Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 11 of 185
Found at i:3044564 original size:30 final size:28
Alignment explanation
Indices: 3044472--3044579 Score: 135
Period size: 29 Copynumber: 3.7 Consensus size: 28
3044462 AAAAAAATAT
3044472 AAATTACATTTTAACCCCTAACTTTTCTA
1 AAATTACATTTTAA-CCCTAACTTTTCTA
* * *
3044501 AAATTACATATTGACCACTAACTTTTTTA
1 AAATTACATTTTAACC-CTAACTTTTCTA
3044530 AAATTACATTTTAACCCTAAACTTTTCCTA
1 AAATTACATTTTAACCCT-AACTTTT-CTA
* *
3044560 AAATTACAATTTGACCCTAA
1 AAATTACATTTTAACCCTAA
3044580 AATTTTTACA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.06
29 46 0.68
30 18 0.26
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.39
Consensus pattern (28 bp):
AAATTACATTTTAACCCTAACTTTTCTA
Found at i:3044586 original size:58 final size:58
Alignment explanation
Indices: 3044472--3044587 Score: 166
Period size: 58 Copynumber: 2.0 Consensus size: 58
3044462 AAAAAAATAT
**
3044472 AAATTACATTTTAACCCCTAACTTTTCTAAAATTACATATTGACCACTAACTTTTTTA
1 AAATTACATTTTAACCCCTAACTTTTCTAAAATTACATATTGACCACTAAAATTTTTA
3044530 AAATTACATTTTAA-CCCTAAACTTTTCCTAAAATTACA-ATTTGACC-CTAAAATTTTTA
1 AAATTACATTTTAACCCCT-AACTTTT-CTAAAATTACATA-TTGACCACTAAAATTTTTA
3044588 CACCATTTGC
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
57 4 0.08
58 32 0.60
59 17 0.32
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.41
Consensus pattern (58 bp):
AAATTACATTTTAACCCCTAACTTTTCTAAAATTACATATTGACCACTAAAATTTTTA
Found at i:3044932 original size:11 final size:11
Alignment explanation
Indices: 3044916--3044952 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
3044906 AATTGACACG
3044916 AAAGAGAAGAA
1 AAAGAGAAGAA
3044927 AAAGAG-AGAA
1 AAAGAGAAGAA
3044937 AGAAGAGAAGAA
1 A-AAGAGAAGAA
3044949 AAAG
1 AAAG
3044953 GGAAATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.21
11 14 0.58
12 5 0.21
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAGAGAAGAA
Found at i:3045072 original size:4 final size:4
Alignment explanation
Indices: 3045058--3045105 Score: 55
Period size: 4 Copynumber: 12.2 Consensus size: 4
3045048 AGGGCCGAAG
* *
3045058 GAAA AAAA GAAA GAAA G-AA GAAA G-AA GAAA AAAGA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA-A GAAA GAAA GAAA
3045105 G
1 G
3045106 TATAAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
3 6 0.16
4 28 0.76
5 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:3045940 original size:21 final size:21
Alignment explanation
Indices: 3045901--3045940 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3045891 AAATTGATTT
*
3045901 ATCAAAATTTACTTGTAAATC
1 ATCAAAATTTAATTGTAAATC
*
3045922 ATCAAAATTTAATTTTAAA
1 ATCAAAATTTAATTGTAAA
3045941 ATATATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (21 bp):
ATCAAAATTTAATTGTAAATC
Found at i:3056672 original size:50 final size:50
Alignment explanation
Indices: 3056606--3056798 Score: 217
Period size: 50 Copynumber: 3.8 Consensus size: 50
3056596 ACTATTATCA
3056606 TTCGATACACGTAGTAGCCCT-CACATAGTACTACACACGTGATCAAACTT
1 TTCGATACACGTAGTAG-CCTGCACATAGTACTACACACGTGATCAAACTT
* * * *
3056656 TTTGATTCACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTA
1 TTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATC-AAACTT
* * * * * * *** *
3056707 TCCGATACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTTTCAT
1 TTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAACTT
* *
3056757 TTCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGA
1 TTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA
3056799 CAATCACTTT
Statistics
Matches: 117, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
49 3 0.03
50 74 0.63
51 40 0.34
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAACTT
Found at i:3059987 original size:47 final size:48
Alignment explanation
Indices: 3059923--3060013 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 48
3059913 CTTTTCACAT
3059923 TGCCATAGTATAACTATGGTCTCACACAGAAACACAT-ATCACACTGA
1 TGCCATAGTATAACTATGGTCTCACACAGAAACACATAATCACACTGA
* * * *
3059970 TGCCATAGT-TCAGCTATGGTCTTATACAGAAGCACATAATCACA
1 TGCCATAGTAT-AACTATGGTCTCACACAGAAACACATAATCACA
3060014 ATTTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
46 1 0.03
47 31 0.82
48 6 0.16
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (48 bp):
TGCCATAGTATAACTATGGTCTCACACAGAAACACATAATCACACTGA
Found at i:3062863 original size:42 final size:43
Alignment explanation
Indices: 3062816--3062962 Score: 108
Period size: 42 Copynumber: 3.3 Consensus size: 43
3062806 AAATCTTACC
3062816 ATTTTATAA-CATCTCATAACCAAATAATTCTAATAACAAGAT
1 ATTTTATAATCATCTCATAACCAAATAATTCTAATAACAAGAT
* * * **
3062858 ATTTTATAATCATC-CCT-A-CAATATTCATATCAACCATTAAATCTTACCAT
1 ATTTTATAATCATCTCATAACCAA-A-TAAT-TCTA--A-T-AA-C--AAGAT
*
3062908 -TTTTATAA-CATCTCATAACCAAATAATTCTAATAATAAGAT
1 ATTTTATAATCATCTCATAACCAAATAATTCTAATAACAAGAT
3062949 ATTTTATAATCATC
1 ATTTTATAATCATC
3062963 CCTATGACTA
Statistics
Matches: 78, Mismatches: 11, Indels: 31
0.65 0.09 0.26
Matches are distributed among these distances:
40 3 0.04
41 5 0.06
42 22 0.28
43 11 0.14
44 2 0.03
45 2 0.03
46 2 0.03
47 2 0.03
48 8 0.10
49 13 0.17
50 5 0.06
51 3 0.04
ACGTcount: A:0.43, C:0.18, G:0.01, T:0.37
Consensus pattern (43 bp):
ATTTTATAATCATCTCATAACCAAATAATTCTAATAACAAGAT
Found at i:3062948 original size:91 final size:90
Alignment explanation
Indices: 3062784--3062966 Score: 348
Period size: 91 Copynumber: 2.0 Consensus size: 90
3062774 TTCGGGATAT
3062784 TACAATATTCATATCAACCATTAAATCTTACCATTTTATAACATCTCATAACCAAATAATTCTAA
1 TACAATATTCATATCAACCATTAAATCTTACCATTTTATAACATCTCATAACCAAATAATTCTAA
3062849 TAACAAGATATTTTATAATCATCCC
66 TAACAAGATATTTTATAATCATCCC
3062874 TACAATATTCATATCAACCATTAAATCTTACCATTTTTATAACATCTCATAACCAAATAATTCTA
1 TACAATATTCATATCAACCATTAAATCTTACCA-TTTTATAACATCTCATAACCAAATAATTCTA
*
3062939 ATAATAAGATATTTTATAATCATCCC
65 ATAACAAGATATTTTATAATCATCCC
3062965 TA
1 TA
3062967 TGACTACAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
90 33 0.36
91 58 0.64
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.37
Consensus pattern (90 bp):
TACAATATTCATATCAACCATTAAATCTTACCATTTTATAACATCTCATAACCAAATAATTCTAA
TAACAAGATATTTTATAATCATCCC
Found at i:3064350 original size:51 final size:51
Alignment explanation
Indices: 3064227--3064470 Score: 210
Period size: 51 Copynumber: 4.8 Consensus size: 51
3064217 TTATCATTCG
* * * * *
3064227 ATACACGTAGTAGCCTTCACATAGTACTACACACATGATCA--AACTTTCCA
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAA-TATCTA
* *
3064277 GTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCTA
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCTA
* * * * *
3064328 ACACACGTAGTAGCCTGGACATAGTACTACACACGTGATCGA--AGCTATCTG
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATTA-ATATCTA
* * * * * * * ** *
3064379 GTACGCATAGTAGCCTGCACATAGTACTACACATGCGGCCTTTCGTTTC-A
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCTA
* *
3064429 ATACACGTAGTAGCCTACACATAGTACTACACATGTGACCAT
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
3064471 CACTTTCACT
Statistics
Matches: 153, Mismatches: 35, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
50 73 0.48
51 76 0.50
52 4 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (51 bp):
ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCTA
Found at i:3064350 original size:101 final size:101
Alignment explanation
Indices: 3064229--3064461 Score: 279
Period size: 101 Copynumber: 2.3 Consensus size: 101
3064219 ATCATTCGAT
* * * *
3064229 ACACGTAGTAGCCTTCACATAGTACTACACACATGATC-AAACTTTCCAGTTCACGTAGTAGCCT
1 ACACGTAGTAGCCTACACATAGTACTACACACATGATCGAAACTATCCAGTACACATAGTAGCCT
*
3064293 GCACATAGTACTACACACGTGACCATTAATATCTAAC
66 GCACATAGTACTACACACGCGACCATTAATATC-AAC
** * * ** *
3064330 ACACGTAGTAGCCTGGACATAGTACTACACACGTGATCGAAGCTATCTGGTACGCATAGTAGCCT
1 ACACGTAGTAGCCTACACATAGTACTACACACATGATCGAAACTATCCAGTACACATAGTAGCCT
* * * ** * *
3064395 GCACATAGTACTACACATGCGGCCTTTCGTTTCAAT
66 GCACATAGTACTACACACGCGACCATTAATATCAAC
3064431 ACACGTAGTAGCCTACACATAGTACTACACA
1 ACACGTAGTAGCCTACACATAGTACTACACA
3064462 TGTGACCATC
Statistics
Matches: 111, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
101 66 0.59
102 45 0.41
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (101 bp):
ACACGTAGTAGCCTACACATAGTACTACACACATGATCGAAACTATCCAGTACACATAGTAGCCT
GCACATAGTACTACACACGCGACCATTAATATCAAC
Found at i:3070289 original size:76 final size:75
Alignment explanation
Indices: 3070158--3071218 Score: 1178
Period size: 76 Copynumber: 14.1 Consensus size: 75
3070148 TTCGTCTTTG
* ** *
3070158 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACATTGAGGTATTTTCAAGT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
3070223 TCTATTTTTC
66 TCTATTTTTC
* * * * *
3070233 AAAAAATAAACTCATAATCTGAAAAGTGAGTTGAGCCTCAGGTCGCACGCTAAGGTATTTTCAAT
1 -AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAAT
3070298 TTCTGTTATTTTTC
65 TTC---TATTTTTC
* * * * *
3070312 AAAAATGAACTTATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
** *
3070377 TCTGCTTAT-
66 TCTATTTTTC
* * * ***
3070386 AAAAACTTAACTCATAATCCGAGAAGTCAGTTAAGCCTCGGGTCGCATATTGAGGTATTTTCAAT
1 AAAAA-TCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAAT
3070451 TTCTATTTTTC
65 TTCTATTTTTC
* * * * *
3070462 AAAAATCAACTTATAATCCGAGAGGTGAGTTGAGCCTTGGGTCACACACTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
*
3070527 TCTGTTTTTC
66 TCTATTTTTC
* * * * *
3070537 AAAAATCAACTCATAATCCGAGAAAATGAGTTGGGCCTCGGGGCGCGCGCTGAGGTATTCTCAAT
1 AAAAATCAACTCATAATCCGAG-AAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAAT
* *
3070602 TTTTGTTTTTC
65 TTCTATTTTTC
* * * * *
3070613 AAAAATCAATTCATAATCCTAAAAGTGAGTTGAGCCTTGGGTCGCATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
3070678 TCTATTTTTC
66 TCTATTTTTC
* * *
3070688 AAAAATCAATTCATAATCCGAGAAGATGAGTGGAGCCTCGGGTCG-AGCACTGAGGTATTTTCAA
1 AAAAATCAACTCATAATCCGAGAAG-TGAGTTGAGCCTCGGGTCGCA-CGCTGAGGTATTTTCAA
*
3070752 TTTTTATTTTTC
64 TTTCTATTTTTC
* * * *
3070764 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGTCTCAGGTCACACGCTGATGTATTTTTCAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTCAAT
*
3070829 TTCTGTTTTTC
65 TTCTATTTTTC
* * * *
3070840 AAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCGCGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
3070905 TCTATTTTTC
66 TCTATTTTTC
* * * * * * * *
3070915 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCCCAGATCACACGCCGAGGTATTTTTCAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTCAAT
3070980 TTCTATTTTTC
65 TTCTATTTTTC
* * * * * * * * * *
3070991 AAAAATAAACTCAAAATCTGAGAGGTGAGTTGAGCCTTGAGTCACATGCCGAGGTATTTTTTAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTCAAT
3071056 TTCTATTTTTC
65 TTCTATTTTTC
* * * * * * *
3071067 AAAAATCAACTTATAATCTGAGAGGTGAGTTGAGCCACAGGTCGCGCGCTAAGGTATTTT-ATAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCA-AT
**
3071131 TTCTGCTTTTC
65 TTCTATTTTTC
* * * * ** * *
3071142 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGTACGCCAAGGTGTTTTCAAGT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
3071207 TCT-TTTTT-
66 TCTATTTTTC
3071215 AAAA
1 AAAA
3071219 TAAAAATAAA
Statistics
Matches: 831, Mismatches: 141, Indels: 29
0.83 0.14 0.03
Matches are distributed among these distances:
73 3 0.00
74 10 0.01
75 366 0.44
76 386 0.46
78 58 0.07
79 8 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (75 bp):
AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
TCTATTTTTC
Found at i:3070648 original size:151 final size:150
Alignment explanation
Indices: 3070158--3071218 Score: 1175
Period size: 151 Copynumber: 7.0 Consensus size: 150
3070148 TTCGTCTTTG
* * ** *
3070158 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACATTGAGGTATTTTCAAGT
1 AAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
* * * * * * *
3070223 TCTATTTTTCAAAAAATAAACTCATAATCTGAAAAGTGAGTTGAGCCTCAGGTCGCACGCTAAGG
66 TCTGTTTTTC-AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGG
3070288 TATTTTCAATTTCTGTTATTTTTC
130 TATTTTCAATTTC---TATTTTTC
* *
3070312 AAAAATGAACTT-ATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTAAT
1 AAAAATCAA-TTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAAT
* * * * * * ***
3070376 TTCTGCTTAT-AAAAACTTAACTCATAATCCGAGAAGTCAGTTAAGCCTCGGGTCGCATATTGAG
65 TTCTGTTTTTCAAAAA-TCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAG
3070440 GTATTTTCAATTTCTATTTTTC
129 GTATTTTCAATTTCTATTTTTC
* *
3070462 AAAAATCAACTT-ATAATCCGAGAGGTGAGTTGAGCCTTGGGTCACACACTGAGGTATTTTCAAT
1 AAAAATCAA-TTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAAT
** * * *
3070526 TTCTGTTTTTCAAAAATCAACTCATAATCCGAGAAAATGAGTTGGGCCTCGGGGCGCGCGCTGAG
65 TTCTGTTTTTCAAAAATCAACTCATAATCCGAG-AGGTGAGTTGAGCCTCGGGTCGCACGCTGAG
* * *
3070591 GTATTCTCAATTTTTGTTTTTC
129 GTATTTTCAATTTCTATTTTTC
* * * * * *
3070613 AAAAATCAATTCATAATCCTAAAAGTGAGTTGAGCCTTGGGTCGCATGCTGAGGTATTTTCAATT
1 AAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
* * * * *
3070678 TCTATTTTTCAAAAATCAATTCATAATCCGAGAAGATGAGTGGAGCCTCGGGTCG-AGCACTGAG
66 TCTGTTTTTCAAAAATCAACTCATAATCCGAG-AGGTGAGTTGAGCCTCGGGTCGCA-CGCTGAG
*
3070742 GTATTTTCAATTTTTATTTTTC
129 GTATTTTCAATTTCTATTTTTC
* * * * *
3070764 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGTCTCAGGTCACACGCTGATGTATTTTTCAAT
1 AAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-TTTTCAAT
* * *
3070829 TTCTGTTTTTCAAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCGCGCTGAGG
65 TTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGG
3070894 TATTTTCAATTTCTATTTTTC
130 TATTTTCAATTTCTATTTTTC
* * * * * * *
3070915 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCCCAGATCACACGCCGAGGTATTTTTCAAT
1 AAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-TTTTCAAT
* * * * * * * * *
3070980 TTCTATTTTTCAAAAATAAACTCAAAATCTGAGAGGTGAGTTGAGCCTTGAGTCACATGCCGAGG
65 TTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGG
*
3071045 TATTTTTTAATTTCTATTTTTC
130 TA-TTTTCAATTTCTATTTTTC
* * * * * *
3071067 AAAAATCAACTT-ATAATCTGAGAGGTGAGTTGAGCCACAGGTCGCGCGCTAAGGTATTTT-ATA
1 AAAAATCAA-TTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCA-A
* * * * **
3071130 TTTCTGCTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGTACGCCAAG
64 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAG
* *
3071195 GTGTTTTCAAGTTCT-TTTTT-
129 GTATTTTCAATTTCTATTTTTC
3071215 AAAA
1 AAAA
3071219 TAAAAATAAA
Statistics
Matches: 780, Mismatches: 116, Indels: 28
0.84 0.13 0.03
Matches are distributed among these distances:
148 4 0.01
149 5 0.01
150 105 0.13
151 443 0.57
152 107 0.14
153 53 0.07
154 62 0.08
155 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (150 bp):
AAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
TCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
ATTTTCAATTTCTATTTTTC
Found at i:3070845 original size:227 final size:225
Alignment explanation
Indices: 3070158--3071185 Score: 1204
Period size: 227 Copynumber: 4.5 Consensus size: 225
3070148 TTCGTCTTTG
* * ** *
3070158 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACATTGAGGTATTTTCAAGT
1 AAAAATCAATTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
* * * * * * *
3070223 TCTATTTTTCAAAAAATAAACTCATAATCTGAAAAGTGAGTTGAGCCTCAGGTCGCACGCTAAGG
66 TCTATTTTTC-AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCG-ACACTGAGG
* * *
3070288 TATTTTCAATTTCTGTTATTTTTCAAAAATGAACTTATAATCCGAGAGGTGAGTTGAGCCTCGGG
129 TATTTTCAATTTC---TATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGG
* *
3070353 TCACACGCTGAGGTATTTTT-AATTTCTGCTTAT-
191 TCACACGCTGAGGTATTTTTCAATTTCTGTTTTTC
* * * * ***
3070386 AAAAACTTAACTCATAATCCGAGAAGTCAGTTAAGCCTCGGGTCGCATATTGAGGTATTTTCAAT
1 AAAAA-TCAATTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAAT
* * *
3070451 TTCTATTTTTCAAAAATCAACTTATAATCCGAGAGGTGAGTTGAGCCTTGGGTCACACACTGAGG
65 TTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTC-GACACTGAGG
* * * *
3070516 TATTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAAAATGAGTTGGGCCTCGGGGC
129 TATTTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAG-AAGTGAGTTGAGCCTCGGGTC
* * * *
3070581 GCGCGCTGAGGTA-TTCTCAATTTTTGTTTTTC
193 ACACGCTGAGGTATTTTTCAATTTCTGTTTTTC
* * * *
3070613 AAAAATCAATTCATAATCCTAAAAGTGAGTTGAGCCTTGGGTCGCATGCTGAGGTATTTTCAATT
1 AAAAATCAATTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
* * *
3070678 TCTATTTTTCAAAAATCAATTCATAATCCGAGAAGATGAGTGGAGCCTCGGGTCGAGCACTGAGG
66 TCTATTTTTCAAAAATCAACTCATAATCCGAG-AGGTGAGTTGAGCCTCGGGTCGA-CACTGAGG
* * *
3070743 TATTTTCAATTTTTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGTCTCAGGTCA
129 TATTTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCA
*
3070808 CACGCTGATGTATTTTTCAATTTCTGTTTTTC
194 CACGCTGAGGTATTTTTCAATTTCTGTTTTTC
* * *
3070840 AAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCGCGCTGAGGTATTTTCAATT
1 AAAAATCAATTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
* * * * * *
3070905 TCTATTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCCCAGATC-ACACGCCGAGG
66 TCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGACA--CTGAGG
* * * * * *
3070969 TATTTTTCAATTTCTATTTTTCAAAAATAAACTCAAAATCTGAGAGGTGAGTTGAGCCTTGAGTC
129 TA-TTTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTC
* * * *
3071034 ACATGCCGAGGTATTTTTTAATTTCTATTTTTC
193 ACACGCTGAGGTATTTTTCAATTTCTGTTTTTC
* * * * * *
3071067 AAAAATCAACTT-ATAATCTGAGAGGTGAGTTGAGCCACAGGTCGCGCGCTAAGGTATTTT-ATA
1 AAAAATCAA-TTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCA-A
** * *
3071130 TTTCTGCTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCG
64 TTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCG
3071186 TACGCCAAGG
Statistics
Matches: 690, Mismatches: 96, Indels: 28
0.85 0.12 0.03
Matches are distributed among these distances:
224 2 0.00
225 31 0.04
226 170 0.25
227 360 0.52
228 63 0.09
229 64 0.09
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (225 bp):
AAAAATCAATTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
TCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGACACTGAGGTA
TTTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACA
CGCTGAGGTATTTTTCAATTTCTGTTTTTC
Found at i:3071606 original size:28 final size:30
Alignment explanation
Indices: 3071517--3071640 Score: 148
Period size: 29 Copynumber: 4.3 Consensus size: 30
3071507 AAGAAAATAT
* *
3071517 AAATTACATTTTGACACC-CAACTTTCTTA
1 AAATTACATTTTGACACCTAAACTTTCCTA
* * *
3071546 AAATTACATTTTGACACTTCAACTTCCCTA
1 AAATTACATTTTGACACCTAAACTTTCCTA
*
3071576 AAATTAGATTTTGAC-CCT-AACTTTCCTA
1 AAATTACATTTTGACACCTAAACTTTCCTA
* *
3071604 AAATTACATTTTGAC-CTTAAATTTTCCTA
1 AAATTACATTTTGACACCTAAACTTTCCTA
3071633 AAATTACA
1 AAATTACA
3071641 CATTAACCCC
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
28 25 0.30
29 36 0.43
30 23 0.27
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (30 bp):
AAATTACATTTTGACACCTAAACTTTCCTA
Found at i:3071608 original size:58 final size:58
Alignment explanation
Indices: 3071517--3071640 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 58
3071507 AAGAAAATAT
* *
3071517 AAATTACATTTTGACACCCAACTTTCTTAAAATTACATTTTGACACTTCAACTTCCCTA
1 AAATTACATTTTGACACCCAACTTTCCTAAAATTACATTTTGAC-CTTAAACTTCCCTA
* * * *
3071576 AAATTAGATTTTGAC-CCTAACTTTCCTAAAATTACATTTTGACCTTAAATTTTCCTA
1 AAATTACATTTTGACACCCAACTTTCCTAAAATTACATTTTGACCTTAAACTTCCCTA
3071633 AAATTACA
1 AAATTACA
3071641 CATTAACCCC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 18 0.31
58 26 0.45
59 14 0.24
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (58 bp):
AAATTACATTTTGACACCCAACTTTCCTAAAATTACATTTTGACCTTAAACTTCCCTA
Found at i:3071869 original size:20 final size:20
Alignment explanation
Indices: 3071846--3071888 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
3071836 AGCACCAAAC
3071846 AAAGAAAAATG-AAAAAAGAA
1 AAAGAAAAA-GCAAAAAAGAA
* *
3071866 AAAGACAAAGCAAAAAATAA
1 AAAGAAAAAGCAAAAAAGAA
3071886 AAA
1 AAA
3071889 AAAGCAGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.79, C:0.05, G:0.12, T:0.05
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAGAA
Found at i:3072000 original size:11 final size:11
Alignment explanation
Indices: 3071984--3072019 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
3071974 AATCGGCACG
3071984 AAAGAGAAGAA
1 AAAGAGAAGAA
3071995 AAAGAG-AGAA
1 AAAGAGAAGAA
3072005 AGAAGAGAAGAA
1 A-AAGAGAAGAA
3072017 AAA
1 AAA
3072020 AGGAAAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 5 0.22
11 13 0.57
12 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
AAAGAGAAGAA
Found at i:3072010 original size:22 final size:20
Alignment explanation
Indices: 3071985--3072026 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
3071975 ATCGGCACGA
3071985 AAGAGAAGAAAAAGAGAGAAAG
1 AAGAGAAGAAAAA-AG-GAAAG
3072007 AAGAGAAGAAAAAAGGAAAG
1 AAGAGAAGAAAAAAGGAAAG
3072027 GAGAAAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AAGAGAAGAAAAAAGGAAAG
Found at i:3072149 original size:10 final size:10
Alignment explanation
Indices: 3072128--3072197 Score: 61
Period size: 10 Copynumber: 6.4 Consensus size: 10
3072118 GGTTGAAGGA
3072128 AAAAGAGAAAG
1 AAAA-AGAAAG
*
3072139 AAAACGAAAG
1 AAAAAGAAAG
3072149 AAAAAGAAAG
1 AAAAAGAAAG
3072159 AAAGAAAGAGGAAG
1 -AA-AAAGA--AAG
3072173 AAAAGAGAAAG
1 AAAA-AGAAAG
3072184 AAAGAAGAAA-
1 AAA-AAGAAAG
3072194 AAAA
1 AAAA
3072198 GTAATAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
9 1 0.02
10 17 0.33
11 17 0.33
12 8 0.16
13 5 0.10
14 3 0.06
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:3072151 original size:4 final size:4
Alignment explanation
Indices: 3072133--3072198 Score: 50
Period size: 4 Copynumber: 16.5 Consensus size: 4
3072123 AAGGAAAAAG
*
3072133 AGAA AGAAA ACGAA AG-A A-AA AGAA AGAA AGAA AGAGGA AGAA A-AG
1 AGAA AG-AA A-GAA AGAA AGAA AGAA AGAA AGAA AGA--A AGAA AGAA
*
3072178 AGAA AGAA AG-A AGAA AAAA AG
1 AGAA AGAA AGAA AGAA AGAA AG
3072199 TAATAAAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
3 9 0.18
4 30 0.60
5 6 0.12
6 5 0.10
ACGTcount: A:0.73, C:0.02, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:3072179 original size:11 final size:11
Alignment explanation
Indices: 3072128--3072198 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
3072118 GGTTGAAGGA
3072128 AAAAGAGAAAG
1 AAAAGAGAAAG
*
3072139 AAAA-CGAAAG
1 AAAAGAGAAAG
3072149 AAAA-AGAAAG
1 AAAAGAGAAAG
*
3072159 AAAGAAAGAGGAAG
1 --A-AAAGAGAAAG
3072173 AAAAGAGAAAG
1 AAAAGAGAAAG
3072184 -AAAGAAGAAA-
1 AAAAG-AGAAAG
3072194 AAAAG
1 AAAAG
3072199 TAATAAAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
10 18 0.36
11 22 0.44
12 2 0.04
13 3 0.06
14 5 0.10
ACGTcount: A:0.73, C:0.01, G:0.25, T:0.00
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:3072191 original size:24 final size:22
Alignment explanation
Indices: 3072128--3072198 Score: 85
Period size: 24 Copynumber: 3.2 Consensus size: 22
3072118 GGTTGAAGGA
*
3072128 AAAAGAGAAAGAAA-ACGAAAG
1 AAAAGAGAAAGAAAGAAGAAAG
3072149 AAAA-AGAAAGAAAGAAAGAGGAAG
1 AAAAGAGAAAGAAAG-AAGA--AAG
3072173 AAAAGAGAAAGAAAGAAGAAA-
1 AAAAGAGAAAGAAAGAAGAAAG
3072194 AAAAG
1 AAAAG
3072199 TAATAAAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
20 9 0.20
21 9 0.20
22 5 0.11
24 11 0.25
25 10 0.23
ACGTcount: A:0.73, C:0.01, G:0.25, T:0.00
Consensus pattern (22 bp):
AAAAGAGAAAGAAAGAAGAAAG
Found at i:3072550 original size:12 final size:12
Alignment explanation
Indices: 3072533--3072572 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
3072523 AATCTGCAAG
3072533 AAAAAGGAAAAA
1 AAAAAGGAAAAA
3072545 AAAAAGG-AAAA
1 AAAAAGGAAAAA
*
3072556 AAAGA-GAAAAA
1 AAAAAGGAAAAA
3072567 AAAAAG
1 AAAAAG
3072573 AGCCCGAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 1 0.04
11 16 0.67
12 7 0.29
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAGGAAAAA
Found at i:3073776 original size:23 final size:25
Alignment explanation
Indices: 3073744--3073789 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
3073734 TCATGTGAAA
3073744 ATATACTCATTCAGCTT-TAATTTC
1 ATATACTCATTCAGCTTCTAATTTC
3073768 ATAT-CTCATTCAGCTTCTAATT
1 ATATACTCATTCAGCTTCTAATT
3073790 CAACTTCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATACTCATTCAGCTTCTAATTTC
Found at i:3074499 original size:46 final size:46
Alignment explanation
Indices: 3074421--3074605 Score: 289
Period size: 46 Copynumber: 4.0 Consensus size: 46
3074411 ACAAGGCTAT
* * *
3074421 AACTTAGTATGGTTTTCTTCACGGAAATACCATACGTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
*
3074467 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* **
3074513 AACTCAGTATGGTTTTCTTTACCAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* *
3074559 AACTCAGTATGGTTTTCTTCACTGAAATACCATACTTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
3074605 A
1 A
3074606 CTTTTCCATG
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 126 1.00
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:3075431 original size:23 final size:23
Alignment explanation
Indices: 3075401--3075448 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
3075391 AATATATGAA
*
3075401 AAATCAGCTTTGATGGACTCTTT
1 AAATCAGCTTTGAGGGACTCTTT
3075424 AAATCAGCTTTGAGGGACTCTTT
1 AAATCAGCTTTGAGGGACTCTTT
3075447 AA
1 AA
3075449 TGGCGTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (23 bp):
AAATCAGCTTTGAGGGACTCTTT
Found at i:3078897 original size:14 final size:14
Alignment explanation
Indices: 3078878--3078904 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3078868 AAGTAATAAA
3078878 TATAACAAATTCAT
1 TATAACAAATTCAT
3078892 TATAACAAATTCA
1 TATAACAAATTCA
3078905 CAATTTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (14 bp):
TATAACAAATTCAT
Found at i:3087172 original size:20 final size:20
Alignment explanation
Indices: 3087147--3087216 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
3087137 ACTTAACATA
3087147 TAATAAAATTGATAAAAAAT
1 TAATAAAATTGATAAAAAAT
3087167 TAATAAGAA-TGAT-AAAAAT
1 TAATAA-AATTGATAAAAAAT
* * *
3087186 TATTAAATTTTAATAAAAATAT
1 TAATAAA-ATTGATAAAAA-AT
*
3087208 TAAAAAAAT
1 TAATAAAAT
3087217 AAAAAATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 1 0.03
19 11 0.28
20 13 0.33
21 7 0.18
22 7 0.18
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
TAATAAAATTGATAAAAAAT
Found at i:3087213 original size:9 final size:8
Alignment explanation
Indices: 3087199--3087248 Score: 55
Period size: 9 Copynumber: 5.9 Consensus size: 8
3087189 TAAATTTTAA
3087199 TAAAAATAT
1 TAAAAA-AT
*
3087208 TAAAAAAA
1 TAAAAAAT
3087216 TAAAAAAT
1 TAAAAAAT
*
3087224 AAAAAACAT
1 TAAAAA-AT
3087233 TAAAAAAT
1 TAAAAAAT
3087241 TATAAAAA
1 TA-AAAAA
3087249 AATTAGTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
8 17 0.49
9 18 0.51
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (8 bp):
TAAAAAAT
Found at i:3087234 original size:25 final size:26
Alignment explanation
Indices: 3087200--3087249 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
3087190 AAATTTTAAT
*
3087200 AAAAATATTAAAAAA-ATAAAAAATA
1 AAAAACATTAAAAAATATAAAAAATA
3087225 AAAAACATTAAAAAATTATAAAAAA
1 AAAAACATTAAAAAA-TATAAAAAA
3087250 ATTAGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
27 8 0.36
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (26 bp):
AAAAACATTAAAAAATATAAAAAATA
Found at i:3087263 original size:12 final size:11
Alignment explanation
Indices: 3087231--3087266 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
3087221 AATAAAAAAC
3087231 ATTAAAAAATT
1 ATTAAAAAATT
*
3087242 ATAAAAAAATT
1 ATTAAAAAATT
3087253 AGTTAAAAAATT
1 A-TTAAAAAATT
3087265 AT
1 AT
3087267 GAATTCTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
ATTAAAAAATT
Found at i:3088475 original size:73 final size:73
Alignment explanation
Indices: 3088356--3088503 Score: 233
Period size: 73 Copynumber: 2.0 Consensus size: 73
3088346 GGGTGAGTTT
* *
3088356 TAACACCTTAGATTTTGGGATGAGAAGTTTTGAAGTTTGTAGTTAGGGTCAATAAGTAGGTTTAA
1 TAACACCTCAGAATTTGGGATGAGAAGTTTTGAAGTTTGTAGTTAGGGTCAATAAGTAGGTTTAA
3088421 CAATTAAG
66 CAATTAAG
* * * * *
3088429 TAACACCTCAGAATTTGGGGTTAGAAGTTTTGAGGTTTGTAGTTAGGGTTAATAAGTAGGTTTAG
1 TAACACCTCAGAATTTGGGATGAGAAGTTTTGAAGTTTGTAGTTAGGGTCAATAAGTAGGTTTAA
3088494 CAATTAAG
66 CAATTAAG
3088502 TA
1 TA
3088504 TCTGTTTCAG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.36
Consensus pattern (73 bp):
TAACACCTCAGAATTTGGGATGAGAAGTTTTGAAGTTTGTAGTTAGGGTCAATAAGTAGGTTTAA
CAATTAAG
Found at i:3089183 original size:30 final size:30
Alignment explanation
Indices: 3089137--3089195 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
3089127 GCCACACGGG
3089137 TGTGTACCGCACACGAGCAGTCTACACAGT
1 TGTGTACCGCACACGAGCAGTCTACACAGT
* * *
3089167 TGTGTATCGCATACGAGCGGTCTACACAG
1 TGTGTACCGCACACGAGCAGTCTACACAG
3089196 CCGTGTGTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.22
Consensus pattern (30 bp):
TGTGTACCGCACACGAGCAGTCTACACAGT
Found at i:3091114 original size:15 final size:15
Alignment explanation
Indices: 3091094--3091124 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3091084 AAATAAATAA
3091094 TAAGTTGAGTTATAG
1 TAAGTTGAGTTATAG
3091109 TAAGTTGAGTTATAG
1 TAAGTTGAGTTATAG
3091124 T
1 T
3091125 GATACTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (15 bp):
TAAGTTGAGTTATAG
Found at i:3095596 original size:28 final size:28
Alignment explanation
Indices: 3095506--3095596 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 28
3095496 ATTTAATTAA
*
3095506 TTTTTT-AAAATTTTAAAAATATATAAATT
1 TTTTTTAAAAATTATAAAAAT-TAT-AATT
* * * **
3095535 ATTTTTAAAAATTACAAATCATTA-AAAA
1 TTTTTTAAAAATTATAAA-AATTATAATT
*
3095563 TGTTTTAAAAATTATAAAAATTATAATT
1 TTTTTTAAAAATTATAAAAATTATAATT
3095591 TTTTTT
1 TTTTTT
3095597 TAATTTTAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 7
0.70 0.20 0.11
Matches are distributed among these distances:
27 4 0.09
28 24 0.52
29 5 0.11
30 11 0.24
31 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (28 bp):
TTTTTTAAAAATTATAAAAATTATAATT
Found at i:3098743 original size:20 final size:21
Alignment explanation
Indices: 3098704--3098743 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3098694 CTCTGTCCCT
**
3098704 TTTTTCTTTTCTTTTCCTCTC
1 TTTTTCTTTTCTTTAACTCTC
3098725 TTTTTCTTTTC-TTAACTCT
1 TTTTTCTTTTCTTTAACTCT
3098744 AGTCACCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTCTTTTCTTTAACTCTC
Found at i:3105783 original size:3 final size:3
Alignment explanation
Indices: 3105775--3105800 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3105765 CGACGGCAGT
3105775 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
3105801 CATTGTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:3107168 original size:13 final size:13
Alignment explanation
Indices: 3107152--3107195 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
3107142 ATAATTAATT
*
3107152 TATAAAAAAATAA
1 TATAATAAAATAA
*
3107165 TATATTAAAATAA
1 TATAATAAAATAA
3107178 TATAATAAAAT-A
1 TATAATAAAATAA
3107190 TATAAT
1 TATAAT
3107196 TTTAATCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 7 0.25
13 21 0.75
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TATAATAAAATAA
Found at i:3107184 original size:18 final size:17
Alignment explanation
Indices: 3107136--3107184 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 17
3107126 CATTTTATTA
*
3107136 ATAAATATAAT-TAATTT
1 ATAAA-ATAATATAATAT
3107153 ATAAAA-AA-ATAATAT
1 ATAAAATAATATAATAT
3107168 ATTAAAATAATATAATA
1 A-TAAAATAATATAATA
3107185 AAATATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 8 0.30
16 6 0.22
17 7 0.26
18 6 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAAAATAATATAATAT
Found at i:3117329 original size:21 final size:21
Alignment explanation
Indices: 3117303--3117342 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3117293 TTTTCTAAAA
*
3117303 TTAAAA-GTCAAAACCATTAAG
1 TTAAAACG-CAAAACAATTAAG
3117324 TTAAAACGCAAAACAATTA
1 TTAAAACGCAAAACAATTA
3117343 TATTATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.23
Consensus pattern (21 bp):
TTAAAACGCAAAACAATTAAG
Found at i:3122588 original size:20 final size:20
Alignment explanation
Indices: 3122563--3122604 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3122553 TTATAAGCTT
*
3122563 TTATG-ATTTTTTTTTACAAA
1 TTATGAATTTTTTATT-CAAA
3122583 TTATGAATTTTTTATTCAAA
1 TTATGAATTTTTTATTCAAA
3122603 TT
1 TT
3122605 TAAAATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (20 bp):
TTATGAATTTTTTATTCAAA
Found at i:3126327 original size:18 final size:18
Alignment explanation
Indices: 3126304--3126374 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
3126294 CGTTTACGGT
*
3126304 ACTATTCACGTATATAGA
1 ACTATTCACGTATACAGA
* *
3126322 ACTATTCACGTATACGGC
1 ACTATTCACGTATACAGA
* *
3126340 ACTATTCACGTATACGGT
1 ACTATTCACGTATACAGA
*
3126358 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
3126375 TAGTTGGGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACAGA
Found at i:3126345 original size:36 final size:36
Alignment explanation
Indices: 3126298--3126372 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
3126288 TACGACCGTT
* *
3126298 TACGGTACTATTCACGTATATAGAACTATTCACGTA
1 TACGGCACTATTCACGTATACAGAACTATTCACGTA
* * *
3126334 TACGGCACTATTCACGTATACGGTACTGTTCACGTA
1 TACGGCACTATTCACGTATACAGAACTATTCACGTA
3126370 TAC
1 TAC
3126373 AGTAGTTGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (36 bp):
TACGGCACTATTCACGTATACAGAACTATTCACGTA
Found at i:3132283 original size:63 final size:63
Alignment explanation
Indices: 3132202--3132456 Score: 492
Period size: 63 Copynumber: 4.0 Consensus size: 63
3132192 TTTATCTTAT
* *
3132202 AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
1 AATTTAGAGTCTTATTGATTCGTTAAACTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
3132265 AATTTAGAGTCTTATTGATTCGTTAAACTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
1 AATTTAGAGTCTTATTGATTCGTTAAACTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
3132328 AATTTAGAGTCTTATTGATTCGTTAAACTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
1 AATTTAGAGTCTTATTGATTCGTTAAACTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
3132391 AATTTAGAGTCTTATTGATTCGTTAAACTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
1 AATTTAGAGTCTTATTGATTCGTTAAACTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
3132454 AAT
1 AAT
3132457 ATTGTAATTT
Statistics
Matches: 190, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 190 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (63 bp):
AATTTAGAGTCTTATTGATTCGTTAAACTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
Found at i:3141241 original size:35 final size:35
Alignment explanation
Indices: 3141195--3141264 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
3141185 CCAAAATCTT
3141195 TATGCTGGAGTCGGGATTGATCTGGATGCTGAACC
1 TATGCTGGAGTCGGGATTGATCTGGATGCTGAACC
3141230 TATGCTGGAGTCGGGATTGATCTGGATGCTGAACC
1 TATGCTGGAGTCGGGATTGATCTGGATGCTGAACC
3141265 GGAACCTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (35 bp):
TATGCTGGAGTCGGGATTGATCTGGATGCTGAACC
Found at i:3141952 original size:23 final size:26
Alignment explanation
Indices: 3141905--3141953 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 26
3141895 TCAATCACAA
3141905 TTTCTCACATTTTCAATTCAATAATT
1 TTTCTCACATTTTCAATTCAATAATT
3141931 TTTC-CAC-TTTTCAA-TCAATAATT
1 TTTCTCACATTTTCAATTCAATAATT
3141954 AATCCACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.39
24 7 0.30
25 3 0.13
26 4 0.17
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTCTCACATTTTCAATTCAATAATT
Found at i:3141959 original size:23 final size:24
Alignment explanation
Indices: 3141914--3141960 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
3141904 ATTTCTCACA
**
3141914 TTTTCAATTCAATAATTTTTCCAC
1 TTTTCAATTCAATAATTAATCCAC
3141938 TTTTCAA-TCAATAATTAATCCAC
1 TTTTCAATTCAATAATTAATCCAC
3141961 AAATTTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTTCAATTCAATAATTAATCCAC
Found at i:3142114 original size:3 final size:3
Alignment explanation
Indices: 3142106--3142134 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3142096 CCACTCATCT
3142106 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3142135 CTTACCTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3143770 original size:10 final size:10
Alignment explanation
Indices: 3143757--3143781 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3143747 TTATTGAAAA
3143757 TTTTAATTAT
1 TTTTAATTAT
3143767 TTTTAATTAT
1 TTTTAATTAT
3143777 TTTTA
1 TTTTA
3143782 TAGGTTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTAATTAT
Found at i:3148517 original size:13 final size:13
Alignment explanation
Indices: 3148499--3148523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3148489 TTTTTTCTAA
3148499 TTTTAATTTTAAT
1 TTTTAATTTTAAT
3148512 TTTTAATTTTAA
1 TTTTAATTTTAA
3148524 ACCCCCTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:3152304 original size:6 final size:6
Alignment explanation
Indices: 3152295--3152320 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3152285 GTAAAATAAA
3152295 AATTTT AATTTT AATTTT AATTTT AA
1 AATTTT AATTTT AATTTT AATTTT AA
3152321 AAATAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:3157668 original size:14 final size:15
Alignment explanation
Indices: 3157649--3157684 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
3157639 AATATTTATT
3157649 ATATAAA-TACTTAA
1 ATATAAAGTACTTAA
3157663 ATATAAAGTACTTAA
1 ATATAAAGTACTTAA
3157678 ATATAAA
1 ATATAAA
3157685 AATGGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATAAAGTACTTAA
Found at i:3159190 original size:128 final size:129
Alignment explanation
Indices: 3159010--3159261 Score: 287
Period size: 128 Copynumber: 2.0 Consensus size: 129
3159000 AGATGAATTT
* * * *
3159010 GATGCGATCTGCTCTACTGTAATTTCAGAGAGATAAGATCCATCATTCTAATCCACTCCGCTACA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* * *
3159075 ACCTT-AAGGAGATAGGATT-T-GTTTATTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGAC
66 A-CTTCAAGGAGATAGGATTATCG--GATTTAATCTGCTCCACTACAACTTCAAGGAGATAAGAC
3159137 TA
128 TA
* * ** * * * *
3159139 GATGCGTTCTGCTCT-CTGCAACTTCAGAGAGATAAGATTCAAGGTTTTAATCCGCTTCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* * *
3159203 ACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAA
66 ACTTCAAGGAGATAGGATTATCGGATTTAATCTGCTCCACTACAACTTCAAGGAGATAA
3159262 AATTTGCCAT
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
127 3 0.03
128 83 0.81
129 15 0.15
130 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (129 bp):
GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
ACTTCAAGGAGATAGGATTATCGGATTTAATCTGCTCCACTACAACTTCAAGGAGATAAGACTA
Found at i:3159206 original size:44 final size:44
Alignment explanation
Indices: 3159154--3159261 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
3159144 GTTCTGCTCT
* *
3159154 CTGCAACTTCAGAGAGATAAGATTCA-AGGTTTTAATCCGCTTCA
1 CTGCAACTTCAGAGAGATAAGATT-ATAGGCTTTAATCCGCTCCA
* * * *
3159198 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGAGAGATAAGATTATAGGCTTTAATCCGCTCCA
3159242 CTGCAACTTCA-AGGAGATAA
1 CTGCAACTTCAGA-GAGATAA
3159262 AATTTGCCAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 53 0.98
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
CTGCAACTTCAGAGAGATAAGATTATAGGCTTTAATCCGCTCCA
Found at i:3159622 original size:44 final size:44
Alignment explanation
Indices: 3159568--3159987 Score: 500
Period size: 44 Copynumber: 9.7 Consensus size: 44
3159558 GCTATTTTCC
* *
3159568 ACCTACTCCACTGCTG-CTCAGGGAGATAGGGTTCACAATCTTCA
1 ACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTCA
* *
3159612 ACCTATTCCACTGTTGACCAGGGAGATAGGA-CCTACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTCA
* * * * *
3159656 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATTTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
*
3159700 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* *
3159744 ACCTATTCCACTGCTGTCCAGGGAGATAGGGTT--C--T-TT-A
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* * *
3159782 ATCTATTCCACTGCTG-CCTAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGACC-AGGGAGATAGGATTCACAATCTTCA
*
3159826 ACCTATTCCACTGCTGACCAGGGAGATAGGA-TCTACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTCA
* * * ** *
3159870 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTTAATTTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* * *
3159914 ACCTATTCCACTGCTGACGAGGGAGATAGGATTCACAATATTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
*
3159958 ACCTATTCCACTGCTGACTAGGGAGATAGG
1 ACCTATTCCACTGCTGACCAGGGAGATAGG
3159988 GCTGGGATCA
Statistics
Matches: 321, Mismatches: 42, Indels: 26
0.83 0.11 0.07
Matches are distributed among these distances:
37 2 0.01
38 28 0.09
39 2 0.01
40 2 0.01
42 2 0.01
43 5 0.02
44 274 0.85
45 6 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
Found at i:3159943 original size:214 final size:214
Alignment explanation
Indices: 3159574--3159988 Score: 715
Period size: 214 Copynumber: 1.9 Consensus size: 214
3159564 TTCCACCTAC
** *
3159574 TCCACTGCTGCTCAGGGAGATAGGGTTCACAATCTTCAACCTATTCCACTGTTGACCAGGGAGAT
1 TCCACTGCTGCTCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
3159639 AGGACCTACAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATTTTCAACCT
66 AGGACCTACAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATTTTCAACCT
* *
3159704 ATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAG
131 ATTCCACTGCTGACCAGGGAGATAGGATTCACAATATTTAACCTATTCCACTGCTGACCAGGGAG
3159769 ATAGGGTTCTTTAATCTAT
196 ATAGGGTTCTTTAATCTAT
*
3159788 TCCACTGCTGC-CTAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGA
1 TCCACTGCTGCTC-AGGGAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGA
* * *
3159852 TAGGATCTACAATCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTTAATTTTCAACC
65 TAGGACCTACAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATTTTCAACC
* *
3159917 TATTCCACTGCTGACGAGGGAGATAGGATTCACAATATTTAACCTATTCCACTGCTGACTAGGGA
130 TATTCCACTGCTGACCAGGGAGATAGGATTCACAATATTTAACCTATTCCACTGCTGACCAGGGA
3159982 GATAGGG
195 GATAGGG
3159989 CTGGGATCAT
Statistics
Matches: 189, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
213 1 0.01
214 188 0.99
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (214 bp):
TCCACTGCTGCTCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
AGGACCTACAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATTTTCAACCT
ATTCCACTGCTGACCAGGGAGATAGGATTCACAATATTTAACCTATTCCACTGCTGACCAGGGAG
ATAGGGTTCTTTAATCTAT
Found at i:3160046 original size:88 final size:88
Alignment explanation
Indices: 3159987--3160485 Score: 734
Period size: 88 Copynumber: 5.7 Consensus size: 88
3159977 AGGGAGATAG
* * * * * *
3159987 GGCTGGGATCATCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGGATCTTCGATCTGATTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGC
3160052 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
3160075 GGCTGGTATCTTCGATCTGATTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGGATCTTCGATCTGATTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGC
3160140 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
3160163 GGCTGGTATCTTCGATCTGATTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGGATCTTCGATCTGATTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGC
3160228 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
3160251 GGCTGGTATCTTCGATCTGATTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTAC
1 GGCTGGGATCTTCGATCTGATTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
3160316 TCCACTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * * * *
3160339 GGCTAGTG-TCTTTGATCT-ACTTCGCTGTCAGTGCAGAAAGGCAAGATTTGCTATTTTTAACCT
1 GGCT-GGGATCTTCGATCTGA-TTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCT
* *
3160402 GCTTCGCTGCAACCTAGGGAGGCAA
64 GCTCCGCTGCAACCCAGGGAGGCAA
* * * *
3160427 GGCTGGTG-TCTTTGATCTGCTTCGCTGTCGGTGTAGGAATGCAAGATCTGCTATTTTTA
1 GGCTGG-GATCTTCGATCTGATTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTA
3160486 CTAATCTGCT
Statistics
Matches: 379, Mismatches: 28, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
87 2 0.01
88 376 0.99
89 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (88 bp):
GGCTGGGATCTTCGATCTGATTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:3160117 original size:44 final size:44
Alignment explanation
Indices: 3160069--3160295 Score: 152
Period size: 44 Copynumber: 5.2 Consensus size: 44
3160059 CAACCCAGGG
3160069 AGGCAAGGCTGGTATCTTCGATCTGATTCACTGTCGGTGTAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGATTCACTGTCGGTGTAGGA
* * * ** * * * * ***** *
3160113 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCCAGGG
1 AGGCAAG-GCTGGTATCTTCGATCTGATTCACTGTCGGTGTAGGA
3160157 AGGCAAGGCTGGTATCTTCGATCTGATTCACTGTCGGTGTAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGATTCACTGTCGGTGTAGGA
* * * ** * * * * ***** *
3160201 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCCAGGG
1 AGGCAAG-GCTGGTATCTTCGATCTGATTCACTGTCGGTGTAGGA
3160245 AGGCAAGGCTGGTATCTTCGATCTGATTCACTGTCGGTGTAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGATTCACTGTCGGTGTAGGA
3160289 AGGCAAG
1 AGGCAAG
3160296 ATCTGCTATT
Statistics
Matches: 119, Mismatches: 60, Indels: 8
0.64 0.32 0.04
Matches are distributed among these distances:
43 34 0.29
44 51 0.43
45 34 0.29
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (44 bp):
AGGCAAGGCTGGTATCTTCGATCTGATTCACTGTCGGTGTAGGA
Found at i:3160337 original size:44 final size:44
Alignment explanation
Indices: 3160020--3160339 Score: 130
Period size: 44 Copynumber: 7.3 Consensus size: 44
3160010 GCTGCCGGTG
* *
3160020 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTGCAACC
* * * * ** * * ****
3160064 CAGGGAGGCAAG-GCTGGTATCTTCGATCTGA-TTCACTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCT-ACTCCACTG-CAACC
* * *
3160108 TAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTGCAACC
* * * * ** * * ****
3160152 CAGGGAGGCAAG-GCTGGTATCTTCGATCTGA-TTCACTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCT-ACTCCACTG-CAACC
* * *
3160196 TAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTGCAACC
* * * * ** * * ****
3160240 CAGGGAGGCAAG-GCTGGTATCTTCGATCTGA-TTCACTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCT-ACTCCACTG-CAACC
*
3160284 TAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTGCAACC
*
3160328 CAGGGAGGCAAG
1 CAGGAAGGCAAG
3160340 GCTAGTGTCT
Statistics
Matches: 175, Mismatches: 89, Indels: 24
0.61 0.31 0.08
Matches are distributed among these distances:
43 48 0.27
44 78 0.45
45 49 0.28
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTGCAACC
Found at i:3167407 original size:14 final size:15
Alignment explanation
Indices: 3167390--3167424 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
3167380 ATATTTATTG
3167390 TATAAA-TACTTAAA
1 TATAAAGTACTTAAA
3167404 TATAAAGTACTTAAA
1 TATAAAGTACTTAAA
3167419 TATAAA
1 TATAAA
3167425 AATGGATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (15 bp):
TATAAAGTACTTAAA
Found at i:3168123 original size:13 final size:13
Alignment explanation
Indices: 3168098--3168130 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
3168088 AGAACAGATC
3168098 AATAAATAAATAAA
1 AATAAA-AAATAAA
3168112 AATAAAAAATAAA
1 AATAAAAAATAAA
3168125 AA-AAAA
1 AATAAAA
3168131 CTTTGAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 9 0.47
14 6 0.32
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:3168127 original size:14 final size:14
Alignment explanation
Indices: 3168098--3168126 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3168088 AGAACAGATC
3168098 AATAAATAAATAAA
1 AATAAATAAATAAA
3168112 AATAAA-AAATAAA
1 AATAAATAAATAAA
3168125 AA
1 AA
3168127 AAAACTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AATAAATAAATAAA
Found at i:3170972 original size:19 final size:19
Alignment explanation
Indices: 3170937--3170976 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
3170927 TTACAGTAAC
*
3170937 AATTAAATAAATTTTTTGAA
1 AATTAAATAAATATTTT-AA
3170957 AATTAAA-AAATATTTTAA
1 AATTAAATAAATATTTTAA
3170975 AA
1 AA
3170977 GATTTATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 8 0.42
20 7 0.37
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (19 bp):
AATTAAATAAATATTTTAA
Found at i:3173027 original size:29 final size:31
Alignment explanation
Indices: 3172975--3173035 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
3172965 AGTTATTATG
**
3172975 ATATAATAATATTAAAATTCTAATTAAAACA
1 ATATAATAATATTAAAATAATAATTAAAACA
*
3173006 ATATAA-AATA-TAAAATAATAATTATAACA
1 ATATAATAATATTAAAATAATAATTAAAACA
3173035 A
1 A
3173036 AACAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 17 0.63
30 4 0.15
31 6 0.22
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (31 bp):
ATATAATAATATTAAAATAATAATTAAAACA
Found at i:3177049 original size:20 final size:20
Alignment explanation
Indices: 3177024--3177061 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3177014 CTTGTAGCAA
* *
3177024 AAAATTTGCAAATTTTTCTT
1 AAAATTTCCAAATGTTTCTT
3177044 AAAATTTCCAAATGTTTC
1 AAAATTTCCAAATGTTTC
3177062 CAAATTGGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (20 bp):
AAAATTTCCAAATGTTTCTT
Found at i:3181970 original size:13 final size:13
Alignment explanation
Indices: 3181952--3181978 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3181942 GCCAAAATAC
3181952 ACCATGTGATCAA
1 ACCATGTGATCAA
3181965 ACCATGTGATCAA
1 ACCATGTGATCAA
3181978 A
1 A
3181979 AAACATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (13 bp):
ACCATGTGATCAA
Found at i:3182488 original size:67 final size:67
Alignment explanation
Indices: 3182342--3182473 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 67
3182332 ATTTGAACCA
* ** * * *
3182342 TTCAAACATGAATTCGTTTATATGCCAATTTCACATATTTCATTTCTATACATACATGTTTCAAA
1 TTCAAACATGAATTCATTTATATGCCAATAGCACAGATTTCATTTCTATACACACACGTTTCAAA
3182407 GG
66 GG
* *
3182409 TTCAAACATGAATTCATTTATATGCCAATAGCACAGCTTTCGTTTCTATACACACACGTTTCAAA
1 TTCAAACATGAATTCATTTATATGCCAATAGCACAGATTTCATTTCTATACACACACGTTTCAAA
3182474 TGTTAGCAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (67 bp):
TTCAAACATGAATTCATTTATATGCCAATAGCACAGATTTCATTTCTATACACACACGTTTCAAA
GG
Found at i:3185893 original size:41 final size:42
Alignment explanation
Indices: 3185748--3185894 Score: 194
Period size: 41 Copynumber: 3.6 Consensus size: 42
3185738 TTTAACATAT
*
3185748 TCACCGGCACTTAACCTGCTA-AGCTTATAGCCTGA-TTCAGA
1 TCACCGGCACTTAGCCTGCTAGA-CTTATAGCCTGATTTCAGA
* * ** *
3185789 TCACCGGCACTTAGCTTACTAGGTTTATAACCTGATTT-AGA
1 TCACCGGCACTTAGCCTGCTAGACTTATAGCCTGATTTCAGA
3185830 TCACCGGCACTTAGCCTGCTAGACTTATAGCCT-ATTTCAGA
1 TCACCGGCACTTAGCCTGCTAGACTTATAGCCTGATTTCAGA
*
3185871 TCACCGACACTTAGCCTGCTAGAC
1 TCACCGGCACTTAGCCTGCTAGAC
3185895 GTAAATTCCA
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 4 0.04
41 85 0.93
42 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (42 bp):
TCACCGGCACTTAGCCTGCTAGACTTATAGCCTGATTTCAGA
Found at i:3186479 original size:114 final size:115
Alignment explanation
Indices: 3186360--3186602 Score: 404
Period size: 114 Copynumber: 2.1 Consensus size: 115
3186350 CTCAAGATCT
*
3186360 TATACATTTTCATATATAC-T-TATTCGAACTTCATTTATGCATATATATAACATTCATACTTAA
1 TATACATTAT-ATATATACATATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAA
*
3186423 CTAATTTCAATTTATATACTTTCAATTATAGCTCATCAAATATACAATAGA
65 CTAATTTCAATTCATATACTTTCAATTATAGCTCATCAAATATACAATAGA
*
3186474 TATACA-TATATATTTACATATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAAC
1 TATACATTATATATATACATATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAAC
* *
3186538 TAATTTCAATTCATATATTTTTAATTATAGCTCATCAAATATACAATAGA
66 TAATTTCAATTCATATACTTTCAATTATAGCTCATCAAATATACAATAGA
3186588 TATACA-TATATATAT
1 TATACATTATATATAT
3186603 TCTGATTTAA
Statistics
Matches: 121, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
112 7 0.06
113 3 0.02
114 111 0.92
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.42
Consensus pattern (115 bp):
TATACATTATATATATACATATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAAC
TAATTTCAATTCATATACTTTCAATTATAGCTCATCAAATATACAATAGA
Found at i:3188034 original size:11 final size:11
Alignment explanation
Indices: 3188018--3188044 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3188008 CTATATAATG
3188018 CCATAGCTTTT
1 CCATAGCTTTT
3188029 CCATAGCTTTT
1 CCATAGCTTTT
3188040 CCATA
1 CCATA
3188045 CCATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.30, G:0.07, T:0.41
Consensus pattern (11 bp):
CCATAGCTTTT
Found at i:3189539 original size:26 final size:26
Alignment explanation
Indices: 3189510--3189559 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
3189500 AATTTTAAAC
3189510 CTATGAATTTTAA-ATTGTATTAATTA
1 CTAT-AATTTTAATATTGTATTAATTA
* *
3189536 CTATACTTTTAATTTTGTATTAAT
1 CTATAATTTTAATATTGTATTAAT
3189560 CATGAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (26 bp):
CTATAATTTTAATATTGTATTAATTA
Found at i:3190117 original size:19 final size:20
Alignment explanation
Indices: 3190088--3190132 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
3190078 TGTGTTTAAT
*
3190088 TATTCTTTTAAAATTAT-TTA
1 TATT-TTTTAAAAATATATTA
3190108 TATTTTTTAAAAATATATTA
1 TATTTTTTAAAAATATATTA
3190128 TATTT
1 TATTT
3190133 AAAATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTTAAAAATATATTA
Found at i:3190751 original size:6 final size:6
Alignment explanation
Indices: 3190706--3190808 Score: 50
Period size: 6 Copynumber: 16.5 Consensus size: 6
3190696 TGTTAGTTAA
* * * *
3190706 TTTTTC TTTCTT- TCTTTC CTTTTC CTTTTC CTTTTC -TTTTC TTTTTAC
1 TTTTTC TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT-C
* * * *
3190754 GTTTTC -TATCC TTCTTTC TTTTTC TCTGTTTC TTTTTAT TATTTTC TTTTTC
1 TTTTTC TTTTTC TT-TTTC TTTTTC T-T-TTTC TTTTT-C T-TTTTC TTTTTC
3190806 TTT
1 TTT
3190809 GCATTTTCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
5 10 0.13
6 43 0.56
7 15 0.19
8 9 0.12
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTTTC
Found at i:3191429 original size:63 final size:63
Alignment explanation
Indices: 3191348--3191495 Score: 188
Period size: 63 Copynumber: 2.3 Consensus size: 63
3191338 TGTTATTGGT
* * ** * * *
3191348 CGTGTAACCCACTATTTGTGAATTAAGGTCACATGGGCTAGGGACACGAGTGTGTATCTAGGC
1 CGTGTAACTCACTGTTTGTGAATTAAGGTCACACAGGCCAAGGACACGAGTGTGTATCCAGGC
* * *
3191411 CGTGTAACTCACTGTTTGTGAATTAGGGTCACACAGGCCAAGGACACGGGTGTGTGTCCAGGC
1 CGTGTAACTCACTGTTTGTGAATTAAGGTCACACAGGCCAAGGACACGAGTGTGTATCCAGGC
* *
3191474 CATGTAACTCATTGTTTGTGAA
1 CGTGTAACTCACTGTTTGTGAA
3191496 CTAGTGTCAC
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 73 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (63 bp):
CGTGTAACTCACTGTTTGTGAATTAAGGTCACACAGGCCAAGGACACGAGTGTGTATCCAGGC
Found at i:3191530 original size:63 final size:63
Alignment explanation
Indices: 3191407--3191530 Score: 142
Period size: 63 Copynumber: 2.0 Consensus size: 63
3191397 GTGTGTATCT
* * * * **
3191407 AGGCCGTGTAACTCACTGTTTGTGAATTAGGGTCACACAGGCCAAGGACACGGGTGTGTGTCC
1 AGGCCATGTAACTCACTGTTTGTGAACTAGGGTCACACAGGCCAAGGACAAGAGCATGTGTCC
* * * *
3191470 AGGCCATGTAACTCATTGTTTGTGAACTAGTGTCACACTGG-CTAGAGACAAGAGCATGTGT
1 AGGCCATGTAACTCACTGTTTGTGAACTAGGGTCACACAGGCCAAG-GACAAGAGCATGTGT
3191531 TAAGACCATG
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
62 3 0.06
63 47 0.94
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (63 bp):
AGGCCATGTAACTCACTGTTTGTGAACTAGGGTCACACAGGCCAAGGACAAGAGCATGTGTCC
Found at i:3192751 original size:4 final size:4
Alignment explanation
Indices: 3192742--3192768 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
3192732 TATTTTAAAT
3192742 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
3192769 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:3193816 original size:11 final size:11
Alignment explanation
Indices: 3193802--3193868 Score: 56
Period size: 11 Copynumber: 6.6 Consensus size: 11
3193792 CGGCCCGAAT
3193802 TATATATTAAA
1 TATATATTAAA
3193813 TATATATT---
1 TATATATTAAA
**
3193821 TATATATTATT
1 TATATATTAAA
* *
3193832 TTTA-ATCAAA
1 TATATATTAAA
3193842 TATATATT--A
1 TATATATTAAA
3193851 TATATATTAAA
1 TATATATTAAA
3193862 TATATAT
1 TATATAT
3193869 AATATGGGCC
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
8 8 0.18
9 9 0.20
10 6 0.14
11 21 0.48
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (11 bp):
TATATATTAAA
Found at i:3201474 original size:2 final size:2
Alignment explanation
Indices: 3201467--3201509 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
3201457 TGATTATCAA
* *
3201467 CT CT CT CT CT CT CT CT CG CT CT CT CT CT AT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3201509 C
1 C
3201510 ATGGAAGGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.02, C:0.49, G:0.02, T:0.47
Consensus pattern (2 bp):
CT
Found at i:3201942 original size:17 final size:18
Alignment explanation
Indices: 3201907--3201944 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
3201897 CCCGGCGCAG
3201907 AGGAACAAAACACGAACA
1 AGGAACAAAACACGAACA
3201925 AGGAAGCAAAA-A-GAACA
1 AGGAA-CAAAACACGAACA
3201942 AGG
1 AGG
3201945 CTAACAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.61, C:0.16, G:0.24, T:0.00
Consensus pattern (18 bp):
AGGAACAAAACACGAACA
Found at i:3202461 original size:26 final size:26
Alignment explanation
Indices: 3202425--3202475 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
3202415 AGATTAAACA
*
3202425 CTTAATTTGTTCTTTCCATCAAAGAT
1 CTTAACTTGTTCTTTCCATCAAAGAT
*
3202451 CTTAACTTGTTCTTTCCATTAAAGA
1 CTTAACTTGTTCTTTCCATCAAAGA
3202476 AAATTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (26 bp):
CTTAACTTGTTCTTTCCATCAAAGAT
Found at i:3204455 original size:20 final size:21
Alignment explanation
Indices: 3204427--3204469 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3204417 TAATTAAGTA
*
3204427 TTTACTTTA-GTGGTTAAGTGT
1 TTTACTTTATGTGCTTAAG-GT
3204448 TTTA-TTTATGTGCTTAAGGT
1 TTTACTTTATGTGCTTAAGGT
3204468 TT
1 TT
3204470 GGGGTTCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.56
Consensus pattern (21 bp):
TTTACTTTATGTGCTTAAGGT
Found at i:3204961 original size:273 final size:273
Alignment explanation
Indices: 3204474--3205014 Score: 920
Period size: 273 Copynumber: 2.0 Consensus size: 273
3204464 AGGTTTGGGG
* *
3204474 TTCAAGTCCCATTTTTGGAAATTTTGCTTTTTGTTTTGAATCAACCCTCACTTTCAAACTTTTGA
1 TTCAAGTCCCATTTTTGGAAATTTTGCTATTTGTTTTGAATCAACCCTCACTTTCAAACTTTCGA
** **
3204539 CTTAAGATTAATTTTGTGTAAACTTATATTAAGAATGAGCTTGTTGGTTTAATAGTTAAACTTTT
66 CTTAAGATTAATTTTGCATAAACTTATATTAAGAATGAGCTTACTGGTTTAATAGTTAAACTTTT
* * * *
3204604 GTATAACCTTTGGTCTTATGTTCGAGTTTCTGCAAAAGCTATGAGAAAATATCTTATGCTAGTTT
131 GTATAACCTTTGCTCTTATGTTCAAGTTTCTGCAAAAGCTATGAGAAAACATCTTATACTAGTTT
* *
3204669 ATAAAAATTAGTTTATTTTAAGGTAATTAAATTCCTTTATTTTTGTTAAAATTTTTTTCACGTTT
196 ATAAAAATTAGTCTATTTTAAGGTAATTAAATTCCTTTATTTTTGTTAAAATTTCTTTCACGTTT
3204734 TATTTCTTTCACA
261 TATTTCTTTCACA
*
3204747 TTCAAGTCCCATTTTTGGAAATTTTGCTATTTGTTTTGAATCAACCCTCACTTTTAAACTTTCGA
1 TTCAAGTCCCATTTTTGGAAATTTTGCTATTTGTTTTGAATCAACCCTCACTTTCAAACTTTCGA
* * *
3204812 CTTAAGATTAATTTTGCATAAACTTGTGTTAAGAATGAGCTTACTGGTTTAATGGTTAAACTTTT
66 CTTAAGATTAATTTTGCATAAACTTATATTAAGAATGAGCTTACTGGTTTAATAGTTAAACTTTT
* *
3204877 GTATACCCTTTGCTCTTGTGTTCAAGTTTCTGCAAAAGCTATGAGAAAACATCTTATACTAGTTT
131 GTATAACCTTTGCTCTTATGTTCAAGTTTCTGCAAAAGCTATGAGAAAACATCTTATACTAGTTT
3204942 ATAAAAATTAGTCTATTTTAAGGTAATTAAATTCCTTTATTTTTGTTAAAATTTCTTTCACGTTT
196 ATAAAAATTAGTCTATTTTAAGGTAATTAAATTCCTTTATTTTTGTTAAAATTTCTTTCACGTTT
3205007 TATTTCTT
261 TATTTCTT
3205015 CCTTTATCCT
Statistics
Matches: 250, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
273 250 1.00
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.46
Consensus pattern (273 bp):
TTCAAGTCCCATTTTTGGAAATTTTGCTATTTGTTTTGAATCAACCCTCACTTTCAAACTTTCGA
CTTAAGATTAATTTTGCATAAACTTATATTAAGAATGAGCTTACTGGTTTAATAGTTAAACTTTT
GTATAACCTTTGCTCTTATGTTCAAGTTTCTGCAAAAGCTATGAGAAAACATCTTATACTAGTTT
ATAAAAATTAGTCTATTTTAAGGTAATTAAATTCCTTTATTTTTGTTAAAATTTCTTTCACGTTT
TATTTCTTTCACA
Found at i:3205751 original size:42 final size:43
Alignment explanation
Indices: 3205662--3205752 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 43
3205652 ATGACATGGG
* * * * *
3205662 TGTGTATCTAGACCGTGTGACTCTCTAACTTGAGTAACATGGT
1 TGTGTGTCTAGACCGTATAACTCTCTAACTTGAGTAACACGGC
*
3205705 TGTGTGTC-AGACCGTATAACTCTCTAACTT-AGGTCACACGGC
1 TGTGTGTCTAGACCGTATAACTCTCTAACTTGA-GTAACACGGC
3205747 TGTGTG
1 TGTGTG
3205753 CCAGGTCGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 33 0.80
43 7 0.17
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTGTGTCTAGACCGTATAACTCTCTAACTTGAGTAACACGGC
Found at i:3214392 original size:12 final size:12
Alignment explanation
Indices: 3214375--3214399 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3214365 ACATCAATTC
3214375 AATAATATACCA
1 AATAATATACCA
3214387 AATAATATACCA
1 AATAATATACCA
3214399 A
1 A
3214400 TTGCATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAATATACCA
Found at i:3215330 original size:19 final size:19
Alignment explanation
Indices: 3215302--3215359 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
3215292 TACTAGCGTG
*
3215302 CAAAACGCATCCTGGCGCA
1 CAAAATGCATCCTGGCGCA
* *
3215321 -AAAAGTGCATACTGGCACA
1 CAAAA-TGCATCCTGGCGCA
*
3215340 CAAAATACATCCTGGCGCA
1 CAAAATGCATCCTGGCGCA
3215359 C
1 C
3215360 GAAGCGCATA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 4 0.13
19 23 0.74
20 4 0.13
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (19 bp):
CAAAATGCATCCTGGCGCA
Found at i:3215344 original size:38 final size:38
Alignment explanation
Indices: 3215302--3215484 Score: 150
Period size: 39 Copynumber: 4.8 Consensus size: 38
3215292 TACTAGCGTG
* **
3215302 CAAAACGCATCCTGGCGCAAAAAGTGCATACTGGCACA
1 CAAAATGCATCCTGGCGCACGAAGTGCATACTGGCACA
* * *
3215340 CAAAATACATCCTGGCGCACGAAGCGCATATCTGGAACA
1 CAAAATGCATCCTGGCGCACGAAGTGCATA-CTGGCACA
* * * * *
3215379 CGATATGCATCTTGGCACACGAAGTGCATACTGGCATA
1 CAAAATGCATCCTGGCGCACGAAGTGCATACTGGCACA
* * * * *
3215417 CAAAGTGCATCCTAGTGCACGAAGCGTATATCTGGCACA
1 CAAAATGCATCCTGGCGCACGAAGTGCATA-CTGGCACA
* ** * * *
3215456 CGATGTGTATCTTGGCACACGAAGTGCAT
1 CAAAATGCATCCTGGCGCACGAAGTGCAT
3215485 TATGAAGAAT
Statistics
Matches: 110, Mismatches: 33, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
38 52 0.47
39 58 0.53
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.20
Consensus pattern (38 bp):
CAAAATGCATCCTGGCGCACGAAGTGCATACTGGCACA
Found at i:3215404 original size:77 final size:77
Alignment explanation
Indices: 3215323--3215484 Score: 243
Period size: 77 Copynumber: 2.1 Consensus size: 77
3215313 CTGGCGCAAA
*
3215323 AAGTGCATACTGGCACACAAAATACATCCTGGCGCACGAAGCGCATATCTGGAACACGATATGCA
1 AAGTGCATACTGGCACACAAAATACATCCTAGCGCACGAAGCGCATATCTGGAACACGATATGCA
3215388 TCTTGGCACACG
66 TCTTGGCACACG
* * * * * * * *
3215400 AAGTGCATACTGGCATACAAAGTGCATCCTAGTGCACGAAGCGTATATCTGGCACACGATGTGTA
1 AAGTGCATACTGGCACACAAAATACATCCTAGCGCACGAAGCGCATATCTGGAACACGATATGCA
3215465 TCTTGGCACACG
66 TCTTGGCACACG
3215477 AAGTGCAT
1 AAGTGCAT
3215485 TATGAAGAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (77 bp):
AAGTGCATACTGGCACACAAAATACATCCTAGCGCACGAAGCGCATATCTGGAACACGATATGCA
TCTTGGCACACG
Found at i:3215406 original size:19 final size:19
Alignment explanation
Indices: 3215323--3215484 Score: 87
Period size: 19 Copynumber: 8.4 Consensus size: 19
3215313 CTGGCGCAAA
*
3215323 AAGTGCATAC-TGGCACACA
1 AAGTGCAT-CTTGGCACACG
* * * *
3215342 AAATACATCCTGGCGCACG
1 AAGTGCATCTTGGCACACG
* * *
3215361 AAGCGCATATCTGGAACACG
1 AAGTGCATCT-TGGCACACG
3215381 ATA-TGCATCTTGGCACACG
1 A-AGTGCATCTTGGCACACG
* *
3215400 AAGTGCATAC-TGGCATACA
1 AAGTGCAT-CTTGGCACACG
* * **
3215419 AAGTGCATCCTAGTGCACG
1 AAGTGCATCTTGGCACACG
* * *
3215438 AAGCGTATATCTGGCACACG
1 AAGTGCATCT-TGGCACACG
* *
3215458 ATGTGTATCTTGGCACACG
1 AAGTGCATCTTGGCACACG
3215477 AAGTGCAT
1 AAGTGCAT
3215485 TATGAAGAAT
Statistics
Matches: 103, Mismatches: 33, Indels: 14
0.69 0.22 0.09
Matches are distributed among these distances:
18 3 0.03
19 72 0.70
20 27 0.26
21 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (19 bp):
AAGTGCATCTTGGCACACG
Found at i:3219239 original size:11 final size:11
Alignment explanation
Indices: 3219219--3219260 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
3219209 AAATTGCAAC
3219219 AGAAAGAAAAA
1 AGAAAGAAAAA
3219230 AGAAA-AAAAA
1 AGAAAGAAAAA
*
3219240 TGAAAGAAAAA
1 AGAAAGAAAAA
*
3219251 AGATAGAAAA
1 AGAAAGAAAA
3219261 CTCTCTGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.05
Consensus pattern (11 bp):
AGAAAGAAAAA
Found at i:3220479 original size:45 final size:44
Alignment explanation
Indices: 3220413--3220870 Score: 250
Period size: 45 Copynumber: 10.3 Consensus size: 44
3220403 TCACGCCAAT
* * *
3220413 GAAGACAAGGTCTGTTCTCTTCGATCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTATT-TCTTCGATCTACTTCACCACCAGTATGG
* * * **
3220458 GGAGACAAGATCTATTGTCTTCGATCTACTTCA-CGCTAGTATAT
1 GAAGACAAGATCTATT-TCTTCGATCTACTTCACCACCAGTATGG
* * *
3220502 GAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTA-TTTCTTCGATCTACTTCACCACCAGTATGG
* * * * ** ***
3220547 GAAGGCAAGATCTGGTATCTCCGATCTACTTCA-TGCCAGTACAT
1 GAAGACAAGATCT-ATTTCTTCGATCTACTTCACCACCAGTATGG
* * * *
3220591 GAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATC-TATTTCTTCGATCTACTTCACCACCAGTATGG
* * * * ** ***
3220636 GAAGGCAAGATCTGGTATCTCCGATCTACTTCA-TGCCAGTACAT
1 GAAGACAAGATCT-ATTTCTTCGATCTACTTCACCACCAGTATGG
* * * *
3220680 GAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATC-TATTTCTTCGATCTACTTCACCACCAGTATGG
* * * ***
3220725 GAA-AGCAAGATTTGTTATC-TCTGATCTACTTCA-CGCCAGTACAT
1 GAAGA-CAAGATCTATT-TCTTC-GATCTACTTCACCACCAGTATGG
* * * *
3220769 GAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATC-TATTTCTTCGATCTACTTCACCACCAGTATGG
* * * ***
3220814 GAA-AGCAAGATTTGTTATC-TCTGATCTACTTCA-CGCCAGTACAT
1 GAAGA-CAAGATCTATT-TCTTC-GATCTACTTCACCACCAGTATGG
3220858 GAAGACAAGATCT
1 GAAGACAAGATCT
3220871 GCTTTCTTTG
Statistics
Matches: 301, Mismatches: 93, Indels: 39
0.70 0.21 0.09
Matches are distributed among these distances:
44 148 0.49
45 153 0.51
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTATTTCTTCGATCTACTTCACCACCAGTATGG
Found at i:3220539 original size:89 final size:89
Alignment explanation
Indices: 3220411--3220881 Score: 628
Period size: 89 Copynumber: 5.3 Consensus size: 89
3220401 CCTCACGCCA
* * * * * * * *
3220411 ATGAAGACAAGGTCTGT-TCTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTATTG
1 ATGAAGACAAGATCT-TCTTTCTTTGATCTGCTTCGCCACCAGTATGGGGAGACAAGATCTGTTA
* *
3220475 TCTTCGATCTACTTCACGCTAGTAT
65 TCTTCGATCTACTTCACGCCAGTAC
* * * *
3220500 ATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTAT
1 ATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGGGGAGACAAGATCTGTTAT
* *
3220565 CTCCGATCTACTTCATGCCAGTAC
66 CTTCGATCTACTTCACGCCAGTAC
* * *
3220589 ATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTAT
1 ATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGGGGAGACAAGATCTGTTAT
* *
3220654 CTCCGATCTACTTCATGCCAGTAC
66 CTTCGATCTACTTCACGCCAGTAC
* *
3220678 ATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTAT-GGGAAAGCAAGATTTGTTA
1 ATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGGGGAGA-CAAGATCTGTTA
3220742 TC-TCTGATCTACTTCACGCCAGTAC
65 TCTTC-GATCTACTTCACGCCAGTAC
* *
3220767 ATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTAT-GGGAAAGCAAGATTTGTTA
1 ATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGGGGAGA-CAAGATCTGTTA
3220831 TC-TCTGATCTACTTCACGCCAGTAC
65 TCTTC-GATCTACTTCACGCCAGTAC
*
3220856 ATGAAGACAAGATCTGCTTTCTTTGA
1 ATGAAGACAAGATCTTCTTTCTTTGA
3220882 ACCTGCTCCA
Statistics
Matches: 354, Mismatches: 25, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
88 4 0.01
89 350 0.99
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (89 bp):
ATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGGGGAGACAAGATCTGTTAT
CTTCGATCTACTTCACGCCAGTAC
Found at i:3220710 original size:178 final size:178
Alignment explanation
Indices: 3220411--3220881 Score: 701
Period size: 178 Copynumber: 2.6 Consensus size: 178
3220401 CCTCACGCCA
* * * * * * * * * *
3220411 ATGAAGACAAGGTCTGT-TCTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTATTG
1 ATGAAGACAAGATCT-TCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTA
* * *
3220475 TCTTCGATCTACTTCACGCTAGTATATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACC
65 TCTCCGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACC
* *
3220540 AGTATGGGAAGGCAAGATCTGGTATCTCCGATCTACTTCATGCCAGTAC
130 AGTATGGGAAAGCAAGATCTGGTATCTCCGATCTACTTCACGCCAGTAC
*
3220589 ATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTAT
1 ATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTAT
* *
3220654 CTCCGATCTACTTCATGCCAGTACATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCA
66 CTCCGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCA
* * *
3220719 GTATGGGAAAGCAAGATTTGTTATCTCTGATCTACTTCACGCCAGTAC
131 GTATGGGAAAGCAAGATCTGGTATCTCCGATCTACTTCACGCCAGTAC
* *
3220767 ATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAAGCAAGATTTGTTAT
1 ATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTAT
* *
3220832 CTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGA
66 CTCCGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTTGA
3220882 ACCTGCTCCA
Statistics
Matches: 265, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
177 1 0.00
178 264 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (178 bp):
ATGAAGACAAGATCTTCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTAT
CTCCGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCA
GTATGGGAAAGCAAGATCTGGTATCTCCGATCTACTTCACGCCAGTAC
Found at i:3228611 original size:43 final size:43
Alignment explanation
Indices: 3228541--3228688 Score: 215
Period size: 43 Copynumber: 3.4 Consensus size: 43
3228531 TGTCCCAAAC
* ***
3228541 ATGGTCTTACATGGAAATCTTGTATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACA-CGAAATCTCAAATCGATGCCAATAGCCCAGCT
* * *
3228585 ATAGTCTTACATGAAATCTCAAATCGATGCCAATAGCCCAGTT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
*
3228628 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCGCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
3228671 ATGGTCTTACACGAAATC
1 ATGGTCTTACACGAAATC
3228689 ACACCTCAGA
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
43 84 0.89
44 10 0.11
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:3228903 original size:31 final size:31
Alignment explanation
Indices: 3228798--3228906 Score: 166
Period size: 31 Copynumber: 3.5 Consensus size: 31
3228788 AACTAGTCTC
* * *
3228798 AATTCGGCAATATATATCCATATACAAATCA
1 AATTCGACAATGTATATCTATATACAAATCA
*
3228829 AATTCGACAATGAATATCTATATACAAATCA
1 AATTCGACAATGTATATCTATATACAAATCA
3228860 AATTCGACAATGTATATCTATATACAAATCA
1 AATTCGACAATGTATATCTATATACAAATCA
3228891 AATTCGGA-AATGTATA
1 AATTC-GACAATGTATA
3228907 AAACATATAC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 70 0.97
32 2 0.03
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (31 bp):
AATTCGACAATGTATATCTATATACAAATCA
Found at i:3233140 original size:6 final size:6
Alignment explanation
Indices: 3233131--3233195 Score: 64
Period size: 6 Copynumber: 11.3 Consensus size: 6
3233121 CTAAGAAAAT
* * * * *
3233131 AATAAA AAT--A ACTAAA AATAAC AATAAA CATAAT CAT-AA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
3233176 AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AA
3233196 AACTTAATGG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
4 3 0.06
5 3 0.06
6 42 0.88
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:3233192 original size:23 final size:23
Alignment explanation
Indices: 3233131--3233194 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
3233121 CTAAGAAAAT
** *
3233131 AATAAAAATAACTA-AAAATAAC
1 AATAAAAATAAAAATAAAATAAA
* **
3233153 AATAAACATAATCATAAAATAAA
1 AATAAAAATAAAAATAAAATAAA
3233176 AATAAAAATAAAAATAAAA
1 AATAAAAATAAAAATAAAA
3233195 AAACTTAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 11 0.32
23 23 0.68
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (23 bp):
AATAAAAATAAAAATAAAATAAA
Found at i:3235043 original size:12 final size:12
Alignment explanation
Indices: 3235028--3235059 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3235018 TCTAAAAGAC
3235028 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
3235040 AAAAAGAAAAAG
1 AAAAAAAAAAAG
3235052 AAAAAAAA
1 AAAAAAAA
3235060 GCTGAAGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:3239017 original size:15 final size:15
Alignment explanation
Indices: 3238997--3239025 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3238987 TAAATCCATT
3238997 TTTATATTTAAGTAC
1 TTTATATTTAAGTAC
3239012 TTTATATTTAAGTA
1 TTTATATTTAAGTA
3239026 TTTGTACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (15 bp):
TTTATATTTAAGTAC
Found at i:3239062 original size:13 final size:13
Alignment explanation
Indices: 3239044--3239068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3239034 ATAAATATTC
3239044 TTAAATATTTTTT
1 TTAAATATTTTTT
3239057 TTAAATATTTTT
1 TTAAATATTTTT
3239069 ATACGGGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTAAATATTTTTT
Found at i:3242216 original size:31 final size:32
Alignment explanation
Indices: 3242157--3242221 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
3242147 GGCAAATTAC
3242157 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
3242189 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
3242220 AA
1 AA
3242222 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:3243015 original size:15 final size:15
Alignment explanation
Indices: 3242984--3243038 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
3242974 CATCATCATC
*
3242984 ATAATAATAAATGAA
1 ATAATAATAAATAAA
3242999 ATAATTAATAAA-AAA
1 ATAA-TAATAAATAAA
*
3243014 ATATAGTATTAAATAAA
1 ATA-A-TAATAAATAAA
3243031 ATAA-AATA
1 ATAATAATA
3243039 CAATGAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
14 3 0.09
15 9 0.27
16 15 0.45
17 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (15 bp):
ATAATAATAAATAAA
Found at i:3247718 original size:22 final size:22
Alignment explanation
Indices: 3247689--3247742 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
3247679 GATATGCAAG
3247689 GGTT-GAATGCCCTAATGTTTT
1 GGTTCGAATGCCCTAATGTTTT
3247710 GGTTCGAATGCCCTAATGTTTT
1 GGTTCGAATGCCCTAATGTTTT
*
3247732 GGGTCGAATGC
1 GGTTCGAATGC
3247743 TCGATTTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (22 bp):
GGTTCGAATGCCCTAATGTTTT
Found at i:3249037 original size:63 final size:63
Alignment explanation
Indices: 3248959--3249082 Score: 176
Period size: 63 Copynumber: 2.0 Consensus size: 63
3248949 GAATCAGGCC
* * * * *
3248959 GTGTAATTCATTGTTTATGAATTAGGGTCACATAGGCTAGGGACACAAGTGTGTTTCCAAGCT
1 GTGTAACTCACTGTTTATGAATTAGGGTCACATAGGCCAGAGACACAAGTGTGTGTCCAAGCT
* * *
3249022 GTGTAACTCACTGTTTTTGAATTAGTGTCACATGGGCCAGAGACACAAGTGTGTGTCCAAG
1 GTGTAACTCACTGTTTATGAATTAGGGTCACATAGGCCAGAGACACAAGTGTGTGTCCAAG
3249083 ACATGTGAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (63 bp):
GTGTAACTCACTGTTTATGAATTAGGGTCACATAGGCCAGAGACACAAGTGTGTGTCCAAGCT
Found at i:3252549 original size:23 final size:23
Alignment explanation
Indices: 3252523--3252566 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
3252513 TAATTAGTAA
*
3252523 TTTAAT-ATTTTTTATTTTTTATT
1 TTTAATAATTTATT-TTTTTTATT
3252546 TTTAATAATTTATTTTTTTTA
1 TTTAATAATTTATTTTTTTTA
3252567 AATTGATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTAATAATTTATTTTTTTTATT
Found at i:3252672 original size:27 final size:27
Alignment explanation
Indices: 3252623--3252681 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
3252613 AGTGAATTCA
* * *
3252623 AAATATATTTTAATTAGGAAATTGATT
1 AAATTTATTTTAATTAGAAAATTAATT
3252650 AAATTTATTTTAATTA-AACAATTAATT
1 AAATTTATTTTAATTAGAA-AATTAATT
*
3252677 TAATT
1 AAATT
3252682 AAAATATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (27 bp):
AAATTTATTTTAATTAGAAAATTAATT
Found at i:3252680 original size:17 final size:17
Alignment explanation
Indices: 3252658--3252697 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
3252648 TTAAATTTAT
3252658 TTTAATTAAACA-ATTAA
1 TTTAATTAAA-ATATTAA
3252675 TTTAATTAAAATATTAA
1 TTTAATTAAAATATTAA
3252692 -TTAATT
1 TTTAATT
3252698 GGATTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAATTAAAATATTAA
Found at i:3253684 original size:17 final size:17
Alignment explanation
Indices: 3253664--3253700 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
3253654 AATTTTTGAA
3253664 TTAGTGAATTCTGTGAT
1 TTAGTGAATTCTGTGAT
*
3253681 TTAGTGAATTTTGTGAT
1 TTAGTGAATTCTGTGAT
3253698 TTA
1 TTA
3253701 AAAAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTCTGTGAT
Found at i:3254981 original size:46 final size:46
Alignment explanation
Indices: 3254928--3255067 Score: 253
Period size: 46 Copynumber: 3.0 Consensus size: 46
3254918 CCATTGCAAA
*
3254928 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAATCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
3254974 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
3255020 TTGTGAAAAGTATGTATGGTATTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
3255066 TT
1 TT
3255068 ATAGCATTGT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 91 1.00
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:3260908 original size:13 final size:14
Alignment explanation
Indices: 3260881--3260910 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3260871 AAAAATAAAA
3260881 TTTTAATTTTAATT
1 TTTTAATTTTAATT
3260895 TTTTAATTTT-ATT
1 TTTTAATTTTAATT
3260908 TTT
1 TTT
3260911 AAAATTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTAATTTTAATT
Found at i:3260918 original size:20 final size:20
Alignment explanation
Indices: 3260879--3260918 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3260869 TTAAAAATAA
**
3260879 AATTTTAATTTTAATTTTTT
1 AATTTTAATTTTAAAATTTT
*
3260899 AATTTTATTTTTAAAATTTT
1 AATTTTAATTTTAAAATTTT
3260919 GGAAACATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTTTAATTTTAAAATTTT
Found at i:3264221 original size:24 final size:24
Alignment explanation
Indices: 3264194--3264267 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
3264184 ATGGAAAATT
*
3264194 GTGAAAAGTAGGTATGGTGTTTCA
1 GTGAAAAGTAGGTATGGAGTTTCA
* * *
3264218 GTGAAAA-AAGCATATTGAG-TT--
1 GTGAAAAGTAG-GTATGGAGTTTCA
3264239 GTGAAAAGTAGGTATGGAGTTTCA
1 GTGAAAAGTAGGTATGGAGTTTCA
3264263 GTGAA
1 GTGAA
3264268 GAAAACCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
21 13 0.34
22 4 0.11
23 4 0.11
24 17 0.45
ACGTcount: A:0.35, C:0.04, G:0.31, T:0.30
Consensus pattern (24 bp):
GTGAAAAGTAGGTATGGAGTTTCA
Found at i:3264243 original size:45 final size:46
Alignment explanation
Indices: 3264192--3264330 Score: 226
Period size: 46 Copynumber: 3.0 Consensus size: 46
3264182 CCATGGAAAA
* *
3264192 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAA-AAAAGCATATTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
*
3264237 TTGTGAAAAGTAGGTATGGAGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
3264283 TTGTGAAAAGTATGTATGGTATTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
3264329 TT
1 TT
3264331 ATAGCATTGT
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 30 0.34
46 57 0.66
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:3264258 original size:21 final size:21
Alignment explanation
Indices: 3264192--3264259 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
3264182 CCATGGAAAA
*
3264192 TTGTGAAAAGTAGGTATGGTG
1 TTGTGAAAAGTAGGTATGGAG
* * *
3264213 TTTCAGTGAAAA-AAGCATATTGAG
1 -TT--GTGAAAAGTAG-GTATGGAG
3264237 TTGTGAAAAGTAGGTATGGAG
1 TTGTGAAAAGTAGGTATGGAG
3264258 TT
1 TT
3264260 TCAGTGAAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 9
0.69 0.14 0.18
Matches are distributed among these distances:
21 15 0.43
22 4 0.11
23 4 0.11
24 12 0.34
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.32
Consensus pattern (21 bp):
TTGTGAAAAGTAGGTATGGAG
Found at i:3271177 original size:17 final size:17
Alignment explanation
Indices: 3271148--3271180 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3271138 ATGAATAAAA
3271148 AATAATAATTTTTTTTG
1 AATAATAATTTTTTTTG
3271165 AATAA-AATATTTTTTT
1 AATAATAAT-TTTTTTT
3271181 ATATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
AATAATAATTTTTTTTG
Found at i:3271331 original size:19 final size:19
Alignment explanation
Indices: 3271304--3271509 Score: 137
Period size: 19 Copynumber: 10.7 Consensus size: 19
3271294 AGAGGCGCCA
3271304 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
* *
3271323 ATTAATATTGTAATTATTTT
1 ATGAATATTGTAATT-TTGT
3271343 AT-AATTAAATTTGT-ATTTATAGTT
1 ATGAA-T--A-TTGTAATTT-T-G-T
* * *
3271367 TTGGAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTGT
3271384 ATGAATATTGTAATTTTTTGT
1 ATGAATATTGTAA--TTTTGT
3271405 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
*
3271424 ATGAATATTGTAATTTTTT
1 ATGAATATTGTAATTTTGT
*
3271443 ATGAATATTGTAA-TAT-T
1 ATGAATATTGTAATTTTGT
* *
3271460 AT-AATTTTGTATGAATATTG-
1 ATGAATATTG--T-AATTTTGT
3271480 -T-AATATTGTAA-TTTGT
1 ATGAATATTGTAATTTTGT
3271496 ATGAATATTGTAAT
1 ATGAATATTGTAAT
3271510 GTCGGGATAT
Statistics
Matches: 149, Mismatches: 16, Indels: 44
0.71 0.08 0.21
Matches are distributed among these distances:
15 3 0.02
16 8 0.05
17 10 0.07
18 17 0.11
19 64 0.43
20 14 0.09
21 20 0.13
22 5 0.03
23 4 0.03
24 3 0.02
25 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (19 bp):
ATGAATATTGTAATTTTGT
Found at i:3271459 original size:8 final size:8
Alignment explanation
Indices: 3271446--3271535 Score: 56
Period size: 8 Copynumber: 10.4 Consensus size: 8
3271436 ATTTTTTATG
3271446 AATATTGT
1 AATATTGT
*
3271454 AATATTAT
1 AATATTGT
*
3271462 AATTTTGTAT
1 AATATTG--T
3271472 GAATATTGT
1 -AATATTGT
3271481 AATATTGT
1 AATATTGT
3271489 AAT-TTGTAT
1 AATATTG--T
3271498 GAATATTGT
1 -AATATTGT
* * *
3271507 AATGTCGGG
1 AATAT-TGT
3271516 ATATATTGT
1 A-ATATTGT
3271525 AATATTGT
1 AATATTGT
3271533 AAT
1 AAT
3271536 TTTTTGTATG
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
7 3 0.05
8 37 0.59
9 7 0.11
10 7 0.11
11 9 0.14
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.48
Consensus pattern (8 bp):
AATATTGT
Found at i:3271464 original size:27 final size:27
Alignment explanation
Indices: 3271427--3271509 Score: 141
Period size: 27 Copynumber: 3.1 Consensus size: 27
3271417 ATTTTGTATG
*
3271427 AATATTGTAATTTTTTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
*
3271454 AATATTATAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
3271481 AATATTGTAA-TTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
3271507 AAT
1 AAT
3271510 GTCGGGATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 19 0.36
27 34 0.64
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (27 bp):
AATATTGTAATTTTGTATGAATATTGT
Found at i:3271471 original size:46 final size:41
Alignment explanation
Indices: 3271377--3271509 Score: 160
Period size: 46 Copynumber: 3.0 Consensus size: 41
3271367 TTGGATTAGT
*
3271377 ATTTTGTATGAATATTGTAA-TTTTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTATA
3271417 ATTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATTTTTT-TG--TA-TG-AATATTATA
*
3271463 ATTTTGTATGAATATTGTAATATTGTAATTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTAAT-TT-T--TTTGTATGAATATTATA
3271508 AT
1 AT
3271510 GTCGGGATAT
Statistics
Matches: 81, Mismatches: 2, Indels: 15
0.83 0.02 0.15
Matches are distributed among these distances:
40 20 0.25
41 5 0.06
42 2 0.02
44 2 0.02
45 12 0.15
46 31 0.38
47 4 0.05
48 1 0.01
49 2 0.02
50 2 0.02
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (41 bp):
ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTATA
Found at i:3271493 original size:73 final size:72
Alignment explanation
Indices: 3271408--3271556 Score: 203
Period size: 73 Copynumber: 2.0 Consensus size: 72
3271398 TTTTTGTATG
* * *
3271408 AATATTGTAATTTTGTATGAATATTGTAATTTTTTATGA-ATATTGTAATATTATAA-TTTTGTA
1 AATATTGTAA-TTTGTATGAATATTGTAA--TGTCAGGATATATTGTAATATTATAATTTTTGTA
3271471 TGAATATTGT
63 TGAATATTGT
* *
3271481 AATATTGTAATTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGTAATTTTTTGTATG
1 AATATTGTAATTTGTATGAATATTGTAATGTCAGGATATATTGTAATATTATAA-TTTTTGTATG
3271546 AATATTGT
65 AATATTGT
3271554 AAT
1 AAT
3271557 TATTTTATAA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
70 4 0.06
71 16 0.24
72 18 0.26
73 30 0.44
ACGTcount: A:0.34, C:0.01, G:0.15, T:0.51
Consensus pattern (72 bp):
AATATTGTAATTTGTATGAATATTGTAATGTCAGGATATATTGTAATATTATAATTTTTGTATGA
ATATTGT
Done.