAGGG
* * * *
51610672 AGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGAC-CAGGG
1 AGATAAGA-TTCGCAATCTTCAACCTATTCCACTACTG-CTTAGGG
* * * * * *
51610716 AGATAGGACTCACAATCTTCAACCTATTCCATTGCTGAC-CAGGG
1 AGATAAGATTCGCAATCTTCAACCTATTCCACTACTG-CTTAGGG
* * * *
51610760 AGAT-AG----G--A--TTC-ACCTATTCCATTGCTGATCAGGG
1 AGATAAGATTCGCAATCTTCAACCTATTCCACTACTGCTTAGGG
* * * *
51610794 AGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGAC-CAGGG
1 AGATAAGA-TTCGCAATCTTCAACCTATTCCACTACTG-CTTAGGG
* * * * *
51610838 AGATAGGACTCACAATCTTCAACCTATTCCACTGCTGAC-CAGGG
1 AGATAAGATTCGCAATCTTCAACCTATTCCACTACTG-CTTAGGG
* * *
51610882 AGATAGGATTCACAATCTTCAACCTATTCCACTACTGAC-CAGGG
1 AGATAAGATTCGCAATCTTCAACCTATTCCACTACTG-CTTAGGG
* *
51610926 AGATAAGACTT-ACAATCTTCAACCTATTCCACTGCTGAC-TAGGG
1 AGATAAGA-TTCGCAATCTTCAACCTATTCCACTACTG-CTTAGGG
* * *
51610970 AGATAGGATTCACAATCTTCAACCTATTCCACTGCTGAC-TAGGG
1 AGATAAGATTCGCAATCTTCAACCTATTCCACTACTG-CTTAGGG
* * * * *
51611014 AGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGAC-CAAGG
1 AGATAAGA-TTCGCAATCTTCAACCTATTCCACTACTG-CTTAGGG
* *
51611058 AGATAGGATTCACAATCTTCAACCTATT
1 AGATAAGATTCGCAATCTTCAACCTATT
51611086 ATAGTGCTGA
Statistics
Matches: 466, Mismatches: 39, Indels: 62
0.82 0.07 0.11
Matches are distributed among these distances:
34 50 0.11
35 8 0.02
37 2 0.00
41 2 0.00
43 17 0.04
44 380 0.82
45 7 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
AGATAAGATTCGCAATCTTCAACCTATTCCACTACTGCTTAGGG
Found at i:51610754 original size:122 final size:128
Alignment explanation
Indices: 51610567--51611085 Score: 715
Period size: 122 Copynumber: 4.1 Consensus size: 128
51610557 ATCTGTAATT
* * *
51610567 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTACTG
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTG
*
51610631 ACTAGGGAGATAGGATT-C-A-C-C-A-ATTCCACTACTGACCAGGGAGATAGGACTTACAATC
65 ACCAGGGAGATAGGATTACAATCTCAACATTCCACTACTGACCAGGGAGATAGGACTTACAATC
*
51610689 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCATTGCTGA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
* * * *
51610754 CCAGGGAGATAGGATT-C-A-C-C--TATTCCATTGCTGATCAGGGAGATAGGACTTACAATC
66 CCAGGGAGATAGGATTACAATCTCAACATTCCACTACTGACCAGGGAGATAGGACTTACAATC
51610811 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
*
51610876 CCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAAGACTTACAA
66 CCAGGGAGATAGGATT-ACAATC-TCAA-C-ATTCCACTACTGACCAGGGAGATAGGACTTACAA
51610941 TC
127 TC
* *
51610943 TTCAACCTATTCCACTGCTGACTAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
* * *
51611008 CTAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAAGGAGATAGGA-TTCACA
66 CCAGGGAGATAGGA-TTACAATC-TCAA-C-ATTCCACTACTGACCAGGGAGATAGGACTT-ACA
51611072 ATC
126 ATC
51611075 TTCAACCTATT
1 TTCAACCTATT
51611086 ATAGTGCTGA
Statistics
Matches: 363, Mismatches: 20, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
122 191 0.53
123 1 0.00
124 1 0.00
125 1 0.00
126 1 0.00
128 1 0.00
131 2 0.01
132 163 0.45
133 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (128 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
CCAGGGAGATAGGATTACAATCTCAACATTCCACTACTGACCAGGGAGATAGGACTTACAATC
Found at i:51610780 original size:34 final size:34
Alignment explanation
Indices: 51610737--51610801 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
51610727 ACAATCTTCA
51610737 ACCTATTCCATTGCTGACCAGGGAGATAGGATTC
1 ACCTATTCCATTGCTGACCAGGGAGATAGGATTC
*
51610771 ACCTATTCCATTGCTGATCAGGGAGATAGGA
1 ACCTATTCCATTGCTGACCAGGGAGATAGGA
51610802 CTTACAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (34 bp):
ACCTATTCCATTGCTGACCAGGGAGATAGGATTC
Found at i:51611096 original size:44 final size:44
Alignment explanation
Indices: 51610771--51611085 Score: 510
Period size: 44 Copynumber: 7.2 Consensus size: 44
51610761 GATAGGATTC
* *
51610771 ACCTATTCCATTGCTGATCAGGGAGATAGGACTT-ACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCA
*
51610815 ACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
51610859 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* *
51610903 ACCTATTCCACTACTGACCAGGGAGATAAGACTT-ACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCA
*
51610947 ACCTATTCCACTGCTGACTAGGGAGATAGGATTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
*
51610991 ACCTATTCCACTGCTGACTAGGGAGATAGGACTT-ACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCA
*
51611035 ACCTATTCCACTGCTGACCAAGGAGATAGGATTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
51611079 ACCTATT
1 ACCTATT
51611086 ATAGTGCTGA
Statistics
Matches: 255, Mismatches: 11, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
43 5 0.02
44 246 0.96
45 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
Found at i:51611537 original size:31 final size:31
Alignment explanation
Indices: 51611499--51611592 Score: 163
Period size: 31 Copynumber: 3.0 Consensus size: 31
51611489 AGGCAAATTA
51611499 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
51611530 CAAGAGTAATTGAATCCTAATAAAAACTC-TT
1 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
51611561 CAAAGAGTAATTGAATCCTAATAAAACTCTTT
1 C-AAGAGTAATTGAATCCTAATAAAACTCTTT
51611593 AAAATTATCT
Statistics
Matches: 60, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
31 31 0.52
32 29 0.48
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.31
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:51611990 original size:44 final size:44
Alignment explanation
Indices: 51611927--51612072 Score: 238
Period size: 44 Copynumber: 3.3 Consensus size: 44
51611917 TCGTATCACT
*
51611927 AGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGACC
1 AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTACTGACC
* *
51611971 AGGGAGATAGGACTCACAATCTTCAACCTATTCCATTGCTGACC
1 AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTACTGACC
* **
51612015 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTTTCC
1 AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTACTGACC
51612059 AGGGAGATAGGACT
1 AGGGAGATAGGACT
51612073 AGTCTCTTCG
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 94 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTACTGACC
Found at i:51614953 original size:9 final size:9
Alignment explanation
Indices: 51614934--51614966 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
51614924 ATGCAAAGCT
51614934 AATGC-ATG
1 AATGCAATG
51614942 AATGCAATG
1 AATGCAATG
*
51614951 AATGCCATG
1 AATGCAATG
51614960 AATGCAA
1 AATGCAA
51614967 AAGAAGAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (9 bp):
AATGCAATG
Found at i:51616181 original size:23 final size:22
Alignment explanation
Indices: 51616145--51616188 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
51616135 AAATTATAAA
51616145 ATATAAAAAAATATATATGTAC
1 ATATAAAAAAATATATATGTAC
51616167 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
51616189 TGTGAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:51616332 original size:37 final size:37
Alignment explanation
Indices: 51616291--51616367 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
51616281 TGAAACATAG
*
51616291 AAAATATATAAAAGTATGT-GTATATATATAT-TTATAA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATAA
* *
51616328 AAAATTAAAAAATGTGTACGTATATGTATATATTATAA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATAA
51616366 AA
1 AA
51616368 CGTATGTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 8 0.24
36 2 0.06
37 16 0.47
38 8 0.24
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.38
Consensus pattern (37 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATAA
Found at i:51616946 original size:23 final size:22
Alignment explanation
Indices: 51616903--51616960 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
51616893 AAAGGATATC
* *
51616903 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
51616924 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
51616947 TGCATATCATATCT
1 TACAAATCATATCT
51616961 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Done.