Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 47 of 131
Found at i:9752563 original size:296 final size:294
Alignment explanation
Indices: 9752008--9752561 Score: 724
Period size: 296 Copynumber: 1.9 Consensus size: 294
9751998 GTCAAAAATG
* * *
9752008 CCTTTAATAATCTCCATCAAATTTTTTTGGGATCATTCAAGGCGTTTTTGTGATTAAACGCCTTG
1 CCTTTAATAATCTCCACCAAAATTTTTTGGGATCATTCAAGGCATTTTTGTGATTAAACGCCTTG
*
9752073 AATAATCCCTTTCAGGTATTTATGACGAGATTATTGAAGGCATTTTTGCCTAGAAAATGTCTTGA
66 AATAATCCCTTTCAGGTATTTATGACGAGATTATTGAAGGCATTTTTGCCTAAAAAATGTCTTGA
*
9752138 ATCATCCCTAACAAAATATTAAATGGGGTTAATGAAGGCGTTTATGAAAAAAAAATGCCTTGAAT
131 ATCATCCCTAACAAAATATTAAATGGGGTTAATGAAGACGTTTATGAAAAAAAAATGCCTTGAAT
* * ** *
9752203 AAATCATGGATTATTGAAGGTATTTTTGACCAAAAATGCTTTTAATAATCCTCTTCAATTTTTTG
196 AAATCATAGATTATTAAAGGTATTTTTGACCAAAAACACCTTTAATAATCCTC-TCAATTTTTTG
9752268 GAGGAGATTATTTAAGGCATTTTCTGCCAAAAACA
260 GAGGAGATTATTTAAGGCATTTTCTGCCAAAAACA
* * *
9752303 CCTTTAATAAT-TCGCTACCAAAATTTTTTGGGATTATTCAAGGTATTTTTGTGATTAAATGCCT
1 CCTTTAATAATCTC-C-ACCAAAATTTTTTGGGATCATTCAAGGCATTTTTGTGATTAAACGCCT
*
9752367 TGAATAATCTCC-TTCAGG-AGTTTATGACGAGATTATTGAAGGCATTTTTGCCTAAAAAATG-G
64 TGAATAATC-CCTTTCAGGTA-TTTATGACGAGATTATTGAAGGCATTTTTGCCTAAAAAATGTC
** * * * * * * * ** *
9752429 TTGAATCATCTTTAACAAAATATTGAGTGTGGTTATTTATGACGTTTGTG-GTAAAAAATGTCTT
127 TTGAATCATCCCTAACAAAATATTAAATGGGGTTAATGAAGACGTTTATGAAAAAAAAATGCCTT
* * * *
9752493 GAATAAATCCTAGATTATTAAAGGTATTTTTTTATCGAAAACACCTTTAATAATGTCCTC-CAAT
192 GAATAAATCATAGATTATTAAAGGTA-TTTTTGACCAAAAACACCTTTAATAA--TCCTCTCAAT
9752557 TTTTT
254 TTTTT
9752562 TGAAAGGATT
Statistics
Matches: 222, Mismatches: 30, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
294 36 0.16
295 82 0.37
296 97 0.44
297 7 0.03
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (294 bp):
CCTTTAATAATCTCCACCAAAATTTTTTGGGATCATTCAAGGCATTTTTGTGATTAAACGCCTTG
AATAATCCCTTTCAGGTATTTATGACGAGATTATTGAAGGCATTTTTGCCTAAAAAATGTCTTGA
ATCATCCCTAACAAAATATTAAATGGGGTTAATGAAGACGTTTATGAAAAAAAAATGCCTTGAAT
AAATCATAGATTATTAAAGGTATTTTTGACCAAAAACACCTTTAATAATCCTCTCAATTTTTTGG
AGGAGATTATTTAAGGCATTTTCTGCCAAAAACA
Found at i:9757048 original size:125 final size:125
Alignment explanation
Indices: 9756888--9757160 Score: 378
Period size: 125 Copynumber: 2.2 Consensus size: 125
9756878 GGCATTTATG
* *
9756888 GCTAAAAATGCCTTGAATAATCCCTTAGAAAAAATTGAATAGGGTTAGTCAAGGCATTTAT-AGC
1 GCTAAAAATACCTTGAATAATCCCTTAGAAAAAATTGAATAGAGTTAGTCAAGGCATTTATGA-C
9756952 -AAAAAATGCTTTAAATAATC-CTCTTCAATTTTTATGATGAGATTATTAAAGGC-TTTTTTA
65 TAAAAAAT-CTTTAAATAATCTC-CTTCAATTTTTATGATGAGATTATTAAAGGCATTTTTTA
9757012 GCTACAAAATACCTT-ACATAATCCCTTAGAAAAAATTGAATAGAGTTAGTCAAGGCATTTATGA
1 GCTA-AAAATACCTTGA-ATAATCCCTTAGAAAAAATTGAATAGAGTTAGTCAAGGCATTTATGA
* * *
9757076 CTAAAAACTCTTTGAATAATCTCCTTCAATTTTTATGATGGGATTATTAAAGGCATTTTTT-
64 CTAAAAAATCTTTAAATAATCTCCTTCAATTTTTATGATGAGATTATTAAAGGCATTTTTTA
* * * *
9757137 GCCAAAAACAACTTAAATAATCCC
1 GCTAAAAATACCTTGAATAATCCC
9757161 ATTCATTTTT
Statistics
Matches: 134, Mismatches: 8, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
124 21 0.16
125 99 0.74
126 14 0.10
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (125 bp):
GCTAAAAATACCTTGAATAATCCCTTAGAAAAAATTGAATAGAGTTAGTCAAGGCATTTATGACT
AAAAAATCTTTAAATAATCTCCTTCAATTTTTATGATGAGATTATTAAAGGCATTTTTTA
Found at i:9757067 original size:63 final size:61
Alignment explanation
Indices: 9756869--9757082 Score: 202
Period size: 62 Copynumber: 3.4 Consensus size: 61
9756859 ATTTTTTTTG
* *
9756869 GTTAGTCAAGGCATTTATGGCTAAAAATGCCTTGAATAATCCCTTAGAAAAAATTGAATAGG
1 GTTAGTCAAGGCATTTATAGCTAAAAATGCCTT-AATAATCCCTTAGAAAAAATTGAATAGA
* * * ****
9756931 GTTAGTCAAGGCATTTATAGCAAAAAATGCTTTAAATAATCCTCTT-CAATTTTTATG-AT-GA
1 GTTAGTCAAGGCATTTATAGCTAAAAATGCCTT-AATAATCC-CTTAGAAAAAAT-TGAATAGA
* * * * *
9756992 GATTATTAAAGGCTTTTTTAGCTACAAAATACCTTACATAATCCCTTAGAAAAAATTGAATAGA
1 G-TTAGTCAAGGCATTTATAGCTA-AAAATGCCTTA-ATAATCCCTTAGAAAAAATTGAATAGA
9757056 GTTAGTCAAGGCATTTAT-GACTAAAAA
1 GTTAGTCAAGGCATTTATAG-CTAAAAA
9757083 CTCTTTGAAT
Statistics
Matches: 117, Mismatches: 26, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
61 2 0.02
62 71 0.61
63 41 0.35
64 3 0.03
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (61 bp):
GTTAGTCAAGGCATTTATAGCTAAAAATGCCTTAATAATCCCTTAGAAAAAATTGAATAGA
Found at i:9759050 original size:21 final size:21
Alignment explanation
Indices: 9759016--9759057 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9759006 ATATTTTATA
*
9759016 AAAAATAAAAAAAGGAAAAAT
1 AAAAATAAAAAAAGAAAAAAT
**
9759037 AAAAATAATTAAAGAAAAAAT
1 AAAAATAAAAAAAGAAAAAAT
9759058 GATTTTTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAAAAGAAAAAAT
Found at i:9759763 original size:17 final size:17
Alignment explanation
Indices: 9759733--9759765 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9759723 AAAAATAAAA
9759733 AATATATTTTTAAAATT
1 AATATATTTTTAAAATT
9759750 AATA-ATTTTATAAAAT
1 AATATATTTT-TAAAAT
9759766 ATATATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATATATTTTTAAAATT
Found at i:9760433 original size:29 final size:29
Alignment explanation
Indices: 9760377--9760433 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
9760367 TCGAAAATAA
* * * *
9760377 TAAAATATTATTTTTTAAATATAAATATT
1 TAAAATATCATTATATAAATACAAATATT
*
9760406 TAAAATATCATTATATAAATACATATAT
1 TAAAATATCATTATATAAATACAAATAT
9760434 AAATAAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (29 bp):
TAAAATATCATTATATAAATACAAATATT
Found at i:9761542 original size:17 final size:15
Alignment explanation
Indices: 9761508--9761546 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
9761498 GTTTGAATTG
9761508 AATAATATTATAAAT
1 AATAATATTATAAAT
*
9761523 AATAATACTTATCCAAT
1 AATAATA-TTAT-AAAT
9761540 AATAATA
1 AATAATA
9761547 ACAAAACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 4 0.19
17 10 0.48
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAATATTATAAAT
Found at i:9765938 original size:61 final size:61
Alignment explanation
Indices: 9765853--9766566 Score: 717
Period size: 60 Copynumber: 11.8 Consensus size: 61
9765843 AATAATTTTT
* *
9765853 TTTTTTTAGGAAAAGTTGAAAGTATCAACTTTCCTTGAAAATAAAATTTTCAAAAAAAAAA
1 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAAAA
* * * * * * *
9765914 TATTTTAAGGAAAAGTTAAAAGTATGAATTTTCCTTAAAAAT-AAATATT--ACAAAAAAA
1 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAAAA
* * * *
9765972 TGTATTTTCGAGAAAAAGTTGAAAGTATCAATTTTCATTAAAAATAAAATTTTC-AAAAAAATA
1 T-T-TTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAAAA
* * * *
9766035 TTTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTC-GAAAAAAAG
1 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAAAA
* * * * * *
9766095 TTTTTTGAGGAAAAGTGGGAAGTACCAATTTTTCTTGAAAATAAAATTTTC-AAGAAAACA
1 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAAAA
* *
9766155 TCTTTTGAGGAAAAGTTGAAAGTTTCAATTTTCCTTGAAAATAAAATTTTTCAAAAAAAAATA
1 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAA-TTTTCAAAAAAAAA-A
*
9766218 TTTTTTGAGGAAAAGTTGGAAA-TATCAATTTTCCTTGAAAATAAAA--TT-AAAAAAAAATTT
1 TTTTTTGAGGAAAAGTT-GAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAAA--A
** * * *
9766278 TTTTTTGAAAAAAAGTTGAAAGCATCAATTTTCCTTGAAAA-ATAAATTTTCAAAAAGAATA
1 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATA-AAATTTTCAAAAAAAAAA
** * * * * *
9766339 -TTTTT-AAAAAAAGTTGAAAATGTCAACTTTT-CTTGGAAATAAAATTGTC---AAAAACA
1 TTTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTGAAAATAAAATTTTCAAAAAAAAAA
* * * *
9766395 -TTTTTAAGAAAAAATTGAAAATATCAATTTTCCTTGAAAAATAAAATTTTCAAAAAAATAAA
1 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG-AAAATAAAATTTTCAAAAAAA-AAA
* * * * * * *
9766457 ATTTTTGAGGAAAAGTTGAAAGTATTAGTTTTCCTTGAAAAAATAAAATTTTGGAAAGAATATA
1 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG--AAAATAAAATTTT-CAAAAAAAAAA
*
9766521 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA
1 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAA
9766567 AAAATAAAGA
Statistics
Matches: 549, Mismatches: 77, Indels: 53
0.81 0.11 0.08
Matches are distributed among these distances:
56 14 0.03
57 22 0.04
58 21 0.04
59 46 0.08
60 197 0.36
61 80 0.15
62 26 0.05
63 85 0.15
64 53 0.10
65 5 0.01
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.35
Consensus pattern (61 bp):
TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAAAA
Found at i:9766033 original size:17 final size:18
Alignment explanation
Indices: 9766001--9766034 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9765991 TGAAAGTATC
*
9766001 AATTTTCATTAAAAATAA
1 AATTTTCATAAAAAATAA
9766019 AATTTTCA-AAAAAATA
1 AATTTTCATAAAAAATA
9766035 TTTTTTGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTTTCATAAAAAATAA
Found at i:9777167 original size:77 final size:73
Alignment explanation
Indices: 9776970--9777180 Score: 243
Period size: 76 Copynumber: 2.8 Consensus size: 73
9776960 TTTCTTAACA
* * *
9776970 AAAAAAAAAAGAAAA-ATGCTCAAATTGAAAAC-CTGTAAATGGCGATTTGAGTTAAAAAAAAAA
1 AAAAAAAAGAGAAAAGA-GCTCAAATTGAAAACTC-GTAAAAGGTG-TTTGAGTTAAAAAAAAAA
9777033 AAAAAAAAAAG
63 AAAAAAAAAAG
* * * *
9777044 AGAAAAAAGAAAAAAG-GCTCAAATT-AAAAATCCGTAAAGGGTGTTTGAGTTCAAAAAAAGAAA
1 AAAAAAAAGAGAAAAGAGCTCAAATTGAAAACT-CGTAAAAGGTGTTTGAGTT-AAAAAAA-AAA
9777107 AAAAATAAAAA-
63 AAAAA-AAAAAG
9777118 ATAAAAAAAGAGAAAAGAGCTCAAATTGAAAACTCGTAAAAGGTAGTTTGAGTTAAAAAAAAA
1 A-AAAAAAAGAGAAAAGAGCTCAAATTGAAAACTCGTAAAAGGT-GTTTGAGTTAAAAAAAAA
9777181 GGGGCTTAAA
Statistics
Matches: 117, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
72 12 0.10
73 24 0.21
74 22 0.19
75 20 0.17
76 25 0.21
77 14 0.12
ACGTcount: A:0.61, C:0.07, G:0.16, T:0.17
Consensus pattern (73 bp):
AAAAAAAAGAGAAAAGAGCTCAAATTGAAAACTCGTAAAAGGTGTTTGAGTTAAAAAAAAAAAAA
AAAAAAAG
Found at i:9778205 original size:79 final size:79
Alignment explanation
Indices: 9778027--9778371 Score: 311
Period size: 79 Copynumber: 4.3 Consensus size: 79
9778017 AGTCCAGATT
* * * *
9778027 ATTCATTTTAGGCTTTGGTTCAGTCCAGGTCTTTC-AGTTTTGGATTTTGACTTTTGTAAAATCT
1 ATTCATTTTAGACTTCGGTTCAGTCCAGGTCTTTCTA-TTTTGGATTTTGACTTTTGTCAAATCC
* * *
9778091 TTCTTAATCTAAGTT
65 TTCTTAGTCCAAGTC
* **
9778106 ATTCATTTTA-AGCTTCGGTTCAGTCCAGGTCTTTTTGGTTTGGATTTTGACTTTTGTCAAATCC
1 ATTCATTTTAGA-CTTCGGTTCAGTCCAGGTCTTTCTATTTTGGATTTTGACTTTTGTCAAATCC
9778170 TTCTTAGTCCAAGTC
65 TTCTTAGTCCAAGTC
* * * * * * * * * *
9778185 ATTCGTTTTAGACTTTGGTTCAATTCAAGTC-ATCATATTTTCGGATTTCGACGTATG-CTAGAT
1 ATTCATTTTAGACTTCGGTTCAGTCCAGGTCTTTC-TATTTT-GGATTTTGACTTTTGTC-A-AA
9778248 TCTTCTTCAACTTAGTCCAAGTC
62 TC--CTT---CTTAGTCCAAGTC
* * * * * *
9778271 ATTCATTTCAGGCTTCGATTTAGTCTAGATCTTTCTATTTTGGATTTTGACTTTTGTCAAATCCT
1 ATTCATTTTAGACTTCGGTTCAGTCCAGGTCTTTCTATTTTGGATTTTGACTTTTGTCAAATCCT
9778336 TCTTAGTCCAAGTC
66 TCTTAGTCCAAGTC
* *
9778350 ATTCGTTTCAGACTTCGGTTCA
1 ATTCATTTTAGACTTCGGTTCA
9778372 ATCTAGGTTA
Statistics
Matches: 209, Mismatches: 43, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
78 1 0.00
79 127 0.61
80 14 0.07
81 3 0.01
82 3 0.01
83 3 0.01
84 3 0.01
85 13 0.06
86 40 0.19
87 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (79 bp):
ATTCATTTTAGACTTCGGTTCAGTCCAGGTCTTTCTATTTTGGATTTTGACTTTTGTCAAATCCT
TCTTAGTCCAAGTC
Found at i:9778334 original size:165 final size:165
Alignment explanation
Indices: 9778144--9778457 Score: 452
Period size: 165 Copynumber: 1.9 Consensus size: 165
9778134 GTCTTTTTGG
* *
9778144 TTTGGATTTTGACTTTTGTCAAATCCTTCTTAGTCCAAGTCATTCGTTTTAGACTTTGGTTCAAT
1 TTTGGATTTTGACTTTTGTCAAATCCTTCTTAGTCCAAGTCATTCGTTTCAGACTTCGGTTCAAT
* * * *
9778209 -TCAAGTCATCATATTT-TCGGATTTCGACGTATGCTAGATTCTTCTTCAACTTAGTCCAAGTCA
66 CT-AAGTCATCATATTTGT-AGATTTCGACATATGCCAGATCCTTCTTCAACTTAGTCCAAGTCA
**
9778272 TTCATTTCAGGCTTCGATTTAGTCTAGATCTTTCTAT
129 TTCATTTCAAACTTCGATTTAGTCTAGATCTTTCTAT
9778309 TTTGGATTTTGACTTTTGTCAAATCCTTCTTAGTCCAAGTCATTCGTTTCAGACTTCGGTTCAAT
1 TTTGGATTTTGACTTTTGTCAAATCCTTCTTAGTCCAAGTCATTCGTTTCAGACTTCGGTTCAAT
* * * * * *
9778374 CTAGGTTATCCTATTTGTAGATTTTGACATATGCCAGATCCTTCTTCGACTTAGTCTAAGTCATT
66 CTAAGTCATCATATTTGTAGATTTCGACATATGCCAGATCCTTCTTCAACTTAGTCCAAGTCATT
**
9778439 TGTTTCAAACTTCGATTTA
131 CATTTCAAACTTCGATTTA
9778458 ATTCAGGTCA
Statistics
Matches: 131, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
165 129 0.98
166 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (165 bp):
TTTGGATTTTGACTTTTGTCAAATCCTTCTTAGTCCAAGTCATTCGTTTCAGACTTCGGTTCAAT
CTAAGTCATCATATTTGTAGATTTCGACATATGCCAGATCCTTCTTCAACTTAGTCCAAGTCATT
CATTTCAAACTTCGATTTAGTCTAGATCTTTCTAT
Found at i:9778388 original size:79 final size:79
Alignment explanation
Indices: 9778027--9778419 Score: 274
Period size: 79 Copynumber: 4.9 Consensus size: 79
9778017 AGTCCAGATT
* * * * * * * *
9778027 ATTCATTTTAGGCTTTGGTTCAGTCCAGGTCTTTC-AGTTTTGGATTTTGACTTTTGTAAAATCT
1 ATTCATTTCAGACTTCGGTTCAATCTAGGTCTTCCTA-TTTTGGATTTTGACTTTTGTCAAATCC
* * *
9778091 TTCTTAATCTAAGTT
65 TTCTTAGTCCAAGTC
* * * ** **
9778106 ATTCATTTTA-AGCTTCGGTTCAGTCCAGGTCTTTTTGGTTTGGATTTTGACTTTTGTCAAATCC
1 ATTCATTTCAGA-CTTCGGTTCAATCTAGGTCTTCCTATTTTGGATTTTGACTTTTGTCAAATCC
9778170 TTCTTAGTCCAAGTC
65 TTCTTAGTCCAAGTC
* * * * * * * * * *
9778185 ATTCGTTTTAGACTTTGGTTCAAT-TCAAGTCATCATATTTTCGGATTTCGACGTATG-CTAGAT
1 ATTCATTTCAGACTTCGGTTCAATCT-AGGTCTTCCTATTTT-GGATTTTGACTTTTGTC-A-AA
9778248 TCTTCTTCAACTTAGTCCAAGTC
62 TC--CTT---CTTAGTCCAAGTC
* * * * * *
9778271 ATTCATTTCAGGCTTCGATTTAGTCTAGATCTTTCTATTTTGGATTTTGACTTTTGTCAAATCCT
1 ATTCATTTCAGACTTCGGTTCAATCTAGGTCTTCCTATTTTGGATTTTGACTTTTGTCAAATCCT
9778336 TCTTAGTCCAAGTC
66 TCTTAGTCCAAGTC
* * * * * *
9778350 ATTCGTTTCAGACTTCGGTTCAATCTAGGT-TATCCTATTTGTAGATTTTGACATATGCCAGATC
1 ATTCATTTCAGACTTCGGTTCAATCTAGGTCT-TCCTATTT-TGGATTTTGACTTTTGTCAAATC
9778414 CTTCTT
64 CTTCTT
9778420 CGACTTAGTC
Statistics
Matches: 246, Mismatches: 52, Indels: 31
0.75 0.16 0.09
Matches are distributed among these distances:
78 1 0.00
79 140 0.57
80 38 0.15
81 3 0.01
82 3 0.01
83 3 0.01
84 3 0.01
85 13 0.05
86 41 0.17
87 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (79 bp):
ATTCATTTCAGACTTCGGTTCAATCTAGGTCTTCCTATTTTGGATTTTGACTTTTGTCAAATCCT
TCTTAGTCCAAGTC
Found at i:9778452 original size:86 final size:85
Alignment explanation
Indices: 9778172--9778831 Score: 399
Period size: 86 Copynumber: 7.8 Consensus size: 85
9778162 TCAAATCCTT
* * * * * * * *
9778172 CTTAGTCCAAGTCATTCGTTTTAGACTTTGGTTCAAT-TCAAGTCATCATATTTTCGGATTTCGA
1 CTTAGTCCAAGTCATTCATTTCAAACTTCGGTTCAATCT-AGGTCATCCTATTTT-AGATTTTGA
* * * *
9778236 CGTATGCTAGATTCTTCTTCAA
64 CATATGCCAGATCCTTCTTCGA
** * * * * * * * *
9778258 CTTAGTCCAAGTCATTCATTTCAGGCTTCGATTTAGTCTAGATCTTTCTATTTTGGATTTTGACT
1 CTTAGTCCAAGTCATTCATTTCAAACTTCGGTTCAATCTAGGTCATCCTATTTTAGATTTTGACA
* * *
9778323 TTTGTCAAAT-C--CTT---
66 TATGCCAGATCCTTCTTCGA
* * *
9778337 CTTAGTCCAAGTCATTCGTTTCAGACTTCGGTTCAATCTAGGTTATCCTATTTGTAGATTTTGAC
1 CTTAGTCCAAGTCATTCATTTCAAACTTCGGTTCAATCTAGGTCATCCTATTT-TAGATTTTGAC
9778402 ATATGCCAGATCCTTCTTCGA
65 ATATGCCAGATCCTTCTTCGA
* ** * * * **
9778423 CTTAGTCTAAGTCATTTGTTTCAAACTTCGATTTAAT-TCAGGTCATCCTATTTTCAAATTTCAA
1 CTTAGTCCAAGTCATTCATTTCAAACTTCGGTTCAATCT-AGGTCATCCTATTTT-AGATTTTGA
* * *
9778487 TATATGCCACATCTTTCTTCGA
64 CATATGCCAGATCCTTCTTCGA
* * * * * * * * *
9778509 TTTACTCCAAGTCATTAATTTTATACTTCGATTCAATCCAGGTCATCTTATTTTTGGATTTT-AG
1 CTTAGTCCAAGTCATTCATTTCAAACTTCGGTTCAATCTAGGTCATCCTA-TTTTAGATTTTGA-
*
9778573 CATATGCCAGATCCTTCTTCGG
64 CATATGCCAGATCCTTCTTCGA
* * * * * ** * * * *
9778595 CTTAGCCCAAGTTATTCCTTTTAGACTTTAGTTCAATCCAAGTCATTCTATTTTTGAATTTTGAC
1 CTTAGTCCAAGTCATTCATTTCAAACTTCGGTTCAATCTAGGTCATCCTATTTTAG-ATTTTGAC
* * *
9778660 CTATGCCAAATCTTTCTTCGA
65 ATATGCCAGATCCTTCTTCGA
* * * ** *
9778681 CTCAGTCCAAGTTATTCATTTCAAACTTCAGTTCAATCTAGGTCATTTTATTTTTGAATTTT-AG
1 CTTAGTCCAAGTCATTCATTTCAAACTTCGGTTCAATCTAGGTCATCCTATTTTAG-ATTTTGA-
* *
9778745 CCTATGTCAGATCCTTCCTTC-A
64 CATATGCCAGATCCTT-CTTCGA
* * ** * * * **
9778767 GCTCAGTCCAAGTTATTCATTTCAGGCTTCGATTCAGTCCAGGTC-TTTTAGTTTTAGATTTTGA
1 -CTTAGTCCAAGTCATTCATTTCAAACTTCGGTTCAATCTAGGTCATCCTA-TTTTAGATTTTGA
9778831 C
64 C
9778832 TTTTGTCAAA
Statistics
Matches: 456, Mismatches: 98, Indels: 40
0.77 0.16 0.07
Matches are distributed among these distances:
79 44 0.10
80 17 0.04
81 1 0.00
82 3 0.01
83 3 0.01
84 1 0.00
85 24 0.05
86 309 0.68
87 54 0.12
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (85 bp):
CTTAGTCCAAGTCATTCATTTCAAACTTCGGTTCAATCTAGGTCATCCTATTTTAGATTTTGACA
TATGCCAGATCCTTCTTCGA
Found at i:9778587 original size:172 final size:172
Alignment explanation
Indices: 9778342--9778761 Score: 441
Period size: 172 Copynumber: 2.4 Consensus size: 172
9778332 TCCTTCTTAG
* * * * * * *
9778342 TCCAAGTCATTCGTTTCAGACTTCGGTTCAATCTAGGTTATCCTATTTGTAGATTTT-GACATAT
1 TCCAAGTCATTCATTTCAAACTTCGATTCAATCTAGGTCATCTTATTTTTGGATTTTAG-CATAT
* * ** * * *
9778406 GCCAGATCCTTCTTCGACTTAGTCTAAGTCATTTGTTTCAAACTTCGA-TTTAATTCAGGTCATC
65 GCCAGATCCTTCTTCGACTTAGCCCAAGTCATTCCTTTCAAACTT-GAGTTCAATCCAAGTCATC
* * * *
9778470 CTATTTTCAAATTTCAATATATGCCACATCTTTCTTCGATTTAC
129 CTATTTTCAAATTTCAACATATGCCAAATCTTTCTTCGACTCAC
* * * *
9778514 TCCAAGTCATTAATTTTATACTTCGATTCAATCCAGGTCATCTTATTTTTGGATTTTAGCATATG
1 TCCAAGTCATTCATTTCAAACTTCGATTCAATCTAGGTCATCTTATTTTTGGATTTTAGCATATG
* * * * * *
9778579 CCAGATCCTTCTTCGGCTTAGCCCAAGTTATTCCTTTTAGACTTTAGTTCAATCCAAGTCATTCT
66 CCAGATCCTTCTTCGACTTAGCCCAAGTCATTCCTTTCAAACTTGAGTTCAATCCAAGTCATCCT
** ** * *
9778644 ATTTTTGAATTTTGACCTATGCCAAATCTTTCTTCGACTCAG
131 ATTTTCAAATTTCAACATATGCCAAATCTTTCTTCGACTCAC
* * * *
9778686 TCCAAGTTATTCATTTCAAACTTC-AGTTCAATCTAGGTCATTTTATTTTTGAATTTTAGCCTAT
1 TCCAAGTCATTCATTTCAAACTTCGA-TTCAATCTAGGTCATCTTATTTTTGGATTTTAGCATAT
*
9778750 GTCAGATCCTTC
65 GCCAGATCCTTC
9778762 CTTCAGCTCA
Statistics
Matches: 203, Mismatches: 42, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
171 2 0.01
172 200 0.99
173 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.42
Consensus pattern (172 bp):
TCCAAGTCATTCATTTCAAACTTCGATTCAATCTAGGTCATCTTATTTTTGGATTTTAGCATATG
CCAGATCCTTCTTCGACTTAGCCCAAGTCATTCCTTTCAAACTTGAGTTCAATCCAAGTCATCCT
ATTTTCAAATTTCAACATATGCCAAATCTTTCTTCGACTCAC
Found at i:9778873 original size:79 final size:78
Alignment explanation
Indices: 9778776--9778931 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 78
9778766 AGCTCAGTCC
* * * *
9778776 AAGTTATTCATTTCAGGCTTCGA-TTCAGTCCAGGTC-TTTTAGTTTTAGATTTTGACTTTTGTC
1 AAGTCATTCATTTCAGGC-TCGAGTTCAGTCCAAGTCTTTTTA-TTTTAGATTTTGACTTGTGCC
*
9778839 AAATCTTTCTTAGTTT
64 AAATC-CTCTTAGTTT
* * ** *
9778855 AAGTCATTCATTTTAGGCTCTAGTTCAGTTGAAGTCTTTTTATTTTGGATTTTGACTTGTGCCAA
1 AAGTCATTCATTTCAGGCTCGAGTTCAGTCCAAGTCTTTTTATTTTAGATTTTGACTTGTGCCAA
9778920 ATCCTCTTAGTT
66 ATCCTCTTAGTT
9778932 CAAATTGTTC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
78 11 0.17
79 49 0.75
80 5 0.08
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.48
Consensus pattern (78 bp):
AAGTCATTCATTTCAGGCTCGAGTTCAGTCCAAGTCTTTTTATTTTAGATTTTGACTTGTGCCAA
ATCCTCTTAGTTT
Found at i:9780538 original size:60 final size:60
Alignment explanation
Indices: 9780538--9781124 Score: 474
Period size: 59 Copynumber: 9.8 Consensus size: 60
9780528 AAAATAAAAT
* * *
9780538 TTTTATAAAAAAATATTTTTTGAGAAAAAATTGAAAGTATCAAATCTTT--TTGAAAATAAAA
1 TTTTTTAAA-AAATATTTTTTGAGGAAAAGTTGAAAGTATC-AAT-TTTCCTTGAAAATAAAA
* * * *
9780599 TTTTTCAAAAAA-ATATTTTTGAGGAAAAG-TAAGAAGTACCAATTTTCCCTGAAAATAAAA
1 TTTTTTAAAAAATAT-TTTTTGAGGAAAAGTTGA-AAGTATCAATTTTCCTTGAAAATAAAA
* * * *
9780659 -TTTTCAACAAAACATCTTTTGAGGAAAAGTTAAAAGTATCAATTTTCC-T---AATAAAA
1 TTTTTTAA-AAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAA
* * * *
9780715 TTTTTCAAAAAA-ACATTTTTGAGGAAAAGTTGAAAGTACCAATTTTTCTTGAAAATAAAA
1 TTTTTTAAAAAATA-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAA
* * * * *
9780775 --TTTTAAGAAAACATATTTTGAGGAAAAGTTGAAAGTAACAATTTTTCTTGAAAATAGAA
1 TTTTTTAA-AAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAA
** * * *
9780834 TTTTCCAAAAAAAATATTTTTTGAGGAAAAGTCGAAAATATCAATTTTCCTTCAAAATAAAA
1 TTTT--TTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAA
** * * *
9780896 TTTTCAAAAAAAATGTTTTTTGAGAAAAAGTTGAAAGTGTCAATTTTCCTTGAAAA-ATAAA
1 TTTT-TTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATA-AAA
* * **** * * * * *
9780957 -CTTTTAAAAAAAATTTTTTTTTTAAAA-TTGAAAATTTTAACTTTT-CTTGGAAGT-AAA
1 TTTTTTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTGAAAATAAAA
* * * * *
9781014 TTTGTT-AAAAACA-TTTTTAAGCAAAAGTTGAAAATATCAATTTTCCTTGAAAAATAAAA
1 TTTTTTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG-AAAATAAAA
**
9781073 TTTTGAAAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 TTTT-TTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
9781125 TGTAAAAGCA
Statistics
Matches: 429, Mismatches: 67, Indels: 59
0.77 0.12 0.11
Matches are distributed among these distances:
55 1 0.00
56 53 0.12
57 32 0.07
58 30 0.07
59 87 0.20
60 74 0.17
61 69 0.16
62 81 0.19
63 2 0.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (60 bp):
TTTTTTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAA
Found at i:9780919 original size:238 final size:233
Alignment explanation
Indices: 9780405--9781123 Score: 763
Period size: 238 Copynumber: 3.0 Consensus size: 233
9780395 TGATTCTCTT
*
9780405 AAAATAAAATTTTCAAAAAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCATTGAA
1 AAAATAAAATTTTC---AAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTC-CT--A
* * *
9780470 AATAAAATTTTTTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA
60 AATAAAA-TTTTTAAAAAA-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAA
* * *
9780535 AATTTTTATAAAAAAATATTTTTTGAGAAAAAATTGAAAGTATCAAATCTTT-TTGAAAATAAAA
123 AA-TTTTA-AAAAACATA--TTTTGAGAAAAAGTTGAAAGTATC-AATTTTTCTTGAAAATAAAA
* * *
9780599 TTTTTC-AAAAAAATA-TTTTTGAGGAAAAGT-AAGAAGTACCAATTTTCCCTG
183 -TTTTCAAAAAAAATATTTTTTGAGGAAAAGTGAA-AA-TATCAATTTTCCTTC
* * *
9780650 AAAATAAAATTTTCAACAAAACA-TCTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCT-AATAA
1 AAAATAAAATTTTCAA-AAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTAAATAA
*
9780713 AATTTTTCAAAAAAACATTTTTGAGGAAAAGTTGAAAGTACCAATTTTTCTTGAAAATAAAATTT
65 AATTTTT-AAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTT
* * *
9780778 TAAGAAAACATATTTTGAGGAAAAGTTGAAAGTAACAATTTTTCTTGAAAATAGAATTTTCCAAA
128 TAA-AAAACATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTT-CAAA
9780843 AAAAATATTTTTTGAGGAAAAGTCGAAAATATCAATTTTCCTTC
191 AAAAATATTTTTTGAGGAAAAGT-GAAAATATCAATTTTCCTTC
* * *
9780887 AAAATAAAATTTTCAAAAAAAATGTTTTTTGAGAAAAAGTTGAAAGTGTCAATTTTCCTTGAAAA
1 AAAATAAAATTTTCAAAAAAAAT-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-T-AAAT
* **** * * * * * *
9780952 ATAAACTTTTAAAAAAAATTTTTTTTTTAAAA-TTGAAAATTTTAACTTTTCTTGGAAGT-AAAT
63 A-AAATTTTTAAAAAAAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAT
* * * * * *
9781015 TTGTTAAAAACAT-TTTTAAGCAAAAGTTGAAAATATCAATTTTCCTTGAAAAATAAAATTTTGA
126 TT-TAAAAAACATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG-AAAATAAAATTTTCA
*
9781079 AAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
189 AAAAAAATATTTTTTGAGGAAAAG-TGAAAATATCAATTTTCCTT
9781124 GTGTAAAAGC
Statistics
Matches: 410, Mismatches: 44, Indels: 47
0.82 0.09 0.09
Matches are distributed among these distances:
234 10 0.02
235 33 0.08
236 15 0.04
237 61 0.15
238 160 0.39
239 29 0.07
240 23 0.06
241 20 0.05
242 40 0.10
243 5 0.01
245 14 0.03
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.36
Consensus pattern (233 bp):
AAAATAAAATTTTCAAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTAAATAAA
ATTTTTAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAA
AAAACATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAAAAAAAA
TATTTTTTGAGGAAAAGTGAAAATATCAATTTTCCTTC
Found at i:9781026 original size:297 final size:294
Alignment explanation
Indices: 9780432--9781124 Score: 789
Period size: 297 Copynumber: 2.3 Consensus size: 294
9780422 AAAAAAAATT
* *
9780432 TTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCATTGAAAATAAAATTTTTTAAAAAATATTTTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAAA--TTTTAAAAAAAATATTT
* *
9780496 TGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTTATAAAAAAATATTTTTTGA
63 TGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCATAAAAAAATATTTTTTGA
* * * *
9780561 GAAAAAATTGAAAGTATCAAATCTTTTTGAAAATAAAATTTTTCAAAAAAATATTTTTGAGGAAA
128 GAAAAAATCGAAAATATCAAATCTTTTTCAAAATAAAATTTTTCAAAAAAATATTTTTGAGAAAA
*
9780626 AGTAAGAAGTACCAATTTTCCCTGAAAATAAAATTTTCAACAAAACATCTTTTGAGGAAAAGTTA
193 AGTAAGAAGTACCAATTTTCCCTGAAAATAAAATTTTCAACAAAAAATCTTTTGAGGAAAAGTTA
9780691 AAAGTATCAATTTTCCTAATAAAATTTTTCAAAAAAACA
258 AAAGTATCAATTTTCCTAATAAAATTTTT--AAAAAACA
* *
9780730 TTTTTGAGGAAAAGTTGAAAGTACCAATTTTTCTTGAAAATAAAATTTTAAGAAAACATATTTTG
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAA-AAAAAATATTTTG
* * *
9780795 AGGAAAAGTTGAAAGTAACAATTTTTCTTGAAAATAGAATTTTCCA-AAAAAAATATTTTTTGAG
65 AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTT-CATAAAAAAATATTTTTTGAG
* * *
9780859 GAAAAGTCGAAAATATC-AAT-TTTCCTTCAAAATAAAA-TTTTCAAAAAAAATGTTTTTTGAGA
129 AAAAAATCGAAAATATCAAATCTTT--TTCAAAATAAAATTTTTC-AAAAAAAT-ATTTTTGAGA
* ** * * * ****
9780921 AAAAGT-TGAAAGTGTCAATTTTCCTTGAAAAATAAACTTTT-AA-AAAAAATTTTTTTTTTAAA
190 AAAAGTAAG-AAGTACCAATTTTCCCTG-AAAATAAAATTTTCAACAAAAAATCTTTTGAGGAAA
* * *
9780983 A-TTGAAAA-TTTTAACTTTTCTTGGAAGT-AAATTTGTT-AAAAACA
253 AGTT-AAAAGTATCAA-TTTTCCT--AA-TAAAATTT-TTAAAAAACA
* * * *
9781027 TTTTTAAGCAAAAGTTGAAAATATCAATTTTCCTTGAAAAATAAAATTTTGAAAAAAAATATTTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG-AAAATAAAATTTT-AAAAAAAATA--TT
9781092 TTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
62 TTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
9781125 TGTAAAAGCA
Statistics
Matches: 339, Mismatches: 37, Indels: 36
0.82 0.09 0.09
Matches are distributed among these distances:
295 3 0.01
296 20 0.06
297 163 0.48
298 90 0.27
299 27 0.08
300 36 0.11
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (294 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAAAATATTTTGA
GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCATAAAAAAATATTTTTTGAGAA
AAAATCGAAAATATCAAATCTTTTTCAAAATAAAATTTTTCAAAAAAATATTTTTGAGAAAAAGT
AAGAAGTACCAATTTTCCCTGAAAATAAAATTTTCAACAAAAAATCTTTTGAGGAAAAGTTAAAA
GTATCAATTTTCCTAATAAAATTTTTAAAAAACA
Found at i:9784635 original size:20 final size:20
Alignment explanation
Indices: 9784612--9784654 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
9784602 TTTTGAAAAA
*
9784612 TTTTGAAAAAAC-TTGAATT
1 TTTTTAAAAAACTTTGAATT
**
9784631 TTTTTATTAAACTTTGAATT
1 TTTTTAAAAAACTTTGAATT
9784651 TTTT
1 TTTT
9784655 GATGAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.56
Consensus pattern (20 bp):
TTTTTAAAAAACTTTGAATT
Found at i:9792544 original size:22 final size:23
Alignment explanation
Indices: 9792516--9792559 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9792506 CCCTCTGGGC
9792516 ATGATC-TATAAGATTTCTAGGT
1 ATGATCTTATAAGATTTCTAGGT
* *
9792538 ATGATCTTTTAAGTTTTCTAGG
1 ATGATCTTATAAGATTTCTAGG
9792560 CATTATCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.45
Consensus pattern (23 bp):
ATGATCTTATAAGATTTCTAGGT
Found at i:9792607 original size:67 final size:67
Alignment explanation
Indices: 9792494--9792665 Score: 202
Period size: 67 Copynumber: 2.6 Consensus size: 67
9792484 TCCTTCGGGT
* * * * ** *
9792494 ATAATCACCAAGCCCTCTGGGCATGATCTATAAGATTTCTAGGTATGATCTTTTAAGTT-TTCTA
1 ATAATCACCAAGTCCTCCGAGCAAGATCTATAAGACCTCTAAGTATGATCTTTTAAGTTCTT-TA
9792558 GGC
65 GGC
* *
9792561 ATTATCACCAAGTCCTCCGAGCAAGATCTATAAGACCTCTAAGTATGATTTTTTAAGTTCTTTAG
1 ATAATCACCAAGTCCTCCGAGCAAGATCTATAAGACCTCTAAGTATGATCTTTTAAGTTCTTTAG
9792626 GC
66 GC
* * ***
9792628 ATAATCACCAAATCTTCCGAATTAGATCTATAAGACCT
1 ATAATCACCAAGTCCTCCGAGCAAGATCTATAAGACCT
9792666 GTAGACACCC
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
67 87 0.98
68 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (67 bp):
ATAATCACCAAGTCCTCCGAGCAAGATCTATAAGACCTCTAAGTATGATCTTTTAAGTTCTTTAG
GC
Found at i:9793589 original size:21 final size:21
Alignment explanation
Indices: 9793548--9793587 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9793538 TATTTATTTC
9793548 TTTATTTCTTTAGTTATTTTA
1 TTTATTTCTTTAGTTATTTTA
9793569 TTTATTT-TTATAG-TATTTT
1 TTTATTTCTT-TAGTTATTTT
9793588 TACATGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTATTTCTTTAGTTATTTTA
Found at i:9794220 original size:48 final size:49
Alignment explanation
Indices: 9794168--9794278 Score: 129
Period size: 47 Copynumber: 2.3 Consensus size: 49
9794158 CTGTCTAAAG
* * * * *
9794168 ATAAAAAAAAGAAAATTCTAAA-TAGACCTAATTGGTGAAAAA-TTATAA
1 ATAAAAAAAAGAAAATTCTAAATTA-ACCCAAATAGTAAAAAATTTAGAA
*
9794216 AT-AAAAAAAGACAATTCTAAATTAACCCAAATAGTAAAAAATTTAGAA
1 ATAAAAAAAAGAAAATTCTAAATTAACCCAAATAGTAAAAAATTTAGAA
*
9794264 ATAAAAAAAATAAAA
1 ATAAAAAAAAGAAAA
9794279 AAAAATTCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
47 31 0.60
48 11 0.21
49 10 0.19
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (49 bp):
ATAAAAAAAAGAAAATTCTAAATTAACCCAAATAGTAAAAAATTTAGAA
Found at i:9796350 original size:16 final size:16
Alignment explanation
Indices: 9796325--9796368 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 16
9796315 TACAAAAGGT
9796325 AAAAAGAAAAGAGAAAG
1 AAAAAGAAAAGAG-AAG
9796342 AAAAA-AAAAGAGAAG
1 AAAAAGAAAAGAGAAG
9796357 AAGAAAGAAAAG
1 AA-AAAGAAAAG
9796369 TCTGAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.20
16 10 0.40
17 10 0.40
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAGAGAAG
Found at i:9796361 original size:22 final size:21
Alignment explanation
Indices: 9796325--9796367 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9796315 TACAAAAGGT
9796325 AAAAAGAAAAGAGAAAGAAAA
1 AAAAAGAAAAGAGAAAGAAAA
*
9796346 AAAAAGAGAAGAAGAAAGAAAA
1 AAAAAGAAAAG-AGAAAGAAAA
9796368 GTCTGAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAGAGAAAGAAAA
Found at i:9796665 original size:14 final size:14
Alignment explanation
Indices: 9796646--9796696 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
9796636 GAACCGATTC
9796646 TTTTTTTTTTTATT
1 TTTTTTTTTTTATT
9796660 TTTTTTGTTATTTATT
1 TTTTTT-TT-TTTATT
* *
9796676 TTGTTTTATTTATT
1 TTTTTTTTTTTATT
*
9796690 TATTTTT
1 TTTTTTT
9796697 GAAATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 17 0.55
15 3 0.10
16 11 0.35
ACGTcount: A:0.12, C:0.00, G:0.04, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTTTATT
Found at i:9796688 original size:18 final size:16
Alignment explanation
Indices: 9796646--9796696 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 16
9796636 GAACCGATTC
9796646 TTTTTT-TT-TTTATT
1 TTTTTTGTTATTTATT
9796660 TTTTTTGTTATTTATT
1 TTTTTTGTTATTTATT
*
9796676 TTGTTTTATTTATTTATT
1 TT-TTTT-GTTATTTATT
9796694 TTT
1 TTT
9796697 GAAATATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 6 0.19
15 2 0.06
16 8 0.25
17 5 0.16
18 11 0.34
ACGTcount: A:0.12, C:0.00, G:0.04, T:0.84
Consensus pattern (16 bp):
TTTTTTGTTATTTATT
Found at i:9798545 original size:20 final size:20
Alignment explanation
Indices: 9798520--9798559 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9798510 TTAAGTCATT
*
9798520 TTTTGCTTTGCTTTCTAATA
1 TTTTGCTTTGATTTCTAATA
*
9798540 TTTTGCTTTGATTTTTAATA
1 TTTTGCTTTGATTTCTAATA
9798560 AATATTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.62
Consensus pattern (20 bp):
TTTTGCTTTGATTTCTAATA
Found at i:9798901 original size:3 final size:3
Alignment explanation
Indices: 9798893--9798930 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9798883 AAAAGAACAA
9798893 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9798931 AGGGAAATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9799061 original size:15 final size:16
Alignment explanation
Indices: 9799036--9799065 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9799026 TTGTAAGGTG
9799036 AAGATTTTTGAATTTT
1 AAGATTTTTGAATTTT
9799052 AAGA-TTTTGAATTT
1 AAGATTTTTGAATTT
9799066 AAGTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (16 bp):
AAGATTTTTGAATTTT
Found at i:9799143 original size:25 final size:27
Alignment explanation
Indices: 9799112--9799168 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 27
9799102 ATTTGTTAAT
9799112 TATAATAATTG-TAATTTAA-TTATAA
1 TATAATAATTGATAATTTAATTTATAA
* *
9799137 TATAATAATTGATTATTTAATTTATTA
1 TATAATAATTGATAATTTAATTTATAA
9799164 TATAA
1 TATAA
9799169 ATCTAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 11 0.39
26 7 0.25
27 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
TATAATAATTGATAATTTAATTTATAA
Found at i:9799900 original size:2 final size:2
Alignment explanation
Indices: 9799893--9799922 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9799883 AGATACCAAG
9799893 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9799923 CAAGACCCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9804148 original size:2 final size:2
Alignment explanation
Indices: 9804141--9804171 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9804131 TGTATAAGTG
9804141 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9804172 TATTGATAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9804262 original size:2 final size:2
Alignment explanation
Indices: 9804244--9804342 Score: 65
Period size: 2 Copynumber: 49.5 Consensus size: 2
9804234 GCTATCAATA
* * *
9804244 AT AT AT GT AT AT GT AT AT AT AT AT AT AT GT AT GA- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
* * * * * * * * *
9804286 GT GT GT AT AT AC AT AT AT AT GT GT AT AT AC AT AC AT AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9804328 AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT A
9804343 GTTTCTTTTG
Statistics
Matches: 75, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
1 1 0.01
2 73 0.97
3 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9804265 original size:16 final size:16
Alignment explanation
Indices: 9804244--9804333 Score: 81
Period size: 16 Copynumber: 5.5 Consensus size: 16
9804234 GCTATCAATA
*
9804244 ATATATGTATATGTAT
1 ATATATATATATGTAT
9804260 ATATATATATATGTAT
1 ATATATATATATGTAT
* *
9804276 GAATATATATGTGTGTAT
1 --ATATATATATATGTAT
* *
9804294 ATACATATATATGTGT
1 ATATATATATATGTAT
* * *
9804310 ATATACATACATATAT
1 ATATATATATATGTAT
*
9804326 TTATATAT
1 ATATATAT
9804334 TTATATATAG
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
16 44 0.76
18 14 0.24
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (16 bp):
ATATATATATATGTAT
Found at i:9804267 original size:18 final size:18
Alignment explanation
Indices: 9804244--9804342 Score: 87
Period size: 18 Copynumber: 5.6 Consensus size: 18
9804234 GCTATCAATA
*
9804244 ATATATGTATATG--TAT
1 ATATATATATATGTATAT
9804260 ATATATATATATGTATGA-
1 ATATATATATATGTAT-AT
* *
9804278 ATATATATGTGTGTATAT
1 ATATATATATATGTATAT
* *
9804296 ACATATATATGTGTATAT
1 ATATATATATATGTATAT
* * *
9804314 ACATACATATATTTATAT
1 ATATATATATATGTATAT
*
9804332 ATTTATATATA
1 ATATATATATA
9804343 GTTTCTTTTG
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
16 12 0.18
17 1 0.01
18 54 0.79
19 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.47
Consensus pattern (18 bp):
ATATATATATATGTATAT
Found at i:9804269 original size:20 final size:20
Alignment explanation
Indices: 9804244--9804342 Score: 73
Period size: 20 Copynumber: 5.2 Consensus size: 20
9804234 GCTATCAATA
*
9804244 ATATATGTATATGTATATAT
1 ATATATGTATATATATATAT
*
9804264 ATATA--TATGTATGA-ATAT
1 ATATATGTATATAT-ATATAT
* * *
9804282 ATATGTGTGTATATACATAT
1 ATATATGTATATATATATAT
* * *
9804302 ATATGTGTATATACATACAT
1 ATATATGTATATATATATAT
*
9804322 ATAT-T-TATATATTTATAT
1 ATATATGTATATATATATAT
9804340 ATA
1 ATA
9804343 GTTTCTTTTG
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
18 26 0.41
19 3 0.05
20 34 0.54
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.47
Consensus pattern (20 bp):
ATATATGTATATATATATAT
Found at i:9806631 original size:3 final size:3
Alignment explanation
Indices: 9806623--9806648 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9806613 ATTTTACTTT
9806623 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
9806649 TTGTAGCTGA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9813198 original size:22 final size:21
Alignment explanation
Indices: 9813154--9813198 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
9813144 GAATGAAAAA
* *
9813154 TTAATTAAAAAATAAATAAAT
1 TTAATAAAAAAAAAAATAAAT
*
9813175 TTAATAAAAATAAAAAATATAT
1 TTAATAAAAA-AAAAAATAAAT
9813197 TT
1 TT
9813199 CGTGTTAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TTAATAAAAAAAAAAATAAAT
Found at i:9813528 original size:16 final size:16
Alignment explanation
Indices: 9813507--9813538 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9813497 GTTTTACAGG
9813507 GATTAGAATATATATA
1 GATTAGAATATATATA
9813523 GATTAGAATATATATA
1 GATTAGAATATATATA
9813539 TTATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (16 bp):
GATTAGAATATATATA
Found at i:9818760 original size:20 final size:20
Alignment explanation
Indices: 9818724--9818784 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
9818714 ATAAAACCTC
*
9818724 AAAACCTAAATCAAAATCCT
1 AAAACCTAAAACAAAATCCT
*
9818744 AAAACCTAAAACTAAATACC-
1 AAAACCTAAAACAAAAT-CCT
* *
9818764 -AAACCTTAAACCAAATCCT
1 AAAACCTAAAACAAAATCCT
9818783 AA
1 AA
9818785 CCTAGACCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 2 0.06
19 14 0.41
20 16 0.47
21 2 0.06
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAACCTAAAACAAAATCCT
Found at i:9818769 original size:19 final size:18
Alignment explanation
Indices: 9818725--9818788 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
9818715 TAAAACCTCA
* *
9818725 AAACCTAAATCAAAATCC
1 AAACCTAAAACCAAATCC
*
9818743 TAAAACCTAAAACTAAATACC
1 --AAACCTAAAACCAAAT-CC
*
9818764 AAACCTTAAACCAAATCC
1 AAACCTAAAACCAAATCC
*
9818782 TAACCTA
1 AAACCTA
9818789 GACCCTAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
18 7 0.19
19 14 0.38
20 14 0.38
21 2 0.05
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (18 bp):
AAACCTAAAACCAAATCC
Found at i:9819936 original size:19 final size:19
Alignment explanation
Indices: 9819908--9819949 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
9819898 CATATCATGA
9819908 TATTTTAATT-ATGTCATT
1 TATTTTAATTAATGTCATT
*
9819926 TATTTTAAATTAATGTTATT
1 TATTTT-AATTAATGTCATT
9819946 TATT
1 TATT
9819950 CTATATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 4 0.19
20 11 0.52
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (19 bp):
TATTTTAATTAATGTCATT
Found at i:9820539 original size:18 final size:18
Alignment explanation
Indices: 9820486--9820540 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
9820476 GAAATAGAAA
*
9820486 GAAACAAAAAAAAA-A-G
1 GAAAGAAAAAAAAAGAGG
*
9820502 GAAAGAAAAAAGAAGAGG
1 GAAAGAAAAAAAAAGAGG
9820520 GAAAGAAAAACAAAAG-GG
1 GAAAGAAAAA-AAAAGAGG
9820538 GAA
1 GAA
9820541 TGAATAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 12 0.36
17 1 0.03
18 16 0.48
19 4 0.12
ACGTcount: A:0.71, C:0.04, G:0.25, T:0.00
Consensus pattern (18 bp):
GAAAGAAAAAAAAAGAGG
Found at i:9828713 original size:19 final size:18
Alignment explanation
Indices: 9828691--9828749 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
9828681 TGTAAACTAG
9828691 CTTGACTTTTTCTTTTTTT
1 CTTGA-TTTTTCTTTTTTT
*
9828710 CTTGATTGTTTC-TTTCTT
1 CTTGATT-TTTCTTTTTTT
9828728 -TTGATTTTTCATTCTTTTT
1 CTTGATTTTTC-TT-TTTTT
9828747 CTT
1 CTT
9828750 AGCTCCACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
16 4 0.12
17 6 0.18
18 8 0.24
19 13 0.39
20 2 0.06
ACGTcount: A:0.07, C:0.15, G:0.07, T:0.71
Consensus pattern (18 bp):
CTTGATTTTTCTTTTTTT
Found at i:9828742 original size:16 final size:17
Alignment explanation
Indices: 9828711--9828745 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
9828701 TCTTTTTTTC
*
9828711 TTGATTGTTTCTTTCTT
1 TTGATTGTTTCATTCTT
9828728 TTGATT-TTTCATTCTT
1 TTGATTGTTTCATTCTT
9828744 TT
1 TT
9828746 TCTTAGCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.71
Consensus pattern (17 bp):
TTGATTGTTTCATTCTT
Found at i:9832951 original size:22 final size:22
Alignment explanation
Indices: 9832925--9832966 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9832915 TTGAGATCAA
*
9832925 CAAGAAATCA-AAAGAATTTGAG
1 CAAGAAAACATAAA-AATTTGAG
9832947 CAAGAAAACATAAAAATTTG
1 CAAGAAAACATAAAAATTTG
9832967 GAAGTTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.19
Consensus pattern (22 bp):
CAAGAAAACATAAAAATTTGAG
Found at i:9838568 original size:12 final size:13
Alignment explanation
Indices: 9838537--9838614 Score: 54
Period size: 14 Copynumber: 5.8 Consensus size: 13
9838527 ACTTTGCTTA
*
9838537 AAAAACAAAAACTT
1 AAAAATAAAAAC-T
9838551 AAAAATAAAAAC-
1 AAAAATAAAAACT
9838563 AAAAATAAAAACTT
1 AAAAATAAAAAC-T
**
9838577 AATAAA-AAAACAAA
1 AA-AAATAAAA-ACT
9838591 ACAAAATAAAAACTT
1 A-AAAATAAAAAC-T
9838606 AAAAA-AAAA
1 AAAAATAAAA
9838615 TGAGGAGGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
12 12 0.23
13 4 0.08
14 26 0.50
15 10 0.19
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAATAAAAACT
Found at i:9838596 original size:29 final size:26
Alignment explanation
Indices: 9838536--9838614 Score: 104
Period size: 26 Copynumber: 2.9 Consensus size: 26
9838526 TACTTTGCTT
* *
9838536 AAAAAACAAAAACTTAAAAATAAAAA
1 AAAAAATAAAAACTTAAAAAAAAAAA
*
9838562 CAAAAATAAAAACTTAATAAAAAAACAA
1 AAAAAATAAAAACTTAA-AAAAAAA-AA
9838590 AACAAAATAAAAACTTAAAAAAAAA
1 AA-AAAATAAAAACTTAAAAAAAAA
9838615 TGAGGAGGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.33
27 6 0.13
28 10 0.22
29 15 0.33
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.13
Consensus pattern (26 bp):
AAAAAATAAAAACTTAAAAAAAAAAA
Found at i:9839319 original size:19 final size:20
Alignment explanation
Indices: 9839287--9839331 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
9839277 ATGGAGGATG
*
9839287 AAATG-ATGATTGAA-AGAA
1 AAATGAATGAATGAAGAGAA
*
9839305 AAATGAATGAATGAAGTGAA
1 AAATGAATGAATGAAGAGAA
9839325 AAATGAA
1 AAATGAA
9839332 GAAAACCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 5 0.22
19 8 0.35
20 10 0.43
ACGTcount: A:0.58, C:0.00, G:0.22, T:0.20
Consensus pattern (20 bp):
AAATGAATGAATGAAGAGAA
Found at i:9839633 original size:23 final size:23
Alignment explanation
Indices: 9839603--9839650 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
9839593 AATTGTTCGA
*
9839603 ATGACATATACTATATGCCTTGC
1 ATGACATATACCATATGCCTTGC
9839626 ATGACATATACCATATGCCTTGC
1 ATGACATATACCATATGCCTTGC
9839649 AT
1 AT
9839651 TCATTACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (23 bp):
ATGACATATACCATATGCCTTGC
Found at i:9839905 original size:49 final size:49
Alignment explanation
Indices: 9839797--9840113 Score: 235
Period size: 49 Copynumber: 6.3 Consensus size: 49
9839787 CAAACATTTC
* * * *
9839797 TCAAAATGAAATTTTTAAAGTTCCCTCACCTATGTTTAT-AGAAGTCATTTT
1 TCAAAATGAGATTTTTAAAG-TCCCTTACCTATTTTTATAAGAA--CCTTTT
* * *
9839848 T-AAAATGAGATTTTTAAAGTCACTTACTTATTTTTATAAGAACCCTTT
1 TCAAAATGAGATTTTTAAAGTCCCTTACCTATTTTTATAAGAACCTTTT
** *
9839896 TCAAAATGAGATTTTTAAAGTTTGC-TACCTATTTTTATAAGAGCCTTTT
1 TCAAAATGAGATTTTTAAAG-TCCCTTACCTATTTTTATAAGAACCTTTT
* * * * * * *
9839945 TCGAAATGGGATTTTTAAATTTCCTTAGCCTATTTTTGTAGGAGCTCTTTT
1 TCAAAATGAGATTTTTAAAGTCCCTTA-CCTATTTTTATAAGAAC-CTTTT
*** * * * **
9839996 TCAAAATGAGATTTTTAAAGTTTTTTAGCTTATATTTATAGGAGTCTTTT
1 TCAAAATGAGATTTTTAAAGTCCCTTA-CCTATTTTTATAAGAACCTTTT
* * * * * *
9840046 TTAAAATGAGATTTTTAAAGTCCCCTACTTTTTTTTTTAATAGAAGCCTTCT
1 TCAAAATGAGATTTTTAAAGTCCCTTACCTATTTTTAT-A-AGAA-CCTTTT
*
9840098 TCAAAATAAGATTTTT
1 TCAAAATGAGATTTTT
9840114 TTAACCCTTT
Statistics
Matches: 216, Mismatches: 41, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
48 8 0.04
49 80 0.37
50 66 0.31
51 44 0.20
52 18 0.08
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (49 bp):
TCAAAATGAGATTTTTAAAGTCCCTTACCTATTTTTATAAGAACCTTTT
Found at i:9840003 original size:51 final size:51
Alignment explanation
Indices: 9839797--9840066 Score: 263
Period size: 49 Copynumber: 5.4 Consensus size: 51
9839787 CAAACATTTC
* * * * *
9839797 TCAAAATGAAATTTTTAAAGTTCCCTCA-CCTATGTTTATAGAAG-TCATTTT
1 TCAAAATGAGATTTTTAAAGTT-TCTTAGCCTATTTTTATAGGAGCTC-TTTT
** * * * *
9839848 T-AAAATGAGATTTTTAAAGTCACTTA-CTTATTTTTATAAGAAC-CCTTT
1 TCAAAATGAGATTTTTAAAGTTTCTTAGCCTATTTTTATAGGAGCTCTTTT
*
9839896 TCAAAATGAGATTTTTAAAGTTTGC-TA-CCTATTTTTATAAGAGC-CTTTT
1 TCAAAATGAGATTTTTAAAGTTT-CTTAGCCTATTTTTATAGGAGCTCTTTT
* * *
9839945 TCGAAATGGGATTTTTAAA-TTTCCTTAGCCTATTTTTGTAGGAGCTCTTTT
1 TCAAAATGAGATTTTTAAAGTTT-CTTAGCCTATTTTTATAGGAGCTCTTTT
* * *
9839996 TCAAAATGAGATTTTTAAAGTTTTTTAGCTTATATTTATAGGAG-TCTTTT
1 TCAAAATGAGATTTTTAAAGTTTCTTAGCCTATTTTTATAGGAGCTCTTTT
*
9840046 TTAAAATGAGATTTTTAAAGT
1 TCAAAATGAGATTTTTAAAGT
9840067 CCCCTACTTT
Statistics
Matches: 185, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
48 8 0.04
49 74 0.40
50 60 0.32
51 40 0.22
52 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (51 bp):
TCAAAATGAGATTTTTAAAGTTTCTTAGCCTATTTTTATAGGAGCTCTTTT
Found at i:9840350 original size:49 final size:48
Alignment explanation
Indices: 9840189--9840353 Score: 133
Period size: 49 Copynumber: 3.4 Consensus size: 48
9840179 CAAGATTTTT
* * * *
9840189 TTTTTAAAA-TTCCTAACCTATTTTTATATAAGCCATTTTCAATACGAA-A
1 TTTTTAAAATTTCTTAGCCTATATTTATAGAAGCC-TTTTCAA-AC-AAGA
* * * * * **
9840238 TTTTTAAAGTTCCTTA-TCTATAATTATAGGAGCCTTGTTCAAA-GTGA
1 TTTTTAAAATTTCTTAGCCTATATTTATAGAAGCCTT-TTCAAACAAGA
*
9840285 TTTTT-AAATTTCCTTAGCCTATGTTTATAGAAGCCTTTTCGAAACAAGA
1 TTTTTAAAATTT-CTTAGCCTATATTTATAGAAGCCTTTTC-AAACAAGA
9840334 TTTTTAAAATTTCTTAGCCT
1 TTTTTAAAATTTCTTAGCCT
9840354 TTAGCTTTCA
Statistics
Matches: 90, Mismatches: 18, Indels: 16
0.73 0.15 0.13
Matches are distributed among these distances:
46 4 0.04
47 13 0.14
48 22 0.24
49 41 0.46
50 10 0.11
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (48 bp):
TTTTTAAAATTTCTTAGCCTATATTTATAGAAGCCTTTTCAAACAAGA
Found at i:9842641 original size:43 final size:43
Alignment explanation
Indices: 9842585--9842672 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
9842575 ATTATTCCTA
* * * *
9842585 TGCATTAATGTTTGCATTTTTATCAATGGCATTTTTGTAATTT
1 TGCATCAAAGTTTGCATTTTCATCAATGGCATTCTTGTAATTT
9842628 TGCATCAAAGTTTGCATTTTCATCAATGGCATTCTTGTAATTT
1 TGCATCAAAGTTTGCATTTTCATCAATGGCATTCTTGTAATTT
9842671 TG
1 TG
9842673 TTACATGCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.49
Consensus pattern (43 bp):
TGCATCAAAGTTTGCATTTTCATCAATGGCATTCTTGTAATTT
Found at i:9842723 original size:20 final size:20
Alignment explanation
Indices: 9842698--9842758 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
9842688 AAGAAACCAC
9842698 AAATCCTAAACCTAAAGCCT
1 AAATCCTAAACCTAAAGCCT
*
9842718 AAATCCTAAACCCTAACG-C-
1 AAATCCTAAA-CCTAAAGCCT
* *
9842737 AAATACTAAACC-AAACCCT
1 AAATCCTAAACCTAAAGCCT
9842756 AAA
1 AAA
9842759 CCCCAACTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
17 2 0.06
18 3 0.09
19 12 0.35
20 11 0.32
21 6 0.18
ACGTcount: A:0.49, C:0.31, G:0.03, T:0.16
Consensus pattern (20 bp):
AAATCCTAAACCTAAAGCCT
Found at i:9842725 original size:14 final size:13
Alignment explanation
Indices: 9842702--9842760 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 13
9842692 AACCACAAAT
*
9842702 CCTAAACCTAAAG
1 CCTAAACCTAAAC
9842715 CCTAAATCCTAAAC
1 CCTAAA-CCTAAAC
*
9842729 CCT-AACGC-AAAT
1 CCTAAAC-CTAAAC
*
9842741 ACTAAACC-AAAC
1 CCTAAACCTAAAC
9842753 CCTAAACC
1 CCTAAACC
9842761 CCAACTCTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 17 0.45
13 12 0.32
14 9 0.24
ACGTcount: A:0.46, C:0.36, G:0.03, T:0.15
Consensus pattern (13 bp):
CCTAAACCTAAAC
Found at i:9843066 original size:331 final size:331
Alignment explanation
Indices: 9842457--9843119 Score: 1211
Period size: 331 Copynumber: 2.0 Consensus size: 331
9842447 GTTACATGCA
9842457 TATTAAGCTTGTAATATATTTTTAAATATTCCTAGGTTTGTAATAAATTTATTTTCATACATAAT
1 TATTAAGCTTGTAATATATTTTTAAATATTCCTAGGTTTGTAATAAATTTATTTTCATACATAAT
* *
9842522 CCATGCATTAAACTTTGCATTTTTATTAATAGCATTTTGGTAATTTTTGTCACATTATTCCTATG
66 CCATGCATTAAACTTTGCATTTTTATTAATAGCATTTTGGTAATTTTTGTCACATTATTCCCATC
*
9842587 CATTAATGTTTGCATTTTTATCAATGGCATTTTTGTAATTTTGCATCAAAGTTTGCATTTTCATC
131 CATTAATGCTTGCATTTTTATCAATGGCATTTTTGTAATTTTGCATCAAAGTTTGCATTTTCATC
*
9842652 AATGGCATTCTTGTAATTTTGTTACATGCATTTTCCAAGAAACCACAAATCCTAAACCTAAAGCC
196 AATGGCATTCTTGTAATTTTGTTACATGCAATTTCCAAGAAACCACAAATCCTAAACCTAAAGCC
*
9842717 TAAATCCTAAACCCTAACGCAAATACTAAACCAAACCCTAAACCCCAACTCTAAGCCCTAAAACC
261 TAAATCCTAAACCCTAACGCAAACACTAAACCAAACCCTAAACCCCAACTCTAAGCCCTAAAACC
9842782 TAAACT
326 TAAACT
* **
9842788 TATTAAGCTTGTAATATATTTTTAAATATTCCTAGGTTTTTAATAAATTTATTTTCATACATGGT
1 TATTAAGCTTGTAATATATTTTTAAATATTCCTAGGTTTGTAATAAATTTATTTTCATACATAAT
9842853 CCATGCATTAAACTTTGCATTTTTATTAATAGCATTTTGGTAATTTTTGTCACATTATTCCCATC
66 CCATGCATTAAACTTTGCATTTTTATTAATAGCATTTTGGTAATTTTTGTCACATTATTCCCATC
9842918 CATTAATGCTTGCATTTTTATCAATGGCATTTTTGTAATTTTGCATCAAAGTTTGCATTTTCATC
131 CATTAATGCTTGCATTTTTATCAATGGCATTTTTGTAATTTTGCATCAAAGTTTGCATTTTCATC
*
9842983 AATGGCATTCTTGTAATTTTGTTACATGCAATTTCCAAGAAACCACAAA-CGTTAAACCTAAAGC
196 AATGGCATTCTTGTAATTTTGTTACATGCAATTTCCAAGAAACCACAAATC-CTAAACCTAAAGC
* *
9843047 CTAAATCCTAAATCCTAACGCTAACACTAAACCAAACCCTAAACCCCAACTCTAAGCCCTAAAAC
260 CTAAATCCTAAACCCTAACGCAAACACTAAACCAAACCCTAAACCCCAACTCTAAGCCCTAAAAC
9843112 CTAAACT
325 CTAAACT
9843119 T
1 T
9843120 TAAACTAAAC
Statistics
Matches: 320, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
330 1 0.00
331 319 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (331 bp):
TATTAAGCTTGTAATATATTTTTAAATATTCCTAGGTTTGTAATAAATTTATTTTCATACATAAT
CCATGCATTAAACTTTGCATTTTTATTAATAGCATTTTGGTAATTTTTGTCACATTATTCCCATC
CATTAATGCTTGCATTTTTATCAATGGCATTTTTGTAATTTTGCATCAAAGTTTGCATTTTCATC
AATGGCATTCTTGTAATTTTGTTACATGCAATTTCCAAGAAACCACAAATCCTAAACCTAAAGCC
TAAATCCTAAACCCTAACGCAAACACTAAACCAAACCCTAAACCCCAACTCTAAGCCCTAAAACC
TAAACT
Found at i:9843092 original size:7 final size:7
Alignment explanation
Indices: 9843035--9843140 Score: 57
Period size: 7 Copynumber: 16.3 Consensus size: 7
9843025 CCACAAACGT
9843035 TAAA-CC
1 TAAACCC
*
9843041 TAAAGCC
1 TAAACCC
*
9843048 TAAATCC
1 TAAACCC
*
9843055 TAAATCC
1 TAAACCC
*
9843062 T-AACGC
1 TAAACCC
*
9843068 T-AACAC
1 TAAACCC
9843074 TAAA-CC
1 TAAACCC
9843080 -AAACCC
1 TAAACCC
9843086 TAAACCC
1 TAAACCC
* *
9843093 -CAACTC
1 TAAACCC
*
9843099 TAAGCCC
1 TAAACCC
*
9843106 TAAAACC
1 TAAACCC
**
9843113 TAAACTT
1 TAAACCC
9843120 TAAA--C
1 TAAACCC
9843125 TAAACCC
1 TAAACCC
9843132 TAAACCC
1 TAAACCC
9843139 TA
1 TA
9843141 CTCTAGACCC
Statistics
Matches: 77, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
5 7 0.09
6 20 0.26
7 50 0.65
ACGTcount: A:0.44, C:0.34, G:0.03, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:9845282 original size:20 final size:20
Alignment explanation
Indices: 9845242--9845285 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
9845232 GATTTGTATG
*
9845242 TTTTAAGGTGTCAATATAAA
1 TTTTAAGGTGTCAATAAAAA
**
9845262 TTTTAAGGTGTCGGTAAAAA
1 TTTTAAGGTGTCAATAAAAA
9845282 TTTT
1 TTTT
9845286 TTTTTGAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (20 bp):
TTTTAAGGTGTCAATAAAAA
Found at i:9846438 original size:19 final size:19
Alignment explanation
Indices: 9846414--9846451 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9846404 GGTGTTTTTG
9846414 GCCAAAAATGCCTTCAATA
1 GCCAAAAATGCCTTCAATA
*
9846433 GCCAAAAATGCCTTTAATA
1 GCCAAAAATGCCTTCAATA
9846452 ATCCCCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.24
Consensus pattern (19 bp):
GCCAAAAATGCCTTCAATA
Found at i:9846689 original size:65 final size:65
Alignment explanation
Indices: 9846435--9846693 Score: 201
Period size: 64 Copynumber: 4.0 Consensus size: 65
9846425 CTTCAATAGC
* * * * ** * *
9846435 CAAAAATGCCTTTAATAATCCCCTCAATAAAATTTTTTTTGTTTGAATTATTGAAGGTATTTTTA
1 CAAAAATACCTTCAATAAT-CCCTCAACAAAATTTTTTAT-AATGGATTATTGAAGGTATTTTTG
9846500 GA
64 GA
* * * * * * *
9846502 CAAAAACACATTCAATAATCCCT--TCTAAATTTTTT-TAAGGGATTATTGATGG-AGTTTTTTG
1 CAAAAATACCTTCAATAATCCCTCAACAAAATTTTTTATAATGGATTATTGAAGGTA-TTTTTGG
*
9846563 C
65 A
* * * **
9846564 CAAAAATATCTTCAATAATCCTTTCAA-TAAA-TTTTTATGAA-GGATTATTGAAGGCGTTTTTG
1 CAAAAATACCTTCAATAATCC-CTCAACAAAATTTTTTAT-AATGGATTATTGAAGGTATTTTTG
*
9846626 GT
64 GA
*
9846628 CAAAAATACCTTCAATAATCCGCTCAACAAAATTTTTTAT-TTGGATTATTGAAGGTATTTTTGG
1 CAAAAATACCTTCAATAATCC-CTCAACAAAATTTTTTATAATGGATTATTGAAGGTATTTTTGG
9846692 A
65 A
9846693 C
1 C
9846694 CCCTTTCAAA
Statistics
Matches: 151, Mismatches: 31, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
61 1 0.01
62 35 0.23
63 7 0.05
64 56 0.37
65 26 0.17
66 11 0.07
67 15 0.10
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (65 bp):
CAAAAATACCTTCAATAATCCCTCAACAAAATTTTTTATAATGGATTATTGAAGGTATTTTTGGA
Found at i:9848276 original size:26 final size:26
Alignment explanation
Indices: 9848226--9848282 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
9848216 TTCTCTCTTA
* *
9848226 TTTTTTCTTCATTTCTCTTTTTTCAT
1 TTTTTTCTTCATTTCTCTTTATTCAC
*
9848252 TTTTTTCTTCATATTTTC-TTATTCAC
1 TTTTTTCTTCAT-TTCTCTTTATTCAC
9848278 TTTTT
1 TTTTT
9848283 ATTTTGCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTTTTCTTCATTTCTCTTTATTCAC
Found at i:9849127 original size:27 final size:27
Alignment explanation
Indices: 9849096--9849212 Score: 80
Period size: 27 Copynumber: 4.3 Consensus size: 27
9849086 TAATTTTGAG
9849096 AAAAATTGATACTTTCAACTTTTTCTC
1 AAAAATTGATACTTTCAACTTTTTCTC
* * * *
9849123 AAAAA-T-AT-TTTTGGAAATTTTACTTTC
1 AAAAATTGATACTTT-CAACTTTT--TCTC
***
9849150 AAGGGAAATTGATACTTTCAACTTTTTAAG
1 AA---AAATTGATACTTTCAACTTTTTCTC
9849180 AAAAATTGATACTTTCAACTTTTTC-C
1 AAAAATTGATACTTTCAACTTTTTCTC
*
9849206 TAAAATT
1 AAAAATT
9849213 ATTTTTTTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 19
0.68 0.13 0.19
Matches are distributed among these distances:
24 3 0.04
25 8 0.12
26 7 0.10
27 32 0.47
30 6 0.09
31 1 0.01
32 8 0.12
33 3 0.04
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.43
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTCTC
Found at i:9850348 original size:3 final size:3
Alignment explanation
Indices: 9850331--9850473 Score: 82
Period size: 3 Copynumber: 46.3 Consensus size: 3
9850321 AGAAAAAAAG
* * *
9850331 ATA AAA ATA AAA ATA ATA GATAA ATA ATA A-A AT- ATA TTA ATA TATA
1 ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA -ATA
*
9850377 ACTA A-A A-A ATA ATA ATA ATA GATAA ATA A-A A-A ATAA ATA TTA ATAA
1 A-TA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA AT-A ATA ATA AT-A
* * * *
9850423 ATAA ATA ATA ATA ATA ATA ATC ATA ATC ATA ATA ACA ATGA AAA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
9850470 ATA A
1 ATA A
9850474 AATTAAATTA
Statistics
Matches: 111, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
2 12 0.11
3 71 0.64
4 26 0.23
5 2 0.02
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:9850377 original size:24 final size:24
Alignment explanation
Indices: 9850333--9850441 Score: 121
Period size: 24 Copynumber: 4.4 Consensus size: 24
9850323 AAAAAAAGAT
* *
9850333 AAAAATAAAAATAATAGATAAATA
1 AAAAATAATATTAATAGATAAATA
* *
9850357 ATAAAAT-ATATTAATATATAACTA
1 A-AAAATAATATTAATAGATAAATA
*
9850381 AAAAATAATAATAATAGATAAATA
1 AAAAATAATATTAATAGATAAATA
*
9850405 AAAAATAAATATTAATAAATAAATA
1 AAAAAT-AATATTAATAGATAAATA
9850430 ATAATAATAATA
1 A-AA-AATAATA
9850442 ATCATAATCA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
23 5 0.07
24 35 0.49
25 22 0.31
26 6 0.08
27 3 0.04
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAAATAATATTAATAGATAAATA
Found at i:9850394 original size:48 final size:47
Alignment explanation
Indices: 9850331--9850443 Score: 156
Period size: 48 Copynumber: 2.4 Consensus size: 47
9850321 AGAAAAAAAG
* *
9850331 ATAAAAATAAAAATAATAGATAAATAATAAAAT-ATATTAATATATAA
1 ATAAAAATAATAATAATAGATAAATAA-AAAATAATATTAATAAATAA
*
9850378 CTAAAAAATAATAATAATAGATAAATAAAAAATAAATATTAATAAATAA
1 AT-AAAAATAATAATAATAGATAAATAAAAAAT-AATATTAATAAATAA
*
9850427 ATAATAATAATAATAAT
1 ATAAAAATAATAATAAT
9850444 CATAATCATA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
47 6 0.10
48 38 0.66
49 14 0.24
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (47 bp):
ATAAAAATAATAATAATAGATAAATAAAAAATAATATTAATAAATAA
Found at i:9850414 original size:4 final size:4
Alignment explanation
Indices: 9850335--9850430 Score: 51
Period size: 4 Copynumber: 24.5 Consensus size: 4
9850325 AAAAAGATAA
* * * * * *
9850335 AAAT AAAA ATAAT AGAT AAAT -AAT AAAAT ATAT TAAT ATAT AACT AAA-
1 AAAT AAAT A-AAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT
*
9850383 AAAT -AAT -AAT -AAT AGAT AAAT AAA- AAAT AAAT ATTAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A--AAT AAAT AAAT
9850429 AA
1 AA
9850431 TAATAATAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
3 18 0.26
4 42 0.60
5 6 0.09
6 4 0.06
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:9850457 original size:45 final size:45
Alignment explanation
Indices: 9850335--9850457 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 45
9850325 AAAAAGATAA
* *
9850335 AAATAAA-AATAATAGATAAATAATAAAATAT-ATTAATATATAACT
1 AAATAAATAATAATA-AT-AATAATATAATATAATAAATATATAACT
*
9850380 AAA-AAATAATAATAATAGATAA-ATAA-AAAATAAATAT-TAA-T
1 AAATAAATAATAATAATA-ATAATATAATATAATAAATATATAACT
9850421 AAATAAATAATAATAATAATAATCATAATCATAATAA
1 AAATAAATAATAATAATAATAAT-ATAAT-ATAATAA
9850458 CAATGAAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 16
0.77 0.05 0.19
Matches are distributed among these distances:
41 8 0.12
42 18 0.27
43 15 0.23
44 9 0.14
45 16 0.24
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (45 bp):
AAATAAATAATAATAATAATAATATAATATAATAAATATATAACT
Found at i:9850799 original size:44 final size:44
Alignment explanation
Indices: 9850697--9850862 Score: 197
Period size: 44 Copynumber: 3.8 Consensus size: 44
9850687 AAATTTTGAT
** * * *
9850697 CAAAGCTCCTCTAAGTAGAGGCACAACGACTTTGAGCAAAATAAA
1 CAAAGCTCCTCTAAACAAAGGCTCAACGACTTTG-GAAAAATAAA
* * *
9850742 CAAAGCTCTTCTAAGCAAATGCTCAACGACTTTGGAAAAATAAA
1 CAAAGCTCCTCTAAACAAAGGCTCAACGACTTTGGAAAAATAAA
* * * *
9850786 CAAATCTCCTCTAAACAAAAGTTTAACGACTTTGGAAAAATAAA
1 CAAAGCTCCTCTAAACAAAGGCTCAACGACTTTGGAAAAATAAA
* *
9850830 CAAAGCTCCTCTAAACAAAGGTTCAATGACTTT
1 CAAAGCTCCTCTAAACAAAGGCTCAACGACTTT
9850863 TTGAAAAAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 76 0.72
45 29 0.28
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23
Consensus pattern (44 bp):
CAAAGCTCCTCTAAACAAAGGCTCAACGACTTTGGAAAAATAAA
Found at i:9854788 original size:44 final size:44
Alignment explanation
Indices: 9854738--9854826 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
9854728 TGCTTTACCG
9854738 TGTTATCTACCAGCGTGTCGATATGAGGTAAACAAAAGTTATCT
1 TGTTATCTACCAGCGTGTCGATATGAGGTAAACAAAAGTTATCT
*
9854782 TGTTATCTACCAGCGTGTCGATATGAGGTAAACAAAAGTTGTCT
1 TGTTATCTACCAGCGTGTCGATATGAGGTAAACAAAAGTTATCT
9854826 T
1 T
9854827 TTGGGCTAGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (44 bp):
TGTTATCTACCAGCGTGTCGATATGAGGTAAACAAAAGTTATCT
Found at i:9862644 original size:72 final size:71
Alignment explanation
Indices: 9862550--9862699 Score: 203
Period size: 72 Copynumber: 2.1 Consensus size: 71
9862540 TACTTTTAAC
* **
9862550 TTTTTCTCAAAAATATTTTTAAAAATTTTACTTTCAAGGGAAATTGATACTTTCAAC-TTTCCCT
1 TTTTTTTCAAAAATATTTTTAAAAATTTTACTTTCAAGAAAAATTGATACTTTCAACTTTTCCCT
*
9862614 AAAATA
66 AAAAAA
* * *
9862620 TTTTTTTCAAAAATTTTATTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCC
1 TTTTTTTCAAAAA-TAT-TTTTAAAAATTTTACTTTCAAGAAAAATTGATACTTTCAACTTTTCC
*
9862685 TTAAAAAA
64 CTAAAAAA
9862693 TTTTTTT
1 TTTTTTT
9862700 GTGTTCAAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
70 12 0.17
71 2 0.03
72 37 0.54
73 18 0.26
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.49
Consensus pattern (71 bp):
TTTTTTTCAAAAATATTTTTAAAAATTTTACTTTCAAGAAAAATTGATACTTTCAACTTTTCCCT
AAAAAA
Found at i:9862645 original size:14 final size:14
Alignment explanation
Indices: 9862613--9862655 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
9862603 CAACTTTCCC
9862613 TAAAATATTTT-TTT
1 TAAAA-ATTTTATTT
*
9862627 CAAAAATTTTATTT
1 TAAAAATTTTATTT
9862641 TAAAAATTTTATTT
1 TAAAAATTTTATTT
9862655 T
1 T
9862656 TAAGAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 5 0.19
14 21 0.81
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TAAAAATTTTATTT
Found at i:9862771 original size:52 final size:51
Alignment explanation
Indices: 9862647--9862803 Score: 185
Period size: 52 Copynumber: 3.1 Consensus size: 51
9862637 ATTTTAAAAA
*
9862647 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAA-ATTTTT
1 TTTTA-TTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTT
* * ** **
9862698 TTGTGTTCAAAGG-AAATTGATACAATCAAC-TTTCCTTCAAAAATATTTTT
1 TTTTATTTTAAGGAAAATTGATACTTTCAACTTTTCCTT-AAAAATATTTTT
* *
9862748 TTTTATCTTTAAGGAAAATTGATACTTTCAACTTTTCCGTGAAAATATTTTT
1 TTTTAT-TTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTT
9862800 TTTT
1 TTTT
9862804 TGTTTTTGGA
Statistics
Matches: 86, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
48 7 0.08
49 20 0.23
50 15 0.17
51 8 0.09
52 30 0.35
53 6 0.07
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (51 bp):
TTTTATTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTT
Found at i:9862894 original size:3 final size:3
Alignment explanation
Indices: 9862858--9862917 Score: 68
Period size: 3 Copynumber: 19.7 Consensus size: 3
9862848 AAAAATATCA
* * *
9862858 AAT AAT TAT AAT -CT AAT CAAT AAAT AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT
9862904 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
9862918 AACCTTGAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
2 1 0.02
3 41 0.85
4 6 0.12
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9863037 original size:22 final size:23
Alignment explanation
Indices: 9863012--9863055 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
9863002 GATGACTGAG
9863012 AAGCAGGTCGAACT-CGGGTCGA
1 AAGCAGGTCGAACTACGGGTCGA
* * *
9863034 AAGCGGGTTGCACTACGGGTCG
1 AAGCAGGTCGAACTACGGGTCG
9863056 GGTCGTCTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.23, C:0.23, G:0.39, T:0.16
Consensus pattern (23 bp):
AAGCAGGTCGAACTACGGGTCGA
Found at i:9863564 original size:3 final size:3
Alignment explanation
Indices: 9863553--9863620 Score: 59
Period size: 3 Copynumber: 21.7 Consensus size: 3
9863543 TAAAAAAAAT
* *
9863553 ATA AAA ATA ATA ATA ATA GATAA ATAA ATA A-A AT- ATA CTA ATA GATAA
1 ATA ATA ATA ATA ATA ATA -AT-A AT-A ATA ATA ATA ATA ATA ATA -AT-A
9863601 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
9863621 TTAAATTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
2 4 0.07
3 37 0.67
4 12 0.22
5 2 0.04
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:9863577 original size:25 final size:25
Alignment explanation
Indices: 9863549--9863620 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 25
9863539 TTGATAAAAA
9863549 AAATATAAAAATAATAATAATAGAT
1 AAATATAAAAATAATAATAATAGAT
* *
9863574 AAATAAATAAAAT-ATACTAATAGAT
1 AAATATA-AAAATAATAATAATAGAT
*
9863599 AAATAATAATAATAATAATAAT
1 AAAT-ATAAAAATAATAATAAT
9863621 TTAAATTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 25 0.64
26 14 0.36
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (25 bp):
AAATATAAAAATAATAATAATAGAT
Found at i:9869177 original size:4 final size:4
Alignment explanation
Indices: 9869151--9869222 Score: 53
Period size: 4 Copynumber: 18.8 Consensus size: 4
9869141 TACAGGTTTT
* * *
9869151 TTTA TTT- TTTA TGT- TTT- TTTA TTTA TTTG TTATA CTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA
* * *
9869197 TTTA TTCA TTCA TTCA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
9869223 TTAATATACT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
3 11 0.20
4 43 0.77
5 2 0.04
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:9869177 original size:21 final size:21
Alignment explanation
Indices: 9869147--9869199 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
9869137 CAATTACAGG
* **
9869147 TTTT-TTTATTTTTTATGTTT
1 TTTTATTTATTTGTTATACTT
9869167 TTTTATTTATTTGTTATACTT
1 TTTTATTTATTTGTTATACTT
*
9869188 ATTTATTTATTT
1 TTTTATTTATTT
9869200 ATTCATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (21 bp):
TTTTATTTATTTGTTATACTT
Found at i:9878990 original size:91 final size:92
Alignment explanation
Indices: 9878806--9878990 Score: 266
Period size: 91 Copynumber: 2.0 Consensus size: 92
9878796 TTAAAAAATC
*
9878806 AGTAATACCCAGATCAAGCAACAAAGAATAATAAGAAAGTCCATAGAAGATTGGCTATGAGGTTC
1 AGTAATACCCAGATCAAGCAACAAAGAATAATAAGAAAGTCCATAGAAGATTGACTATGAGGTTC
* *
9878871 TTCTTAAACGAATAGGTTTTTTATAAG
66 TTCTTAAACGAAGAGGTTCTTTATAAG
* * *
9878898 AGTAATACCTAGATCAAGCAATAGAGAATAATAAGAAAGTCC-T-GAAAGATTGACTATGAGGTT
1 AGTAATACCCAGATCAAGCAACAAAGAATAATAAGAAAGTCCATAG-AAGATTGACTATGAGGTT
* * *
9878961 TTTCTTAGACGAGGAGGTTCTTTATAAG
65 CTTCTTAAACGAAGAGGTTCTTTATAAG
9878989 AG
1 AG
9878991 AAGTAAAGAT
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
90 1 0.01
91 43 0.52
92 39 0.47
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (92 bp):
AGTAATACCCAGATCAAGCAACAAAGAATAATAAGAAAGTCCATAGAAGATTGACTATGAGGTTC
TTCTTAAACGAAGAGGTTCTTTATAAG
Found at i:9881186 original size:43 final size:43
Alignment explanation
Indices: 9881040--9881257 Score: 149
Period size: 43 Copynumber: 5.4 Consensus size: 43
9881030 AATCTAATTC
* * * *
9881040 TAAAGTTGTTTAGCCTTTGTATAGAGGAGCCCATTTCCTATTT
1 TAAAGTTGTTTAGCCTCTATATAGAAGAGCCCATTTTCTATTT
** * * * **
9881083 TAAAGTCATTTAGCCTC----T-GCA-AGCTCACTACCTATTT
1 TAAAGTTGTTTAGCCTCTATATAGAAGAGCCCATTTTCTATTT
* * * * *
9881120 TAGAGTTGTTTGGCCTGTGTATAGAAGAGCCAATTTTCTATTT
1 TAAAGTTGTTTAGCCTCTATATAGAAGAGCCCATTTTCTATTT
9881163 TAAAGTTGTTTAGCCTCTATATAGAAGAGCCCATTTTCTA---
1 TAAAGTTGTTTAGCCTCTATATAGAAGAGCCCATTTTCTATTT
* * *
9881203 -AAA-TTG-TTAGCCTCTTTATA-AAGGAGCCCATTTTTTATCT
1 TAAAGTTGTTTAGCCTCTATATAGAA-GAGCCCATTTTCTATTT
*
9881243 TAAATTTGTTT-GCCT
1 TAAAGTTGTTTAGCCT
9881258 TTTGTATAGG
Statistics
Matches: 136, Mismatches: 26, Indels: 27
0.72 0.14 0.14
Matches are distributed among these distances:
36 2 0.01
37 51 0.38
38 4 0.03
39 4 0.03
41 4 0.03
42 9 0.07
43 62 0.46
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (43 bp):
TAAAGTTGTTTAGCCTCTATATAGAAGAGCCCATTTTCTATTT
Found at i:9881752 original size:12 final size:13
Alignment explanation
Indices: 9881729--9881758 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
9881719 TACTTTAAAT
9881729 AAAAATTGAATAA
1 AAAAATTGAATAA
9881742 AAAAATT-AATAA
1 AAAAATTGAATAA
9881754 AAAAA
1 AAAAA
9881759 AGAAAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AAAAATTGAATAA
Found at i:9886336 original size:4 final size:4
Alignment explanation
Indices: 9886286--9886358 Score: 51
Period size: 4 Copynumber: 18.5 Consensus size: 4
9886276 TTACAAAAAT
* * * * *
9886286 TAAA TAAA TTAA TAAA CAAA AAAA TAAA -ATAA TGAA T-AA TGAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TAAA TAAA TAAA TAAA
* * *
9886333 TAAA TAAA CAAA TAAG TAAA AAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA
9886359 GCAAAACAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
3 4 0.08
4 49 0.92
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:9891264 original size:8 final size:9
Alignment explanation
Indices: 9891235--9891276 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
9891225 ATTTTTGTTG
*
9891235 AATTTATTT
1 AATTAATTT
9891244 AATTATAATTT
1 AA-T-TAATTT
9891255 AATTAA-TT
1 AATTAATTT
9891263 AATTAATTT
1 AATTAATTT
9891272 AATTA
1 AATTA
9891277 TCTAATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 8 0.28
9 12 0.41
10 2 0.07
11 7 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
AATTAATTT
Found at i:9891282 original size:17 final size:16
Alignment explanation
Indices: 9891235--9891287 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 16
9891225 ATTTTTGTTG
*
9891235 AATTTATTTAATT-AT
1 AATTTAATTAATTAAT
9891250 AATTTAATTAATTAATT
1 AATTTAATTAATTAA-T
9891267 AATTTAATT-ATCTAAT
1 AATTTAATTAAT-TAAT
9891283 AATTT
1 AATTT
9891288 TTTATATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
15 12 0.35
16 9 0.26
17 13 0.38
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTTAATTAATTAAT
Found at i:9893983 original size:30 final size:30
Alignment explanation
Indices: 9893939--9894015 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
9893929 ATATTGATTT
*
9893939 ATGTTAA-AAGTTTATTTAGATATAAATTAAA
1 ATGTTAAGAA-TTTATTTAGATATAAAGT-AA
9893970 AT-TTAAGAATTTATTTAGATATAAAGTAA
1 ATGTTAAGAATTTATTTAGATATAAAGTAA
*
9893999 ATGTTAAGAGTTTATTT
1 ATGTTAAGAATTTATTT
9894016 GAATGTAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 4 0.10
30 34 0.81
31 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (30 bp):
ATGTTAAGAATTTATTTAGATATAAAGTAA
Found at i:9895516 original size:25 final size:24
Alignment explanation
Indices: 9895482--9895534 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
9895472 TTTATTTCTA
*
9895482 TTTTATTCTTTTTCTTTATCTATCT
1 TTTTAGTC-TTTTCTTTATCTATCT
*
9895507 TTTTAGTCTTTTCTTTATCTATTT
1 TTTTAGTCTTTTCTTTATCTATCT
9895531 TTTT
1 TTTT
9895535 TGTTGAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTTAGTCTTTTCTTTATCTATCT
Found at i:9895535 original size:25 final size:26
Alignment explanation
Indices: 9895468--9895535 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 26
9895458 ATCTTAATTA
* *
9895468 TTTATTTATTTCTATTTTATTCTTTTTC
1 TTTATCTATTT-T-TTTTAGTCTTTTTC
*
9895496 TTTATCTA-TCTTTTTAGTC-TTTTC
1 TTTATCTATTTTTTTTAGTCTTTTTC
9895520 TTTATCTATTTTTTTT
1 TTTATCTATTTTTTTT
9895536 GTTGAGGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 13 0.37
25 13 0.37
26 1 0.03
27 1 0.03
28 7 0.20
ACGTcount: A:0.13, C:0.12, G:0.01, T:0.74
Consensus pattern (26 bp):
TTTATCTATTTTTTTTAGTCTTTTTC
Found at i:9900835 original size:21 final size:22
Alignment explanation
Indices: 9900809--9900849 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9900799 GTGTATTTCA
*
9900809 TTACATAT-TTTTTATCTTTTT
1 TTACATATCCTTTTATCTTTTT
9900830 TTACATATCCTTTTATCTTT
1 TTACATATCCTTTTATCTTT
9900850 CACTCATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.66
Consensus pattern (22 bp):
TTACATATCCTTTTATCTTTTT
Found at i:9901701 original size:10 final size:10
Alignment explanation
Indices: 9901677--9901748 Score: 54
Period size: 11 Copynumber: 6.5 Consensus size: 10
9901667 ATGAAGTGTG
9901677 AAAATAAAAA
1 AAAATAAAAA
9901687 GAAAATAAAAA
1 -AAAATAAAAA
*
9901698 AAAAGAATAAA
1 AAAATAA-AAA
9901709 AAAATGAAAAATA
1 AAAAT--AAAA-A
*
9901722 AGAAATGAAAA
1 A-AAATAAAAA
*
9901733 AAAATGAAAAC
1 AAAAT-AAAAA
9901744 AAAAT
1 AAAAT
9901749 CTTAAATCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
10 10 0.20
11 27 0.54
12 5 0.10
13 4 0.08
14 4 0.08
ACGTcount: A:0.79, C:0.01, G:0.08, T:0.11
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:9901732 original size:22 final size:21
Alignment explanation
Indices: 9901688--9901735 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
9901678 AAATAAAAAG
9901688 AAAATAAAAAAAAAGAATAAA
1 AAAATAAAAAAAAAGAATAAA
* *
9901709 AAAATGAAAAATAAGAAATGAAA
1 AAAATAAAAAAAAAG-AAT-AAA
9901732 AAAA
1 AAAA
9901736 ATGAAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 13 0.57
22 3 0.13
23 7 0.30
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.10
Consensus pattern (21 bp):
AAAATAAAAAAAAAGAATAAA
Found at i:9902880 original size:32 final size:32
Alignment explanation
Indices: 9902774--9902882 Score: 89
Period size: 32 Copynumber: 3.4 Consensus size: 32
9902764 CTTGGTTCAG
9902774 TCCAAGTCATTTAATTTTTTGACTTACGATTTAA
1 TCCAAGTCATTTAATTTTTTGAC-T-CGATTTAA
* * * * *
9902808 TCC-CGATCA-TTCA-TTTTTAACCTCAATTCAA
1 TCCAAG-TCATTTAATTTTTTGA-CTCGATTTAA
* *
9902839 TCTAAGTCATTTAATTTTTTGACTCGGTTTAA
1 TCCAAGTCATTTAATTTTTTGACTCGATTTAA
*
9902871 TCCAGGTCATTT
1 TCCAAGTCATTT
9902883 TTATTTTCAA
Statistics
Matches: 56, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
31 11 0.20
32 28 0.50
33 11 0.20
34 6 0.11
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.45
Consensus pattern (32 bp):
TCCAAGTCATTTAATTTTTTGACTCGATTTAA
Found at i:9902988 original size:34 final size:34
Alignment explanation
Indices: 9902938--9903020 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 34
9902928 TGGTTCAGTC
* *
9902938 CGATCA-TTTTAATTTTTTGACCTTAGCTT-AATT
1 CGATCATTTTTATTTTTTTGACCATAG-TTCAATT
* *
9902971 CGATCATTTTTATTTTTTTTACCATAGTTCAGTT
1 CGATCATTTTTATTTTTTTGACCATAGTTCAATT
*
9903005 CGATCATTTTCATTTT
1 CGATCATTTTTATTTT
9903021 CAACCTTAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 8 0.19
34 35 0.81
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.54
Consensus pattern (34 bp):
CGATCATTTTTATTTTTTTGACCATAGTTCAATT
Found at i:9903026 original size:131 final size:131
Alignment explanation
Indices: 9902877--9903119 Score: 348
Period size: 131 Copynumber: 1.9 Consensus size: 131
9902867 TTAATCCAGG
* * * *
9902877 TCATTTTTATTTTCAACCTTAGCTCAGTCGAGTCA-CTTCCATCTTCAACCTTGGTTCAGTCCGA
1 TCATTTTCATTTTCAACCTTAGCTCAGTCGAGTCACCTT-AATATTCAACCTTGGTTCAGTCCAA
*
9902941 TCATT-TTAATTTTTTGACCTTAGCTT-AATTCGATCATTTTTATTTTTTTTACCATAGTTCAGT
65 TCATTGTT-ATTTTTTGACCTTAG-TTCAATTCGATCATCTTTATTTTTTTTACCATAGTTCAGT
9903004 TCGA
128 TCGA
* * *
9903008 TCATTTTCATTTTCAACCTTAGTTCAGTCTAGTCACCTTAATATTCAACCTTGGTTTAGTCCAAT
1 TCATTTTCATTTTCAACCTTAGCTCAGTCGAGTCACCTTAATATTCAACCTTGGTTCAGTCCAAT
* *
9903073 CATTGTTATTTTTTTACCTTAGTTCAGTTCGATCATCTTTATTTTTT
66 CATTGTTATTTTTTGACCTTAGTTCAATTCGATCATCTTTATTTTTT
9903120 ATTCTAGCTC
Statistics
Matches: 99, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
130 2 0.02
131 92 0.93
132 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (131 bp):
TCATTTTCATTTTCAACCTTAGCTCAGTCGAGTCACCTTAATATTCAACCTTGGTTCAGTCCAAT
CATTGTTATTTTTTGACCTTAGTTCAATTCGATCATCTTTATTTTTTTTACCATAGTTCAGTTCG
A
Found at i:9903092 original size:33 final size:33
Alignment explanation
Indices: 9902924--9903119 Score: 98
Period size: 33 Copynumber: 6.0 Consensus size: 33
9902914 TCCATCTTCA
* * *
9902924 ACCTTGGTTCAGTCCGATCAT-TTTAATTTTTTG
1 ACCTTAGTTCAGTCCAATCATCTTT-ATTTTTTT
* * * *
9902957 ACCTTAGCTT-AATTCGATCATTTTTATTTTTTTT
1 ACCTTAG-TTCAGTCCAATCATCTTTA-TTTTTTT
* * * **
9902991 ACCATAGTTCAGTTCGATCAT-TTTCA-TTTTCA
1 ACCTTAGTTCAGTCCAATCATCTTT-ATTTTTTT
* * * * * **
9903023 ACCTTAGTTCAGTCTAGTCA-CCTTAATATTCA
1 ACCTTAGTTCAGTCCAATCATCTTTATTTTTTT
* *
9903055 ACCTTGGTTTAGTCCAATCAT-TGTTATTTTTTT
1 ACCTTAGTTCAGTCCAATCATCT-TTATTTTTTT
* *
9903088 ACCTTAGTTCAGTTCGATCATCTTTATTTTTT
1 ACCTTAGTTCAGTCCAATCATCTTTATTTTTT
9903120 ATTCTAGCTC
Statistics
Matches: 125, Mismatches: 28, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
31 1 0.01
32 42 0.34
33 53 0.42
34 29 0.23
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.49
Consensus pattern (33 bp):
ACCTTAGTTCAGTCCAATCATCTTTATTTTTTT
Found at i:9903242 original size:32 final size:31
Alignment explanation
Indices: 9903206--9903294 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 31
9903196 TTCAATCACC
* **
9903206 TTCATATCTAACATTGGTTCAATCTAGTCATT
1 TTCATAT-TAACCTTGGTTCAATCTAACCATT
* *
9903238 TTCATTTATTAACCTTGATTCAGTCTAACCATT
1 TTCA--TATTAACCTTGGTTCAATCTAACCATT
*
9903271 TTCATTTTTAACCTTGGTTCAATC
1 TTCA-TATTAACCTTGGTTCAATC
9903295 CGATCATCTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
32 21 0.45
33 23 0.49
34 3 0.06
ACGTcount: A:0.26, C:0.20, G:0.08, T:0.46
Consensus pattern (31 bp):
TTCATATTAACCTTGGTTCAATCTAACCATT
Found at i:9903617 original size:30 final size:30
Alignment explanation
Indices: 9903581--9903639 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
9903571 GAGGCCTGAA
9903581 CCAATTGGGCCCAAGCCAATTGGGCCCAAG
1 CCAATTGGGCCCAAGCCAATTGGGCCCAAG
* ** *
9903611 CCAATTGGGCCTAAGTTAATTGGGTCCAA
1 CCAATTGGGCCCAAGCCAATTGGGCCCAA
9903640 ACCTAATCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20
Consensus pattern (30 bp):
CCAATTGGGCCCAAGCCAATTGGGCCCAAG
Found at i:9903634 original size:15 final size:15
Alignment explanation
Indices: 9903581--9903621 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
9903571 GAGGCCTGAA
9903581 CCAATTGGGCCCAAG
1 CCAATTGGGCCCAAG
9903596 CCAATTGGGCCCAAG
1 CCAATTGGGCCCAAG
9903611 CCAATTGGGCC
1 CCAATTGGGCC
9903622 TAAGTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.24, C:0.34, G:0.27, T:0.15
Consensus pattern (15 bp):
CCAATTGGGCCCAAG
Found at i:9903701 original size:8 final size:8
Alignment explanation
Indices: 9903678--9903713 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
9903668 TTGTTTTTAA
9903678 TTTATGAT
1 TTTATGAT
9903686 TTTAT-AT
1 TTTATGAT
*
9903693 TTTATTAT
1 TTTATGAT
9903701 TTTATGAT
1 TTTATGAT
9903709 TTTAT
1 TTTAT
9903714 CTTTATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (8 bp):
TTTATGAT
Found at i:9903702 original size:15 final size:16
Alignment explanation
Indices: 9903678--9903713 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
9903668 TTGTTTTTAA
9903678 TTTATGATTTTAT-AT
1 TTTATGATTTTATGAT
*
9903693 TTTATTATTTTATGAT
1 TTTATGATTTTATGAT
9903709 TTTAT
1 TTTAT
9903714 CTTTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTATGATTTTATGAT
Found at i:9904766 original size:30 final size:30
Alignment explanation
Indices: 9904725--9904789 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
9904715 TTTTCAATTT
* * * *
9904725 ATTTATTTGTTTTTATT-TTATTTTTGGAAA
1 ATTTTTTTGTTTTAATTGATATTTTT-AAAA
9904755 ATTTTTTTGTTTTAATTGATATTTTTAAAA
1 ATTTTTTTGTTTTAATTGATATTTTTAAAA
9904785 ATTTT
1 ATTTT
9904790 CAAAATAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 23 0.77
31 7 0.23
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (30 bp):
ATTTTTTTGTTTTAATTGATATTTTTAAAA
Found at i:9908483 original size:17 final size:18
Alignment explanation
Indices: 9908442--9908484 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9908432 GAATTATATG
*
9908442 TACAAAATTAAAAGAAAT
1 TACAAAATTAAAAGAAAA
*
9908460 TAAAAAATT-AAAGAAAA
1 TACAAAATTAAAAGAAAA
*
9908477 TGCAAAAT
1 TACAAAAT
9908485 ACAATACTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (18 bp):
TACAAAATTAAAAGAAAA
Found at i:9914571 original size:17 final size:17
Alignment explanation
Indices: 9914549--9914583 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9914539 ATTTTATTAA
9914549 TAAAATAATAATATATT
1 TAAAATAATAATATATT
**
9914566 TAAAATTTTAATATATT
1 TAAAATAATAATATATT
9914583 T
1 T
9914584 TTTAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAAATAATAATATATT
Found at i:9914581 original size:19 final size:21
Alignment explanation
Indices: 9914554--9914592 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9914544 ATTAATAAAA
9914554 TAATAATA-TATTTAAAATTT
1 TAATAATATTATTTAAAATTT
*
9914574 TAAT-ATATTTTTTAAAATT
1 TAATAATATTATTTAAAATT
9914593 AAATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATAATATTATTTAAAATTT
Found at i:9916178 original size:2 final size:2
Alignment explanation
Indices: 9916157--9916217 Score: 86
Period size: 2 Copynumber: 30.5 Consensus size: 2
9916147 CACTCTGCCA
* * * *
9916157 AT AT AT AC AT AC AT AA AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9916199 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
9916218 GAGAGAGAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:9916222 original size:2 final size:2
Alignment explanation
Indices: 9916217--9916245 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9916207 ATATATATAT
9916217 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9916246 ACAATGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9916479 original size:40 final size:40
Alignment explanation
Indices: 9916424--9916503 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
9916414 TCAGAAAGAC
*
9916424 GAAGAGTTTGTTAATTGACACAAATCAACTAAAATGTTAT
1 GAAGAATTTGTTAATTGACACAAATCAACTAAAATGTTAT
* *
9916464 GAAGAATTTGTTAATTGACGCAAATCAACTACAATGTTAT
1 GAAGAATTTGTTAATTGACACAAATCAACTAAAATGTTAT
9916504 CCATACGAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (40 bp):
GAAGAATTTGTTAATTGACACAAATCAACTAAAATGTTAT
Found at i:9921248 original size:81 final size:80
Alignment explanation
Indices: 9921105--9921261 Score: 296
Period size: 81 Copynumber: 1.9 Consensus size: 80
9921095 TGAGTTTTAC
*
9921105 AGCAAAAGCAAACAGTAGAAAGCAAAATTACTTTGATTAAAAATTATTAAATGACTAAATATAAC
1 AGCAAAAGCAAACAGTAGAAAGCAAAATTACATTGATTAAAAATTATTAAATGACTAAATATAAC
9921170 AGCAATTATAATAAA
66 AGCAATTATAATAAA
9921185 AGCAAAAGCAAACAGTAGAAAGCAAAATTACAATTGATTAAAAATTATTAAATGACTAAATATAA
1 AGCAAAAGCAAACAGTAGAAAGCAAAATTAC-ATTGATTAAAAATTATTAAATGACTAAATATAA
9921250 CAGCAATTATAA
65 CAGCAATTATAA
9921262 CACAAAGTTC
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
80 31 0.41
81 44 0.59
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.24
Consensus pattern (80 bp):
AGCAAAAGCAAACAGTAGAAAGCAAAATTACATTGATTAAAAATTATTAAATGACTAAATATAAC
AGCAATTATAATAAA
Found at i:9922777 original size:2 final size:2
Alignment explanation
Indices: 9922770--9922806 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
9922760 TCTATCTATC
*
9922770 TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9922807 GCGAATAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9924180 original size:35 final size:36
Alignment explanation
Indices: 9924105--9924173 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
9924095 CGTTTCAAGC
* * *
9924105 CTAAGGTATAACCTGTACAATCTTTACCTTTTTAGA
1 CTAAGATATAACCTCTACAATCCTTACCTTTTTAGA
* *
9924141 CTAAGATATAACCTCTA-ATTCCTTACTTTTTTA
1 CTAAGATATAACCTCTACAATCCTTACCTTTTTA
9924174 AGCTAAGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 13 0.46
36 15 0.54
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.42
Consensus pattern (36 bp):
CTAAGATATAACCTCTACAATCCTTACCTTTTTAGA
Found at i:9925103 original size:21 final size:22
Alignment explanation
Indices: 9925072--9925113 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
9925062 TTGAATATTA
9925072 AAAAAATAATT-AAA-CAATAC
1 AAAAAATAATTGAAATCAATAC
9925092 AAAAAATAAATTGAAATCAATA
1 AAAAAAT-AATTGAAATCAATA
9925114 TTGTAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 4 0.21
22 3 0.16
23 5 0.26
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAAAATAATTGAAATCAATAC
Found at i:9925910 original size:18 final size:18
Alignment explanation
Indices: 9925887--9925921 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9925877 CCATCCTTTT
*
9925887 CATATACATGAATAGTAC
1 CATATACATAAATAGTAC
*
9925905 CATATACTTAAATAGTA
1 CATATACATAAATAGTA
9925922 TCTAATTACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (18 bp):
CATATACATAAATAGTAC
Found at i:9930073 original size:70 final size:73
Alignment explanation
Indices: 9929949--9930090 Score: 209
Period size: 71 Copynumber: 2.0 Consensus size: 73
9929939 CCATGTTAGT
* *
9929949 TTATTTAAATAGTTATAACTTTTATTGTTATATAACTATTATAAATAAACATTTC-TATTCAAAC
1 TTATTTAAATAGTTATAACTCTTATTGTTATATAACTATTATAAACAAACATTTCTTATTCAAAC
9930013 ATAATTAA
66 ATAATTAA
* * * *
9930021 TTATTT-AATAGTTGTAACTCTT-TTGTTATATAATTATTTTAAACAAATATTTCTTATTCAAAC
1 TTATTTAAATAGTTATAACTCTTATTGTTATATAACTATTATAAACAAACATTTCTTATTCAAAC
9930084 ATAATTA
66 ATAATTA
9930091 TTCAAACTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
70 27 0.43
71 30 0.48
72 6 0.10
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (73 bp):
TTATTTAAATAGTTATAACTCTTATTGTTATATAACTATTATAAACAAACATTTCTTATTCAAAC
ATAATTAA
Found at i:9930766 original size:23 final size:24
Alignment explanation
Indices: 9930739--9930783 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
9930729 TATTTTGTCC
9930739 AAAAA-AATAATAAT-AATAAAATT
1 AAAAATAA-AATAATAAATAAAATT
9930762 AAAAATAAAATAATAAATAAAA
1 AAAAATAAAATAATAAATAAAA
9930784 AATAAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (24 bp):
AAAAATAAAATAATAAATAAAATT
Found at i:9930770 original size:12 final size:12
Alignment explanation
Indices: 9930747--9930789 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
9930737 CCAAAAAAAT
9930747 AATAAT-AATAA
1 AATAATAAATAA
9930758 AATTAA-AAATAA
1 AA-TAATAAATAA
9930770 AATAATAAATAA
1 AATAATAAATAA
9930782 AA-AATAAA
1 AATAATAAA
9930790 AAGGTCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 11 0.38
12 18 0.62
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAATAAATAA
Found at i:9930785 original size:26 final size:25
Alignment explanation
Indices: 9930742--9930791 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
9930732 TTTGTCCAAA
9930742 AAAATAATAATAATAAAATTAAAAAT
1 AAAATAATAATAATAAAA-TAAAAAT
9930768 AAAATAATAAATAA-AAAATAAAAA
1 AAAATAAT-AATAATAAAATAAAAA
9930792 GGTCAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 12 0.52
27 5 0.22
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (25 bp):
AAAATAATAATAATAAAATAAAAAT
Found at i:9932343 original size:831 final size:826
Alignment explanation
Indices: 9931105--9932600 Score: 2266
Period size: 831 Copynumber: 1.8 Consensus size: 826
9931095 TTACTGGGTG
* * *
9931105 TTAGCCTTGAATGGATCCTTATTTTGAAATGACAAAACATTAAGCTAAATAAGCTTGATCAAGAT
1 TTAGCCTTGAATGGATCCTTATTTTGAAATGACAAAACATTAAGATAAATAAACTTGATCAAAAT
*
9931170 TTTGAAAAAGATTTATTTAGTACATGTTCTTAAGGTTTATATTTTGGTACTAAATAAATAATATG
66 TTTGAAAAAGATTTATTTAGTACATGTTCTTAAGGTTTATATTTTGGTACTAAATAAATAATAAG
* * * * *
9931235 ATTTTCAAAGTTTAAACAAACCTTTTTTTTATGTTTTCTTATTTCTCAAATCAAAACTATCTTTA
131 ATTTTCAAAGTTTAAACAAACC--TTTTCTATGGTTTCATATTTATCAAACCAAAACTATCTTTA
* *
9931300 AACATTTTTTATTTGAGCTTAAATGAAATTGTTGTTTTTGAAGTGAACTTATTCATTTGGACTCA
194 AACATTATTTATTTGAGCTTAAATGAAATTGTTGTTTTTAAAGTGAACTTATTCATTTGGACTCA
* * * * * ** *
9931365 ATACAATTTTGACATTATTGGTTTTGAGAAATAGATTAATTTAAGAAAGTTGTTTTACAGGAATA
259 ATACAATTTTGACAATATTGGTTTTGAGAAAAAGATTAACTTAAGAAAGCTATTTTACAAAAACA
* *
9931430 AAGTTTTCCAACATTGAATTTGCTTTATTTTTTTGTATTAATTCACAAAGCTTTAATATTTGAAT
324 AAGTTTTCCAACATTGAACTTGCTTTATTTTTCTGTATTAATTCACAAAGCTTTAATATTTGAAT
* * * *
9931495 TTTATATGGTCGAAAAGCTCTTTGAGTCTACTTTCTAATAGATTAAACAAAATCAAAATCCAAAT
389 TTTATATAGTCGAAAAGCTCTTTGAGTCTACTTTATAATAGATCAAACAAAATCAAAAACCAAAT
* * * * *
9931560 TTTTTAAGAAAAAATTTTAAATTTTTACTAGATACTTTGCAGTTGTCT-AAGAATTGCACAAATG
454 TTTTTAAGAAAAAATTTTAAATTTTTACTAGACACTCTGCAGTTGT-TAAAAAACTGCACAAAGG
** *
9931624 GTAGTTTTGAAAATTCACTATAATTCATACAAAATAAATTA-GTGATGAATTTTATATGGATAGA
518 GTAACTTTGAAAATTCACTATAATTCATACAAAATAAATTAGGTGATGAATTTTATATGGACAGA
** * * * *
9931688 AAGTACTTTAAGTCTAGTTTCTAAATCTTTAAA-TGGTTTTTGATTTGGATTTGTATAACACAAG
583 AAACACTTTAACTCTAGTTTCTAAATCTTTAAACT-GTTTGTAATTTGGATTCGTATAACACAAG
9931752 ATATGATCAAATTAGTGAGTAAAGTGCAAAATAAAAAACAACCATCCAGCTTTGACAAGATCGAT
647 ATATGATCAAATTAGTGAGTAAAGTGCAAAATAAAAAACAACCATCCAGCTTTGACAAGATCGAT
9931817 CCCTTTAAGGAACGAATCGATTGATTTTTTTACCTAGAAGCAAAATTTGTTTTGGAATGTTATAA
712 CCCTTTAAGGAACGAATCGATTGATTTTTTTACCTAGAAGCAAAATTTGTTTTGGAATGTTATAA
9931882 AGGGATCGATCACCCTATGTAGGGAATAGGTCACCCATTGACAGGATCTA
777 AGGGATCGATCACCCTATGTAGGGAATAGGTCACCCATTGACAGGATCTA
*
9931932 TTAGCCTTGAATTGATCCTTATTTTGAAATGACAAAACATTAAAGATAAATAAACTTGATCAAAA
1 TTAGCCTTGAATGGATCCTTATTTTGAAATGACAAAACATT-AAGATAAATAAACTTGATCAAAA
*
9931997 TTTTGAAAAAGATTTATTTAGTACATGTTCTTAAGTTTTATATTTTGGTACTAAATAAATAATAA
65 TTTTGAAAAAGATTTATTTAGTACATGTTCTTAAGGTTTATATTTTGGTACTAAATAAATAATAA
*
9932062 GATTTTCAAAGTTTAAACAAACC-TTTCT-TGGTTTCATATTTATCAAACCAAATCTATCTTTAA
130 GATTTTCAAAGTTTAAACAAACCTTTTCTATGGTTTCATATTTATCAAACCAAAACTATCTTTAA
* * *
9932125 AGATTATTTATTTGAGCTTAAATGAAAGTCCAATTGTTGTTTTTAAAGTGAATTTATTTATTTTG
195 ACATTATTTATTTGAGCTTAAATG--A----AATTGTTGTTTTTAAAGTGAACTTATTCA-TTTG
* *
9932190 GACTTAATACAATTTTGATAATATTGGTTTTGAGAAAAAGATTAACTTAAGAAAGCTATTTTACA
253 GACTCAATACAATTTTGACAATATTGGTTTTGAGAAAAAGATTAACTTAAGAAAGCTATTTTACA
* *
9932255 AAAACAAAGTTTTCCAACATTGAACTTGTTTTATTTTTCTGTATTAATTTACAAAG-TCTTAATA
318 AAAACAAAGTTTTCCAACATTGAACTTGCTTTATTTTTCTGTATTAATTCACAAAGCT-TTAATA
* *
9932319 TTTGAATTTTATATAGTTGAAAAGCTCTTTGAGTCTACTTTATAATAGATCAAACAAAATTAAAA
382 TTTGAATTTTATATAGTCGAAAAGCTCTTTGAGTCTACTTTATAATAGATCAAACAAAATCAAAA
* *
9932384 ACCAAATTTTTTAAGAAAAGATTTTGAATTTTTACTAGACACTCTGCAGTTGTTAGAAAAACTGC
447 ACCAAATTTTTTAAGAAAAAATTTTAAATTTTTACTAGACACTCTGCAGTTGTTA-AAAAACTGC
* * ** *
9932449 ATAAGGGGTAACTTTGAAAATTCACTATAATTCATACTTAATGAATTAGGTGATGAATTTTATAT
511 ACAAAGGGTAACTTTGAAAATTCACTATAATTCATACAAAATAAATTAGGTGATGAATTTTATAT
* * *
9932514 GGACAGAAAACCCTTTAACTCTTGTTTCTAAATCTTTAAACTGTTTGTAATTTGGATTCGTATGA
576 GGACAGAAAACACTTTAACTCTAGTTTCTAAATCTTTAAACTGTTTGTAATTTGGATTCGTATAA
*
9932579 CTCAAGATATGATCAAATTAGT
641 CACAAGATATGATCAAATTAGT
9932601 AGGTAGAGTG
Statistics
Matches: 594, Mismatches: 62, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
824 52 0.09
825 4 0.01
826 1 0.00
827 40 0.07
828 106 0.18
830 28 0.05
831 225 0.38
832 47 0.08
833 90 0.15
834 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (826 bp):
TTAGCCTTGAATGGATCCTTATTTTGAAATGACAAAACATTAAGATAAATAAACTTGATCAAAAT
TTTGAAAAAGATTTATTTAGTACATGTTCTTAAGGTTTATATTTTGGTACTAAATAAATAATAAG
ATTTTCAAAGTTTAAACAAACCTTTTCTATGGTTTCATATTTATCAAACCAAAACTATCTTTAAA
CATTATTTATTTGAGCTTAAATGAAATTGTTGTTTTTAAAGTGAACTTATTCATTTGGACTCAAT
ACAATTTTGACAATATTGGTTTTGAGAAAAAGATTAACTTAAGAAAGCTATTTTACAAAAACAAA
GTTTTCCAACATTGAACTTGCTTTATTTTTCTGTATTAATTCACAAAGCTTTAATATTTGAATTT
TATATAGTCGAAAAGCTCTTTGAGTCTACTTTATAATAGATCAAACAAAATCAAAAACCAAATTT
TTTAAGAAAAAATTTTAAATTTTTACTAGACACTCTGCAGTTGTTAAAAAACTGCACAAAGGGTA
ACTTTGAAAATTCACTATAATTCATACAAAATAAATTAGGTGATGAATTTTATATGGACAGAAAA
CACTTTAACTCTAGTTTCTAAATCTTTAAACTGTTTGTAATTTGGATTCGTATAACACAAGATAT
GATCAAATTAGTGAGTAAAGTGCAAAATAAAAAACAACCATCCAGCTTTGACAAGATCGATCCCT
TTAAGGAACGAATCGATTGATTTTTTTACCTAGAAGCAAAATTTGTTTTGGAATGTTATAAAGGG
ATCGATCACCCTATGTAGGGAATAGGTCACCCATTGACAGGATCTA
Found at i:9935162 original size:20 final size:18
Alignment explanation
Indices: 9935137--9935174 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 18
9935127 TGAAATTTTA
9935137 GAAAAAGAAAATTTTAATTT
1 GAAAAAG-AAA-TTTAATTT
9935157 GAAAAAGAAATTTAATTT
1 GAAAAAGAAATTTAATTT
9935175 TTGATGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 3 0.17
20 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (18 bp):
GAAAAAGAAATTTAATTT
Done.