Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 256 of 345
Found at i:75657672 original size:28 final size:29
Alignment explanation
Indices: 75657640--75657738 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
75657630 ATAATAAGCC
*
75657640 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
75657668 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
75657696 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
75657725 CGCACACTTAGTGC
1 CGCACACTTAGTGC
75657739 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:75660384 original size:7 final size:7
Alignment explanation
Indices: 75660372--75660397 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
75660362 GAATAAAACC
75660372 CTTGGTA
1 CTTGGTA
75660379 CTTGGTA
1 CTTGGTA
75660386 CTTGGTA
1 CTTGGTA
75660393 CTTGG
1 CTTGG
75660398 AAGTAAGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.15, G:0.31, T:0.42
Consensus pattern (7 bp):
CTTGGTA
Found at i:75662263 original size:27 final size:26
Alignment explanation
Indices: 75662202--75662546 Score: 190
Period size: 27 Copynumber: 12.8 Consensus size: 26
75662192 AAGACCCCGG
* *
75662202 TTGTAAAATTACTGAAATTCCC-CAGT
1 TTGTAAAATTAC-GAAATACCCTTAGT
75662228 TTGTAAAATTATCGAAATACCCTTAGT
1 TTGTAAAATTA-CGAAATACCCTTAGT
* * *
75662255 TTGTAAAATTATCGACATA-CCTCCAAT
1 TTGTAAAATTA-CGAAATACCCT-TAGT
* * * *
75662282 TTGTAAAATTACCAAAATATCCTCAAT
1 TTGTAAAATTA-CGAAATACCCTTAGT
* * * *
75662309 TTATAAAAATTACTGAAATACCCCTGGC
1 TTGT-AAAATTAC-GAAATACCCTTAGT
*
75662337 TTGTAAAATTATCGAAATAACCC-CAGT
1 TTGTAAAATTA-CGAAAT-ACCCTTAGT
* *
75662364 TTGTAAAATTACCAAAATA-CTTTCAGT
1 TTGTAAAATTA-CGAAATACCCTT-AGT
* *
75662391 TTGTAAAATTATCGAAATA-CCATCGAT
1 TTGTAAAATTA-CGAAATACCCTTAG-T
* *
75662418 TTATAAAATTACTGAAATA-CCTTCGGT
1 TTGTAAAATTAC-GAAATACCCTT-AGT
75662445 TTGTAAAATTATCGAAATACCCCTTAG-
1 TTGTAAAATTA-CGAAATA-CCCTTAGT
* * *
75662472 -TGTAAAATTACTAAAATA-CATTCGAT
1 TTGTAAAATTAC-GAAATACCCTTAG-T
75662498 TTGTAAAATTACTGAAATACCCCTGTAG-
1 TTGTAAAATTAC-GAAATA-CCCT-TAGT
*
75662526 -TGTAAAATTACCAAAATACCC
1 TTGTAAAATTA-CGAAATACCC
75662547 CTGTAGGACA
Statistics
Matches: 254, Mismatches: 41, Indels: 48
0.74 0.12 0.14
Matches are distributed among these distances:
24 4 0.02
25 2 0.01
26 43 0.17
27 168 0.66
28 29 0.11
29 6 0.02
30 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (26 bp):
TTGTAAAATTACGAAATACCCTTAGT
Found at i:75662291 original size:54 final size:54
Alignment explanation
Indices: 75662202--75662545 Score: 287
Period size: 54 Copynumber: 6.4 Consensus size: 54
75662192 AAGACCCCGG
*
75662202 TTGTAAAATTACTGAAATTCC-CCAGTTTGTAAAATTATCGAAATACCCTTAGT
1 TTGTAAAATTACTGAAATACCTCCAGTTTGTAAAATTATCGAAATACCCTTAGT
* * * * * * *
75662255 TTGTAAAATTA-TCGACATACCTCCAATTTGTAAAATTACCAAAATATCCTCAAT
1 TTGTAAAATTACT-GAAATACCTCCAGTTTGTAAAATTATCGAAATACCCTTAGT
* * * *
75662309 TTATAAAAATTACTGAAATACC-CCTGGCTTGTAAAATTATCGAAATAACCC-CAGT
1 TTGT-AAAATTACTGAAATACCTCC-AGTTTGTAAAATTATCGAAAT-ACCCTTAGT
** * * * *
75662364 TTGTAAAATTACCAAAATACTTTCAGTTTGTAAAATTATCGAAATA-CCATCGAT
1 TTGTAAAATTACTGAAATACCTCCAGTTTGTAAAATTATCGAAATACCCTTAG-T
* * *
75662418 TTATAAAATTACTGAAATACCTTCGGTTTGTAAAATTATCGAAATACCCCTTAG-
1 TTGTAAAATTACTGAAATACCTCCAGTTTGTAAAATTATCGAAATA-CCCTTAGT
* * *
75662472 -TGTAAAATTACTAAAATACATTC-GATTTGTAAAATTA-CTGAAATACCCCTGTAG-
1 TTGTAAAATTACTGAAATACCTCCAG-TTTGTAAAATTATC-GAAATA-CCCT-TAGT
**
75662526 -TGTAAAATTACCAAAATACC
1 TTGTAAAATTACTGAAATACC
75662546 CCTGTAGGAC
Statistics
Matches: 239, Mismatches: 38, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
52 5 0.02
53 62 0.26
54 127 0.53
55 37 0.15
56 8 0.03
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (54 bp):
TTGTAAAATTACTGAAATACCTCCAGTTTGTAAAATTATCGAAATACCCTTAGT
Found at i:75662341 original size:82 final size:81
Alignment explanation
Indices: 75662202--75662411 Score: 230
Period size: 82 Copynumber: 2.6 Consensus size: 81
75662192 AAGACCCCGG
** * * * *
75662202 TTGTAAAATTACTGAAAT-TCCCCAGTTTGTAAAATTATCGAAATACCCTTAGTTTGTAAAATTA
1 TTGTAAAATTACCAAAATATCCCCAATTTATAAAATTATCGAAATACCCCTAGCTTGTAAAATTA
*
75662266 TCGACAT-ACCTCCAAT
66 TCGAAATAACC-CCAAT
* *
75662282 TTGTAAAATTACCAAAATATCCTCAATTTATAAAAATTA-CTGAAATACCCCTGGCTTGTAAAAT
1 TTGTAAAATTACCAAAATATCCCCAATTTAT-AAAATTATC-GAAATACCCCTAGCTTGTAAAAT
*
75662346 TATCGAAATAACCCCAGT
64 TATCGAAATAACCCCAAT
** * *
75662364 TTGTAAAATTACCAAAATA-CTTTCAGTTTGTAAAATTATCGAAATACC
1 TTGTAAAATTACCAAAATATC-CCCAATTTATAAAATTATCGAAATACC
75662412 ATCGATTTAT
Statistics
Matches: 111, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
80 16 0.14
81 26 0.23
82 66 0.59
83 3 0.03
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATATCCCCAATTTATAAAATTATCGAAATACCCCTAGCTTGTAAAATTA
TCGAAATAACCCCAAT
Found at i:75662396 original size:109 final size:107
Alignment explanation
Indices: 75662205--75662518 Score: 352
Period size: 109 Copynumber: 2.9 Consensus size: 107
75662195 ACCCCGGTTG
* * * * *
75662205 TAAAATTACTGAAATTCCCC-AGTTTGTAAAATTATCGAAATACCCTTAGTTTGTAAAATTATCG
1 TAAAATTACTGAAATACCCCTGGTTTGTAAAATTATCGAAATACCC-CAGTTTGTAAAATTACCA
* * * *
75662269 ACATACCTCCAATTTGTAAAATTACCAAAATATCC-TCAATTTA
65 AAATACATTCAGTTTGTAAAATTACCAAAATA-CCATCAATTTA
*
75662312 TAAAAATTACTGAAATACCCCTGGCTTGTAAAATTATCGAAATAACCCCAGTTTGTAAAATTACC
1 T-AAAATTACTGAAATACCCCTGGTTTGTAAAATTATCGAAAT-ACCCCAGTTTGTAAAATTACC
* * * *
75662377 AAAATACTTTCAGTTTGTAAAATTATCGAAATACCATCGATTTA
64 AAAATACATTCAGTTTGTAAAATTACCAAAATACCATCAATTTA
*
75662421 TAAAATTACTGAAATA-CCTTCGGTTTGTAAAATTATCGAAATACCCC--TTAGTGTAAAATTAC
1 TAAAATTACTGAAATACCCCT-GGTTTGTAAAATTATCGAAATACCCCAGTT--TGTAAAATTAC
* **
75662483 TAAAATACATTC-GATTTGTAAAATTACTGAAATACC
63 CAAAATACATTCAG-TTTGTAAAATTACCAAAATACC
75662519 CCTGTAGTGT
Statistics
Matches: 180, Mismatches: 19, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
105 2 0.01
106 1 0.01
107 50 0.28
108 55 0.31
109 68 0.38
110 4 0.02
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.33
Consensus pattern (107 bp):
TAAAATTACTGAAATACCCCTGGTTTGTAAAATTATCGAAATACCCCAGTTTGTAAAATTACCAA
AATACATTCAGTTTGTAAAATTACCAAAATACCATCAATTTA
Found at i:75662530 original size:80 final size:80
Alignment explanation
Indices: 75662340--75662548 Score: 207
Period size: 80 Copynumber: 2.6 Consensus size: 80
75662330 CCCTGGCTTG
* * *
75662340 TAAAATTA-TCGAAATAACC-CCAGTTTGTAAAATTACCAAAATA--CTTTCAGTTTGTAAAATT
1 TAAAATTACT-GAAAT-ACCTCCGGTGTGTAAAATTACCAAAATACCCCTT-AG--TGTAAAATT
*
75662401 ATCGAAATACCATCGATTTA
61 ATCAAAATACCATCGATTTA
* * * *
75662421 TAAAATTACTGAAATACCTTCGGTTTGTAAAATTATCGAAATACCCCTTAGTGTAAAATTA-CTA
1 TAAAATTACTGAAATACCTCCGGTGTGTAAAATTACCAAAATACCCCTTAGTGTAAAATTATC-A
*
75662485 AAATA-CATTCGATTTG
65 AAATACCA-TCGATTTA
*
75662501 TAAAATTACTGAAATACC-CCTGTAGTGTAAAATTACCAAAATACCCCT
1 TAAAATTACTGAAATACCTCCGGT-GTGTAAAATTACCAAAATACCCCT
75662549 GTAGGACAAA
Statistics
Matches: 109, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
79 6 0.06
80 64 0.59
81 33 0.30
82 3 0.03
83 3 0.03
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.33
Consensus pattern (80 bp):
TAAAATTACTGAAATACCTCCGGTGTGTAAAATTACCAAAATACCCCTTAGTGTAAAATTATCAA
AATACCATCGATTTA
Found at i:75662559 original size:27 final size:27
Alignment explanation
Indices: 75662502--75662560 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
75662492 TTCGATTTGT
** *
75662502 AAAATTACTGAAATACCCCTGTAGTGT
1 AAAATTACCAAAATACCCCTGTAGTGC
75662529 AAAATTACCAAAATACCCCTGTAG-GAC
1 AAAATTACCAAAATACCCCTGTAGTG-C
75662556 AAAAT
1 AAAAT
75662561 GACTGTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGTAGTGC
Found at i:75663005 original size:27 final size:27
Alignment explanation
Indices: 75662948--75663016 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
75662938 CCAGTGGCTA
* * *
75662948 TGTGCCTATCATATTTATTGATGACTC
1 TGTGCCGATCATATTTACTCATGACTC
* * *
75662975 TGTGTCGATCATATTTACTCATGGCTG
1 TGTGCCGATCATATTTACTCATGACTC
*
75663002 TGTGCCGATTATATT
1 TGTGCCGATCATATT
75663017 AACGTCGCTG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.43
Consensus pattern (27 bp):
TGTGCCGATCATATTTACTCATGACTC
Found at i:75663332 original size:27 final size:27
Alignment explanation
Indices: 75663265--75663332 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
75663255 TGTTACTAAG
* * *
75663265 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATTCTGTA
* *
75663291 ATGGGCTGTGACCCAAATGATAT-TGTA
1 ATGGGCTTTGGCCCAAATGAT-TCTGTA
75663318 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
75663333 TTTATGCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 26 0.79
28 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATTCTGTA
Found at i:75666518 original size:54 final size:54
Alignment explanation
Indices: 75666410--75666701 Score: 329
Period size: 54 Copynumber: 5.4 Consensus size: 54
75666400 AAGACCCCGA
* ** *
75666410 TTGTAAAATTACTGAAATACCCTGA-TTTGTAAAATTATCAAAATACCTCCAAT
1 TTGTAAAATTATTGAAATACCCCCAGTTTGTAAAATTACCAAAATACCTCCAAT
* *
75666463 TTGTAAAATTATTTAAATACCCCCAGTTTTTAAAATTACCAAAATACC-CCAAAT
1 TTGTAAAATTATTGAAATACCCCCAGTTTGTAAAATTACCAAAATACCTCC-AAT
* * * * * * *
75666517 TTATAAAATTACTGAAATACCCCTAGTTTGTAAAATTACTAAAATACCACTAGT
1 TTGTAAAATTATTGAAATACCCCCAGTTTGTAAAATTACCAAAATACCTCCAAT
* * * * *
75666571 TTGTAAAATTATCGAAATACCCTC-GATTTGTAAAATTACCTAAATACCTTCAGT
1 TTGTAAAATTATTGAAATACCCCCAG-TTTGTAAAATTACCAAAATACCTCCAAT
* * *
75666625 TTGTAAAATTATCGAAATACCCCCAGTTTGTAAAATTACCAAAATACCACCTAT
1 TTGTAAAATTATTGAAATACCCCCAGTTTGTAAAATTACCAAAATACCTCCAAT
* **
75666679 TTATAAAATTACCGAAATACCCC
1 TTGTAAAATTATTGAAATACCCC
75666702 TATAGGGTAA
Statistics
Matches: 202, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
53 24 0.12
54 176 0.87
55 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.33
Consensus pattern (54 bp):
TTGTAAAATTATTGAAATACCCCCAGTTTGTAAAATTACCAAAATACCTCCAAT
Found at i:75666547 original size:81 final size:80
Alignment explanation
Indices: 75666410--75666703 Score: 308
Period size: 81 Copynumber: 3.6 Consensus size: 80
75666400 AAGACCCCGA
** ** * * *
75666410 TTGTAAAATTACTGAAATACCCTGATTTGTAAAATTA-TCAAAATACCTCC-AATTTGTAAAATT
1 TTGTAAAATTACCAAAATACCCCAATTTATAAAATTACT-GAAATACC-CCTAGTTTGTAAAATT
*
75666473 ATTTAAATACCCCCAGT
64 ATTAAAATACCCCCAGT
*
75666490 TTTTAAAATTACCAAAATACCCCAAATTTATAAAATTACTGAAATACCCCTAGTTTGTAAAATTA
1 TTGTAAAATTACCAAAATACCCC-AATTTATAAAATTACTGAAATACCCCTAGTTTGTAAAATTA
* * *
75666555 CTAAAATACCACTAGT
65 TTAAAATACCCCCAGT
* * * * *
75666571 TTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCT-AAATA-CCTTCAGTTTGTAAAAT
1 TTGTAAAATTACCAAAATACCC-CAATTTATAAAATTA-CTGAAATACCCCT-AGTTTGTAAAAT
**
75666634 TATCGAAATACCCCCAGT
63 TATTAAAATACCCCCAGT
* *
75666652 TTGTAAAATTACCAAAATACCACCTATTTATAAAATTACCGAAATACCCCTA
1 TTGTAAAATTACCAAAATACC-CCAATTTATAAAATTACTGAAATACCCCTA
75666704 TAGGGTAAAT
Statistics
Matches: 176, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
80 25 0.14
81 143 0.81
82 8 0.05
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (80 bp):
TTGTAAAATTACCAAAATACCCCAATTTATAAAATTACTGAAATACCCCTAGTTTGTAAAATTAT
TAAAATACCCCCAGT
Found at i:75666712 original size:27 final size:26
Alignment explanation
Indices: 75666410--75666704 Score: 261
Period size: 27 Copynumber: 11.0 Consensus size: 26
75666400 AAGACCCCGA
*
75666410 TTGTAAAATTACTGAAATA-CCCTGAT
1 TTGTAAAATTACCGAAATACCCCT-AT
* * *
75666436 TTGTAAAATTATCAAAATACCTCCAAT
1 TTGTAAAATTACCGAAATACC-CCTAT
*** *
75666463 TTGTAAAATTATTTAAATACCCCCAGT
1 TTGTAAAATTACCGAAATACCCCTA-T
* * *
75666490 TTTTAAAATTACCAAAATACCCCAAAT
1 TTGTAAAATTACCGAAATACCCC-TAT
* *
75666517 TTATAAAATTACTGAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCCTA-T
** *
75666544 TTGTAAAATTACTAAAATACCACTAGT
1 TTGTAAAATTACCGAAATACCCCTA-T
* *
75666571 TTGTAAAATTATCGAAATACCCTCGAT
1 TTGTAAAATTACCGAAATACCC-CTAT
* *
75666598 TTGTAAAATTACCTAAATA-CCTTCAGT
1 TTGTAAAATTACCGAAATACCCCT-A-T
* *
75666625 TTGTAAAATTATCGAAATACCCCCAGT
1 TTGTAAAATTACCGAAATACCCCTA-T
*
75666652 TTGTAAAATTACCAAAATACCACCTAT
1 TTGTAAAATTACCGAAATACC-CCTAT
*
75666679 TTATAAAATTACCGAAATACCCCTAT
1 TTGTAAAATTACCGAAATACCCCTAT
75666705 AGGGTAAATT
Statistics
Matches: 222, Mismatches: 37, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
26 28 0.13
27 184 0.83
28 10 0.05
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (26 bp):
TTGTAAAATTACCGAAATACCCCTAT
Found at i:75667159 original size:27 final size:27
Alignment explanation
Indices: 75667095--75667170 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
75667085 GTATCTACCA
* * * *
75667095 ATGGCTATGTGCCTATCATATTTATTG
1 ATGGCTATGTGTCGATCATATTTACTC
* *
75667122 ATGACTTTGTGTCGATCATATTTACTC
1 ATGGCTATGTGTCGATCATATTTACTC
* *
75667149 ATGGCTGTGTGTCGATTATATT
1 ATGGCTATGTGTCGATCATATT
75667171 ACCCTCGTCG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.45
Consensus pattern (27 bp):
ATGGCTATGTGTCGATCATATTTACTC
Found at i:75676658 original size:38 final size:39
Alignment explanation
Indices: 75676619--75676691 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
75676609 TATCCATAAT
*
75676619 TTTTAAATT-AGAT-AATGTTATTAACAA-AAAAATAAAA
1 TTTTAAATTGA-ATAAATGTAATTAACAATAAAAATAAAA
75676656 TTTTAAATTGAATAAATGTAATTAACAATAAAAATA
1 TTTTAAATTGAATAAATGTAATTAACAATAAAAATA
75676692 TTAAAGATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 11 0.34
38 14 0.44
39 7 0.22
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (39 bp):
TTTTAAATTGAATAAATGTAATTAACAATAAAAATAAAA
Found at i:75681578 original size:30 final size:30
Alignment explanation
Indices: 75681544--75681605 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
75681534 CTATACATAC
75681544 TAGAATTTGGCTCAAAATGCTTAGAGTTTT
1 TAGAATTTGGCTCAAAATGCTTAGAGTTTT
75681574 TAGAATTTGGCTCAAAATGCTTAGAGTTTT
1 TAGAATTTGGCTCAAAATGCTTAGAGTTTT
75681604 TA
1 TA
75681606 ATGTGATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (30 bp):
TAGAATTTGGCTCAAAATGCTTAGAGTTTT
Found at i:75683399 original size:27 final size:27
Alignment explanation
Indices: 75683358--75683420 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
75683348 TGTTTGCCGG
* *
75683358 TAGGCTTGGTGAAGTAAGGATCGCCAA
1 TAGGCCTGGTAAAGTAAGGATCGCCAA
*
75683385 TAGGCCTGGTAAAGTAAGGATCGCCAG
1 TAGGCCTGGTAAAGTAAGGATCGCCAA
75683412 TAGGCCTGG
1 TAGGCCTGG
75683421 CGAACTGGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.21
Consensus pattern (27 bp):
TAGGCCTGGTAAAGTAAGGATCGCCAA
Found at i:75687114 original size:40 final size:40
Alignment explanation
Indices: 75687059--75687139 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
75687049 TAGTAGCTAA
75687059 ACCCCTACTCTAAATTCCAAGTGTAAGCTTCCTCATACCT
1 ACCCCTACTCTAAATTCCAAGTGTAAGCTTCCTCATACCT
*
75687099 ACCCCTACTCTAAATTCCAAGTGTGAGCTTCCTCATACCT
1 ACCCCTACTCTAAATTCCAAGTGTAAGCTTCCTCATACCT
75687139 A
1 A
75687140 TGTTATCTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.27, C:0.35, G:0.09, T:0.30
Consensus pattern (40 bp):
ACCCCTACTCTAAATTCCAAGTGTAAGCTTCCTCATACCT
Found at i:75693165 original size:8 final size:8
Alignment explanation
Indices: 75693095--75693167 Score: 87
Period size: 8 Copynumber: 9.4 Consensus size: 8
75693085 AATTTGTAGT
75693095 AATTTTTA
1 AATTTTTA
*
75693103 AA--TATA
1 AATTTTTA
*
75693109 AAATTTTA
1 AATTTTTA
* *
75693117 TATTTTTG
1 AATTTTTA
*
75693125 TATTTTTA
1 AATTTTTA
75693133 AATTTTTA
1 AATTTTTA
75693141 AATTTTTA
1 AATTTTTA
75693149 AATTTTTA
1 AATTTTTA
75693157 AATTTTTA
1 AATTTTTA
75693165 AAT
1 AAT
75693168 AATTAATTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
6 5 0.09
8 51 0.91
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (8 bp):
AATTTTTA
Found at i:75693173 original size:24 final size:24
Alignment explanation
Indices: 75693126--75693173 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
75693116 ATATTTTTGT
**
75693126 ATTTTTAAATTTTTAAATTTTTAA
1 ATTTTTAAATTTTTAAATAATTAA
75693150 ATTTTTAAATTTTTAAATAATTAA
1 ATTTTTAAATTTTTAAATAATTAA
75693174 TTAATTGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTTTTAAATTTTTAAATAATTAA
Found at i:75693501 original size:21 final size:20
Alignment explanation
Indices: 75693473--75693511 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
75693463 AAATTTATAC
75693473 ATTTTTTCAAAATATTTTCA
1 ATTTTTTCAAAATATTTTCA
* *
75693493 ATTTATTTCCACATATTTT
1 ATTT-TTTCAAAATATTTT
75693512 TTATTATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTTTCAAAATATTTTCA
Found at i:75697775 original size:26 final size:26
Alignment explanation
Indices: 75697726--75697793 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
75697716 CCTGATATAT
*
75697726 GGCTCTTCGTGAGCTTCACGATTAAA
1 GGCTCTTCGTGAGCTTCACAATTAAA
* *
75697752 GGCTCTTTGTGAGCTTC-CTAATTAAT
1 GGCTCTTCGTGAGCTTCAC-AATTAAA
75697778 GGCT-TTC-TGAAGCTTC
1 GGCTCTTCGTG-AGCTTC
75697794 TCGATATTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 2 0.06
25 9 0.25
26 25 0.69
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCACAATTAAA
Found at i:75697804 original size:24 final size:25
Alignment explanation
Indices: 75697776--75697830 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
75697766 TTCCTAATTA
* *
75697776 ATGGCTTTC-TGAAGCTTCTCGATAT
1 ATGGCTTGCTTGAA-CTTCCCGATAT
75697801 -TGGCTTGCTTGAACTTCCCGATAT
1 ATGGCTTGCTTGAACTTCCCGATAT
75697825 ATGGCT
1 ATGGCT
75697831 ATCCAGAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (25 bp):
ATGGCTTGCTTGAACTTCCCGATAT
Found at i:75697852 original size:74 final size:73
Alignment explanation
Indices: 75697762--75697903 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 73
75697752 GGCTCTTTGT
* * * *
75697762 GAGCTTCCTAATTAATGGCT-TTCTGAAGCTTCTCGATATTGGCTTGCTTGAACTTCCCGATATA
1 GAGCTTCCTAATTAATGGCTCTTC-GAAGCTACCCGATATTGGCTCGCATGAACTTCCCGAT-TA
75697826 TGGCTATCCA
64 TGGCTATCCA
* * * * *
75697836 GAGCTTCCTGATTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCATGAGCTTCCTGATTATG
1 GAGCTTCCTAATTAATGGCTCTTCGAAGCTACCCGATATTGGCTCGCATGAACTTCCCGATTATG
75697901 GCT
66 GCT
75697904 CTTATGAGCT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
73 7 0.12
74 48 0.83
75 3 0.05
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (73 bp):
GAGCTTCCTAATTAATGGCTCTTCGAAGCTACCCGATATTGGCTCGCATGAACTTCCCGATTATG
GCTATCCA
Found at i:75697919 original size:48 final size:50
Alignment explanation
Indices: 75697836--75697942 Score: 139
Period size: 49 Copynumber: 2.2 Consensus size: 50
75697826 TGGCTATCCA
*
75697836 GAGCTTCCTGATTAATGGCTCTTCGGAGCTACCCG-TTAT-TGGCTCGCAT
1 GAGCTTCCTGATTAATGGCTCTTAGGAGCTACCCGTTTATGT-GCTCGCAT
* * *
75697885 GAGCTTCCTGATT-ATGGCTCTTATGAGCTTCCCGTTTATGTGCTCGTAT
1 GAGCTTCCTGATTAATGGCTCTTAGGAGCTACCCGTTTATGTGCTCGCAT
75697934 GAGCATTCC
1 GAGC-TTCC
75697943 CAAATATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
48 18 0.35
49 28 0.55
50 5 0.10
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (50 bp):
GAGCTTCCTGATTAATGGCTCTTAGGAGCTACCCGTTTATGTGCTCGCAT
Found at i:75697935 original size:25 final size:24
Alignment explanation
Indices: 75697861--75697943 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
75697851 TGGCTCTTCG
* *
75697861 GAGCTACCCGTTAT-TGGCTCGCAT
1 GAGCTTCCCGTTATGT-GCTCGTAT
* *
75697885 GAGCTTCCTGATTATG-GCTCTTAT
1 GAGCTTCCCG-TTATGTGCTCGTAT
75697909 GAGCTTCCCGTTTATGTGCTCGTAT
1 GAGCTTCCCG-TTATGTGCTCGTAT
75697934 GAGCATTCCC
1 GAGC-TTCCC
75697944 AAATATGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 28 0.58
25 15 0.31
26 5 0.10
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGTTATGTGCTCGTAT
Found at i:75700796 original size:23 final size:24
Alignment explanation
Indices: 75700744--75700797 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
75700734 TTGGTTAGAT
75700744 AATAAAATAATTAAGAATTAATTA
1 AATAAAATAATTAAGAATTAATTA
75700768 AATAAAAT-ATTAA-AA-TAATTA
1 AATAAAATAATTAAGAATTAATTA
75700789 GAATTAAAA
1 -AA-TAAAA
75700798 ATTCTAGGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.21
22 4 0.14
23 10 0.36
24 8 0.29
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (24 bp):
AATAAAATAATTAAGAATTAATTA
Found at i:75702964 original size:40 final size:40
Alignment explanation
Indices: 75702919--75703086 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
75702909 CGGAATATAA
75702919 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
75702959 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
75702999 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
75703039 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
75703079 CCGGATAT
1 CCGGATAT
75703087 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:75710972 original size:40 final size:40
Alignment explanation
Indices: 75710927--75711093 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
75710917 CGGAATATAA
75710927 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
75710967 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
75711007 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
75711047 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
75711086 CCGGATAT
1 CCGGATAT
75711094 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:75717401 original size:40 final size:40
Alignment explanation
Indices: 75717356--75717522 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
75717346 CGGAATATAA
75717356 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
75717396 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
75717436 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
75717476 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
75717515 CCGGATAT
1 CCGGATAT
75717523 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:75725399 original size:40 final size:40
Alignment explanation
Indices: 75725354--75725520 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
75725344 CGGAATATAA
75725354 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
75725394 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
75725434 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
75725474 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
75725513 CCGGATAT
1 CCGGATAT
75725521 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:75727868 original size:15 final size:15
Alignment explanation
Indices: 75727848--75727908 Score: 79
Period size: 15 Copynumber: 4.1 Consensus size: 15
75727838 GAACCCCTAT
*
75727848 CCTTATGTGAGCTAC
1 CCTTATGCGAGCTAC
75727863 CCTTATGCGAGCTAC
1 CCTTATGCGAGCTAC
* *
75727878 TCTTGTGCGAGCTAC
1 CCTTATGCGAGCTAC
75727893 CCTTGA-GCGAGCTAC
1 CCTT-ATGCGAGCTAC
75727908 C
1 C
75727909 TAAGGGTGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.18, C:0.31, G:0.23, T:0.28
Consensus pattern (15 bp):
CCTTATGCGAGCTAC
Found at i:75728062 original size:18 final size:18
Alignment explanation
Indices: 75728039--75728088 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
75728029 CATTCCATTA
75728039 TGTGAATCTATACCTAAG
1 TGTGAATCTATACCTAAG
* *
75728057 TGTGAACCCT-TACC-AGG
1 TGTGAA-TCTATACCTAAG
*
75728074 TGTGAATCTAAACCT
1 TGTGAATCTATACCT
75728089 CATGTATGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
16 2 0.08
17 11 0.44
18 10 0.40
19 2 0.08
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (18 bp):
TGTGAATCTATACCTAAG
Found at i:75728113 original size:36 final size:35
Alignment explanation
Indices: 75728039--75728117 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 35
75728029 CATTCCATTA
* * *
75728039 TGTGAATCTATACCTAAGTGTGAACCCTTACCAGG
1 TGTGAATCTAAACCTAAGTATGAACCCTTACCAAG
*
75728074 TGTGAATCTAAACCTCATGTATGAACCC-TACTCAAG
1 TGTGAATCTAAACCT-AAGTATGAACCCTTAC-CAAG
75728110 TGTGAATC
1 TGTGAATC
75728118 CCTTATTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 17 0.45
36 21 0.55
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (35 bp):
TGTGAATCTAAACCTAAGTATGAACCCTTACCAAG
Found at i:75728491 original size:31 final size:31
Alignment explanation
Indices: 75728456--75728515 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
75728446 ATTATTGCCA
75728456 GGCAA-TTCGAGGTGGTAGGTAATCATTGCAG
1 GGCAACTT-GAGGTGGTAGGTAATCATTGCAG
*
75728487 GGCAACTTGGGGTGGTAGGTAATCATTGC
1 GGCAACTTGAGGTGGTAGGTAATCATTGC
75728516 TGAGCAACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.23, C:0.13, G:0.37, T:0.27
Consensus pattern (31 bp):
GGCAACTTGAGGTGGTAGGTAATCATTGCAG
Found at i:75735958 original size:18 final size:18
Alignment explanation
Indices: 75735935--75735970 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
75735925 GAAACTCTAT
75735935 ATCCTTCAGGGATTTTAA
1 ATCCTTCAGGGATTTTAA
*
75735953 ATCCTTCTGGGATTTTAA
1 ATCCTTCAGGGATTTTAA
75735971 TATAAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (18 bp):
ATCCTTCAGGGATTTTAA
Found at i:75749958 original size:32 final size:32
Alignment explanation
Indices: 75749888--75749961 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
75749878 TGGGTGTGGC
* *
75749888 CATGTGGGCCACAAGGGCTAGGCCAAGTTAGG
1 CATGTGGGCCACAAGAGCAAGGCCAAGTTAGG
* *
75749920 CGTGTGGGCCACACA-AGCAAGGCCAA-TATGGG
1 CATGTGGGCCACA-AGAGCAAGGCCAAGT-TAGG
75749952 CATGTGGGCC
1 CATGTGGGCC
75749962 CACTCAGGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 1 0.03
32 33 0.94
33 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.15
Consensus pattern (32 bp):
CATGTGGGCCACAAGAGCAAGGCCAAGTTAGG
Found at i:75750239 original size:27 final size:27
Alignment explanation
Indices: 75750209--75750262 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
75750199 AAATGAGGAG
75750209 AAAGTGTTCTGTATGGCAATCATCGCT
1 AAAGTGTTCTGTATGGCAATCATCGCT
*
75750236 AAAGTGTTCTGTATGGCGATCATCGCT
1 AAAGTGTTCTGTATGGCAATCATCGCT
75750263 TATCATCTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (27 bp):
AAAGTGTTCTGTATGGCAATCATCGCT
Found at i:75766860 original size:50 final size:52
Alignment explanation
Indices: 75766795--75766919 Score: 121
Period size: 56 Copynumber: 2.3 Consensus size: 52
75766785 TTTTTAGGGG
*
75766795 TTTGGGGAGAAAGTAAAAAAAAAA-AATTGGGAGTTT-GA-GGATGTAAAAGT
1 TTTGGGG-GAAAGTAAAAAAAAAAGAATTGGGAGTTTGGAGGGAAGTAAAAGT
** **
75766845 TTTGAGGGGAAAGTAAGAGGAAAAAAAGTTTTGGGAGTTTGGAGGGAAGTAAATTT
1 TTTG-GGGGAAAGTAA-A--AAAAAAAGAATTGGGAGTTTGGAGGGAAGTAAAAGT
75766901 TTTGGGGGGGAAAGTAAAA
1 TTT--GGGGGAAAGTAAAA
75766920 GGGTTTGATA
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
50 12 0.20
51 4 0.07
53 7 0.11
54 11 0.18
55 2 0.03
56 13 0.21
57 11 0.18
58 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.34, T:0.25
Consensus pattern (52 bp):
TTTGGGGGAAAGTAAAAAAAAAAGAATTGGGAGTTTGGAGGGAAGTAAAAGT
Found at i:75767416 original size:12 final size:13
Alignment explanation
Indices: 75767399--75767431 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
75767389 ATGCTTTTAG
75767399 TTAGTTTTTG-TT
1 TTAGTTTTTGTTT
75767411 TTAGTTTTTGTTT
1 TTAGTTTTTGTTT
75767424 TTAGTTTT
1 TTAGTTTT
75767432 AATAAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (13 bp):
TTAGTTTTTGTTT
Found at i:75769132 original size:22 final size:23
Alignment explanation
Indices: 75769072--75769162 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
75769062 TACCGATATA
* *
75769072 TCAGCTCGTAAAAGCTTACTGTT
1 TCAGCTCGTTAGAGCTTACTGTT
*
75769095 CTCAGCTTG-TATGAGCTTACTG-T
1 -TCAGCTCGTTA-GAGCTTACTGTT
*
75769118 TCAGCTCGTTAGAGCTTGCTGTT
1 TCAGCTCGTTAGAGCTTACTGTT
** *
75769141 TCAGCTCAATAGAGTTTACTGT
1 TCAGCTCGTTAGAGCTTACTGT
75769163 CCATCAGCTC
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
22 16 0.29
23 23 0.42
24 16 0.29
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (23 bp):
TCAGCTCGTTAGAGCTTACTGTT
Found at i:75769153 original size:23 final size:22
Alignment explanation
Indices: 75769107--75769191 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 22
75769097 CAGCTTGTAT
**
75769107 GAGCTTACTGTTCAGCTCGTTA
1 GAGCTTACTGTTCAGCTCAATA
*
75769129 GAGCTTGCTGTTTCAGCTCAATA
1 GAGCTTACTG-TTCAGCTCAATA
* **
75769152 GAGTTTACTGTCCATCAGCTCAGGA
1 GAGCTTACTGT---TCAGCTCAATA
75769177 GGAGCTTACTGTTCA
1 -GAGCTTACTGTTCA
75769192 TAGCTTGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
22 10 0.20
23 21 0.42
25 9 0.18
26 10 0.20
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATA
Found at i:75772624 original size:29 final size:29
Alignment explanation
Indices: 75772592--75772785 Score: 248
Period size: 29 Copynumber: 6.7 Consensus size: 29
75772582 TGGATAGTTT
*
75772592 CGACTATCAACTATGAAAAGGGATGGTGA
1 CGACCATCAACTATGAAAAGGGATGGTGA
*
75772621 CGACAATCAACTATGAAAAGGGATGGTGA
1 CGACCATCAACTATGAAAAGGGATGGTGA
* *
75772650 CGACCATCAACTATAAAAAAGGATGGTGA
1 CGACCATCAACTATGAAAAGGGATGGTGA
* * *
75772679 TGACCATTAATTGATGAAAAGGGATGGTGA
1 CGACCATCAACT-ATGAAAAGGGATGGTGA
*
75772709 CGACCATCAAATATGAAAAGGGATGGTGA
1 CGACCATCAACTATGAAAAGGGATGGTGA
* *
75772738 CGACCATTGAA-TATGAAAAGGGATAGTGA
1 CGACCA-TCAACTATGAAAAGGGATGGTGA
*
75772767 TGACCATCGAA-TATGAAAA
1 CGACCATC-AACTATGAAAA
75772786 TTTACGACCA
Statistics
Matches: 146, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
28 1 0.01
29 118 0.81
30 27 0.18
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (29 bp):
CGACCATCAACTATGAAAAGGGATGGTGA
Found at i:75772724 original size:88 final size:88
Alignment explanation
Indices: 75772604--75772773 Score: 270
Period size: 88 Copynumber: 1.9 Consensus size: 88
75772594 ACTATCAACT
*
75772604 ATGAAAAGGGATGGTGACGACAATCAACTATGAAAAGGGATGGTGACGACCA-TCAACTATAAAA
1 ATGAAAAGGGATGGTGACGACAATCAAATATGAAAAGGGATGGTGACGACCATTCAA-TATAAAA
*
75772668 AAGGATGGTGATGACCATTAATTG
65 AAGGATAGTGATGACCATTAATTG
* * *
75772692 ATGAAAAGGGATGGTGACGACCATCAAATATGAAAAGGGATGGTGACGACCATTGAATATGAAAA
1 ATGAAAAGGGATGGTGACGACAATCAAATATGAAAAGGGATGGTGACGACCATTCAATATAAAAA
*
75772757 GGGATAGTGATGACCAT
66 AGGATAGTGATGACCAT
75772774 CGAATATGAA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
88 72 0.96
89 3 0.04
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.20
Consensus pattern (88 bp):
ATGAAAAGGGATGGTGACGACAATCAAATATGAAAAGGGATGGTGACGACCATTCAATATAAAAA
AGGATAGTGATGACCATTAATTG
Found at i:75775249 original size:42 final size:42
Alignment explanation
Indices: 75775197--75775299 Score: 161
Period size: 42 Copynumber: 2.5 Consensus size: 42
75775187 CTAAGATTAT
*
75775197 GTGTAAGACCATATTTGGGATATGATATCAATATGAGATTTC
1 GTGTAAGACCATATTTGGGATATGATATCAATATGAGACTTC
* * *
75775239 GTGTAAGACCATATTTGCGATATGGTATCGATATGAGACTTC
1 GTGTAAGACCATATTTGGGATATGATATCAATATGAGACTTC
*
75775281 GTGTAAGACCATAGTTGGG
1 GTGTAAGACCATATTTGGG
75775300 CTATTGGCGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCATATTTGGGATATGATATCAATATGAGACTTC
Found at i:75778242 original size:29 final size:29
Alignment explanation
Indices: 75778091--75778221 Score: 244
Period size: 29 Copynumber: 4.5 Consensus size: 29
75778081 GTGACGAGAT
75778091 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
75778120 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
75778149 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
75778178 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
75778207 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
75778222 GAGCTCGAAG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:75778268 original size:87 final size:87
Alignment explanation
Indices: 75778091--75778279 Score: 229
Period size: 87 Copynumber: 2.2 Consensus size: 87
75778081 GTGACGAGAT
* *
75778091 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
* *
75778156 AAGTGTGCATGCTGGAAAAATA
66 AAGTGTGCAGGCTGGAAAAACA
* * *
75778178 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
** * * **
75778242 TGTGTGTGCGGGCT-TAAATCGCA
65 TAAGTGTGCAGGCTGGAAA-AACA
75778265 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
75778280 GAAATCGAGT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
86 3 0.03
87 82 0.95
88 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCAGGCTGGAAAAACA
Found at i:75787423 original size:18 final size:18
Alignment explanation
Indices: 75787400--75787435 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
75787390 CCTTGAATGA
75787400 TCGAGCCTCCCGAAGAAT
1 TCGAGCCTCCCGAAGAAT
75787418 TCGAGCCTCCCGAAGAAT
1 TCGAGCCTCCCGAAGAAT
75787436 ATATGTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (18 bp):
TCGAGCCTCCCGAAGAAT
Found at i:75792350 original size:35 final size:34
Alignment explanation
Indices: 75792285--75792354 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 34
75792275 ATGCTTGGTG
* *
75792285 AATGTGAATTGTTTGGAAATGTGATTTATTGCATA
1 AATGTGAAATGTTTGGAAATGTGATCTATTG-ATA
*
75792320 AATGTGAAATGTTTGGTAATGT-AGTCTATTGATA
1 AATGTGAAATGTTTGGAAATGTGA-TCTATTGATA
75792354 A
1 A
75792355 GATGATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 5 0.16
35 26 0.84
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (34 bp):
AATGTGAAATGTTTGGAAATGTGATCTATTGATA
Found at i:75798249 original size:19 final size:20
Alignment explanation
Indices: 75798209--75798257 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
75798199 ATTGCAAAAG
75798209 AAATTCAAAATAATTTTCAA
1 AAATTCAAAATAATTTTCAA
75798229 AAATTCAAAAT-ATTTAT-AA
1 AAATTCAAAATAATTT-TCAA
75798248 AAATTTCAAA
1 AAA-TTCAAA
75798258 TTTTCTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATTCAAAATAATTTTCAA
Found at i:75798570 original size:5 final size:5
Alignment explanation
Indices: 75798527--75798568 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
75798517 AATTTCACTT
* *
75798527 GATTC AATTC GA-TC TGATTC GATTC GATTC GATTC GACTC GA
1 GATTC GATTC GATTC -GATTC GATTC GATTC GATTC GATTC GA
75798569 CTTGAATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
4 2 0.06
5 28 0.88
6 2 0.06
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (5 bp):
GATTC
Found at i:75799057 original size:3 final size:3
Alignment explanation
Indices: 75799051--75799077 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
75799041 TTAAAAAAAA
75799051 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
75799078 TTTAATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:75799768 original size:15 final size:14
Alignment explanation
Indices: 75799743--75799773 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
75799733 TAATTAGATG
75799743 AAAGTGTAATTATT
1 AAAGTGTAATTATT
75799757 AAAGTAGTAATTATT
1 AAAGT-GTAATTATT
75799772 AA
1 AA
75799774 GAAAGTGCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (14 bp):
AAAGTGTAATTATT
Found at i:75805989 original size:4 final size:4
Alignment explanation
Indices: 75805975--75806009 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
75805965 TAGAAATATA
75805975 AAAT AAAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
75806010 TAATAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:75805989 original size:9 final size:9
Alignment explanation
Indices: 75805972--75806182 Score: 128
Period size: 9 Copynumber: 23.1 Consensus size: 9
75805962 TGATAGAAAT
75805972 ATAA-AATA
1 ATAATAATA
75805980 A-AATAAATAA
1 ATAAT-AAT-A
75805990 ATAAATAAATA
1 AT-AATA-ATA
75806001 AATAAATAATA
1 -ATAA-TAATA
75806012 ATAATAATA
1 ATAATAATA
75806021 ATAATAATA
1 ATAATAATA
75806030 ATAATAATA
1 ATAATAATA
75806039 ATAATAATA
1 ATAATAATA
75806048 ATAATAATAA
1 ATAATAAT-A
* *
75806058 AGAATAACA
1 ATAATAATA
*
75806067 ATAAT-ACA
1 ATAATAATA
* *
75806075 AGAACAA-A
1 ATAATAATA
* ** *
75806083 AGAATGGTG
1 ATAATAATA
75806092 ATAATAATA
1 ATAATAATA
* * *
75806101 CTACTACTA
1 ATAATAATA
75806110 A-AATAATA
1 ATAATAATA
* *
75806118 ATGATAGTA
1 ATAATAATA
*
75806127 ATAGTAATA
1 ATAATAATA
75806136 A-AAGTAAATA
1 ATAA-T-AATA
75806146 ATAATAATA
1 ATAATAATA
*
75806155 ATAATAATG
1 ATAATAATA
* * *
75806164 ATGATGATG
1 ATAATAATA
75806173 ATAATAATA
1 ATAATAATA
75806182 A
1 A
75806183 ATGATCCAAC
Statistics
Matches: 157, Mismatches: 31, Indels: 29
0.72 0.14 0.13
Matches are distributed among these distances:
7 2 0.01
8 19 0.12
9 99 0.63
10 19 0.12
11 9 0.06
12 9 0.06
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (9 bp):
ATAATAATA
Found at i:75806013 original size:3 final size:3
Alignment explanation
Indices: 75806005--75806182 Score: 130
Period size: 3 Copynumber: 59.7 Consensus size: 3
75805995 TAAATAAATA
75806005 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * ** *
75806053 AAT AAAG AAT AAC AAT AAT -AC AAG AAC AA- AAG AAT GGT GAT AAT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
75806097 AAT ACT ACT ACT AA- AAT AAT AAT GAT AGT AAT AGT AAT AA- AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * * *
75806141 AAAT AAT AAT AAT AAT AAT AAT GAT GAT GAT GAT AAT AAT AA
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
75806183 ATGATCCAAC
Statistics
Matches: 146, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
2 7 0.05
3 134 0.92
4 3 0.02
5 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:75806375 original size:26 final size:24
Alignment explanation
Indices: 75806345--75806400 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
75806335 TAAAAGAATT
*
75806345 ATGAATTAATGATT-CTAATAATGTAA
1 ATGAA-TAAT-ATTACTAATAA-ATAA
75806371 ATGAATAATATTCACTAATAAATAA
1 ATGAATAATATT-ACTAATAAATAA
75806396 ATGAA
1 ATGAA
75806401 CAAGTAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 3 0.11
25 12 0.44
26 12 0.44
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (24 bp):
ATGAATAATATTACTAATAAATAA
Found at i:75808636 original size:13 final size:11
Alignment explanation
Indices: 75808606--75808630 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
75808596 TAAGAGAATT
75808606 TTTTCCTCTTA
1 TTTTCCTCTTA
75808617 TTTTCCTCTTA
1 TTTTCCTCTTA
75808628 TTT
1 TTT
75808631 CATCCTTATA
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:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTCCTCTTA
Found at i:75809876 original size:31 final size:32
Alignment explanation
Indices: 75809815--75809877 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
75809805 ATAATGTTTG
*
75809815 ATATAAGATGCAAAAGATTAATAAATTTAAAT
1 ATATAAGATACAAAAGATTAATAAATTTAAAT
*
75809847 ATATAA-ATACAACAGATTAA-AAATATTAAAT
1 ATATAAGATACAAAAGATTAATAAAT-TTAAAT
75809878 GTATTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 4 0.14
31 18 0.64
32 6 0.21
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (32 bp):
ATATAAGATACAAAAGATTAATAAATTTAAAT
Found at i:75811130 original size:12 final size:12
Alignment explanation
Indices: 75811113--75811142 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
75811103 ATTAGCACCT
75811113 CACTAAACCAAC
1 CACTAAACCAAC
75811125 CACTAAACCAAC
1 CACTAAACCAAC
75811137 CACTAA
1 CACTAA
75811143 CTCCATCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.40, G:0.00, T:0.10
Consensus pattern (12 bp):
CACTAAACCAAC
Found at i:75811164 original size:24 final size:24
Alignment explanation
Indices: 75811137--75811183 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
75811127 CTAAACCAAC
*
75811137 CACTAACTCCATCATCCCACTTGT
1 CACTAACTCCATCACCCCACTTGT
*
75811161 CACTAGCTCCATCACCCCACTTG
1 CACTAACTCCATCACCCCACTTG
75811184 CCTGCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.45, G:0.06, T:0.26
Consensus pattern (24 bp):
CACTAACTCCATCACCCCACTTGT
Found at i:75811322 original size:24 final size:26
Alignment explanation
Indices: 75811270--75811324 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 26
75811260 GTTTTTTTGG
*
75811270 AGAAAAAGGAGAGAGATTCAAATACA
1 AGAAAAAGGAGAGACATTCAAATACA
*
75811296 AGAAAAA-GAGAGACTTTC-AATACA
1 AGAAAAAGGAGAGACATTCAAATACA
75811320 AGAAA
1 AGAAA
75811325 TACACGAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 11 0.41
25 9 0.33
26 7 0.26
ACGTcount: A:0.58, C:0.09, G:0.20, T:0.13
Consensus pattern (26 bp):
AGAAAAAGGAGAGACATTCAAATACA
Found at i:75811722 original size:20 final size:20
Alignment explanation
Indices: 75811697--75811767 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
75811687 AACGTAATAG
75811697 TATTTTTATTATTTTATTAT
1 TATTTTTATTATTTTATTAT
* *
75811717 TATTTTTACCT-TTTTATTAC
1 TATTTTTA-TTATTTTATTAT
* *** *
75811737 TATTATTAACCTATTATTAT
1 TATTTTTATTATTTTATTAT
75811757 TATTTTTATTA
1 TATTTTTATTA
75811768 ATATAGTGTC
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
20 37 0.97
21 1 0.03
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTTTTATTATTTTATTAT
Found at i:75811733 original size:17 final size:19
Alignment explanation
Indices: 75811710--75811764 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
75811700 TTTTATTATT
*
75811710 TTATTATTATTTTTACCTTT
1 TTATTATTATTTTTACC-TA
* *
75811730 TTATTACTATTATTAACCTA
1 TTATTATTATT-TTTACCTA
75811750 TTATTATTATTTTTA
1 TTATTATTATTTTTA
75811765 TTAATATAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.10
20 21 0.72
21 5 0.17
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATTATTTTTACCTA
Found at i:75811814 original size:21 final size:19
Alignment explanation
Indices: 75811790--75811842 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
75811780 TTTCTTTTTT
75811790 TATATTGTTATTATTAGCACG
1 TATATTGTTATTATTA--ACG
* *
75811811 TATATTATTATTATTAATG
1 TATATTGTTATTATTAACG
75811830 TATCATTGTTATT
1 TAT-ATTGTTATT
75811843 TTCTATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.18
20 8 0.29
21 15 0.54
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (19 bp):
TATATTGTTATTATTAACG
Found at i:75812122 original size:8 final size:8
Alignment explanation
Indices: 75812109--75812142 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
75812099 ACTAATCAAT
75812109 TTATATTA
1 TTATATTA
75812117 TTATATTA
1 TTATATTA
75812125 TTAT-TATA
1 TTATAT-TA
75812133 TTATATTA
1 TTATATTA
75812141 TT
1 TT
75812143 TTCCTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 1 0.04
8 22 0.92
9 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATATTA
Found at i:75817362 original size:2 final size:2
Alignment explanation
Indices: 75817357--75817389 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
75817347 ATTTTTTTAA
75817357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
75817390 CTTAAATAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75818142 original size:25 final size:25
Alignment explanation
Indices: 75818114--75818185 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
75818104 CCAAACAAAA
* *
75818114 TACGCCATAAGGGGAACATACAGAG
1 TACGCCATAAAGGCAACATACAGAG
*
75818139 TACGCCATAAAGGCAACATACAGAA
1 TACGCCATAAAGGCAACATACAGAG
* * *
75818164 TATGCCACAAAGGCGACATACA
1 TACGCCATAAAGGCAACATACA
75818186 TAATCACGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (25 bp):
TACGCCATAAAGGCAACATACAGAG
Found at i:75820003 original size:24 final size:25
Alignment explanation
Indices: 75819976--75820023 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
75819966 CAAGCGAGCC
*
75819976 ATATCAGGAAGCTCAT-AAGAGCTT
1 ATATCAAGAAGCTCATGAAGAGCTT
*
75820000 ATATCAAGAGGCTCATGAAGAGCT
1 ATATCAAGAAGCTCATGAAGAGCT
75820024 GCGTTTGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (25 bp):
ATATCAAGAAGCTCATGAAGAGCTT
Found at i:75821914 original size:75 final size:75
Alignment explanation
Indices: 75821769--75821918 Score: 178
Period size: 75 Copynumber: 2.0 Consensus size: 75
75821759 CAGATGAATG
* * * * *
75821769 CATCTTTGATTAATGTCTTGGATTAATACATTTGCATCTTTAGAAACTTGCATTAAATGTCTTGT
1 CATCTTTGATTAATGTCTTGAATTAATACACTAGCATCTTTAGAAACCTGCATTAAATGTCTTGC
*
75821834 TTATTAAATA
66 ATATTAAATA
* * * *
75821844 CATCTTTGTTTAATGTTTTGAATTAATACACTAGCATCCTTTA-ATACCTGCATTATATGTTCTT
1 CATCTTTGATTAATGTCTTGAATTAATACACTAGCAT-CTTTAGAAACCTGCATTAAATG-TCTT
75821908 -CATATTAAATA
64 GCATATTAAATA
75821919 AGTCATACAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
75 54 0.86
76 9 0.14
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (75 bp):
CATCTTTGATTAATGTCTTGAATTAATACACTAGCATCTTTAGAAACCTGCATTAAATGTCTTGC
ATATTAAATA
Found at i:75826443 original size:30 final size:30
Alignment explanation
Indices: 75826385--75826444 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
75826375 TTCCTGAGCC
*
75826385 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGCAATTATGCAAAAGTT
* *
75826415 TAGGGGCAAAAA-TGCAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGCAATTATGCAAAAGTT
75826445 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (30 bp):
TAGGGGAAAAAGTGCAATTATGCAAAAGTT
Found at i:75828739 original size:16 final size:16
Alignment explanation
Indices: 75828720--75828751 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
75828710 AATTGTTTTA
75828720 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
75828736 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
75828752 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:75829016 original size:50 final size:50
Alignment explanation
Indices: 75828951--75829290 Score: 315
Period size: 50 Copynumber: 6.8 Consensus size: 50
75828941 ACCGAAGCTC
* * *
75828951 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * * ** *
75829001 TCTGGTACATGTAGTAGCCTGCACTTAGTACTACATACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCTA-TCAA
* ** * *
75829053 -CGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * * * *
75829102 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
** * * ** *
75829152 TCTAATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCTA-TCAA
* ** * * *
75829204 -CGGGTATGCATAGTAGCCTGCACTTAGTACTACATATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * *
75829253 TATGGTACACGGAGTAGCCTGCACTTCGTACTACACAC
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
75829291 ATGACTCACA
Statistics
Matches: 225, Mismatches: 59, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
49 6 0.03
50 147 0.65
51 68 0.30
52 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
Found at i:75829079 original size:101 final size:101
Alignment explanation
Indices: 75828954--75829143 Score: 344
Period size: 101 Copynumber: 1.9 Consensus size: 101
75828944 GAAGCTCTCT
*
75828954 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
75829019 CTGCACTTAGTACTACATACGTGATCGAAGTTAACG
66 CTACACTTAGTACTACACACGTGATCGAAGTTAACG
*
75829055 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
75829120 CTACACTTAGTACTACACACGTGA
66 CTACACTTAGTACTACACACGTGA
75829144 CTTAACCATC
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 85 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (101 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTACACTTAGTACTACACACGTGATCGAAGTTAACG
Found at i:75829192 original size:151 final size:151
Alignment explanation
Indices: 75828951--75829296 Score: 521
Period size: 151 Copynumber: 2.3 Consensus size: 151
75828941 ACCGAAGCTC
* * * * * * ** *
75828951 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGT
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTAATACACGTAGT
* * *
75829016 AGCCTGCACTTAGTACTACATACGTGATCGAAGTTAACGGGTATGCATAGTAGCCTGCACTTAGT
66 AGCCTACACTTAGTACTACACACGTGATCAAAGTTAACGGGTATGCATAGTAGCCTGCACTTAGT
75829081 ACTACACATGCGACCTATCAA
131 ACTACACATGCGACCTATCAA
* *
75829102 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTAATACACGTAGT
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTAATACACGTAGT
75829167 AGCCTACACTTAGTACTACACACGTGATCAAAGTTAACGGGTATGCATAGTAGCCTGCACTTAGT
66 AGCCTACACTTAGTACTACACACGTGATCAAAGTTAACGGGTATGCATAGTAGCCTGCACTTAGT
*
75829232 ACTACATATGCGACCTATCAA
131 ACTACACATGCGACCTATCAA
* * * *
75829253 TATGGTACACGGAGTAGCCTGCACTTCGTACTACACACATGACT
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACT
75829297 CACAACAAAT
Statistics
Matches: 175, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
151 175 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (151 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTAATACACGTAGT
AGCCTACACTTAGTACTACACACGTGATCAAAGTTAACGGGTATGCATAGTAGCCTGCACTTAGT
ACTACACATGCGACCTATCAA
Found at i:75829671 original size:19 final size:20
Alignment explanation
Indices: 75829643--75829689 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
75829633 AAGAACATGT
75829643 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
75829664 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
75829683 TATATAT
1 TATATAT
75829690 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:75831239 original size:14 final size:15
Alignment explanation
Indices: 75831216--75831259 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
75831206 CAATAATATT
75831216 TTATATAAAAAATTA
1 TTATATAAAAAATTA
75831231 TTA-AT-AAAAATT-
1 TTATATAAAAAATTA
*
75831243 TTATTTAAAAAATTA
1 TTATATAAAAAATTA
75831258 TT
1 TT
75831260 TATTTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 3 0.12
13 8 0.32
14 9 0.36
15 5 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATATAAAAAATTA
Found at i:75833056 original size:23 final size:22
Alignment explanation
Indices: 75833030--75833079 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
75833020 CCGAATTATA
*
75833030 TAATA-AATATATATTTTTTATTT
1 TAATATAAT-TATA-TTTTAATTT
75833053 TAATTATAATTATATTTTAATTT
1 TAA-TATAATTATATTTTAATTT
75833076 TAAT
1 TAAT
75833080 TTTAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 1 0.04
23 14 0.58
24 6 0.25
25 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TAATATAATTATATTTTAATTT
Found at i:75833070 original size:17 final size:17
Alignment explanation
Indices: 75833048--75833080 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
75833038 ATATATTTTT
75833048 TATTTTAATTATAATTA
1 TATTTTAATTATAATTA
*
75833065 TATTTTAATTTTAATT
1 TATTTTAATTATAATT
75833081 TTAATATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTTAATTATAATTA
Found at i:75833080 original size:23 final size:24
Alignment explanation
Indices: 75833039--75833085 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
75833029 ATAATAAATA
*
75833039 TATATTTTTTATTTTAATTATAAT
1 TATATTTTTAATTTTAATTATAAT
*
75833063 TATA-TTTTAATTTTAATTTTAAT
1 TATATTTTTAATTTTAATTATAAT
75833086 ATAATCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TATATTTTTAATTTTAATTATAAT
Found at i:75833109 original size:28 final size:30
Alignment explanation
Indices: 75833048--75833115 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 30
75833038 ATATATTTTT
* *
75833048 TATTTTAATTATAATTATATTTTAATTTTA
1 TATTTTAATTATAATCATATTTTAATTATA
*
75833078 -ATTTTAA-TATAATCA-ATTTTTATTATA
1 TATTTTAATTATAATCATATTTTAATTATA
75833105 TATTTTCAATT
1 TATTTT-AATT
75833116 TGTGTATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 10 0.31
28 12 0.38
29 9 0.28
30 1 0.03
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (30 bp):
TATTTTAATTATAATCATATTTTAATTATA
Found at i:75833113 original size:20 final size:20
Alignment explanation
Indices: 75833037--75833116 Score: 61
Period size: 23 Copynumber: 3.8 Consensus size: 20
75833027 ATATAATAAA
**
75833037 TATATATTTTTTATTTTAAT
1 TATATATTTTCAATTTTAAT
*
75833057 TATAATTATATTTTAATTTTAAT
1 TAT-A-TAT-TTTCAATTTTAAT
* ** *
75833080 TTTAATATAATCAATTTTTAT
1 TAT-ATATTTTCAATTTTAAT
75833101 TATATATTTTCAATTT
1 TATATATTTTCAATTT
75833117 GTGTATTGTT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 14 0.29
21 12 0.25
22 6 0.12
23 16 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATATTTTCAATTTTAAT
Found at i:75833146 original size:40 final size:40
Alignment explanation
Indices: 75833102--75833182 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
75833092 AATTTTTATT
75833102 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * *
75833142 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
75833182 A
1 A
75833183 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:75834304 original size:15 final size:16
Alignment explanation
Indices: 75834284--75834314 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
75834274 TTAAAATATA
75834284 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
75834299 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
75834315 CAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:75835008 original size:13 final size:13
Alignment explanation
Indices: 75834979--75835052 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
75834969 ATCTAAATTC
75834979 TATTTTTTATT-A
1 TATTTTTTATTAA
*
75834991 GATTTTTTATTAA
1 TATTTTTTATTAA
** **
75835004 TATTTTCAAGAAA
1 TATTTTTTATTAA
75835017 TATTTTTTTATTAAA
1 TA-TTTTTTATT-AA
*
75835032 AATTAATTTTATTAA
1 TATT--TTTTATTAA
75835047 TATTTT
1 TATTTT
75835053 CAAGAAATAT
Statistics
Matches: 45, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
12 10 0.22
13 13 0.29
14 7 0.16
15 8 0.18
16 7 0.16
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (13 bp):
TATTTTTTATTAA
Found at i:75835093 original size:43 final size:42
Alignment explanation
Indices: 75834995--75835081 Score: 158
Period size: 43 Copynumber: 2.1 Consensus size: 42
75834985 TTATTAGATT
75834995 TTTTATTAATATTTTCAAGAAATATTTTTTTATTAAAAATTAA
1 TTTTATTAATATTTTCAAGAAATA-TTTTTTATTAAAAATTAA
75835038 TTTTATTAATATTTTCAAGAAATA-TTTTTATTAAAAATTAA
1 TTTTATTAATATTTTCAAGAAATATTTTTTATTAAAAATTAA
75835079 TTT
1 TTT
75835082 GTGTTCTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 20 0.45
43 24 0.55
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (42 bp):
TTTTATTAATATTTTCAAGAAATATTTTTTATTAAAAATTAA
Found at i:75837344 original size:21 final size:22
Alignment explanation
Indices: 75837318--75837358 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
75837308 CTCTTAACAC
75837318 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
75837339 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
75837359 ACATTTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:75846620 original size:30 final size:30
Alignment explanation
Indices: 75846535--75846631 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
75846525 TAAACTAAAA
* *
75846535 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
75846565 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
75846595 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
75846624 ATGAGCTA
1 -TGAGCTA
75846632 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:75848840 original size:13 final size:13
Alignment explanation
Indices: 75848822--75848848 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
75848812 ACTTGTTTTC
75848822 TCACTCGATTCTT
1 TCACTCGATTCTT
75848835 TCACTCGATTCTT
1 TCACTCGATTCTT
75848848 T
1 T
75848849 TTCTTCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.07, T:0.48
Consensus pattern (13 bp):
TCACTCGATTCTT
Found at i:75848931 original size:30 final size:30
Alignment explanation
Indices: 75848877--75848961 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
75848867 TTCTTTTGTT
*
75848877 TCAATTTCTTTTTCATCTTCTTTTTCACTC
1 TCAATTTCTTTTTCATCTTCTTTTTCAATC
**
75848907 TCAAATTTCTTTTTGTTC-TCTTTTTCAATC
1 TC-AATTTCTTTTTCATCTTCTTTTTCAATC
* *
75848937 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTCTTTTTCATCTTCTTTTT
75848962 GCTTTTCAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 11 0.24
30 22 0.48
31 13 0.28
ACGTcount: A:0.13, C:0.21, G:0.01, T:0.65
Consensus pattern (30 bp):
TCAATTTCTTTTTCATCTTCTTTTTCAATC
Found at i:75848968 original size:12 final size:12
Alignment explanation
Indices: 75848937--75848961 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
75848927 TTTTTCAATC
75848937 TCATTTTCTTTT
1 TCATTTTCTTTT
75848949 TCATTTTCTTTT
1 TCATTTTCTTTT
75848961 T
1 T
75848962 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:75848979 original size:12 final size:12
Alignment explanation
Indices: 75848964--75848994 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
75848954 TTCTTTTTGC
75848964 TTTTCAAAGGCT
1 TTTTCAAAGGCT
75848976 TTTTCAAAGGCT
1 TTTTCAAAGGCT
75848988 TTTTCAA
1 TTTTCAA
75848995 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:75849073 original size:6 final size:6
Alignment explanation
Indices: 75849055--75849094 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
75849045 TTTATTTTTA
*
75849055 TTTCAT TTT-TT TTTCTT TTTCTT TTTC-T TTTC-T TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
75849095 ATTTTCTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 14 0.45
6 17 0.55
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:75857143 original size:28 final size:28
Alignment explanation
Indices: 75857111--75857194 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
75857101 AACTTTGATC
75857111 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
75857139 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
75857161 ACGTGTGTAGTACTAAGTGCGGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
75857189 ACGTGT
1 ACGTGT
75857195 ACCGGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 3 0.07
25 5 0.12
26 3 0.07
27 2 0.05
28 14 0.34
29 2 0.05
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:75857167 original size:50 final size:49
Alignment explanation
Indices: 75857073--75857251 Score: 196
Period size: 50 Copynumber: 3.6 Consensus size: 49
75857063 ATATGATGAA
* * * * * *
75857073 TAAGAGCAGGCAACTATGCGTACCCGATAACTTTGATCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAA--TTGGTCACGTGTGTAGTAC
* **
75857124 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACGTGTGTAGTAC
* * * *
75857174 TAAGTGCGGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTAC
* *
75857223 TAAGTGCAGGCTACTATGCGTACCAGATA
1 TAAGTGCAGGCTACTACGTGTACCAGATA
75857252 GCTTGGCTAC
Statistics
Matches: 107, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 42 0.39
50 43 0.40
51 22 0.21
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (49 bp):
TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTAC
Found at i:75859983 original size:5 final size:6
Alignment explanation
Indices: 75859949--75860016 Score: 56
Period size: 5 Copynumber: 11.7 Consensus size: 6
75859939 TAATCAGTTC
* *
75859949 AATATT AA-ATT AATATA AATATT -ATATT AAT-TT AATATT AAGA-T
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATATT
75859993 AATCACTTT AATATT AA-ATT AATA
1 AAT-A--TT AATATT AATATT AATA
75860017 AAATACTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
5 23 0.46
6 22 0.44
8 1 0.02
9 4 0.08
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (6 bp):
AATATT
Found at i:75860015 original size:20 final size:18
Alignment explanation
Indices: 75859949--75860074 Score: 68
Period size: 20 Copynumber: 6.9 Consensus size: 18
75859939 TAATCAGTTC
*
75859949 AATATTAAATTAATA-TA
1 AATATTAAATTAATATTT
*
75859966 AATATTATATT-A-ATTT
1 AATATTAAATTAATATTT
75859982 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
**
75860002 AATATTAAATTAATAAAAT
1 AATATTAAATTAAT-ATTT
*
75860021 ACTATTAAGA-TAAGTA-TT
1 AATATTAA-ATTAA-TATTT
*
75860039 AA-ATTAAATTTAATATTA
1 AATATTAAA-TTAATATTT
*
75860057 AACTATTAAAATAATATT
1 AA-TATTAAATTAATATT
75860075 ATTTTTGGAA
Statistics
Matches: 84, Mismatches: 11, Indels: 26
0.69 0.09 0.21
Matches are distributed among these distances:
15 1 0.01
16 11 0.13
17 19 0.23
18 8 0.10
19 21 0.25
20 24 0.29
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:75860062 original size:37 final size:36
Alignment explanation
Indices: 75860000--75860075 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
75859990 GATAATCACT
*
75860000 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
75860037 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
75860073 TTA
1 TTA
75860076 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 11 0.31
37 22 0.63
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:75861605 original size:33 final size:33
Alignment explanation
Indices: 75861568--75861647 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
75861558 GTAGCCTCTT
75861568 TTTCAGTAGCAGTAGCAGTCTGGGCCTGAG-CCA
1 TTTCAGTA-CAGTAGCAGTCTGGGCCTGAGCCCA
* * *
75861601 TTTCAATAACAGTGGCAGTCTGGGCCTTAGCCCA
1 TTTCAGT-ACAGTAGCAGTCTGGGCCTGAGCCCA
*
75861635 TTTTAGTACAGTA
1 TTTCAGTACAGTA
75861648 TGCAAACAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (33 bp):
TTTCAGTACAGTAGCAGTCTGGGCCTGAGCCCA
Found at i:75868217 original size:40 final size:39
Alignment explanation
Indices: 75868172--75868379 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
75868162 CGGAATACAA
*
75868172 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
75868212 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
75868252 CCGGATTTAACAACTTGCACGAATGCTTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
75868292 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
75868332 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
75868372 CCGGATAT
1 CCGGATAT
75868380 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:75868312 original size:80 final size:80
Alignment explanation
Indices: 75868172--75868378 Score: 222
Period size: 80 Copynumber: 2.6 Consensus size: 80
75868162 CGGAATACAA
* * * *
75868172 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCTTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
75868236 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
75868252 CCGGATTTAACAACTTGCACGAATGCTTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCTTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
75868316 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** *
75868332 CCGGATATAATTACTAGCATAAATG-TCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCT-TTCGGGTCTTAGCCCGGATA
75868379 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 4 0.04
80 100 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCTTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:75872808 original size:23 final size:22
Alignment explanation
Indices: 75872782--75872905 Score: 108
Period size: 23 Copynumber: 5.5 Consensus size: 22
75872772 AGCTCATTTA
75872782 AGCTTACTGATTTAGCTCGAAAG
1 AGCTTACTG-TTTAGCTCGAAAG
*
75872805 AGCTTACTGTTCAGCTC-AATAG
1 AGCTTACTGTTTAGCTCGAA-AG
* * * *
75872827 AGCTTACCGTTTCAACTCGTATG
1 AGCTTACTGTTT-AGCTCGAAAG
* * *
75872850 AGCTTACTGTTCATCTCGATAG
1 AGCTTACTGTTTAGCTCGAAAG
*
75872872 AGCTTACCGTTTTAGCTC-AATAG
1 AGCTTACTG-TTTAGCTCGAA-AG
75872895 AGCTTACTGTT
1 AGCTTACTGTT
75872906 CATCAGCTCA
Statistics
Matches: 79, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
21 2 0.03
22 36 0.46
23 40 0.51
24 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (22 bp):
AGCTTACTGTTTAGCTCGAAAG
Found at i:75872831 original size:45 final size:44
Alignment explanation
Indices: 75872756--75872907 Score: 164
Period size: 45 Copynumber: 3.4 Consensus size: 44
75872746 TACAGGTCAG
* * *
75872756 AAGAGCATACTGTTTCAGCTCATTTA-AGCTTACTGATTTAGCTCGA
1 AAGAGCTTACTG-TTCAGCTCA-ATAGAGCTTACCG-TTTAGCTCGA
* *
75872802 AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGTTTCAACTCGT
1 AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGTTT-AGCTCGA
* * *
75872847 ATGAGCTTACTGTTCATCTCGATAGAGCTTACCGTTTTAGCTC-A
1 AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCG-TTTAGCTCGA
75872891 ATAGAGCTTACTGTTCA
1 A-AGAGCTTACTGTTCA
75872908 TCAGCTCAGG
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
44 6 0.07
45 71 0.78
46 14 0.15
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (44 bp):
AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGTTTAGCTCGA
Found at i:75885187 original size:13 final size:13
Alignment explanation
Indices: 75885171--75885195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75885161 CACACAAACG
75885171 ATTAAATTTTCAT
1 ATTAAATTTTCAT
75885184 ATTAAATTTTCA
1 ATTAAATTTTCA
75885196 CACATATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTAAATTTTCAT
Found at i:75887617 original size:11 final size:11
Alignment explanation
Indices: 75887601--75887626 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
75887591 CGAAGCCCAC
75887601 ATCACAATAAT
1 ATCACAATAAT
75887612 ATCACAATAAT
1 ATCACAATAAT
75887623 ATCA
1 ATCA
75887627 TACATGCAAT
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:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:75888017 original size:27 final size:27
Alignment explanation
Indices: 75887985--75888058 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
75887975 TCTCGCCCTT
* *
75887985 AGGGGTATTTCGGTAATTTTACAAGTCG
1 AGGGGTATTTCGGTAATTTCACAAAT-G
*
75888013 A-GGGTATTTCGGTAATTTCACAAATT
1 AGGGGTATTTCGGTAATTTCACAAATG
*
75888039 AGGGGTATTTTGGTAATTTC
1 AGGGGTATTTCGGTAATTTC
75888059 CCTTTATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTCACAAATG
Found at i:75888415 original size:28 final size:27
Alignment explanation
Indices: 75888363--75888416 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
75888353 CATGCATATA
* *
75888363 GCCCACTAGGCCCAATCTCATTCATAG
1 GCCCACTAGGCCCAATCACAGTCATAG
*
75888390 GCCCATTAGGCCCAAATCACAGTCATA
1 GCCCACTAGGCCC-AATCACAGTCATA
75888417 TGACCCATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.30, C:0.35, G:0.15, T:0.20
Consensus pattern (27 bp):
GCCCACTAGGCCCAATCACAGTCATAG
Found at i:75888683 original size:16 final size:16
Alignment explanation
Indices: 75888662--75888692 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75888652 CTAGACTTTC
*
75888662 AGCTTTTTGGCATTTT
1 AGCTTTTTGACATTTT
75888678 AGCTTTTTGACATTT
1 AGCTTTTTGACATTT
75888693 CAGGATTTGT
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:0.16, C:0.13, G:0.16, T:0.55
Consensus pattern (16 bp):
AGCTTTTTGACATTTT
Found at i:75889568 original size:4 final size:4
Alignment explanation
Indices: 75889561--75889587 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
75889551 TATATACTAA
75889561 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
75889588 ATACAAACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:75897932 original size:40 final size:41
Alignment explanation
Indices: 75897885--75897962 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
75897875 TTAGTTTGGA
**
75897885 CCTTAGCCCATCTTAGTA-CAGTATCAAAT-ATGCAGTAGGG
1 CCTTAGCCCATCACAGTATCAGTA-CAAATCATGCAGTAGGG
*
75897925 CCTTAGCCCATCACAGTATCAGTACCAATCATGCAGTA
1 CCTTAGCCCATCACAGTATCAGTACAAATCATGCAGTA
75897963 TTCAATAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 20 0.61
41 13 0.39
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (41 bp):
CCTTAGCCCATCACAGTATCAGTACAAATCATGCAGTAGGG
Found at i:75901701 original size:28 final size:28
Alignment explanation
Indices: 75901663--75901725 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
75901653 TGAATGTGAT
75901663 TTGGGCCTAATCGGCCATATGAATAAGA
1 TTGGGCCTAATCGGCCATATGAATAAGA
*
75901691 TTGGGCCTAATGGGCCATATGAATAAGA
1 TTGGGCCTAATCGGCCATATGAATAAGA
75901719 TTGGGCC
1 TTGGGCC
75901726 CAGTAGGCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATCGGCCATATGAATAAGA
Found at i:75901734 original size:28 final size:28
Alignment explanation
Indices: 75901663--75901738 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
75901653 TGAATGTGAT
* *
75901663 TTGGGCCTAATCGGCCATATGAATAAGA
1 TTGGGCCCAATAGGCCATATGAATAAGA
* *
75901691 TTGGGCCTAATGGGCCATATGAATAAGA
1 TTGGGCCCAATAGGCCATATGAATAAGA
*
75901719 TTGGGCCCAGTAGGCCATAT
1 TTGGGCCCAATAGGCCATAT
75901739 ACATGATTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (28 bp):
TTGGGCCCAATAGGCCATATGAATAAGA
Found at i:75908802 original size:8 final size:8
Alignment explanation
Indices: 75908791--75908820 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
75908781 AATGCAAAGT
75908791 CGAAATGC
1 CGAAATGC
75908799 CGAAATGC
1 CGAAATGC
75908807 CGAAATGC
1 CGAAATGC
*
75908815 CAAAAT
1 CGAAAT
75908821 TTTGGCTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.43, C:0.23, G:0.20, T:0.13
Consensus pattern (8 bp):
CGAAATGC
Found at i:75909044 original size:29 final size:29
Alignment explanation
Indices: 75909012--75909100 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 29
75909002 AAAGCATGAC
75909012 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* *
75909041 TATGAATGTGATTTAGGCGTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* * *
75909070 TATGAATG-AAATTGGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
75909098 TAT
1 TAT
75909101 ACATGTATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 18 0.34
29 35 0.66
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.30
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:75911239 original size:15 final size:15
Alignment explanation
Indices: 75911219--75911249 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
75911209 TAAAAAGTTT
75911219 ATTTTAATCAAGATG
1 ATTTTAATCAAGATG
75911234 ATTTTAATCAAGATG
1 ATTTTAATCAAGATG
75911249 A
1 A
75911250 CATAATTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (15 bp):
ATTTTAATCAAGATG
Found at i:75914425 original size:40 final size:40
Alignment explanation
Indices: 75914380--75914547 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
75914370 CGGAATATAA
75914380 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
75914420 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
75914460 CCGGTTATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
75914500 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
75914540 CCGGATAT
1 CCGGATAT
75914548 CATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 104 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:75922055 original size:20 final size:20
Alignment explanation
Indices: 75922032--75922071 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
75922022 ACATTCAGTT
75922032 TAAG-TTTATTACAAACTTAC
1 TAAGCTTTA-TACAAACTTAC
*
75922052 TAAGCTTTATACAAGCTTAC
1 TAAGCTTTATACAAACTTAC
75922072 CTCATTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (20 bp):
TAAGCTTTATACAAACTTAC
Found at i:75922593 original size:10 final size:10
Alignment explanation
Indices: 75922578--75922604 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
75922568 TGAATAGGCA
75922578 TAAATGGGTG
1 TAAATGGGTG
75922588 TAAATGGGTG
1 TAAATGGGTG
75922598 TAAATGG
1 TAAATGG
75922605 TATGGCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.30
Consensus pattern (10 bp):
TAAATGGGTG
Found at i:75926381 original size:39 final size:40
Alignment explanation
Indices: 75926326--75926496 Score: 215
Period size: 39 Copynumber: 4.3 Consensus size: 40
75926316 GGACTAAGAT
* *
75926326 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
75926365 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
75926404 CCGAAGGCATTTGCGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * * *
75926444 CCGAAGGTATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
75926484 CCGAAGGCATTTG
1 CCGAAGGCATTTG
75926497 AGCTAGTCGT
Statistics
Matches: 118, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 72 0.61
40 39 0.33
41 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:75929875 original size:33 final size:34
Alignment explanation
Indices: 75929769--75929879 Score: 86
Period size: 34 Copynumber: 3.3 Consensus size: 34
75929759 TAAGGCCCTT
* * **
75929769 TCAGTTTCAGT-TAGGGCCTTAGCCCATTTTAGAA
1 TCAGTATCAGTGT-GGGCCTAAGCCCATTCCAGAA
* * * *
75929803 TCAGAAAT-AGTGTGAGCCTGAGCCCATTCCAGTA
1 TCAG-TATCAGTGTGGGCCTAAGCCCATTCCAGAA
* *
75929837 GCAGTATCAGTG-GGGCCTAAGCCCATTGCAGAA
1 TCAGTATCAGTGTGGGCCTAAGCCCATTCCAGAA
75929870 TCAGTA-CAGT
1 TCAGTATCAGT
75929880 ATGCAATCAG
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
32 4 0.07
33 24 0.40
34 30 0.50
35 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (34 bp):
TCAGTATCAGTGTGGGCCTAAGCCCATTCCAGAA
Done.