Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 39 of 213
Found at i:10276406 original size:88 final size:88
Alignment explanation
Indices: 10276160--10276406 Score: 293
Period size: 88 Copynumber: 2.8 Consensus size: 88
10276150 TACCATAGCG
* * * * *
10276160 AATCTTATCTCCCTGAAGTTACAGTGGAGCATATTGAAGCTACAAATCTTATCTCGCTGAAGCTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-TACAAATCTTATCTCCCTGAAGTTG
* *
10276225 CAAT-GAAGTAGATTGAAGCGACA
65 CAGTGGAAGCAGATTGAAGCGACA
* * *
10276248 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTTACAAATCTTATCTCCCTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-TACAAATCTTATCTCCCTGAAGTTG
* *
10276313 TAGTGGAA-CAGATTGAAGCTACA
65 CAGTGGAAGCAGATTGAAGCGACA
* * * *
10276336 AATCTTATCTCGCTGAAGTTGCAGTGGAATAGATTGAAGTGACAAATCCTATAC-CTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGT-ACAAATCTTAT-CTCCCTGAAGTT
10276400 GCAGTGG
64 GCAGTGG
10276407 GTTGGATTAA
Statistics
Matches: 135, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
87 1 0.01
88 130 0.96
89 4 0.03
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTACAAATCTTATCTCCCTGAAGTTGC
AGTGGAAGCAGATTGAAGCGACA
Found at i:10276417 original size:132 final size:132
Alignment explanation
Indices: 10276160--10276406 Score: 381
Period size: 132 Copynumber: 1.9 Consensus size: 132
10276150 TACCATAGCG
* * *
10276160 AATCTTATCTCCCTGAAGTTACAGTGGAGCATATTGAAGCTACAAATCTTATCTCGCTGAAGCTG
1 AATCTTATCTCCCTAAAGTTACAGTGGAACAGATTGAAGCTACAAATCTTATCTCGCTGAAGCTG
*
10276225 CAATGAAGTAGATTGAAGCGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTTA
66 CAATGAAGTAGATTGAAGCGACAAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTTA
10276290 CA
131 CA
* *
10276292 AATCTTATCTCCCTAAAGTTATAGTGGAACAGATTGAAGCTACAAATCTTATCTCGCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTACAGTGGAACAGATTGAAGCTACAAATCTTATCTCGCTGAAGCTG
* * *
10276357 CAGTGGAA-TAGATTGAAGTGACAAATCCTATAC-CTCTGAAGTTGCAGTGG
66 CAAT-GAAGTAGATTGAAGCGACAAATCCTAT-CTCCCTGAAGTTGCAGTGG
10276407 GTTGGATTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
132 100 0.96
133 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (132 bp):
AATCTTATCTCCCTAAAGTTACAGTGGAACAGATTGAAGCTACAAATCTTATCTCGCTGAAGCTG
CAATGAAGTAGATTGAAGCGACAAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTTA
CA
Found at i:10283910 original size:15 final size:15
Alignment explanation
Indices: 10283890--10283923 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10283880 TACAGGGAAC
10283890 ACACGGC-TAGACTAT
1 ACACGGCTTAGAC-AT
10283905 ACACGGCTTAGACAT
1 ACACGGCTTAGACAT
10283920 ACAC
1 ACAC
10283924 CTGTGTGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (15 bp):
ACACGGCTTAGACAT
Found at i:10284711 original size:21 final size:22
Alignment explanation
Indices: 10284687--10284758 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 22
10284677 ACACATGTGC
10284687 TAAA-TGAAAACCCATAAGGGT
1 TAAACTGAAAACCCATAAGGGT
* *
10284708 TAAACTG--AACCTCAAAAGAGCT
1 TAAACTGAAAACC-CATAAG-GGT
*
10284730 T-AAC-AAAAACCCATAAGGGT
1 TAAACTGAAAACCCATAAGGGT
10284750 TAAACTGAA
1 TAAACTGAA
10284759 GCTCAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 13
0.67 0.11 0.23
Matches are distributed among these distances:
20 7 0.18
21 20 0.53
22 11 0.29
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.18
Consensus pattern (22 bp):
TAAACTGAAAACCCATAAGGGT
Found at i:10284791 original size:42 final size:42
Alignment explanation
Indices: 10284693--10284795 Score: 134
Period size: 42 Copynumber: 2.5 Consensus size: 42
10284683 GTGCTAAATG
* * *
10284693 AAAACCCATAAGGGTTAAACTGAACCTCAAAAGAGCTTAACA
1 AAAACCCATAAGGGTTAAACTGAACCTCAAAAAAACTGAACA
* *
10284735 AAAACCCATAAGGGTTAAACTGAAGCTCAAAAAAACTGAACT
1 AAAACCCATAAGGGTTAAACTGAACCTCAAAAAAACTGAACA
* * *
10284777 GAAACTCATTAGGGTTAAA
1 AAAACCCATAAGGGTTAAA
10284796 TGGAAACTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.48, C:0.18, G:0.16, T:0.18
Consensus pattern (42 bp):
AAAACCCATAAGGGTTAAACTGAACCTCAAAAAAACTGAACA
Found at i:10288791 original size:3 final size:3
Alignment explanation
Indices: 10288783--10288844 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
10288773 ACATGGTTGG
10288783 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10288831 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
10288845 GGGAATGAAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10298776 original size:16 final size:13
Alignment explanation
Indices: 10298743--10298768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10298733 CTCTATTGTG
10298743 GTGGGAGCTGCCC
1 GTGGGAGCTGCCC
10298756 GTGGGAGCTGCCC
1 GTGGGAGCTGCCC
10298769 AGGCTGGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.31, G:0.46, T:0.15
Consensus pattern (13 bp):
GTGGGAGCTGCCC
Found at i:10299038 original size:11 final size:11
Alignment explanation
Indices: 10298987--10299039 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
10298977 AATTTTATGA
10298987 TTTTTAATTAAT
1 TTTTTAA-TAAT
* *
10298999 TTCTTAACAAT
1 TTTTTAATAAT
*
10299010 TTTTATACATGAT
1 TTTT-TA-ATAAT
10299023 TTTTTAATAAT
1 TTTTTAATAAT
10299034 TTTTTA
1 TTTTTA
10299040 TGGTTTTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
11 16 0.48
12 10 0.30
13 7 0.21
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (11 bp):
TTTTTAATAAT
Found at i:10299993 original size:200 final size:200
Alignment explanation
Indices: 10299650--10300046 Score: 740
Period size: 200 Copynumber: 2.0 Consensus size: 200
10299640 GTTGATTGCA
* *
10299650 AGGAGTAGTGCTCAAGGTTGCTAATGAGGAAGAAGATTCCTTTCTCATCGTCTTAAAAGGTATTT
1 AGGAGTAGTGCTCAAGGTTGCTAATGAGGAAGAAGATCCCTTTCTCATCATCTTAAAAGGTATTT
*
10299715 ATAGGAGAAGTCCTCTTGTCTAGTAGTGGTGACATGGTAGGTTGTTATAAAGAAGTTGTCATCAT
66 ATAGGAGAAGTCCTCTTGTCTAGTAGTGGTGACATGGTAGGTTGTTATAAAAAAGTTGTCATCAT
*
10299780 TGAGTAGGTGAGGACATATAAGGTAGGGCCCATTCTATTATTCCTTTTGAAAGAGTACGGGATTA
131 TGAGTAGGTGAGGACATATAAGGTAGGGCCCATTCTATTATTCCTTTTGAAAGAGTACGAGATTA
10299845 TTTAT
196 TTTAT
10299850 AGGAGTAGTGCTCAAGGTTGCTAATGAGGAAGAAGATCCCTTTCTCATCATCTTAAAAGGTATTT
1 AGGAGTAGTGCTCAAGGTTGCTAATGAGGAAGAAGATCCCTTTCTCATCATCTTAAAAGGTATTT
10299915 ATAGGAGAAGTCCTCTTGTCTAGTAGTGGTGACATGGTAGGTTGTTATAAAAAAGTTGTCATCAT
66 ATAGGAGAAGTCCTCTTGTCTAGTAGTGGTGACATGGTAGGTTGTTATAAAAAAGTTGTCATCAT
* *
10299980 TGAGTAGGTGAGGACGTATAAGGTAGGGCCCATTCTATTATTCCTTTTGAGAGAGTACGAGATTA
131 TGAGTAGGTGAGGACATATAAGGTAGGGCCCATTCTATTATTCCTTTTGAAAGAGTACGAGATTA
10300045 TT
196 TT
10300047 ATGTTTATTT
Statistics
Matches: 191, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 191 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (200 bp):
AGGAGTAGTGCTCAAGGTTGCTAATGAGGAAGAAGATCCCTTTCTCATCATCTTAAAAGGTATTT
ATAGGAGAAGTCCTCTTGTCTAGTAGTGGTGACATGGTAGGTTGTTATAAAAAAGTTGTCATCAT
TGAGTAGGTGAGGACATATAAGGTAGGGCCCATTCTATTATTCCTTTTGAAAGAGTACGAGATTA
TTTAT
Found at i:10301120 original size:8 final size:8
Alignment explanation
Indices: 10301106--10301151 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
10301096 AATTATGTTT
10301106 TTATATTA
1 TTATATTA
10301114 -TATTATTA
1 TTA-TATTA
10301122 TTA-ATATA
1 TTATAT-TA
*
10301130 TCATATTA
1 TTATATTA
10301138 TTATATTA
1 TTATATTA
10301146 TTATAT
1 TTATAT
10301152 ATATGACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
7 4 0.12
8 24 0.75
9 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATATTA
Found at i:10301221 original size:40 final size:40
Alignment explanation
Indices: 10301164--10301259 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
10301154 ATGACAAAGA
10301164 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
10301205 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
10301245 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
10301260 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:10302557 original size:24 final size:24
Alignment explanation
Indices: 10302515--10302622 Score: 132
Period size: 24 Copynumber: 4.5 Consensus size: 24
10302505 ACTTTAGCGC
*
10302515 GCTCTATGATTATTAGCACGTTGGT
1 GCTCTCTGA-TATTAGCACGTTGGT
10302540 GCTCTCTGATATTAGCACGTTGGT
1 GCTCTCTGATATTAGCACGTTGGT
**
10302564 GCTCTCTGATATTTAGCACGTCAGT
1 GCTCTCTGATA-TTAGCACGTTGGT
* *
10302589 GCTCTCTG-T-TTAGCACATTTGT
1 GCTCTCTGATATTAGCACGTTGGT
10302611 GCTCTCTG-TATT
1 GCTCTCTGATATT
10302623 TGTTCCGTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
22 19 0.25
23 2 0.03
24 27 0.36
25 27 0.36
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (24 bp):
GCTCTCTGATATTAGCACGTTGGT
Found at i:10302580 original size:49 final size:46
Alignment explanation
Indices: 10302527--10302623 Score: 131
Period size: 47 Copynumber: 2.0 Consensus size: 46
10302517 TCTATGATTA
** *
10302527 TTAGCACGTTGGTGCTCTCTGATATTAGCACGTTGGTGCTCTCTGATAT
1 TTAGCACGTCAGTGCTCTCTG-T-TTAGCACATTGGTGCTCTCTG-TAT
*
10302576 TTAGCACGTCAGTGCTCTCTGTTTAGCACATTTGTGCTCTCTGTAT
1 TTAGCACGTCAGTGCTCTCTGTTTAGCACATTGGTGCTCTCTGTAT
10302622 TT
1 TT
10302624 GTTCCGTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 5 0.11
47 19 0.43
48 1 0.02
49 19 0.43
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (46 bp):
TTAGCACGTCAGTGCTCTCTGTTTAGCACATTGGTGCTCTCTGTAT
Found at i:10308110 original size:33 final size:32
Alignment explanation
Indices: 10308043--10308106 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
10308033 TTGAGGGTAT
* *
10308043 TTTAGTTTTTTCATTTAAAACAAAACAACAAA
1 TTTAATTTTTTCATTTAAAAAAAAACAACAAA
10308075 TTTAATTTTTTCATTTAAAAAAAAACAACAAA
1 TTTAATTTTTTCATTTAAAAAAAAACAACAAA
10308107 ATTTTGCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.38
Consensus pattern (32 bp):
TTTAATTTTTTCATTTAAAAAAAAACAACAAA
Found at i:10308420 original size:9 final size:10
Alignment explanation
Indices: 10308392--10308423 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
10308382 TATTTTGATT
10308392 TTAACAAAAA
1 TTAACAAAAA
10308402 TTAACAAAAA
1 TTAACAAAAA
*
10308412 TTAATAAAAA
1 TTAACAAAAA
10308422 TT
1 TT
10308424 TGCATAAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (10 bp):
TTAACAAAAA
Found at i:10310187 original size:5 final size:5
Alignment explanation
Indices: 10310182--10310211 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
10310172 ACAAAATAGA
*
10310182 ACAGA ACAGC ACAGC ACAGC ACAGC ACAGC
1 ACAGC ACAGC ACAGC ACAGC ACAGC ACAGC
10310212 GAGGGCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.43, C:0.37, G:0.20, T:0.00
Consensus pattern (5 bp):
ACAGC
Found at i:10311165 original size:9 final size:9
Alignment explanation
Indices: 10311100--10311168 Score: 59
Period size: 9 Copynumber: 7.4 Consensus size: 9
10311090 TTAAAGGGTT
10311100 TTTTTATACA
1 TTTTTATA-A
*
10311110 -TTTTATATT
1 TTTTTATA-A
*
10311119 TTTTTATGA
1 TTTTTATAA
10311128 TTTTTATAAA
1 TTTTTAT-AA
* *
10311138 ATTTTACAA
1 TTTTTATAA
10311147 TTTTTATAA
1 TTTTTATAA
*
10311156 TTTTTCTAA
1 TTTTTATAA
10311165 TTTT
1 TTTT
10311169 AAAAAAATTT
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
9 35 0.74
10 12 0.26
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:10311509 original size:78 final size:83
Alignment explanation
Indices: 10311317--10311524 Score: 230
Period size: 84 Copynumber: 2.6 Consensus size: 83
10311307 TCAAAAGACC
* * * *
10311317 TTTTTGATGCATTTTGACAAA-TCAAATACCTAATTAAGTGCAAAAAAATGAGCTTAATTGCTTT
1 TTTTTGATACATTTTGA-AAATTCAAATACCCAATTGAGTGCAAAAAAAGGAGCTTAATT-CTTT
* *
10311381 TTTTTGAATTTTAAGGGCTT
64 TTTTTGAATTTTAAGAGCTA
* * * * * *
10311401 TTTTTTATACATTTTGAAAGTTTAAGTACCCAATTGAGTGAAAAAAAAGGGGCTTAA-T-TTTTT
1 TTTTTGATACATTTTGAAAATTCAAATACCCAATTGAGTGCAAAAAAAGGAGCTTAATTCTTTTT
*
10311464 TTT-AA-TTTGAGAGC-A
66 TTTGAATTTTAAGAGCTA
*
10311479 TTTTTGATACATTTTGAAAATTCAATTACCCAATTGAGTGCAAAAA
1 TTTTTGATACATTTTGAAAATTCAAATACCCAATTGAGTGCAAAAA
10311525 TAAAAGCAAT
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
78 41 0.39
79 7 0.07
80 2 0.02
81 8 0.08
83 3 0.03
84 44 0.42
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.40
Consensus pattern (83 bp):
TTTTTGATACATTTTGAAAATTCAAATACCCAATTGAGTGCAAAAAAAGGAGCTTAATTCTTTTT
TTTGAATTTTAAGAGCTA
Found at i:10314311 original size:13 final size:12
Alignment explanation
Indices: 10314295--10314349 Score: 53
Period size: 13 Copynumber: 4.7 Consensus size: 12
10314285 GTCTTTATTC
10314295 TCTTTTTTTCATT
1 TCTTTTTTTCA-T
*
10314308 TCTTTTTCTTTAT
1 TCTTTTT-TTCAT
10314321 TCTTTTTTT-A-
1 TCTTTTTTTCAT
*
10314331 T-TTTTTTTCTT
1 TCTTTTTTTCAT
10314342 TCTTTTTT
1 TCTTTTTT
10314350 CTGTTTAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 7 0.19
10 1 0.03
11 2 0.06
12 8 0.22
13 15 0.42
14 3 0.08
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (12 bp):
TCTTTTTTTCAT
Found at i:10314327 original size:14 final size:15
Alignment explanation
Indices: 10314280--10314328 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 15
10314270 GTTCCCACTT
*
10314280 TCTTTGTCTTTATTC
1 TCTTTTTCTTTATTC
*
10314295 TCTTTTT-TTCATT-
1 TCTTTTTCTTTATTC
10314308 TCTTTTTCTTTATTC
1 TCTTTTTCTTTATTC
10314323 T-TTTTT
1 TCTTTTT
10314329 TATTTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 7 0.24
14 15 0.52
15 7 0.24
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.76
Consensus pattern (15 bp):
TCTTTTTCTTTATTC
Found at i:10314334 original size:21 final size:21
Alignment explanation
Indices: 10314295--10314349 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 21
10314285 GTCTTTATTC
10314295 TCTTTTTTTCATTTCTTTTTCTTTAT
1 TCTTTTTTT-ATTT-TTTTTC---AT
*
10314321 TCTTTTTTTATTTTTTTTCTT
1 TCTTTTTTTATTTTTTTTCAT
10314342 TCTTTTTT
1 TCTTTTTT
10314350 CTGTTTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 9 0.32
24 6 0.21
25 4 0.14
26 9 0.32
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (21 bp):
TCTTTTTTTATTTTTTTTCAT
Found at i:10314346 original size:28 final size:28
Alignment explanation
Indices: 10314278--10314342 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
10314268 ACGTTCCCAC
*
10314278 TTTCTTTGTCTTTATTCTCTTTTTTTCA
1 TTTCTTTTTCTTTATTCTCTTTTTTTCA
10314306 TTTCTTTTTCTTTA-T-TCTTTTTTT-A
1 TTTCTTTTTCTTTATTCTCTTTTTTTCA
10314331 TTT-TTTTTCTTT
1 TTTCTTTTTCTTT
10314343 CTTTTTTCTG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 9 0.25
25 4 0.11
26 9 0.25
27 1 0.03
28 13 0.36
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (28 bp):
TTTCTTTTTCTTTATTCTCTTTTTTTCA
Found at i:10314349 original size:11 final size:12
Alignment explanation
Indices: 10314298--10314351 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 12
10314288 TTTATTCTCT
10314298 TTTTTTC-ATTTC
1 TTTTTTCTA-TTC
*
10314310 TTTTTCTTTATTC
1 TTTTT-TCTATTC
10314323 TTTTTT-TATT-
1 TTTTTTCTATTC
10314333 TTTTTTCT-TTC
1 TTTTTTCTATTC
10314344 TTTTTTCT
1 TTTTTTCT
10314352 GTTTAGATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
10 8 0.22
11 13 0.35
12 6 0.16
13 9 0.24
14 1 0.03
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTTCTATTC
Found at i:10314361 original size:28 final size:28
Alignment explanation
Indices: 10314312--10314366 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
10314302 TTCATTTCTT
* ** *
10314312 TTTCTTTATTCTTTTTTTATTTTTTTTC
1 TTTCTTTATTCTGTTTAGATTTGTTTTC
*
10314340 TTTCTTTTTTCTGTTTAGATTTGTTTT
1 TTTCTTTATTCTGTTTAGATTTGTTTT
10314367 GGTTTTCAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.78
Consensus pattern (28 bp):
TTTCTTTATTCTGTTTAGATTTGTTTTC
Found at i:10314998 original size:41 final size:41
Alignment explanation
Indices: 10314908--10314986 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
10314898 TAATCTACAT
* ** *
10314908 CACACGGACGTGTGGTTAGTCGTGTGTCAGGCCGTGTGCGC
1 CACACGGACGTGTGGTCAACCGTGTGCCAGGCCGTGTGCGC
*
10314949 CACACGGACGTGTGGTCAACCGTGTGCCAGGTCGTGTG
1 CACACGGACGTGTGGTCAACCGTGTGCCAGGCCGTGTG
10314987 GAGCACACGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.14, C:0.25, G:0.38, T:0.23
Consensus pattern (41 bp):
CACACGGACGTGTGGTCAACCGTGTGCCAGGCCGTGTGCGC
Found at i:10316627 original size:53 final size:52
Alignment explanation
Indices: 10316547--10316705 Score: 194
Period size: 53 Copynumber: 3.0 Consensus size: 52
10316537 CCATGGCACT
* * *
10316547 GAAGACTATATTCTGTAAGACCGTAACTGGTTGGTTATGGAATCATATGGAAA
1 GAAGACAATA-TCTGTAAGACCATAACTGGTGGGTTATGGAATCATATGGAAA
* *
10316600 GAAGACAATATCGTGTAAGACCATAACTGGTGGGTCATGAAATCATATGGAAA
1 GAAGACAATATC-TGTAAGACCATAACTGGTGGGTTATGGAATCATATGGAAA
* * * *
10316653 GAATACCATATCATGTAAGACCATAATTGATGGGTTAT-GACATCATATGGAAA
1 GAAGACAATATC-TGTAAGACCATAACTGGTGGGTTATGGA-ATCATATGGAAA
10316706 ATTTAAGAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
52 3 0.03
53 89 0.97
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (52 bp):
GAAGACAATATCTGTAAGACCATAACTGGTGGGTTATGGAATCATATGGAAA
Found at i:10316899 original size:27 final size:29
Alignment explanation
Indices: 10316856--10316922 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 29
10316846 AAGGATACGT
* *
10316856 CTTTGTGGCGA-ACCTCTTA-AAGG-ATGC
1 CTTTGTAGCGAGACCTC-TAGAAGGAAAGC
*
10316883 CTTTGTTGCGAGA-CTCTAGAAGGAAAGC
1 CTTTGTAGCGAGACCTCTAGAAGGAAAGC
10316911 CTTTGTAGCGAG
1 CTTTGTAGCGAG
10316923 TACTTAATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.06
27 17 0.50
28 15 0.44
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (29 bp):
CTTTGTAGCGAGACCTCTAGAAGGAAAGC
Found at i:10320834 original size:8 final size:8
Alignment explanation
Indices: 10320821--10320854 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
10320811 AAACCCTAAA
10320821 TTTCTTCT
1 TTTCTTCT
10320829 TTTCTTCT
1 TTTCTTCT
10320837 TTTCTT-T
1 TTTCTTCT
10320844 TTTCTTTCT
1 TTTC-TTCT
10320853 TT
1 TT
10320855 CTTTCTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 5 0.21
8 16 0.67
9 3 0.12
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTCTTCT
Found at i:10320842 original size:16 final size:16
Alignment explanation
Indices: 10320821--10320858 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
10320811 AAACCCTAAA
10320821 TTTCTTCTTTTC-TTCT
1 TTTCTT-TTTTCTTTCT
10320837 TTTCTTTTTTCTTTC-
1 TTTCTTTTTTCTTTCT
10320852 TTTCTTT
1 TTTCTTT
10320859 CTCCTTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTTTTTCTTTCT
Found at i:10320968 original size:16 final size:17
Alignment explanation
Indices: 10320938--10320970 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10320928 TTGTTTATTA
*
10320938 TTTAATAAATGTAATAT
1 TTTAATAAATATAATAT
10320955 TTTAAT-AATATAATAT
1 TTTAATAAATATAATAT
10320971 AATAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTAATAAATATAATAT
Found at i:10328359 original size:21 final size:22
Alignment explanation
Indices: 10328321--10328363 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
10328311 AGTATGTTAT
10328321 GTCGTGACGAGAAACCCCCAAC
1 GTCGTGACGAGAAACCCCCAAC
*
10328343 GTCGTGATGAG-AACCCCCAAC
1 GTCGTGACGAGAAACCCCCAAC
10328364 ATCCTGACAT
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:0.30, C:0.35, G:0.23, T:0.12
Consensus pattern (22 bp):
GTCGTGACGAGAAACCCCCAAC
Found at i:10336634 original size:37 final size:37
Alignment explanation
Indices: 10336584--10336659 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
10336574 TCACGAGTTC
10336584 CTTTAGCTGATTCTATGAAAGAGGTGGTGAAGCTTAA
1 CTTTAGCTGATTCTATGAAAGAGGTGGTGAAGCTTAA
*
10336621 CTTTAGCTGATTCTATGGAAGAGGTGGTGAAGCTTAA
1 CTTTAGCTGATTCTATGAAAGAGGTGGTGAAGCTTAA
10336658 CT
1 CT
10336660 CTTCTAAACT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (37 bp):
CTTTAGCTGATTCTATGAAAGAGGTGGTGAAGCTTAA
Found at i:10338448 original size:228 final size:228
Alignment explanation
Indices: 10338051--10338500 Score: 695
Period size: 228 Copynumber: 2.0 Consensus size: 228
10338041 AAGAGTGGCC
* *
10338051 ACTGATGAATAAATTAAAAAGGCTTTGTTTGACATGGCTCCTCCAAAAGCTCCGGGTAGTAATGA
1 ACTGATGAATAAATTAAAAAGGCTTTGTTTGACATGGCTCCTCCAAAAGCTCCGGGCAGTAATAA
* * * * * * *
10338116 CTTTTATGCCCTCTTTTTCCAGGAGCAGTGGGGTACAATGGGCCCAGCTGTTTGTTATTAGGTGA
66 CTTTCATGCCCTCTTCTTCCAGAAACAGTAGGGTACAATGGGCCCAGCTATTTGTGATTAGGTGA
*
10338181 AAATGGTATTTAATGGAGGCATTATTGATACTAAGCTTAATAACACATTGATTATTCTTATTCCC
131 AAATGGTATTTAATGGAGGCATTATTGATAATAAGCTTAATAACACATTGATTATTCTTATTCCC
10338246 AAGTTTTAGAGTCATGAA-GGGTTTTCTGTGGTT
196 AAGTTTTAGAGTCAT-AAGGGGTTTTCTGTGGTT
* * * *
10338279 ACTGATGAATAAATTAAAAAGGTTTTGTTTGACATGGCTCCTCTAAAAGCTCTGGGCAGTAGTAA
1 ACTGATGAATAAATTAAAAAGGCTTTGTTTGACATGGCTCCTCCAAAAGCTCCGGGCAGTAATAA
* * *
10338344 CTTTCATGCCCTCTTCTTCTAGAAACAGTAGGGTACAGTGGGCCCAGCTATTTGTGATTGGGTGA
66 CTTTCATGCCCTCTTCTTCCAGAAACAGTAGGGTACAATGGGCCCAGCTATTTGTGATTAGGTGA
* * *
10338409 AAATGGTATTTAATGGAGGCGTTATTGATAATGAGCTTAATAACACATTGATTGTTCTTATTCCC
131 AAATGGTATTTAATGGAGGCATTATTGATAATAAGCTTAATAACACATTGATTATTCTTATTCCC
*
10338474 AAGTTTTAGAGTCCTAAGGGGTTTTCT
196 AAGTTTTAGAGTCATAAGGGGTTTTCT
10338501 TAGTTTTTTC
Statistics
Matches: 200, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
227 2 0.01
228 198 0.99
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.35
Consensus pattern (228 bp):
ACTGATGAATAAATTAAAAAGGCTTTGTTTGACATGGCTCCTCCAAAAGCTCCGGGCAGTAATAA
CTTTCATGCCCTCTTCTTCCAGAAACAGTAGGGTACAATGGGCCCAGCTATTTGTGATTAGGTGA
AAATGGTATTTAATGGAGGCATTATTGATAATAAGCTTAATAACACATTGATTATTCTTATTCCC
AAGTTTTAGAGTCATAAGGGGTTTTCTGTGGTT
Found at i:10340458 original size:17 final size:17
Alignment explanation
Indices: 10340436--10340468 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10340426 ATATTTAATA
10340436 TATATTTTATTAAAAAG
1 TATATTTTATTAAAAAG
10340453 TATATTTTATTAAAAA
1 TATATTTTATTAAAAA
10340469 TAAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATTTTATTAAAAAG
Found at i:10342321 original size:17 final size:18
Alignment explanation
Indices: 10342301--10342342 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
10342291 CATAATTTTT
10342301 AAATATAAAATATTTA-A
1 AAATATAAAATATTTATA
*
10342318 AAAT-TGAAAATGTTTATA
1 AAATAT-AAAATATTTATA
10342336 AAATATA
1 AAATATA
10342343 TTTATAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 1 0.05
17 13 0.62
18 6 0.29
19 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AAATATAAAATATTTATA
Found at i:10350081 original size:7 final size:8
Alignment explanation
Indices: 10350052--10350081 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
10350042 AAGTATAAAA
10350052 ATTTTAAT
1 ATTTTAAT
10350060 ATTTTAAT
1 ATTTTAAT
10350068 ATTTTAAT
1 ATTTTAAT
10350076 -TTTTAA
1 ATTTTAA
10350082 AAATTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
ATTTTAAT
Found at i:10351199 original size:24 final size:25
Alignment explanation
Indices: 10351171--10351217 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
10351161 TTTAATTAAG
*
10351171 TTTTTAAAATTAGATCC-TAATATT
1 TTTTTAAAATTAAATCCTTAATATT
10351195 TTTTTAAAATTAAATCCTTAATA
1 TTTTTAAAATTAAATCCTTAATA
10351218 CCACGCCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTTTAAAATTAAATCCTTAATATT
Found at i:10351255 original size:4 final size:4
Alignment explanation
Indices: 10351246--10351273 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
10351236 AGAGTTGTCG
10351246 TAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT
10351274 ATAAATTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:10354505 original size:3 final size:3
Alignment explanation
Indices: 10354459--10354493 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
10354449 AACATAAACA
10354459 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10354494 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:10379284 original size:46 final size:46
Alignment explanation
Indices: 10379231--10379322 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
10379221 ATATTTGAAA
10379231 AGAAAAATGCCATTTCTTTCGATTTACAAAGACTTGTTGAAAATTT
1 AGAAAAATGCCATTTCTTTCGATTTACAAAGACTTGTTGAAAATTT
10379277 AGAAAAATGCCATTTCTTTCGATTTACAAAGACTTGTTGAAAATTT
1 AGAAAAATGCCATTTCTTTCGATTTACAAAGACTTGTTGAAAATTT
10379323 CTGGCATTCG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (46 bp):
AGAAAAATGCCATTTCTTTCGATTTACAAAGACTTGTTGAAAATTT
Found at i:10380666 original size:41 final size:41
Alignment explanation
Indices: 10380609--10380689 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
10380599 ACCTAATTGT
*
10380609 GAAAATAATTCCCTTATTCTGATAAACTACTAAAAGATAAG
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAG
10380650 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
10380690 AATAAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (41 bp):
GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAG
Found at i:10383815 original size:17 final size:18
Alignment explanation
Indices: 10383782--10383815 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10383772 CAGATTGTTA
10383782 AGATAATCAAGGAAATGG
1 AGATAATCAAGGAAATGG
*
10383800 AGATAA-CAAGGGAATG
1 AGATAATCAAGGAAATG
10383816 CAGGTTACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.06, G:0.29, T:0.15
Consensus pattern (18 bp):
AGATAATCAAGGAAATGG
Found at i:10384625 original size:34 final size:34
Alignment explanation
Indices: 10384563--10384633 Score: 124
Period size: 35 Copynumber: 2.1 Consensus size: 34
10384553 GAGAAAACAG
*
10384563 AAAGAAAATGGATCTTAGCACTTAAAAAAGCACA
1 AAAGAAAAGGGATCTTAGCACTTAAAAAAGCACA
10384597 AAAGAAAAAGGGATCTTAGCACTTAAAAAAGCACA
1 AAAG-AAAAGGGATCTTAGCACTTAAAAAAGCACA
10384632 AA
1 AA
10384634 TGGCACAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.55, C:0.14, G:0.15, T:0.15
Consensus pattern (34 bp):
AAAGAAAAGGGATCTTAGCACTTAAAAAAGCACA
Found at i:10390779 original size:24 final size:21
Alignment explanation
Indices: 10390747--10390799 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 21
10390737 TTAAGTTAAA
10390747 AAAATAGAATTATAATATAATTAT
1 AAAATAGAATTA-AAT-TAA-TAT
10390771 AAAATAGAATTAAATTAATAT
1 AAAATAGAATTAAATTAATAT
10390792 AAAATAGA
1 AAAATAGA
10390800 CGGATAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.38
22 3 0.10
23 3 0.10
24 12 0.41
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (21 bp):
AAAATAGAATTAAATTAATAT
Found at i:10422956 original size:13 final size:13
Alignment explanation
Indices: 10422934--10422966 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10422924 TGTTTCGTTA
10422934 TTTATCTTTATTT
1 TTTATCTTTATTT
*
10422947 TTTATTTTTATTT
1 TTTATCTTTATTT
10422960 TTT-TCTT
1 TTTATCTT
10422967 ACAAACGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 3 0.17
13 15 0.83
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTATCTTTATTT
Found at i:10424629 original size:218 final size:215
Alignment explanation
Indices: 10424273--10424692 Score: 651
Period size: 218 Copynumber: 1.9 Consensus size: 215
10424263 AAAAAAATTT
* * * *
10424273 AAAATAAGGTAATGTTTTGGGTTTGAAAATTCGAGGAAACGTGCCCTAATGTGTTGGGTTTCGAT
1 AAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
* * *
10424338 TTTCTCGTTCGATCAAATAGCCAAATATCCTTTTAAAATTTCAAAATAAGGTAATGTTTTGCGTT
66 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAATAAGGCAATGTTTTGAGTT
* *
10424403 TGGAAATTCGAGAAAACGTGCCCTAATGTGCCGGGTTTCGATTTTTCTCGTTCGATCAAATAGCC
131 TGGAAATTCGAGAAAACGTGCCCTAATGTGCCGGGTTTC-A-ATTTCTCGTTCGACCAAATAGCC
10424468 AAATATCCTTTTAAAATTTTCA
194 AAATATCCTTTTAAAATTTTCA
*
10424490 AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
1 AAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-
* * *
10424555 TTTTCTCGTTTGACCAAATAGCCGAATATCCTTTTAAAATTTTAAAATAAGGCAATGTTTTGAGT
65 TTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAATAAGGCAATGTTTTGAGT
* * ** *
10424620 TTGGAAATTCGAGGAAATGTGCCCTAATGTGTTGGGTTTCAATTTCTCGTTGGACCAAATAGCCA
130 TTGGAAATTCGAGAAAACGTGCCCTAATGTGCCGGGTTTCAATTTCTCGTTCGACCAAATAGCCA
10424685 AATATCCT
195 AATATCCT
10424693 CTTATATTTT
Statistics
Matches: 184, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
216 29 0.16
217 60 0.33
218 95 0.52
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (215 bp):
AAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAATAAGGCAATGTTTTGAGTT
TGGAAATTCGAGAAAACGTGCCCTAATGTGCCGGGTTTCAATTTCTCGTTCGACCAAATAGCCAA
ATATCCTTTTAAAATTTTCA
Found at i:10424656 original size:108 final size:107
Alignment explanation
Indices: 10424251--10424692 Score: 643
Period size: 110 Copynumber: 4.1 Consensus size: 107
10424241 TACGCATTTT
* * * * *
10424251 AATATCCTTTTAAAAAAAATTTAAAATAAGGTAATGTTTTGGGTTTGAAAATTCGAGGAAACGTG
1 AATATCCTTTT---AAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTG
* *
10424316 CCCTAATGTGTTGGGTTTCGATTTTCTCGTTCGATCAAATAGCCA
63 CCCTAATGTGCTGGGTTTCGATTTTCTCGTTCGACCAAATAGCCA
* *
10424361 AATATCCTTTTAAAATTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
1 AATATCCTTTTAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
* *
10424426 TAATGTGCCGGGTTTCGATTTTTCTCGTTCGATCAAATAGCCA
66 TAATGTGCTGGGTTTCGA-TTTTCTCGTTCGACCAAATAGCCA
10424469 AATATCCTTTTAAAATTTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGC
1 AATATCCTTTTAAAATTTT--AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGC
* *
10424534 CCTAATGTGCTGGGTTTCGATTTTTCTCGTTTGACCAAATAGCCG
64 CCTAATGTGCTGGGTTTCGA-TTTTCTCGTTCGACCAAATAGCCA
* * *
10424579 AATATCCTTTTAAAATTTTAAAATAAGGCAATGTTTTGAGTTTGGAAATTCGAGGAAATGTGCCC
1 AATATCCTTTTAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
* * *
10424644 TAATGTGTTGGGTTTC-AATTTCTCGTTGGACCAAATAGCCA
66 TAATGTGCTGGGTTTCGATTTTCTCGTTCGACCAAATAGCCA
10424685 AATATCCT
1 AATATCCT
10424693 CTTATATTTT
Statistics
Matches: 309, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
106 29 0.09
107 66 0.21
108 100 0.32
110 114 0.37
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (107 bp):
AATATCCTTTTAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
TAATGTGCTGGGTTTCGATTTTCTCGTTCGACCAAATAGCCA
Found at i:10425641 original size:16 final size:16
Alignment explanation
Indices: 10425620--10425654 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10425610 TGTTGTTTTG
* *
10425620 TTTTGACTGCATGGCA
1 TTTTGACTACATGACA
10425636 TTTTGACTACATGACA
1 TTTTGACTACATGACA
10425652 TTT
1 TTT
10425655 CATTAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (16 bp):
TTTTGACTACATGACA
Found at i:10436073 original size:44 final size:45
Alignment explanation
Indices: 10436016--10436142 Score: 134
Period size: 44 Copynumber: 2.9 Consensus size: 45
10436006 CAGCTTCGAA
* * *
10436016 TCCTATTTTCCTGAAATTGCAATGGAGCAGGTTGAAGAT-ACAAG
1 TCCTATTTCCCTGAAATTGCAGTGGAGTAGGTTGAAGATAACAAG
* ** *
10436060 TCTTATTTCCCTGAAGA-TGCAGTGGAGTAGACTGAAAATAACAAG
1 TCCTATTTCCCTGAA-ATTGCAGTGGAGTAGGTTGAAGATAACAAG
* * *
10436105 TCCTATCTCCCT-AAATAGTAGTGGAGTAGGTTGAAGAT
1 TCCTATTTCCCTGAAATTGCAGTGGAGTAGGTTGAAGAT
10436143 TGTAGATCTT
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
43 1 0.02
44 49 0.74
45 16 0.24
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (45 bp):
TCCTATTTCCCTGAAATTGCAGTGGAGTAGGTTGAAGATAACAAG
Found at i:10438781 original size:17 final size:18
Alignment explanation
Indices: 10438759--10438795 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
10438749 ATGAAGTGTA
10438759 AAGTATATATATC-ATAT
1 AAGTATATATATCTATAT
*
10438776 AAGTATTTATATCTATAT
1 AAGTATATATATCTATAT
10438794 AA
1 AA
10438796 AATAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
AAGTATATATATCTATAT
Found at i:10439983 original size:14 final size:13
Alignment explanation
Indices: 10439959--10439994 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
10439949 GCTATTGTCC
10439959 TCTGTTTTTTGCT
1 TCTGTTTTTTGCT
10439972 TCTGTCTTTTTGCT
1 TCTGT-TTTTTGCT
10439986 TCTGTTTTT
1 TCTGTTTTT
10439995 GCAGGAGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.00, C:0.17, G:0.14, T:0.69
Consensus pattern (13 bp):
TCTGTTTTTTGCT
Found at i:10441600 original size:218 final size:215
Alignment explanation
Indices: 10441233--10441652 Score: 671
Period size: 218 Copynumber: 1.9 Consensus size: 215
10441223 AAAAAAATTT
* * *
10441233 AAAATAAGGCAATTTTTTGGGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
1 AAAATAAGGCAATGTTCTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
*
10441298 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAATAAGGTAATGTTTTGCGTT
66 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAATAAGGCAATGTTTTGCGTT
** * *
10441363 TGGAAATTTTAGAAAACGTGCCCTAATGTG-TCGGGTTTCGATTTTTCTCGTTCGACCAAATAGC
131 TGGAAATTCGAGAAAACGTGCCCTAATGTGCT-GGGTTTC-A-ATTTCTCGATCGACCAAATAGC
10441427 CAAATATCCTTTTAAAAGTTTCA
193 CAAATATCCTTTTAAAAGTTTCA
*
10441450 AAAATAAGGCAATGTTCTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGAT
1 AAAATAAGGCAATGTTCTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-
*
10441515 TTTTCTCGTTCGACCAAATAGCCGAATATCCTTTTAAAATTTCAAAATAAGGCAATGTTTTGCGT
65 TTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAATAAGGCAATGTTTTGCGT
* ** *
10441580 TTGGAAATTCGAGGAAACGTGCGTTAATGTGCTGGGTTTCAATTTCTCGATGGACCAAATAGCCA
130 TTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTCTCGATCGACCAAATAGCCA
10441645 AATATCCT
195 AATATCCT
10441653 CTTATATCTT
Statistics
Matches: 187, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
216 29 0.16
217 61 0.33
218 96 0.51
219 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (215 bp):
AAAATAAGGCAATGTTCTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAATAAGGCAATGTTTTGCGTT
TGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTCTCGATCGACCAAATAGCCAA
ATATCCTTTTAAAAGTTTCA
Found at i:10441683 original size:108 final size:108
Alignment explanation
Indices: 10441226--10441652 Score: 666
Period size: 110 Copynumber: 4.0 Consensus size: 108
10441216 CTTTTTAAAA
* *
10441226 AAAATTT-AAAATAAGGCAATTTTTTGGGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
1 AAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
10441290 GTTTCGA-TTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
66 GTTTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
* **
10441332 AAAATTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTTTAGAAAACGTGCCCTAATGTG-TCG
1 AAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCT-G
10441396 GGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
65 GGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
* *
10441440 AAAAGTTTCAAAAATAAGGCAATGTTCTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTT
1 AAAA-TTTC-AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCT
*
10441505 GGGTTTCGATTTTTCTCGTTCGACCAAATAGCCGAATATCCTTTT
64 GGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
* **
10441550 AAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAAACGTGCGTTAATGTGCTGG
1 AAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
* * *
10441615 GTTTC-A-ATTTCTCGATGGACCAAATAGCCAAATATCCT
66 GTTTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCT
10441653 CTTATATCTT
Statistics
Matches: 296, Mismatches: 19, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
106 36 0.12
107 58 0.20
108 96 0.32
109 8 0.03
110 97 0.33
111 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (108 bp):
AAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
GTTTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
Found at i:10442440 original size:34 final size:35
Alignment explanation
Indices: 10442381--10442461 Score: 139
Period size: 34 Copynumber: 2.3 Consensus size: 35
10442371 TTTATTTATA
10442381 ATTT-TAATTTTTTCTAAATATTTTTTTATTAATTT
1 ATTTGTAA-TTTTTCTAAATATTTTTTTATTAATTT
10442416 ATTTGTAATTTTTCTAAATA-TTTTTTATTAATTT
1 ATTTGTAATTTTTCTAAATATTTTTTTATTAATTT
10442450 ATTTGTAATTTT
1 ATTTGTAATTTT
10442462 ACTTATTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
34 26 0.58
35 16 0.36
36 3 0.07
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (35 bp):
ATTTGTAATTTTTCTAAATATTTTTTTATTAATTT
Found at i:10442477 original size:34 final size:34
Alignment explanation
Indices: 10442381--10442477 Score: 117
Period size: 34 Copynumber: 2.8 Consensus size: 34
10442371 TTTATTTATA
*
10442381 ATTT-TAATTTTTTCTAAATATTTTTTTATTAATTT
1 ATTTGTAA-TTTTACTAAAT-TTTTTTTATTAATTT
* *
10442416 ATTTGTAATTTTTCTAAATATTTTTTATTAATTT
1 ATTTGTAATTTTACTAAATTTTTTTTATTAATTT
*
10442450 ATTTGTAATTTTACT-TATTTTTATTTAT
1 ATTTGTAATTTTACTAAATTTTT-TTTAT
10442478 ACACTATTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
33 5 0.09
34 33 0.59
35 15 0.27
36 3 0.05
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (34 bp):
ATTTGTAATTTTACTAAATTTTTTTTATTAATTT
Found at i:10457439 original size:13 final size:13
Alignment explanation
Indices: 10457421--10457455 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
10457411 GCCCAGCCCA
10457421 GCCTGAAATATGG
1 GCCTGAAATATGG
10457434 GCCTGAAATATGG
1 GCCTGAAATATGG
*
10457447 GCCTAAAAT
1 GCCTGAAAT
10457456 TTTGTCCAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (13 bp):
GCCTGAAATATGG
Found at i:10468882 original size:30 final size:30
Alignment explanation
Indices: 10468819--10468881 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
10468809 CGATTTCGCG
10468819 AAAAAT-GGCCCATTCCGGTAAATAATAAA
1 AAAAATCGGCCCATTCCGGTAAATAATAAA
* *
10468848 AAAAATCGGCCCATTTCGGTAAAT-TTAAA
1 AAAAATCGGCCCATTCCGGTAAATAATAAA
10468877 AAAAA
1 AAAAA
10468882 AACGGCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (30 bp):
AAAAATCGGCCCATTCCGGTAAATAATAAA
Found at i:10469849 original size:34 final size:31
Alignment explanation
Indices: 10469778--10469893 Score: 117
Period size: 34 Copynumber: 3.5 Consensus size: 31
10469768 GTTTAATATT
* *
10469778 TTTTTAAAAATTAATTAAATTAGATTTTAAGG
1 TTTTTAAAAAATAATTAAATTAGAGTTTAA-G
* *
10469810 GTTTTAAATAAATAAGTTAAATTAGGGTTTAGAG
1 TTTTTAAA-AAATAA-TTAAATTAGAGTTTA-AG
10469844 TTTTTAAGAAAATTAATTAAATTAGAGTTT-AG
1 TTTTTAA-AAAA-TAATTAAATTAGAGTTTAAG
10469876 TTTTTAAAAGAAATAATT
1 TTTTT-AAA-AAATAATT
10469894 TTGTGTTTAG
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
32 20 0.28
33 10 0.14
34 36 0.51
35 5 0.07
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.43
Consensus pattern (31 bp):
TTTTTAAAAAATAATTAAATTAGAGTTTAAG
Found at i:10470115 original size:126 final size:125
Alignment explanation
Indices: 10469956--10470349 Score: 508
Period size: 126 Copynumber: 3.1 Consensus size: 125
10469946 ATTTTGTTTT
* * * * *
10469956 TTTTTCTACAGTATTTTC-AGGAAAATTAATTTTGAGAAGATGATTCTGAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTTCTTGAAAAAATAATTTTGAGAAGATG-TTCTGAAAA-ATAGTGTCAAA
* *
10470020 AACGCTTCAAGCAGAATGCACTGTCAGCAAAATT-ACTGAAAAAAGCTCCTACGTGGACGCTA
64 AACGCTTCAAGCAGAATGCACTGTCAGCAAAATTGA-TGAAAAAAGCTCCTACATGGACGCTC
* * * * *
10470082 TTTTTTTATAGTAGTTTC-TGAAAAAATAATTTTGAAAAGACGGTTCTAAATAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTTCTTGAAAAAATAATTTTGAGAAGA-TGTTCTGAA-AAATAGTGTCAAA
* * *
10470146 AATGCTTCAAGCAGAATGCACTGTCAGCAAAATTGATGAAAAGAGCTCCTACTTGGACGCTC
64 AACGCTTCAAGCAGAATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCTACATGGACGCTC
* *
10470208 TTTTTCTACAATA-ATTCTTGAAAAAATAATTTTGAGAAGACTGTTCTGAACAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTTCTTGAAAAAATAATTTTGAGAAGA-TGTTCTGAA-AAATAGTGTCAAA
* * * *
10470272 AACGCTTCAAGCAGGATTCACTGTCAGCAAAATTGATGAAAAAAGCTTCTACATGGACACTC
64 AACGCTTCAAGCAGAATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCTACATGGACGCTC
10470334 TTTTTCTACAGTAGTT
1 TTTTTCTACAGTAGTT
10470350 CATGTTTGGC
Statistics
Matches: 232, Mismatches: 31, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
125 3 0.01
126 224 0.97
127 5 0.02
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTTCTTGAAAAAATAATTTTGAGAAGATGTTCTGAAAAATAGTGTCAAAAA
CGCTTCAAGCAGAATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCTACATGGACGCTC
Found at i:10478346 original size:25 final size:25
Alignment explanation
Indices: 10478312--10478361 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
10478302 TTGGATAAAA
10478312 AAGGGTTGCTAAGTGCAGATTCCCC
1 AAGGGTTGCTAAGTGCAGATTCCCC
*
10478337 AAGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGTTGCTAAGTGCAGATTCCCC
10478362 GAATTATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (25 bp):
AAGGGTTGCTAAGTGCAGATTCCCC
Found at i:10478442 original size:43 final size:44
Alignment explanation
Indices: 10478340--10478574 Score: 188
Period size: 42 Copynumber: 5.5 Consensus size: 44
10478330 ATTCCCCAAG
* * *
10478340 GGTTGCTAAGTGCTGATTCC-CCGAAT-TATTGACTCT-AAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCT-TTGATTGTGAAAGGT
* *
10478382 GGTTGCTAAGTGTTGATTCCACGGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGT
** * * *
10478425 GGTTGC-AATGTGCTGATTCC-CCGTATCACTCAATAT-AAAGGT
1 GGTTGCTAA-GTGCTGATTCCACCGTATCTTTGATTGTGAAAGGT
* *
10478467 GGTTGCTAAGTGCTGATTTCACTGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGT
* * **
10478510 GGTTGCTATGTGTTGATTCC-CCGTATCACTGAATT-T--AAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTTG-ATTGTGAAAGGT
* * *
10478551 GGTTACTAAGTGTTGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
10478575 AGTAATGGAT
Statistics
Matches: 154, Mismatches: 28, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
40 4 0.03
41 22 0.14
42 59 0.38
43 58 0.38
44 11 0.07
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (44 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGT
Found at i:10478484 original size:85 final size:84
Alignment explanation
Indices: 10478339--10478572 Score: 317
Period size: 85 Copynumber: 2.8 Consensus size: 84
10478329 GATTCCCCAA
* * * *
10478339 GGGTTGCTAA-GTGCTGATTCCCCGAATTATTGACTCTAAAGGTGGTTGCTAAGTGTTGATTCCA
1 GGGTTGC-AATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGTTGATTCCA
10478403 CGGTATCTTTGATTGTGAAAG
64 CGGTATCTTTGATTGTGAAAG
* * *
10478424 GGGTTGCAATGTGCTGATTCCCCGTATCACTCAATATAAAGGTGGTTGCTAAGTGCTGATTTCAC
1 GGGTTGCAATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGTTGATTCCAC
*
10478489 TGTATCTTTGATTGTGAAAG
65 GGTATCTTTGATTGTGAAAG
* * * * *
10478509 GGGTTGCTATGTGTTGATTCCCCGTATCACTGAATTTAAGGTGGTTACTAAGTGTTGAATCCAC
1 GGGTTGCAATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGTTGATTCCAC
10478573 CGAGTAATGG
Statistics
Matches: 131, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
84 26 0.20
85 105 0.80
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (84 bp):
GGGTTGCAATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGTTGATTCCACG
GTATCTTTGATTGTGAAAG
Found at i:10481659 original size:397 final size:396
Alignment explanation
Indices: 10480919--10481678 Score: 926
Period size: 397 Copynumber: 1.9 Consensus size: 396
10480909 TCTAGTGTCT
* *
10480919 TAAGTGTAGTATTTTCGTCTATATACAATTGTATTTTTTCAAACATATTAGCTAATAAAATTATT
1 TAAGTGTAGTATTTTCGTCAATATACAATTGTATTTTTTCAAACAGATTAGCTAATAAAATTATT
* **
10480984 CATGAATTACATTAATATCCTTTGTATATTATCCTCAATGGTTTTTGTATGCAAAGCAAAATGAA
66 CATGAATTACATTAATA-CCTTTGTATAATATCCTCAATGGTTTTTGTACACAAAGCAAAATGAA
* * * *
10481049 AGCAAATATTAGCTCATTGGTTGTCTAATGTTTAACTAATACTAAACGGTATTATGTGATTAGAT
130 AGCAAATATTAGCTCACTGGTTGTCTAATGTTTAACTAATACTAAACGATATTATATGATCAGAT
* * * * * *
10481114 CGTAATACAGAAAGATAGTTTATATTAGAAGATGAACCTAAAGATATCCTTAATTTGATATAAAA
195 CGTAATACAGAAAGATAATTTATATTAGAAGACGAACCTAAAGATATCCCTAATCTAATAGAAAA
** * *
10481179 TGAGCAAACTGATTAAAAGACTAATATGTCATCTATCAAGTTCAATTGGGGAGATGCTTTATCTT
260 TGAGCAAACCAATTAAAAGACTAATATGTCATCTATCAAGTCCAATTAGGGAGATGCTTTATCTT
* *
10481244 GGGCATCAGAGCGGATGACTCCTAGAAGATAGAGACATAGATATGATTGACCGGCTATTGGATCA
325 AGGCATCAGAGCGGATGACTCCTAAAAGATAGAGACATAGATATGATTGACCGGCTATTGGATCA
10481309 GGTGCCC
390 GGTGCCC
* * * * *
10481316 TAAGTGTAGTATTTTCGTCAATGTACACTTGTAAATTTTTT-GAACAGGTT-GATTAATAAAATT
1 TAAGTGTAGTATTTTCGTCAATATACAATTGT--ATTTTTTCAAACAGATTAG-CTAATAAAATT
* * *
10481379 ATTCATGAATTACATTAATA-CTTTGTATAATGTCCTCATGTGGTTTTTGTACACAAAGTAAAAT
63 ATTCATGAATTACATTAATACCTTTGTATAATATCCTCA-ATGGTTTTTGTACACAAAGCAAAAT
* * * ** *
10481443 -AGGAGCAAATGTT-GCTCACTGGTTGTTTAATGTTTAAACTAATACTAAGTGATATTATATGGT
127 GA-AAGCAAATATTAGCTCACTGGTTGTCTAATGTTT-AACTAATACTAAACGATATTATATGAT
* * * * * *
10481506 CGGATTGTAATAC-GAAA-ATACATCTTATATTAGTAGACGAACCTAAATATGTCCCTAGTCTAA
190 CAGATCGTAATACAGAAAGATA-AT-TTATATTAGAAGACGAACCTAAAGATATCCCTAATCTAA
* * * **
10481569 TCGAAAATGAGTAAACCAATTGAAAGACTAATATGTTGTCTATCAAGTCCAATTAGGGAGATG-T
253 TAGAAAATGAGCAAACCAATTAAAAGACTAATATGTCATCTATCAAGTCCAATTAGGGAGATGCT
* *
10481633 TTCGTCTTAGGCATC-GAAGTGGATGACTCCTAAAAGATAGAGACAT
318 TT-ATCTTAGGCATCAG-AGCGGATGACTCCTAAAAGATAGAGACAT
10481679 GGATGTGACT
Statistics
Matches: 305, Mismatches: 48, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
395 3 0.01
396 46 0.15
397 213 0.70
398 36 0.12
399 7 0.02
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (396 bp):
TAAGTGTAGTATTTTCGTCAATATACAATTGTATTTTTTCAAACAGATTAGCTAATAAAATTATT
CATGAATTACATTAATACCTTTGTATAATATCCTCAATGGTTTTTGTACACAAAGCAAAATGAAA
GCAAATATTAGCTCACTGGTTGTCTAATGTTTAACTAATACTAAACGATATTATATGATCAGATC
GTAATACAGAAAGATAATTTATATTAGAAGACGAACCTAAAGATATCCCTAATCTAATAGAAAAT
GAGCAAACCAATTAAAAGACTAATATGTCATCTATCAAGTCCAATTAGGGAGATGCTTTATCTTA
GGCATCAGAGCGGATGACTCCTAAAAGATAGAGACATAGATATGATTGACCGGCTATTGGATCAG
GTGCCC
Found at i:10482515 original size:57 final size:57
Alignment explanation
Indices: 10482421--10482601 Score: 236
Period size: 51 Copynumber: 3.3 Consensus size: 57
10482411 ATAGAAATTG
10482421 TGAAAATGGAGAAATTGAAATCATTTGGAAATT-ATTATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAA-TGAAATCATTTGG-AATTGATTATGGTTTTCTCCAAAATGAAAA
* *
10482479 TGAAAATGGAGAAATGAAAACATTTGGAATTGATTATGGTTTTTTCC------AAAA
1 TGAAAATGGAGAAATGAAATCATTTGGAATTGATTATGGTTTTCTCCAAAATGAAAA
* * *
10482530 TGAAAATGGAGAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAAATCATTTGGAATTGATTATGGTTTTCTCCAAAATGAAAA
10482587 TGAAAAT-GA-AAATGA
1 TGAAAATGGAGAAATGA
10482602 CCTGAAAAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
51 46 0.42
55 6 0.06
56 6 0.06
57 37 0.34
58 14 0.13
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.30
Consensus pattern (57 bp):
TGAAAATGGAGAAATGAAATCATTTGGAATTGATTATGGTTTTCTCCAAAATGAAAA
Found at i:10482588 original size:6 final size:6
Alignment explanation
Indices: 10482577--10482601 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10482567 GGTTTTCTCC
10482577 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
10482602 CCTGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:10484979 original size:19 final size:21
Alignment explanation
Indices: 10484937--10484980 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
10484927 ATGTTTCCTT
*
10484937 CTTTCTCTATTTTTTTTTCAA
1 CTTTCTCTATTTCTTTTTCAA
10484958 CTTTCTCT-TTTCTTTTTC-A
1 CTTTCTCTATTTCTTTTTCAA
10484977 CTTT
1 CTTT
10484981 TGATACTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 9 0.41
21 8 0.36
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.68
Consensus pattern (21 bp):
CTTTCTCTATTTCTTTTTCAA
Found at i:10490811 original size:2 final size:2
Alignment explanation
Indices: 10490804--10490998 Score: 367
Period size: 2 Copynumber: 98.5 Consensus size: 2
10490794 CGGTTGCCAT
10490804 TC TC TC TC TC TC TC TC TC TC TC TC -C TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
10490845 TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10490887 TC TC TC TC TC TC TC TC TC TC TC TC TC -C TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10490928 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10490970 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10490999 TGAACTCTTA
Statistics
Matches: 189, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
1 2 0.01
2 187 0.99
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:10491517 original size:37 final size:37
Alignment explanation
Indices: 10491454--10491534 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 37
10491444 AAATTTTAAT
10491454 AAATAA-A-AAATATATAAAATTATTAACTATTAAATTA
1 AAATAATATAAATATATAAAATTATTAACTATTAAA--A
* * *
10491491 AAATAATATAAATATAT-ATATT-TTAACTTTTTAAA
1 AAATAATATAAATATATAAAATTATTAACTATTAAAA
10491526 AAATAATAT
1 AAATAATAT
10491535 GTGCAGGTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
35 10 0.26
37 16 0.41
38 5 0.13
39 8 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (37 bp):
AAATAATATAAATATATAAAATTATTAACTATTAAAA
Found at i:10491749 original size:23 final size:22
Alignment explanation
Indices: 10491684--10491749 Score: 53
Period size: 24 Copynumber: 2.9 Consensus size: 22
10491674 AATTATTTTA
* *
10491684 ATATTTTTTATCAAATAAAATTT
1 ATATTTTTTAACAAA-AAAATAT
*
10491707 A-AGTTTATTTAAAAACAAAAATAT
1 ATA-TTT-TTTAACAA-AAAAATAT
*
10491731 ATATTTTTTAACAATAAAA
1 ATATTTTTTAACAAAAAAA
10491750 CAATAAATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
22 5 0.15
23 11 0.32
24 16 0.47
25 2 0.06
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (22 bp):
ATATTTTTTAACAAAAAAATAT
Found at i:10496156 original size:41 final size:41
Alignment explanation
Indices: 10495949--10496145 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
10495939 TTTATCGTTA
* * * *
10495949 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
10495990 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
10496031 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
10496072 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
10496113 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
10496146 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 143 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:10496418 original size:33 final size:33
Alignment explanation
Indices: 10496362--10496459 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
10496352 AGATATGTAT
*
10496362 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
10496394 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
10496427 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
10496460 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:10506547 original size:150 final size:148
Alignment explanation
Indices: 10506191--10506776 Score: 849
Period size: 150 Copynumber: 4.0 Consensus size: 148
10506181 TAGGCGATCT
* * *
10506191 GGAGGCACATTCCACTGAGGATCTACTACTACCCATCACATTGGATGGAGAAGAGTGTGGAATTC
1 GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGACGGAGAAGAGTGAGGAATTC
* * * * * *
10506256 CACTGTATGTCTCACTTCTAGTAGTCCTTCCACC-CT-TCTTATTAGTTTTCCTTCCAAGATTTT
66 CACTATGTGTCTCACTTCTAGGAGTCCTTCCTCCACTCTTTTATCAGTTTTCCTTCCAAGATTTT
10506319 CTTCACTGTGCAATTT--
131 CTTCACTGTGCAATTTGG
* * *
10506335 GGAGGCACCTTCCACTGAGGATCTACTACTCCCCATCACGTTGGACGGAGAAGAGTGGGGAATTC
1 GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGACGGAGAAGAGTGAGGAATTC
*
10506400 CACTGTGTGTCTCACTTCTAGGAGTCCTTCCTCCACTCATTTTATCAGTTTTCCTTCCAAGATTT
66 CACTATGTGTCTCACTTCTAGGAGTCCTTCCTCCACTC-TTTTATCAGTTTTCCTTCCAAGATTT
10506465 TCTTCACTGTGCAATTTGGG
130 TCTTCACTGTGCAATTT-GG
* * *
10506485 GGAGGCACCTTTCACTGAGGATCTACTACTACCGATCACATTGGACGGAGAAGGGTGAGGAATTC
1 GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGACGGAGAAGAGTGAGGAATTC
** * * * *
10506550 CACTATGCATCTCACTTCTAGGAATCCTTCCCCCACCCTTTATATCAGTTTTCCTTACAAGATTT
66 CACTATGTGTCTCACTTCTAGGAGTCCTTCCTCCACTCTTT-TATCAGTTTTCCTTCCAAGATTT
10506615 TCTTCACTGTGCAATTTGG
130 TCTTCACTGTGCAATTTGG
*
10506634 AGGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGATGGAGAAGAGTGAGGAATT
1 -GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGACGGAGAAGAGTGAGGAATT
* **
10506699 CCA-TCATGTGTCTCACTTCTAGGAGTCCGTCCTCCACTCTTTTTATCAGTTTTCCTTCCATTAT
65 CCACT-ATGTGTCTCACTTCTAGGAGTCCTTCCTCCACTC-TTTTATCAGTTTTCCTTCCAAGAT
10506763 TTTCTTCACTGTGC
128 TTTCTTCACTGTGC
10506777 TTTCTCTTCT
Statistics
Matches: 396, Mismatches: 36, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
144 91 0.23
145 2 0.01
147 41 0.10
149 6 0.02
150 253 0.64
151 3 0.01
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (148 bp):
GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGACGGAGAAGAGTGAGGAATTC
CACTATGTGTCTCACTTCTAGGAGTCCTTCCTCCACTCTTTTATCAGTTTTCCTTCCAAGATTTT
CTTCACTGTGCAATTTGG
Found at i:10508485 original size:30 final size:29
Alignment explanation
Indices: 10508444--10508500 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 29
10508434 ATATAAAAGC
10508444 AAAAGAAGAAAACATAAGAGGG-GAGAGAGGT
1 AAAAGAAG-AAA-A-AAGAGGGAGAGAGAGGT
10508475 AAAA-AAGAAAAAAGAGGGAGAGAGAG
1 AAAAGAAGAAAAAAGAGGGAGAGAGAG
10508501 AGAAGAGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 7 0.28
28 8 0.32
29 3 0.12
30 3 0.12
31 4 0.16
ACGTcount: A:0.60, C:0.02, G:0.35, T:0.04
Consensus pattern (29 bp):
AAAAGAAGAAAAAAGAGGGAGAGAGAGGT
Found at i:10512683 original size:137 final size:136
Alignment explanation
Indices: 10512434--10512683 Score: 308
Period size: 137 Copynumber: 1.8 Consensus size: 136
10512424 CCTCTTCTTC
* *
10512434 TTCATCATCAGAAAACGCCATTACCACTCTGATAGTATTGACAACAATGAAAGAAATAACTAACT
1 TTCATCATCAGAAAACGCCAGTACCACTCTGATAGTATTAACAACAATGAAAGAAATAACTAACT
* * * * * *
10512499 AGATTTTACTAAAAAAAATGCAATTAACAATATAAGAAATTGCAACAACATTAACAAAACCACTT
66 AAAGTTTAATAAAAAAAATGCAATTAACAATAAAAGAAACTGAAACAACATTAACAAAACCACTT
10512564 CCCTTT
131 CCCTTT
* * * *
10512570 TTCATCATTAGAAAACGCGAGTACCACTAC-GATCA-TATTAAACAACAATG-ACGAAAATAATT
1 TTCATCATCAGAAAACGCCAGTACCACT-CTGAT-AGTATT-AACAACAATGAAAG-AAATAACT
* * *
10512632 AACTAAAGTTTAATAAGAATAATGCAATTAACACTAAAAGAAACTGAAACAA
62 AACTAAAGTTTAATAAAAAAAATGCAATTAACAATAAAAGAAACTGAAACAA
10512684 TAATTACAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
136 34 0.36
137 61 0.64
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.24
Consensus pattern (136 bp):
TTCATCATCAGAAAACGCCAGTACCACTCTGATAGTATTAACAACAATGAAAGAAATAACTAACT
AAAGTTTAATAAAAAAAATGCAATTAACAATAAAAGAAACTGAAACAACATTAACAAAACCACTT
CCCTTT
Found at i:10534220 original size:19 final size:19
Alignment explanation
Indices: 10534174--10534221 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
10534164 GTATACATTT
10534174 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
10534192 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
10534211 TAAATTTTATT
1 TAAATTTTATT
10534222 CATATTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:10539496 original size:21 final size:21
Alignment explanation
Indices: 10539448--10539496 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
10539438 TTGTTAAATA
* *
10539448 TAAATTATTAAAAATTATATT
1 TAAATTTTTAAAAAATATATT
*
10539469 TATATTTTTAATAAAATATA-T
1 TAAATTTTTAA-AAAATATATT
10539490 TAAATTT
1 TAAATTT
10539497 ATTTTAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAATTTTTAAAAAATATATT
Found at i:10539952 original size:42 final size:42
Alignment explanation
Indices: 10539900--10539983 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
10539890 TATCTAAAAT
* *
10539900 AATATAAAATATTATATTAATAAGCTTCAAATTAGAAATAAA
1 AATATAAAATATTATATTAATAAGATCCAAATTAGAAATAAA
* *
10539942 AATATAAAATATTATATTATTAAGATCCTAATTAGAAATAAA
1 AATATAAAATATTATATTAATAAGATCCAAATTAGAAATAAA
10539984 TAATCTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (42 bp):
AATATAAAATATTATATTAATAAGATCCAAATTAGAAATAAA
Found at i:10541648 original size:15 final size:16
Alignment explanation
Indices: 10541612--10541651 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
10541602 ATAGTAAAAA
10541612 TATAATTTTATCATTTT
1 TATAA-TTTATCATTTT
*
10541629 AATAATTTAT-ATTTT
1 TATAATTTATCATTTT
10541644 TATAATTT
1 TATAATTT
10541652 GTAAAGGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTATCATTTT
Found at i:10552295 original size:24 final size:24
Alignment explanation
Indices: 10552254--10552303 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
10552244 CTACAGAAGA
* *
10552254 AAATAACAAAGATTTTATGCTAAT
1 AAATAACAAAGATGTTATACTAAT
10552278 AAATAACAAATG-TGTTATACTAAT
1 AAATAACAAA-GATGTTATACTAAT
10552302 AA
1 AA
10552304 TTTCTAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (24 bp):
AAATAACAAAGATGTTATACTAAT
Found at i:10554929 original size:21 final size:20
Alignment explanation
Indices: 10554889--10554930 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
10554879 CAATGGGTTT
*
10554889 AAAAATATAAAATTTTAAAA
1 AAAAATATAAAATTTAAAAA
10554909 AAAAATCATAAACA-TTAAAAA
1 AAAAAT-ATAAA-ATTTAAAAA
10554930 A
1 A
10554931 TAATTAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 12 0.63
22 1 0.05
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATATAAAATTTAAAAA
Found at i:10560110 original size:18 final size:19
Alignment explanation
Indices: 10560081--10560118 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
10560071 TAAATGAATA
*
10560081 ATTATATATTTTTAAAGAC
1 ATTATATATTTTGAAAGAC
10560100 ATTAT-TATTTTGAAAGAC
1 ATTATATATTTTGAAAGAC
10560118 A
1 A
10560119 CCTATTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (19 bp):
ATTATATATTTTGAAAGAC
Found at i:10560779 original size:59 final size:59
Alignment explanation
Indices: 10560692--10560835 Score: 191
Period size: 59 Copynumber: 2.4 Consensus size: 59
10560682 ATTTTTACCT
* *
10560692 CTAAACTTTTCTAAAATTACATTTTGACTCCTAAATTTTATTAAAATTACATTTCAACCC
1 CTAAACTTTT-TAAAATTACATTTTGACTCCTAAACTTTATCAAAATTACATTTCAACCC
* * **
10560752 CTAAA-TTTTTATAAATTACATTTTGACTCCTAAACTTTCTCAAAATTATATTTTGACCC
1 CTAAACTTTTTA-AAATTACATTTTGACTCCTAAACTTTATCAAAATTACATTTCAACCC
*
10560811 CTAAACTTTCTTGAAATTACATTTT
1 CTAAACTTT-TTAAAATTACATTTT
10560836 AGTCCCAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
58 2 0.03
59 50 0.68
60 20 0.27
61 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.44
Consensus pattern (59 bp):
CTAAACTTTTTAAAATTACATTTTGACTCCTAAACTTTATCAAAATTACATTTCAACCC
Found at i:10560847 original size:30 final size:29
Alignment explanation
Indices: 10560681--10560849 Score: 137
Period size: 30 Copynumber: 5.7 Consensus size: 29
10560671 AAAAAAACTG
*
10560681 CATTTTTACCTCTAAACTTT-TCTAAAATTA
1 CATTTTGACC-CTAAACTTTCTC-AAAATTA
* * *
10560711 CATTTTGACTCCTAAATTTTATTAAAATTA
1 CATTTTGAC-CCTAAACTTTCTCAAAATTA
** *
10560741 CATTTCAACCCCTAAA-TTT-TTATAAATTA
1 CATTTTGA-CCCTAAACTTTCTCA-AAATTA
10560770 CATTTTGACTCCTAAACTTTCTCAAAATTA
1 CATTTTGAC-CCTAAACTTTCTCAAAATTA
* **
10560800 TATTTTGACCCCTAAACTTTCTTGAAATTA
1 CATTTTGA-CCCTAAACTTTCTCAAAATTA
* *
10560830 CATTTTAGTCCCAAAACTTT
1 CATTTT-GACCCTAAACTTT
10560850 TACTGAGTTT
Statistics
Matches: 116, Mismatches: 14, Indels: 18
0.78 0.09 0.12
Matches are distributed among these distances:
28 4 0.03
29 21 0.18
30 84 0.72
31 7 0.06
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (29 bp):
CATTTTGACCCTAAACTTTCTCAAAATTA
Found at i:10561204 original size:5 final size:5
Alignment explanation
Indices: 10561195--10561247 Score: 67
Period size: 5 Copynumber: 11.2 Consensus size: 5
10561185 AAAAAATAAA
* *
10561195 AAAAG CAAAG -AAAG AAAAG AAAAG AAAAG -AAAG AAAAG AAAA- AGAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
10561242 AAAAG A
1 AAAAG A
10561248 GGGGAGAGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
4 11 0.26
5 31 0.74
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:10561208 original size:9 final size:9
Alignment explanation
Indices: 10561192--10561244 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
10561182 AATAAAAAAT
10561192 AAAA-AAAG
1 AAAAGAAAG
*
10561200 CAAAGAAAG
1 AAAAGAAAG
10561209 AAAAGAAAAG
1 AAAAG-AAAG
10561219 AAAAGAAAG
1 AAAAGAAAG
10561228 AAAAGAAA-
1 AAAAGAAAG
10561236 AAGAAGAAA
1 AA-AAGAAA
10561245 AGAGGGGAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
8 5 0.12
9 26 0.65
10 9 0.22
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:10561212 original size:14 final size:13
Alignment explanation
Indices: 10561187--10561247 Score: 77
Period size: 14 Copynumber: 4.5 Consensus size: 13
10561177 ACAAAAATAA
*
10561187 AAAATAAAAAAAG
1 AAAAGAAAAAAAG
*
10561200 CAAAGAAAGAAAAG
1 AAAAGAAA-AAAAG
10561214 AAAAGAAAAGAAAG
1 AAAAGAAAA-AAAG
10561228 AAAAGAAAAAGAAG
1 AAAAGAAAAA-AAG
10561242 AAAAGA
1 AAAAGA
10561248 GGGGAGAGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
13 8 0.19
14 34 0.81
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:10561223 original size:19 final size:19
Alignment explanation
Indices: 10561195--10561236 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
10561185 AAAAAATAAA
*
10561195 AAAAGCAAAGAAAGAAAAG
1 AAAAGAAAAGAAAGAAAAG
10561214 AAAAGAAAAGAAAGAAAAG
1 AAAAGAAAAGAAAGAAAAG
10561233 AAAA
1 AAAA
10561237 AGAAGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAGAAAGAAAAG
Found at i:10561245 original size:9 final size:8
Alignment explanation
Indices: 10561185--10561245 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 8
10561175 ACACAAAAAT
*
10561185 AAAAAATA
1 AAAAAAGA
10561193 AAAAAAGCA
1 AAAAAAG-A
*
10561202 AAGAAAGA
1 AAAAAAGA
*
10561210 AAAGAA-A
1 AAAAAAGA
*
10561217 AGAAAAGA
1 AAAAAAGA
10561225 AAGAAAAGA
1 AA-AAAAGA
10561234 AAAAGAAGA
1 AAAA-AAGA
10561243 AAA
1 AAA
10561246 GAGGGGAGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
7 5 0.12
8 15 0.36
9 22 0.52
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:10561348 original size:7 final size:7
Alignment explanation
Indices: 10561336--10561402 Score: 64
Period size: 7 Copynumber: 9.0 Consensus size: 7
10561326 GAAGGAAAGG
10561336 AAGAAAA
1 AAGAAAA
10561343 AAGAAAAA
1 AAG-AAAA
10561351 AAGAAGAAGA
1 AAG-A-AA-A
*
10561361 AAGAAAG
1 AAGAAAA
*
10561368 AAGAAAG
1 AAGAAAA
10561375 AAGAAAA
1 AAGAAAA
10561382 AA-AGAAA
1 AAGA-AAA
10561389 AAGAAAA
1 AAGAAAA
10561396 AAGAAAA
1 AAGAAAA
10561403 TAATTTTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
6 1 0.02
7 33 0.62
8 12 0.23
9 3 0.06
10 4 0.08
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:10561357 original size:11 final size:11
Alignment explanation
Indices: 10561339--10561402 Score: 57
Period size: 11 Copynumber: 6.1 Consensus size: 11
10561329 GGAAAGGAAG
10561339 AAAA-AAGAAA
1 AAAAGAAGAAA
10561349 AAAAGAAG-AA
1 AAAAGAAGAAA
*
10561359 GAAAGAA-AGAA
1 AAAAGAAGA-AA
*
10561370 GAAAGAAGAAA
1 AAAAGAAGAAA
10561381 AAAAGAA-AAA
1 AAAAGAAGAAA
10561391 GAAAA-AAGAAA
1 -AAAAGAAGAAA
10561402 A
1 A
10561403 TAATTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
10 18 0.39
11 27 0.59
12 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAAA
Found at i:10561358 original size:18 final size:18
Alignment explanation
Indices: 10561335--10561402 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
10561325 AGAAGGAAAG
10561335 GAAGAAAAAAGAAAAAAA
1 GAAGAAAAAAGAAAAAAA
* *
10561353 GAAGAAGAAAG-AAAGAA
1 GAAGAAAAAAGAAAAAAA
*
10561370 GAAAGAAGAAAA-AAAGAAA
1 G-AAGAA-AAAAGAAAAAAA
10561389 -AAGAAAAAAGAAAA
1 GAAGAAAAAAGAAAA
10561403 TAATTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
16 4 0.10
17 14 0.35
18 15 0.38
19 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (18 bp):
GAAGAAAAAAGAAAAAAA
Found at i:10561361 original size:21 final size:21
Alignment explanation
Indices: 10561335--10561402 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
10561325 AGAAGGAAAG
10561335 GAAGAAAAAAGAAAAAAAGAA
1 GAAGAAAAAAGAAAAAAAGAA
*
10561356 GAAGAAAGAAAG-AAGAAAGAA
1 GAAGAAA-AAAGAAAAAAAGAA
10561377 G-A-AAAAAAGAAAAAGAA-AA
1 GAAGAAAAAAGAAAAA-AAGAA
10561396 -AAGAAAA
1 GAAGAAAA
10561403 TAATTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
18 4 0.10
19 9 0.22
20 7 0.17
21 16 0.40
22 4 0.10
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (21 bp):
GAAGAAAAAAGAAAAAAAGAA
Found at i:10561680 original size:19 final size:19
Alignment explanation
Indices: 10561658--10561727 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
10561648 GGTAGGCCAG
10561658 AAAAAAAGAAAGGAAGAGA
1 AAAAAAAGAAAGGAAGAGA
*
10561677 AAAAAAAGAGA-G-AGA-A
1 AAAAAAAGAAAGGAAGAGA
*
10561693 AAAAAAAGGAAAAAGAAAGAGA
1 AAAAAAA-G--AAAGGAAGAGA
10561715 AAAAGAAA-AAAGG
1 AAAA-AAAGAAAGG
10561728 TTCAATTTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
16 8 0.20
17 4 0.10
18 1 0.03
19 16 0.40
21 3 0.08
22 5 0.12
23 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAGGAAGAGA
Found at i:10561684 original size:15 final size:16
Alignment explanation
Indices: 10561659--10561703 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
10561649 GTAGGCCAGA
10561659 AAAAAAGAAAGGAAGAG
1 AAAAAA-AAAGGAAGAG
10561676 -AAAAAAAA-GAGAGAG
1 AAAAAAAAAGGA-AGAG
10561691 AAAAAAAAAGGAA
1 AAAAAAAAAGGAA
10561704 AAAGAAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 2 0.08
15 7 0.28
16 14 0.56
17 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGGAAGAG
Found at i:10561713 original size:23 final size:24
Alignment explanation
Indices: 10561679--10561723 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
10561669 GGAAGAGAAA
*
10561679 AAAAAGAGAGAGAAAAA-AAAAGG
1 AAAAAGAAAGAGAAAAAGAAAAGG
10561702 AAAAAGAAAGAGAAAAAGAAAA
1 AAAAAGAAAGAGAAAAAGAAAA
10561724 AAGGTTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (24 bp):
AAAAAGAAAGAGAAAAAGAAAAGG
Found at i:10562063 original size:19 final size:20
Alignment explanation
Indices: 10562041--10562082 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
10562031 GAAAATATTC
10562041 AAAAAAATT-T-GTGTTTTCG
1 AAAAAAATTCTCGT-TTTTCG
10562060 AAAAAAATTCTCGTTTTTCG
1 AAAAAAATTCTCGTTTTTCG
10562080 AAA
1 AAA
10562083 TTTTTGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 10 0.48
21 2 0.10
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (20 bp):
AAAAAAATTCTCGTTTTTCG
Found at i:10562299 original size:18 final size:18
Alignment explanation
Indices: 10562258--10562299 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10562248 ATTTGTGTAA
*
10562258 AAAAAATCTTCGTGGTTT
1 AAAAAATATTCGTGGTTT
* *
10562276 CAAAAATATTCGTGTTTT
1 AAAAAATATTCGTGGTTT
10562294 AAAAAA
1 AAAAAA
10562300 ATAAAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (18 bp):
AAAAAATATTCGTGGTTT
Found at i:10562372 original size:18 final size:18
Alignment explanation
Indices: 10562344--10562662 Score: 116
Period size: 18 Copynumber: 17.7 Consensus size: 18
10562334 AAATTTTTCA
10562344 TGTTTTCAAAAAATTCTCG
1 TGTTTT-AAAAAATTCTCG
*
10562363 TGTTTTAAAAAAAATTC-CA
1 TGTTTT--AAAAAATTCTCG
* * *
10562382 T-TTTTCAAAATTTTTCG
1 TGTTTTAAAAAATTCTCG
10562399 TGTTTTCAAAAAATTC-C-
1 TGTTTT-AAAAAATTCTCG
* *
10562416 TATGTTTCAAAAA-TCTTCG
1 TGT-TTTAAAAAATTC-TCG
* *
10562435 TGTTTTCAAAAGTT-TCGG
1 TGTTTTAAAAAATTCTC-G
* * *
10562453 TGTTTTCAAAAATTTTCA
1 TGTTTTAAAAAATTCTCG
* *
10562471 TGTTTTCAAAAATTCCCG
1 TGTTTTAAAAAATTCTCG
* *
10562489 TGTTTTAAAAATTTC-CA
1 TGTTTTAAAAAATTCTCG
*
10562506 TGTTTTCAAAAATT-T-G
1 TGTTTTAAAAAATTCTCG
* *
10562522 TGTTTT-AAAATTTTTCG
1 TGTTTTAAAAAATTCTCG
** *
10562539 TGCTTCAAAAAGAAAAT-TCG
1 TG-TT-TTAAA-AAATTCTCG
10562559 TGTTTTCAAAAAAAAATTCTCG
1 TGTTTT----AAAAAATTCTCG
* *
10562581 TG-TTT-CAAAATTTTCG
1 TGTTTTAAAAAATTCTCG
*
10562597 TGTTTTTTAAAAAAAAT-TCG
1 TG--TTTT-AAAAAATTCTCG
10562617 TGTTTCT--AAAATTCT-G
1 TGTTT-TAAAAAATTCTCG
*
10562633 TTGTTTTAAAAAGTT-TCG
1 -TGTTTTAAAAAATTCTCG
10562651 TGTTTTAAAAAA
1 TGTTTTAAAAAA
10562663 AAAAGGTTGC
Statistics
Matches: 227, Mismatches: 39, Indels: 70
0.68 0.12 0.21
Matches are distributed among these distances:
15 6 0.03
16 33 0.15
17 45 0.20
18 74 0.33
19 25 0.11
20 21 0.09
21 15 0.07
22 8 0.04
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (18 bp):
TGTTTTAAAAAATTCTCG
Found at i:10562422 original size:55 final size:55
Alignment explanation
Indices: 10562313--10562428 Score: 155
Period size: 55 Copynumber: 2.1 Consensus size: 55
10562303 AAAATAAAAA
* * *
10562313 TAAAAAAGAATCCGTTTTTTAAAATTTTTCATGTTTTCAAAAAATTCTCGTGTTT
1 TAAAAAAGAATCCATTTTTCAAAATTTTTCATGTTTTCAAAAAATTCTCATGTTT
*
10562368 TAAAAAA-AATTCCATTTTTCAAAATTTTTCGTGTTTTCAAAAAATTC-CTATGTTT
1 TAAAAAAGAA-TCCATTTTTCAAAATTTTTCATGTTTTCAAAAAATTCTC-ATGTTT
*
10562423 CAAAAA
1 TAAAAA
10562429 TCTTCGTGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
54 3 0.06
55 51 0.94
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (55 bp):
TAAAAAAGAATCCATTTTTCAAAATTTTTCATGTTTTCAAAAAATTCTCATGTTT
Found at i:10562442 original size:54 final size:53
Alignment explanation
Indices: 10562328--10562517 Score: 165
Period size: 54 Copynumber: 3.5 Consensus size: 53
10562318 AAGAATCCGT
* * * * *
10562328 TTTTTAAAATTTTTCATGTTTTCAAAAAATTCTCGTGTTTTAAAAAAAATTCCAT-
1 TTTTCAAAATTTTTCATGTTTTCAAAAAATTCT-ATGTTTT--CAAAAATTTCGTG
*
10562383 TTTTCAAAATTTTTCGTGTTTTCAAAAAATTCCTATG-TTTCAAAAATCTTCGTG
1 TTTTCAAAATTTTTCATGTTTTCAAAAAATT-CTATGTTTTCAAAAAT-TTCGTG
* * * *
10562437 TTTTCAAAA-GTTTCGGTGTTTTC-AAAAATTTTCATGTTTTCAAAAATTCCCGTG
1 TTTTCAAAATTTTTC-ATGTTTTCAAAAAATTCT-ATGTTTTCAAAAATT-TCGTG
* *
10562491 TTTT-AAAAATTTCCATGTTTTCAAAAA
1 TTTTCAAAATTTTTCATGTTTTCAAAAA
10562518 TTTGTGTTTT
Statistics
Matches: 114, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
52 7 0.06
53 29 0.25
54 45 0.39
55 31 0.27
56 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (53 bp):
TTTTCAAAATTTTTCATGTTTTCAAAAAATTCTATGTTTTCAAAAATTTCGTG
Found at i:10562568 original size:21 final size:21
Alignment explanation
Indices: 10562536--10562590 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
10562526 TTAAAATTTT
*
10562536 TCGTGCTTCAAAAAGAAAA-T-
1 TCGTGTTTCAAAAA-AAAATTC
10562556 TCGTGTTTTCAAAAAAAAATTC
1 TCGTG-TTTCAAAAAAAAATTC
10562578 TCGTGTTTCAAAA
1 TCGTGTTTCAAAA
10562591 TTTTCGTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 9 0.29
21 17 0.55
22 5 0.16
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (21 bp):
TCGTGTTTCAAAAAAAAATTC
Found at i:10562592 original size:16 final size:16
Alignment explanation
Indices: 10562571--10562601 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10562561 TTTTCAAAAA
10562571 AAAATTCTCGTGTTTC
1 AAAATTCTCGTGTTTC
*
10562587 AAAATTTTCGTGTTT
1 AAAATTCTCGTGTTT
10562602 TTTAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (16 bp):
AAAATTCTCGTGTTTC
Found at i:10562609 original size:38 final size:35
Alignment explanation
Indices: 10562551--10562660 Score: 111
Period size: 34 Copynumber: 3.1 Consensus size: 35
10562541 CTTCAAAAAG
**
10562551 AAAATTCGTGTTTTCAAAAAAAAATTCTCGTGTTTC-
1 AAAATTCGTGTTTTTTAAAAAAAA-T-TCGTGTTTCT
10562587 AAAATTTTCGTGTTTTTTAAAAAAAATTCGTGTTTCT
1 AAAA--TTCGTGTTTTTTAAAAAAAATTCGTGTTTCT
**
10562624 AAAATTC-TGTTGTTTT-AAAAAGTTTCGTGTTT-T
1 AAAATTCGTGTT-TTTTAAAAAAAATTCGTGTTTCT
10562657 AAAA
1 AAAA
10562661 AAAAAAGGTT
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
33 5 0.08
34 18 0.27
35 7 0.11
36 13 0.20
37 5 0.08
38 18 0.27
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.45
Consensus pattern (35 bp):
AAAATTCGTGTTTTTTAAAAAAAATTCGTGTTTCT
Found at i:10562614 original size:58 final size:57
Alignment explanation
Indices: 10562513--10562621 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
10562503 CCATGTTTTC
*
10562513 AAAAATTTGTGTTTTAAAATTTTTCGTGCTTCAAAAAGAAAATTCGTGTTTTCAAAA
1 AAAAATTTGTGTTTCAAAATTTTTCGTGCTTCAAAAAGAAAATTCGTGTTTTCAAAA
* **
10562570 AAAAATTCTCGTGTTTCAAAA-TTTTCGTGTTTTTTAAAA-AAAATTCGTGTTT
1 AAAAATT-T-GTGTTTCAAAATTTTTCGTG-CTTCAAAAAGAAAATTCGTGTTT
10562622 CTAAAATTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
57 7 0.16
58 22 0.49
59 16 0.36
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (57 bp):
AAAAATTTGTGTTTCAAAATTTTTCGTGCTTCAAAAAGAAAATTCGTGTTTTCAAAA
Found at i:10562616 original size:20 final size:20
Alignment explanation
Indices: 10562546--10562621 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
10562536 TCGTGCTTCA
**
10562546 AAAAGAAAATTCGTGTTTTCA
1 AAAA-AAAATTCGTGTTTTTT
*
10562567 AAAAAAAATTC-TCG-TGTTT
1 AAAAAAAATTCGT-GTTTTTT
* **
10562586 -CAAAATTTTCGTGTTTTTT
1 AAAAAAAATTCGTGTTTTTT
10562605 AAAAAAAATTCGTGTTT
1 AAAAAAAATTCGTGTTT
10562622 CTAAAATTCT
Statistics
Matches: 41, Mismatches: 10, Indels: 9
0.68 0.17 0.15
Matches are distributed among these distances:
18 8 0.20
19 8 0.20
20 21 0.51
21 4 0.10
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (20 bp):
AAAAAAAATTCGTGTTTTTT
Found at i:10562644 original size:17 final size:16
Alignment explanation
Indices: 10562608--10562661 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
10562598 GTTTTTTAAA
10562608 AAAAATTC-GTGTTTCT
1 AAAAATTCTGTGTTT-T
10562624 -AAAATTCTGTTGTTTT
1 AAAAATTCTG-TGTTTT
10562640 AAAAAGTT-TCGTGTTTT
1 AAAAA-TTCT-GTGTTTT
10562657 AAAAA
1 AAAAA
10562662 AAAAAGGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.21
16 2 0.06
17 21 0.64
18 3 0.09
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.44
Consensus pattern (16 bp):
AAAAATTCTGTGTTTT
Found at i:10562682 original size:54 final size:53
Alignment explanation
Indices: 10562571--10562692 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 53
10562561 TTTTCAAAAA
* * ** *
10562571 AAAATTCTCGTGTTTCAAAATTTTCGTGTTTTTTAAAAAAAATTCGTGTTTCT
1 AAAATTCTCGTGTTTAAAAAGTTTCGTGTTTTAAAAAAAAAATTCGCGTTTCT
10562624 AAAATTCT-GTTGTTTTAAAAAGTTTCGTGTTTTAAAAAAAAAAGGTT-GCGTTTC-
1 AAAATTCTCG-TG-TTTAAAAAGTTTCGTGTTTTAAAAAAAAAA--TTCGCGTTTCT
10562678 AAAATTCTCGTGTTT
1 AAAATTCTCGTGTTT
10562693 CAATTGGATC
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
52 1 0.02
53 13 0.22
54 36 0.61
55 7 0.12
56 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (53 bp):
AAAATTCTCGTGTTTAAAAAGTTTCGTGTTTTAAAAAAAAAATTCGCGTTTCT
Found at i:10566085 original size:13 final size:13
Alignment explanation
Indices: 10566067--10566112 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
10566057 TAAACAGTTA
10566067 TTAAAAAAATATT
1 TTAAAAAAATATT
10566080 TT-AAAAAATATT
1 TTAAAAAAATATT
10566092 TTCAATAAAAACTA-T
1 TT-AA-AAAAA-TATT
10566107 TTAAAA
1 TTAAAA
10566113 TAAAAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 12 0.41
13 4 0.14
14 3 0.10
15 8 0.28
16 2 0.07
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (13 bp):
TTAAAAAAATATT
Found at i:10577009 original size:19 final size:20
Alignment explanation
Indices: 10576976--10577014 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
10576966 TAAACAAGAT
10576976 TTATAAAAAAATTA-TAAAA
1 TTATAAAAAAATTATTAAAA
**
10576995 TTATAAAAACTTTATTAAAA
1 TTATAAAAAAATTATTAAAA
10577015 ATAACAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
TTATAAAAAAATTATTAAAA
Found at i:10577517 original size:32 final size:32
Alignment explanation
Indices: 10577458--10577518 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
10577448 CTAGATTGAA
* *
10577458 TTCTAAAAAGTCAAGAATCTTGAGATAAAGTT
1 TTCTAAAAACTCAAGAATCTAGAGATAAAGTT
*
10577490 TTCTAAAAACTCAATAATCTCAG-GATAAA
1 TTCTAAAAACTCAAGAATCT-AGAGATAAA
10577519 ATTTACGCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 24 0.96
33 1 0.04
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (32 bp):
TTCTAAAAACTCAAGAATCTAGAGATAAAGTT
Found at i:10579691 original size:42 final size:42
Alignment explanation
Indices: 10579562--10579874 Score: 328
Period size: 42 Copynumber: 7.4 Consensus size: 42
10579552 ACGTCGCTAA
* * *
10579562 CTTTTGCGGCGCTTACAGAAAAAAACACCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCGTGTT
* * *
10579606 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GAAAAAAACGCCGCTAAAGATCGTGTT
* *
10579649 CTTTAGCGGCGCTTAGGAAAAAACGCCACTAAAGATCGTGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCGTGTT
* *
10579691 CTTTAGCGGCGCTTTA-AAAAAAACGCCGCTATAGATCGTGTA
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGATCGTGTT
* *
10579733 CTTTAGCAGCGCTTTGAAAAAAACGCCGCTAAAGATCGTGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCGTGTT
* ** **
10579775 CTTTAGCGGCGCTTTGGAGGAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCGTGTT
* ** * *
10579818 CTATAGCGGCGCTT-GTTCAAAAATGCCGCTAATAG-TAGTGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAA-AGATCGTGTT
10579860 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
10579875 TTTCACAAAC
Statistics
Matches: 230, Mismatches: 30, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
41 3 0.01
42 138 0.60
43 77 0.33
44 12 0.05
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCGTGTT
Found at i:10579847 original size:85 final size:84
Alignment explanation
Indices: 10579580--10579873 Score: 335
Period size: 85 Copynumber: 3.5 Consensus size: 84
10579570 GCGCTTACAG
* * **
10579580 AAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCA
1 AAAAAAACGCCGCTAAAGATCGTGTTCTTTAGCGGCGCTTTGGAAA-AAACGCCGCTAAAGATCA
10579645 TGTTCTTTAGCGGCGCTTAG-
65 TGTTCTTTAGCGGCGCTT-GT
* * ** * *
10579665 GAAAAAACGCCACTAAAGATCGTGTTCTTTAGCGGCGCTTTAAAAAAAACGCCGCTATAGATCGT
1 AAAAAAACGCCGCTAAAGATCGTGTTCTTTAGCGGCGCTTTGGAAAAAACGCCGCTAAAGATCAT
* *
10579730 GTACTTTAGCAGCGCTT-T
66 GTTCTTTAGCGGCGCTTGT
*
10579748 GAAAAAAACGCCGCTAAAGATCGTGTTCTTTAGCGGCGCTTTGGAGGAAAACGCCGCTAAA-AGT
1 -AAAAAAACGCCGCTAAAGATCGTGTTCTTTAGCGGCGCTTTGGA-AAAAACGCCGCTAAAGA-T
* *
10579812 AATGTTCTATAGCGGCGCTTGT
63 CATGTTCTTTAGCGGCGCTTGT
** * *
10579834 TCAAAAATGCCGCTAATAG-TAGTGTTCTTTAGCGGCGCTT
1 AAAAAAACGCCGCTAA-AGATCGTGTTCTTTAGCGGCGCTT
10579874 ATTTCACAAA
Statistics
Matches: 176, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
84 73 0.41
85 100 0.57
86 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (84 bp):
AAAAAAACGCCGCTAAAGATCGTGTTCTTTAGCGGCGCTTTGGAAAAAACGCCGCTAAAGATCAT
GTTCTTTAGCGGCGCTTGT
Found at i:10580347 original size:21 final size:21
Alignment explanation
Indices: 10580323--10580391 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
10580313 GCTTCTATCG
*
10580323 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * *
10580344 CTGCTTCTCTCACTGTAGCAT
1 CTGCTTCTCTCGCTGCAGCCT
* *
10580365 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
10580386 CTGCTT
1 CTGCTT
10580392 TAAGTTGTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.04, C:0.42, G:0.19, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:10582326 original size:9 final size:9
Alignment explanation
Indices: 10582291--10582705 Score: 317
Period size: 9 Copynumber: 46.0 Consensus size: 9
10582281 TTAAACAATA
10582291 ATGTAAGTT
1 ATGTAAGTT
*
10582300 A-GGAAGGTT
1 ATGTAA-GTT
10582309 ATGT-A-TT
1 ATGTAAGTT
10582316 ATGTAAGTT
1 ATGTAAGTT
10582325 ATGTAAGTT
1 ATGTAAGTT
*
10582334 ATGTAATTT
1 ATGTAAGTT
10582343 ATGTAAGTT
1 ATGTAAGTT
10582352 ATGTAAGTT
1 ATGTAAGTT
10582361 ATGTAAGTT
1 ATGTAAGTT
* *
10582370 ATTTAATTT
1 ATGTAAGTT
10582379 ATGTAAGTT
1 ATGTAAGTT
*
10582388 ATGTAAGAT
1 ATGTAAGTT
10582397 ATGTAAGTT
1 ATGTAAGTT
10582406 ATGTAAGTT
1 ATGTAAGTT
*
10582415 ATTTAAGTT
1 ATGTAAGTT
10582424 ATGTAAGTT
1 ATGTAAGTT
10582433 ATGTAAGTT
1 ATGTAAGTT
*
10582442 ATTTAA-TT
1 ATGTAAGTT
10582450 AATGTAAGTT
1 -ATGTAAGTT
10582460 ATGTAAGTT
1 ATGTAAGTT
* *
10582469 ATATAATTT
1 ATGTAAGTT
10582478 ATGTAAGCAATT
1 ATGTAAG---TT
* *
10582490 -TAGAAAAAATT
1 AT-G--TAAGTT
10582501 ATGTAAGTT
1 ATGTAAGTT
*
10582510 GTGTACTAAGTT
1 ATG---TAAGTT
*
10582522 TTGT-A-TT
1 ATGTAAGTT
*
10582529 ATGTAAATT
1 ATGTAAGTT
10582538 ATGTACTAAGTT
1 ATG---TAAGTT
10582550 ATGT-A-TT
1 ATGTAAGTT
* *
10582557 ATGTAAATA
1 ATGTAAGTT
* *
10582566 ATTTAAGTA
1 ATGTAAGTT
*
10582575 ATGTATGTT
1 ATGTAAGTT
10582584 ATGTAAG-T
1 ATGTAAGTT
* *
10582592 AAGT-TGTT
1 ATGTAAGTT
10582600 ATGTAAGTT
1 ATGTAAGTT
* *
10582609 TTG-CA-TT
1 ATGTAAGTT
10582616 ATGTAAGTT
1 ATGTAAGTT
10582625 ATGTAAGTT
1 ATGTAAGTT
10582634 AAATGT-A-TT
1 --ATGTAAGTT
10582643 ATG-AAGGTT
1 ATGTAA-GTT
10582652 ATGTAAGTT
1 ATGTAAGTT
*
10582661 GTGTAAGTT
1 ATGTAAGTT
10582670 ATGTAAGTT
1 ATGTAAGTT
10582679 ATGTAAGTT
1 ATGTAAGTT
10582688 AAATGT-A-TT
1 --ATGTAAGTT
10582697 ATGTAAGTT
1 ATGTAAGTT
10582706 TATATAAAAA
Statistics
Matches: 326, Mismatches: 43, Indels: 74
0.74 0.10 0.17
Matches are distributed among these distances:
7 30 0.09
8 21 0.06
9 234 0.72
10 7 0.02
11 12 0.04
12 20 0.06
14 2 0.01
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:10582542 original size:28 final size:28
Alignment explanation
Indices: 10582498--10582564 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
10582488 TTTAGAAAAA
* * *
10582498 ATTATGTAAGTTGTGTACTAAGTTTTGT
1 ATTATGTAAATTATGTACTAAGTTATGT
10582526 ATTATGTAAATTATGTACTAAGTTATGT
1 ATTATGTAAATTATGTACTAAGTTATGT
10582554 ATTATGTAAAT
1 ATTATGTAAAT
10582565 AATTTAAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (28 bp):
ATTATGTAAATTATGTACTAAGTTATGT
Found at i:10582601 original size:16 final size:18
Alignment explanation
Indices: 10582569--10582607 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
10582559 GTAAATAATT
10582569 TAAGTAATGTATGTTATG
1 TAAGTAATGTATGTTATG
10582587 TAAGTAA-GT-TGTTATG
1 TAAGTAATGTATGTTATG
10582603 TAAGT
1 TAAGT
10582608 TTTGCATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.57
17 2 0.10
18 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (18 bp):
TAAGTAATGTATGTTATG
Found at i:10582749 original size:23 final size:23
Alignment explanation
Indices: 10582723--10582766 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
10582713 AAAAAATTAT
*
10582723 AAGTTATGTATTATGTAAGTTAA
1 AAGTAATGTATTATGTAAGTTAA
10582746 AAGTAATGTATTATGTAAGTT
1 AAGTAATGTATTATGTAAGTT
10582767 TACATATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (23 bp):
AAGTAATGTATTATGTAAGTTAA
Found at i:10582796 original size:41 final size:36
Alignment explanation
Indices: 10582768--10582877 Score: 105
Period size: 36 Copynumber: 3.3 Consensus size: 36
10582758 ATGTAAGTTT
10582768 ACATATCTTAAATTTTAGTAAGTAATGTATTTAAGTA
1 ACATA-CTTAAATTTTAGTAAGTAATGTATTTAAGTA
*
10582805 ACATACTTAAA-TTT--T-A--CA--TA--TAAGTAA
1 ACATACTTAAATTTTAGTAAGTAATGTATTTAAGT-A
*
10582832 ACTTACTTAAATTTTAGTAAGTAATGTATTTAAGTA
1 ACATACTTAAATTTTAGTAAGTAATGTATTTAAGTA
*
10582868 ACATATTTAA
1 ACATACTTAA
10582878 GTAATAAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 23
0.67 0.06 0.27
Matches are distributed among these distances:
26 5 0.09
27 11 0.19
28 5 0.09
30 2 0.04
31 1 0.02
32 1 0.02
33 2 0.04
35 5 0.09
36 15 0.26
37 10 0.18
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (36 bp):
ACATACTTAAATTTTAGTAAGTAATGTATTTAAGTA
Found at i:10582867 original size:13 final size:13
Alignment explanation
Indices: 10582849--10582910 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
10582839 TAAATTTTAG
*
10582849 TAAGTAATGTATT
1 TAAGTAATATATT
*
10582862 TAAGTAACATATT
1 TAAGTAATATATT
*
10582875 TAAGTAATA-AAT
1 TAAGTAATATATT
10582887 TAA-T-ATATA-T
1 TAAGTAATATATT
10582897 T-AGTAATA-ATT
1 TAAGTAATATATT
10582908 TAA
1 TAA
10582911 ATTAAATTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
9 1 0.03
10 7 0.17
11 7 0.17
12 6 0.15
13 19 0.47
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:10585696 original size:147 final size:145
Alignment explanation
Indices: 10585438--10585771 Score: 361
Period size: 146 Copynumber: 2.3 Consensus size: 145
10585428 CGGCCTCGTA
* * * * *
10585438 TCGATAAATGTTAAAACATTTTTGCAGCGTTTTAATTAAAGCGCACTAACTATAAATCAAAACAC
1 TCGATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCCCACTAAATATAAATCAAAACAC
* * * *
10585503 AGTCATTTCATCAACACTTACCTCAAACCCGTGGCGTTTTAAAAAAATCGCCACTAATAACATTT
66 AGTCATTTCATCAACACTTAACTCAAACCCGTGGCGTTTCAAAAAAA-AGCCACTAATAACATTG
* *
10585568 AAAAAACGACAGCGTT
130 AAAAAACGACAACATT
* * *
10585584 TCTATAAATGTTAGAACAATGTTGCGGCGTTTTAAGTAAAGCACCACTAAATATAAGATC-AAAC
1 TCGATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGC-CCACTAAATATAA-ATCAAAAC
* * * ** * *
10585648 GA-AGTCGTTTC-TCCAACATTTAACTCAAGCTTGTGGCGTTTCCAAAAAAAGCCACTAATACCA
64 -ACAGTCATTTCAT-CAACACTTAACTCAAACCCGTGGCGTTTCAAAAAAAAGCCACTAATAACA
*
10585711 TTGACAAAACGACAACATT
127 TTGAAAAAACGACAACATT
** *
10585730 TCGATAAA-CATAAATACAATTTTGCGGCGTTTTATGTAAAGC
1 TCGATAAATGTTAAA-ACAATTTTGCGGCGTTTTAAGTAAAGC
10585772 GCCAGTAATA
Statistics
Matches: 155, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
145 3 0.02
146 96 0.62
147 52 0.34
148 4 0.03
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (145 bp):
TCGATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCCCACTAAATATAAATCAAAACAC
AGTCATTTCATCAACACTTAACTCAAACCCGTGGCGTTTCAAAAAAAAGCCACTAATAACATTGA
AAAAACGACAACATT
Done.