Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold434
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: 307070
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 2 of 3
Found at i:153429 original size:42 final size:43
Alignment explanation
Indices: 153336--153435 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 43
153326 AAAAAAAATT
* * * *
153336 CAAATATATCGATACATTTGTAGAATGTATCGATACATTTGTG
1 CAAATGTATCGATACATTTGTAGAAAGTATCGATACATTTCTA
*
153379 GAAA-GTATCGATACATTTG-AGGAAAGTATCGATACA-TTCTA
1 CAAATGTATCGATACATTTGTA-GAAAGTATCGATACATTTCTA
*
153420 CAAATGTATCAATACA
1 CAAATGTATCGATACA
153436 GGGTCCCAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 7 0.15
42 38 0.79
43 3 0.06
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (43 bp):
CAAATGTATCGATACATTTGTAGAAAGTATCGATACATTTCTA
Found at i:153496 original size:19 final size:19
Alignment explanation
Indices: 153472--153570 Score: 114
Period size: 19 Copynumber: 5.8 Consensus size: 19
153462 ATTCAACAAT
153472 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
153491 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
153505 -TGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
153523 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
153537 -TGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
153555 TTGTATCGATACATAA
1 TTGTATCGATACATAA
153571 TTAGCTACTA
Statistics
Matches: 68, Mismatches: 0, Indels: 24
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.32
14 2 0.03
16 4 0.06
18 2 0.03
19 38 0.56
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:153510 original size:13 final size:13
Alignment explanation
Indices: 153492--153548 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
153482 ACATAAGTAT
153492 TGTATCGATACAA
1 TGTATCGATACAA
153505 TGTATCGATACATAAGTA
1 TGTATCGATAC---A--A
153523 TTGTATCGATACAA
1 -TGTATCGATACAA
153537 TGTATCGATACA
1 TGTATCGATACA
153549 TAAGTATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:153510 original size:32 final size:32
Alignment explanation
Indices: 153473--153567 Score: 190
Period size: 32 Copynumber: 3.0 Consensus size: 32
153463 TTCAACAATT
153473 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
153505 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
153537 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
153568 TAATTAGCTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:156091 original size:51 final size:48
Alignment explanation
Indices: 155995--156111 Score: 123
Period size: 51 Copynumber: 2.4 Consensus size: 48
155985 AATTCTCCGC
*
155995 AATCGGGGATA-TCCCAACTCTGATTTCATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACT-CCAACTCCGATTTCATTTTCAAAACACTAA-TTT-T-T
* *
156046 AATCGGGGATACTCCAACTCCGATTTTA-TTTCTAGAACA-TCAATTTTT
1 AATCGGGGATACTCCAACTCCGATTTCATTTTC-AAAACACT-AATTTTT
*
156094 CATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
156112 CCCGTTAATC
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
48 18 0.31
49 1 0.02
50 8 0.14
51 31 0.53
52 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (48 bp):
AATCGGGGATACTCCAACTCCGATTTCATTTTCAAAACACTAATTTTT
Found at i:156131 original size:27 final size:27
Alignment explanation
Indices: 156093--156145 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
156083 CATCAATTTT
*
156093 TCATCGGGGATACTCCAACCCCGTTAA
1 TCATCGGGGATACTCCAAACCCGTTAA
156120 TCATCGGGGATACTCCAAACCCGTTA
1 TCATCGGGGATACTCCAAACCCGTTA
156146 TTTTTGAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (27 bp):
TCATCGGGGATACTCCAAACCCGTTAA
Found at i:156156 original size:28 final size:27
Alignment explanation
Indices: 156093--156165 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
156083 CATCAATTTT
* *
156093 TCATCGGGGATACTCCAACCCCGTTAA
1 TCATAGGGGATACTCCAAACCCGTTAA
* *
156120 TCATCGGGGATACTCCAAACCCGTTAT
1 TCATAGGGGATACTCCAAACCCGTTAA
**
156147 TTTTGAGGGGATACTCCAA
1 TCAT-AGGGGATACTCCAA
156166 CCTCCGGCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 27 0.68
28 13 0.32
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (27 bp):
TCATAGGGGATACTCCAAACCCGTTAA
Found at i:156275 original size:80 final size:78
Alignment explanation
Indices: 156122--156300 Score: 227
Period size: 80 Copynumber: 2.3 Consensus size: 78
156112 CCCGTTAATC
* * ** *
156122 ATCGGGGATACTCCAAACCCGTTATTTTTGAGGGGATACTCCAACCTCCGGCTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCTCAGGCTTTATTTCTAAAA
* *
156187 TATTATTTTCTCATA
66 TATGATTTT-TC-GA
* *
156202 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACC-CAGGTTTTATTTC-CAAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCTCAGGCTTTATTTCTAAAA
156265 TCATCGATTTTTCGA
66 T-AT-GATTTTTCGA
156280 ATCGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
156301 ACTTTATTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
78 26 0.30
79 15 0.17
80 47 0.53
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCTCAGGCTTTATTTCTAAAA
TATGATTTTTCGA
Found at i:156393 original size:52 final size:49
Alignment explanation
Indices: 156233--156401 Score: 178
Period size: 52 Copynumber: 3.3 Consensus size: 49
156223 TTATCTCCGA
* * * * *
156233 GGGGATACTCCAACCCAGGTTTTATTTCCAAATCATCGATTTTTCGAATC
1 GGGGATACTCCAACCC-GATTTTATTTCCAAAACACCAATTTTTCCAATC
* *
156283 GGGGATACTCCAACCCCGACTTTATTTTCAAAACACCAA-TTTTCCTTTAATC
1 GGGGATACTCCAA-CCCGATTTTATTTCCAAAACACCAATTTTTCC---AATC
*
156335 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATT
1 GGGGATACTCCAAC-CCGATTTTATTTCC-AAAACACCAATTTTTC-CAATC
*
156387 GAGGATACTCCAACC
1 GGGGATACTCCAACC
156402 TCGTTATTTC
Statistics
Matches: 100, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
49 5 0.05
50 29 0.29
51 5 0.05
52 45 0.45
53 10 0.10
54 5 0.05
55 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (49 bp):
GGGGATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTTCCAATC
Found at i:156509 original size:289 final size:285
Alignment explanation
Indices: 155994--156590 Score: 774
Period size: 289 Copynumber: 2.1 Consensus size: 285
155984 CAATTCTCCG
* * *
155994 CAATCGGGGATA-TCCCAACTCTGATTTCATTTTCAAAACACTAATTTTCTATAATCGGGGATAC
1 CAATCGGGGATACT-CCAACCCCGATTTCATTTTCAAAACACCAATTTTCTATAATCGGGGATAC
* * * *
156058 TCCAACTCCGATTTTATTTCTAGAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTAATCA
65 TCCAACTCCGATTTTATTTCAAAAACACCAATTTTTCATCGAGGATACTCCAACCCCGTTAATCA
** ** * *
156123 TCGGGGATACTCCAAACCCGTTATTTTTGAGGGGATACTCCAACCTCCGGCTTTATTTCTAAAAT
130 TCGGGGATACTCCAAACCCGTTACCTCCGAGGGGATACTCCAACCTCCGGCTTTATTCCCAAAAT
* * * * *
156188 ATTATTTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAA-CCC-AG
195 ATCAATTTCTCATAATCAGGGATACTCCAACCCCGTTATCTCCGAGAGGATACTCCAATCCCGAT
* *
156251 GTTTTATTTCCAAATCATCGATTTTTC-
260 GTTTT-TCT-CAAATCATCGATTTCTCA
* *
156278 GAATCGGGGATACTCCAACCCCGACTTT-ATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
1 CAATCGGGGATACTCCAACCCCGA-TTTCATTTTCAAAACACCAATTTT-CTATAATCGGGGATA
* *
156342 CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATTGAGGATACTCCAACCTCGTT
64 CTCCAACTCCGATTTTATTT-CAAAAACACCAATTTTT--C-ATCGAGGATACTCCAACCCCGTT
* *
156407 ATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACC-CCGGCTTTATTCC
125 A-ATCATCGGGGATACTCCAAACCCGTTACCTCCGAGGGGATACTCCAACCTCCGGCTTTATTCC
* * *
156471 CAAAATATCAATTTCTCATAATTAGGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAAT
189 CAAAATATCAATTTCTCATAATCAGGGATACTCCAACCCCGTTATCTCCGAGAGGATACTCCAAT
*
156536 CCCGATGTTTTTCTCTAATCATCGATTTCTCA
254 CCCGATGTTTTTCTCAAATCATCGATTTCTCA
* *
156568 CAACCGGGGATACTCCAGCCCCG
1 CAATCGGGGATACTCCAACCCCG
156591 TCATTTTCAA
Statistics
Matches: 269, Mismatches: 33, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
284 38 0.14
285 38 0.14
286 14 0.05
288 1 0.00
289 104 0.39
290 68 0.25
291 6 0.02
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (285 bp):
CAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
CCAACTCCGATTTTATTTCAAAAACACCAATTTTTCATCGAGGATACTCCAACCCCGTTAATCAT
CGGGGATACTCCAAACCCGTTACCTCCGAGGGGATACTCCAACCTCCGGCTTTATTCCCAAAATA
TCAATTTCTCATAATCAGGGATACTCCAACCCCGTTATCTCCGAGAGGATACTCCAATCCCGATG
TTTTTCTCAAATCATCGATTTCTCA
Found at i:156528 original size:107 final size:107
Alignment explanation
Indices: 156335--156539 Score: 263
Period size: 107 Copynumber: 1.9 Consensus size: 107
156325 TCCTTTAATC
* * *
156335 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATTGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTCTCACAATTGAGGATACTCCAA
*
156400 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACCTCCGA
* * * * *
156443 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATCAATTTCTCATAATT-AGGGATACTCCA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTCTCACAATTGA-GGATACTCCA
*
156506 ACCCCGTTATTT-TCGAGAGGATACTCCAATCCCG
65 ACCCCGTTATTTATCG-G-GGATACTCCAACCCCG
156540 ATGTTTTTCT
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
105 3 0.04
106 2 0.02
107 58 0.69
108 21 0.25
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTCTCACAATTGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACCTCCGA
Found at i:156564 original size:79 final size:79
Alignment explanation
Indices: 156416--156618 Score: 214
Period size: 79 Copynumber: 2.6 Consensus size: 79
156406 TATTTCATCG
** *
156416 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATCA
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATCA
* **
156481 ATTTCTCATAATTA
66 ATTTCTCACAACCA
* * * *
156495 GGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAATCCCGATG-TTT-TTCTC-TAATCA
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG--GCTTTATTCCCAAAAT-A
* *
156557 TCGATTTCTCACAACCG
63 TCAATTTCTCACAACCA
* * * *
156574 GGGATACTCCAGCCCCGTCATTTTCAAGGGGACACTCCAACCCCG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
156619 TTATTATCTC
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
78 3 0.03
79 96 0.93
80 3 0.03
81 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATCA
ATTTCTCACAACCA
Found at i:157616 original size:19 final size:20
Alignment explanation
Indices: 157592--157633 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
157582 GCACGTTGCG
157592 ACACCTT-AAATGTATCGAT
1 ACACCTTCAAATGTATCGAT
*
157611 ACACCTTCAGATGTATCGAT
1 ACACCTTCAAATGTATCGAT
157631 ACA
1 ACA
157634 TAATGCACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.29
Consensus pattern (20 bp):
ACACCTTCAAATGTATCGAT
Found at i:157774 original size:13 final size:13
Alignment explanation
Indices: 157756--157781 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
157746 ACATACAAGA
157756 TGTATCGATACAT
1 TGTATCGATACAT
157769 TGTATCGATACAT
1 TGTATCGATACAT
157782 GACTAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:157797 original size:33 final size:32
Alignment explanation
Indices: 157736--157803 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
157726 CCTTAACTGT
157736 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
157768 TTGTATCGATACATGACTAA-ATGTATCGATACA
1 TTGTATCGATACAT-AC-AAGATGTATCGATACA
157801 TTG
1 TTG
157804 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:160781 original size:32 final size:32
Alignment explanation
Indices: 160745--160828 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
160735 GATACCAAAA
160745 TGTTGTATCGATACAATGTATAGATAAACAAG
1 TGTTGTATCGATACAATGTATAGATAAACAAG
* * *
160777 TGTTGTATCGATACAATGTATCGATACATAAG
1 TGTTGTATCGATACAATGTATAGATAAACAAG
160809 T-TTGTATCGATACAATGTAT
1 TGTTGTATCGATACAATGTAT
160829 CGCTACGAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 19 0.39
32 30 0.61
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTTGTATCGATACAATGTATAGATAAACAAG
Found at i:160798 original size:13 final size:13
Alignment explanation
Indices: 160748--160830 Score: 58
Period size: 13 Copynumber: 5.5 Consensus size: 13
160738 ACCAAAATGT
160748 TGTATCGATACAA
1 TGTATCGATACAA
*
160761 TGTATAGATAAACAA
1 TGTATCGAT--ACAA
160776 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
160793 TGTATCGATACATAA
1 TGTATCGATAC--AA
160808 GTTTGTATCGATACAA
1 ---TGTATCGATACAA
160824 TGTATCG
1 TGTATCG
160831 CTACGAAGCT
Statistics
Matches: 57, Mismatches: 2, Indels: 22
0.70 0.02 0.27
Matches are distributed among these distances:
13 26 0.46
15 6 0.11
16 2 0.04
17 4 0.07
18 11 0.19
19 8 0.14
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:160957 original size:52 final size:52
Alignment explanation
Indices: 160869--161023 Score: 222
Period size: 52 Copynumber: 3.0 Consensus size: 52
160859 CGATACATTA
* *** * *
160869 CCCAAATGTATCGATACACTGAT-CTTTGTATCGATACATGCAGACAAATTTG
1 CCCAGATGTATCGATACACT-ATAAAATGTATCGATACATACAGGCAAATTTG
*
160921 CCCAGATGTGTCGATACACTATAAAATGTATCGATACATACAGGCAAATTTG
1 CCCAGATGTATCGATACACTATAAAATGTATCGATACATACAGGCAAATTTG
*
160973 CCCAGATGTATCGATACACTATGAAATGTATCGATACATACAGGCAAATTT
1 CCCAGATGTATCGATACACTATAAAATGTATCGATACATACAGGCAAATTT
161024 TCATATTTCG
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 2 0.02
52 91 0.98
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (52 bp):
CCCAGATGTATCGATACACTATAAAATGTATCGATACATACAGGCAAATTTG
Found at i:167612 original size:13 final size:13
Alignment explanation
Indices: 167590--167627 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
167580 TAGCATTCTC
* *
167590 TGTATTGATACAT
1 TGTATCGATACAG
167603 TGTATCGATACAG
1 TGTATCGATACAG
167616 TGTATCGATACA
1 TGTATCGATACA
167628 AGGTTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:168612 original size:18 final size:17
Alignment explanation
Indices: 168585--168618 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
168575 CAAAGAGGGC
*
168585 TCGATTCCTCGAAACAT
1 TCGATTCCTCAAAACAT
168602 TCGAGTTCCTCAAAACA
1 TCGA-TTCCTCAAAACA
168619 AAGCCACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.26
Consensus pattern (17 bp):
TCGATTCCTCAAAACAT
Found at i:170218 original size:32 final size:33
Alignment explanation
Indices: 170177--170244 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
170167 CCTTAACTAT
* *
170177 TTGTATCGATACAT-A-CAAGATGTATCGATGCA
1 TTGTATCGATACATGATCAA-AAGTATCGATACA
170209 TTGTATCGATACATGATCAAAAGTATCGATACA
1 TTGTATCGATACATGATCAAAAGTATCGATACA
170242 TTG
1 TTG
170245 GCCTGTAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 14 0.44
33 15 0.47
34 3 0.09
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATGATCAAAAGTATCGATACA
Found at i:173194 original size:21 final size:21
Alignment explanation
Indices: 173140--173184 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
173130 AATGTATCAA
*
173140 AATATATTTAAAACGTATTAT
1 AATATACTTAAAACGTATTAT
173161 AATATACTTAAAACGTATTAT
1 AATATACTTAAAACGTATTAT
173182 AAT
1 AAT
173185 CATGTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (21 bp):
AATATACTTAAAACGTATTAT
Found at i:173593 original size:16 final size:16
Alignment explanation
Indices: 173574--173620 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
173564 GTTTTAAGTC
173574 CAGATCATTTTGGATT
1 CAGATCATTTTGGATT
** *
173590 CAGATTGTTTCGGATT
1 CAGATCATTTTGGATT
*
173606 CAGGTCATTTTGGAT
1 CAGATCATTTTGGAT
173621 ATTAGTCAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.43
Consensus pattern (16 bp):
CAGATCATTTTGGATT
Found at i:175007 original size:27 final size:27
Alignment explanation
Indices: 174956--175010 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
174946 TTATTCAACA
174956 AATTAAAATAAAATAAAAATAAATATT
1 AATTAAAATAAAATAAAAATAAATATT
* *
174983 AATT-AAATAGAATAAAAGATGAATATT
1 AATTAAAATAAAATAAAA-ATAAATATT
175010 A
1 A
175011 TTATTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (27 bp):
AATTAAAATAAAATAAAAATAAATATT
Found at i:175446 original size:11 final size:10
Alignment explanation
Indices: 175425--175449 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
175415 TTAACTCAAC
175425 TTTTCTTTTT
1 TTTTCTTTTT
175435 TTTTCTTTTT
1 TTTTCTTTTT
175445 TTTTC
1 TTTTC
175450 CACTTAGTTG
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:176888 original size:2 final size:2
Alignment explanation
Indices: 176881--176919 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
176871 AGAAATTAAT
176881 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
176920 AAACAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:177325 original size:20 final size:20
Alignment explanation
Indices: 177300--177342 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
177290 AACCTTTTAG
177300 TTTTCTGATTCTGTTTGGGT
1 TTTTCTGATTCTGTTTGGGT
* * *
177320 TTTTCTGTTTCTTTTTTGGT
1 TTTTCTGATTCTGTTTGGGT
177340 TTT
1 TTT
177343 GCAGTGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.02, C:0.09, G:0.19, T:0.70
Consensus pattern (20 bp):
TTTTCTGATTCTGTTTGGGT
Found at i:180074 original size:20 final size:19
Alignment explanation
Indices: 180049--180086 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
180039 AAAAGGTAAC
180049 TTTGTT-ATCATATTATAAAA
1 TTTGTTGAT-ATATT-TAAAA
180069 TTTGTTGATATATTTAAA
1 TTTGTTGATATATTTAAA
180087 TTTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 11 0.65
21 2 0.12
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.53
Consensus pattern (19 bp):
TTTGTTGATATATTTAAAA
Found at i:180525 original size:4 final size:5
Alignment explanation
Indices: 180500--180532 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
180490 GTAAGGGAAA
*
180500 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAG AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
180533 AAGAAAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:180525 original size:14 final size:15
Alignment explanation
Indices: 180500--180532 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
180490 GTAAGGGAAA
*
180500 AAAATAAAATAAAAT
1 AAAATAAAATAAAAG
180515 AAAAT-AAATAAAAG
1 AAAATAAAATAAAAG
180529 AAAA
1 AAAA
180533 AAGAAAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAATAAAATAAAAG
Found at i:180980 original size:2 final size:2
Alignment explanation
Indices: 180973--181032 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
180963 TGTAACAAAT
180973 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
181015 GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA
181033 ATGGGAATTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:182966 original size:17 final size:17
Alignment explanation
Indices: 182944--182979 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
182934 GTTTTGGTAC
182944 TTGTTTCCATTGATAGT
1 TTGTTTCCATTGATAGT
182961 TTGTTTCCATTGATAGT
1 TTGTTTCCATTGATAGT
182978 TT
1 TT
182980 ATCATGGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.56
Consensus pattern (17 bp):
TTGTTTCCATTGATAGT
Found at i:186527 original size:8 final size:8
Alignment explanation
Indices: 186514--186611 Score: 97
Period size: 8 Copynumber: 12.0 Consensus size: 8
186504 AGCAGCTACC
186514 CTATATAT
1 CTATATAT
186522 CTATATCTAT
1 CTATA--TAT
*
186532 CTATCTAT
1 CTATATAT
*
186540 CTATCTAT
1 CTATATAT
*
186548 CTATCTAT
1 CTATATAT
*
186556 CTATCTAT
1 CTATATAT
*
186564 CTATCTAT
1 CTATATAT
*
186572 CTATCTAT
1 CTATATAT
186580 CTATATAT
1 CTATATAT
*
186588 ATATATAT
1 CTATATAT
*
186596 ATATATAT
1 CTATATAT
*
186604 ATATATAT
1 CTATATAT
186612 TTGTTTCAAG
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
8 78 0.92
10 7 0.08
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (8 bp):
CTATATAT
Found at i:186534 original size:4 final size:4
Alignment explanation
Indices: 186525--186583 Score: 118
Period size: 4 Copynumber: 14.8 Consensus size: 4
186515 TATATATCTA
186525 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
186573 TATC TATC TAT
1 TATC TATC TAT
186584 ATATATATAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.25, C:0.24, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:186588 original size:2 final size:2
Alignment explanation
Indices: 186581--186611 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
186571 TCTATCTATC
186581 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
186612 TTGTTTCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:187100 original size:14 final size:15
Alignment explanation
Indices: 187080--187114 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
187070 TTTCATCTTC
187080 AAAATATAATTTTTT
1 AAAATATAATTTTTT
187095 AAATATATAATTTTTT
1 AAA-ATATAATTTTTT
187111 AAAA
1 AAAA
187115 AATATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAAATATAATTTTTT
Found at i:187102 original size:16 final size:16
Alignment explanation
Indices: 187083--187113 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
187073 CATCTTCAAA
187083 ATATAATTTTTTAAAT
1 ATATAATTTTTTAAAT
187099 ATATAATTTTTTAAA
1 ATATAATTTTTTAAA
187114 AAATATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATAATTTTTTAAAT
Found at i:191164 original size:2 final size:2
Alignment explanation
Indices: 191157--191193 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
191147 TTAGGTTGTT
191157 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
191194 TTGCAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:198430 original size:14 final size:14
Alignment explanation
Indices: 198413--198569 Score: 93
Period size: 14 Copynumber: 10.9 Consensus size: 14
198403 CACTTTTAGT
198413 ACAAGTATTTTGAC
1 ACAAGTATTTTGAC
*
198427 ACAAGTATCTTTAAC
1 ACAAGTAT-TTTGAC
*
198442 ACATGTACTTTTGAC
1 ACAAGTA-TTTTGAC
* *
198457 AC-AGATACTTTGGC
1 ACAAG-TATTTTGAC
* *
198471 ACAAGTACCTTTGAT
1 ACAAGTA-TTTTGAC
* **
198486 ACAAGTACTTTGGT
1 ACAAGTATTTTGAC
*
198500 ACATGTAATTTTGAC
1 ACAAGT-ATTTTGAC
* *
198515 ACAAGTACTTCGAC
1 ACAAGTATTTTGAC
*
198529 ACAAATATTTTTG-C
1 ACAAGTA-TTTTGAC
* *
198543 ATAAGTACTTTGAC
1 ACAAGTATTTTGAC
*
198557 ATAAGTACTTTTG
1 ACAAGTA-TTTTG
198570 GCATAGGTAC
Statistics
Matches: 111, Mismatches: 23, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
13 4 0.04
14 55 0.50
15 51 0.46
16 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (14 bp):
ACAAGTATTTTGAC
Found at i:198458 original size:15 final size:15
Alignment explanation
Indices: 198413--198583 Score: 115
Period size: 15 Copynumber: 11.8 Consensus size: 15
198403 CACTTTTAGT
198413 ACAAGTA-TTTTGAC
1 ACAAGTACTTTTGAC
*
198427 ACAAGTA-TCTTTAAC
1 ACAAGTACT-TTTGAC
*
198442 ACATGTACTTTTGAC
1 ACAAGTACTTTTGAC
*
198457 AC-AGATAC-TTTGGC
1 ACAAG-TACTTTTGAC
* *
198471 ACAAGTACCTTTGAT
1 ACAAGTACTTTTGAC
**
198486 ACAAGTAC-TTTGGT
1 ACAAGTACTTTTGAC
* *
198500 ACATGTAATTTTGAC
1 ACAAGTACTTTTGAC
*
198515 ACAAGTAC-TTCGAC
1 ACAAGTACTTTTGAC
* *
198529 ACAAATATTTTTG-C
1 ACAAGTACTTTTGAC
*
198543 ATAAGTAC-TTTGAC
1 ACAAGTACTTTTGAC
* *
198557 ATAAGTACTTTTGGC
1 ACAAGTACTTTTGAC
* *
198572 ATAGGTACTTTT
1 ACAAGTACTTTT
198584 TGATAGCAAC
Statistics
Matches: 125, Mismatches: 23, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
13 4 0.03
14 56 0.45
15 64 0.51
16 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (15 bp):
ACAAGTACTTTTGAC
Found at i:198478 original size:29 final size:29
Alignment explanation
Indices: 198413--198569 Score: 149
Period size: 29 Copynumber: 5.4 Consensus size: 29
198403 CACTTTTAGT
*
198413 ACAAGTA-TTTTGACACAAGTATCTTTAAC
1 ACAAGTACTTTTGACACAAGTA-CTTTGAC
* *
198442 ACATGTACTTTTGACAC-AGATACTTTGGC
1 ACAAGTACTTTTGACACAAG-TACTTTGAC
* * **
198471 ACAAGTACCTTTGATACAAGTACTTTGGT
1 ACAAGTACTTTTGACACAAGTACTTTGAC
* * *
198500 ACATGTAATTTTGACACAAGTACTTCGAC
1 ACAAGTACTTTTGACACAAGTACTTTGAC
* * *
198529 ACAAATATTTTTG-CATAAGTACTTTGAC
1 ACAAGTACTTTTGACACAAGTACTTTGAC
*
198557 ATAAGTACTTTTG
1 ACAAGTACTTTTG
198570 GCATAGGTAC
Statistics
Matches: 103, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
28 23 0.22
29 67 0.65
30 13 0.13
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (29 bp):
ACAAGTACTTTTGACACAAGTACTTTGAC
Found at i:198548 original size:28 final size:29
Alignment explanation
Indices: 198508--198581 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
198498 GTACATGTAA
*
198508 TTTTGACACAAGTACTTCGACACAAATA-T
1 TTTTG-CATAAGTACTTCGACACAAATACT
* * *
198537 TTTTGCATAAGTACTTTGACATAAGTACT
1 TTTTGCATAAGTACTTCGACACAAATACT
* *
198566 TTTGGCATAGGTACTT
1 TTTTGCATAAGTACTT
198582 TTTGATAGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 18 0.47
29 20 0.53
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (29 bp):
TTTTGCATAAGTACTTCGACACAAATACT
Found at i:201359 original size:76 final size:78
Alignment explanation
Indices: 201252--201455 Score: 234
Period size: 76 Copynumber: 2.6 Consensus size: 78
201242 GAGATAATAA
* * * * * * *
201252 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-A
*
201317 -TT-AGAA-AAAAT
65 TTTGAGAATAAAAC
* *
201328 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* *
201393 TTTGGGAATAAAGC
65 TTTGAGAATAAAAC
* **
201407 CGGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
201456 AAAATAACGA
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
75 1 0.01
76 54 0.50
77 2 0.02
78 3 0.03
79 47 0.44
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTGAGAATAAAAC
Found at i:201364 original size:28 final size:28
Alignment explanation
Indices: 201320--201373 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
201310 TCGATGATTA
201320 GAAAAAATCGGGATTGGAGTATCCCCTC
1 GAAAAAATCGGGATTGGAGTATCCCCTC
*
201348 GAAAATAA-CGGGGTTGGAGTATCCCC
1 GAAAA-AATCGGGATTGGAGTATCCCC
201374 AATTATGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (28 bp):
GAAAAAATCGGGATTGGAGTATCCCCTC
Found at i:201537 original size:53 final size:51
Alignment explanation
Indices: 201466--201641 Score: 203
Period size: 52 Copynumber: 3.4 Consensus size: 51
201456 AAAATAACGA
* *
201466 GGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGA
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTG-TTTT-GAAATAAAATCGG
* * * *
201519 AGCTGGAGTATCCCCGA-T-TAAAGGAAAATTGGTGTTTTAAAAGTAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAA--AAAATTGGTGTTTTGAAA-TAAAATCGG
* * *
201571 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTT-GAAATAAAATCGG
201623 GGTTGGAGTATCCCCGATT
1 GGTTGGAGTATCCCCGATT
201642 ATGAGAAATC
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
51 6 0.06
52 69 0.66
53 27 0.26
54 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTGAAATAAAATCGG
Found at i:201681 original size:51 final size:52
Alignment explanation
Indices: 201562--201688 Score: 152
Period size: 51 Copynumber: 2.5 Consensus size: 52
201552 GTTTTAAAAG
* * * * *
201562 TAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAA
1 TAAAAGCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGCAA
* *
201614 TAAAATCGGGGTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTAAG-AA
1 TAAAAGCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTT-AGCAA
201665 T-AAAGCAGGGGTTGGAGTATCCCC
1 TAAAAGC-GGGGTTGGAGTATCCCC
201689 TCGGAAATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
50 4 0.06
51 32 0.48
52 31 0.46
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (52 bp):
TAAAAGCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGCAA
Found at i:201772 original size:54 final size:51
Alignment explanation
Indices: 201703--201826 Score: 151
Period size: 51 Copynumber: 2.4 Consensus size: 51
201693 AAATAACGGG
*
201703 GTTGGAGTATCCCCGATTGT-GAAAAATTTGTGTTTTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTAG-AAAATTAGTG---TTTTGAAAATAAAATCGGA
*
201757 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTAGAAAATTAGTGTTTTGAAAATAAAATCGGA
* * * *
201808 GATGAAATATCTCCGATTG
1 GTTGGAGTATCCCCGATTG
201827 CGGAGAATTG
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 33 0.53
54 28 0.45
55 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTAGAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:201797 original size:51 final size:52
Alignment explanation
Indices: 201703--201808 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 52
201693 AAATAACGGG
* *
201703 GTTGGAGTATCCCCGATTGTGAAAAATTTGTGTTTTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTG--TTTTTGAAAATAAAATCGGA
201757 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTG-TTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTTGAAAATAAAATCGGA
201808 G
1 G
201809 ATGAAATATC
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
51 20 0.41
53 1 0.02
54 28 0.57
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTTGAAAATAAAATCGGA
Found at i:204212 original size:13 final size:13
Alignment explanation
Indices: 204194--204219 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
204184 ACAAAGATCC
204194 ATGTATCGATACA
1 ATGTATCGATACA
204207 ATGTATCGATACA
1 ATGTATCGATACA
204220 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:204213 original size:33 final size:33
Alignment explanation
Indices: 204173--204239 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
204163 AAAATTTCCA
***
204173 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
204206 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
204239 A
1 A
204240 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:204286 original size:19 final size:18
Alignment explanation
Indices: 204262--204326 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
204252 TAGCTAATTG
204262 TGTATCGATACAATACTTA
1 TGTATCGATACAA-ACTTA
204281 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
204294 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
204313 TGTATCGATACAAA
1 TGTATCGATACAAA
204327 TTGTTGAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 4 0.10
19 22 0.55
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:204299 original size:13 final size:13
Alignment explanation
Indices: 204281--204305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
204271 ACAATACTTA
204281 TGTATCGATACAT
1 TGTATCGATACAT
204294 TGTATCGATACA
1 TGTATCGATACA
204306 AAACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:204303 original size:32 final size:32
Alignment explanation
Indices: 204262--204324 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
204252 TAGCTAATTG
*
204262 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
204294 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
204325 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:207441 original size:10 final size:10
Alignment explanation
Indices: 207428--207492 Score: 53
Period size: 10 Copynumber: 6.3 Consensus size: 10
207418 CTTTTTCCTC
*
207428 TCTTTTTTTT
1 TCTTTCTTTT
207438 TCTTTCTTTT
1 TCTTTCTTTT
* *
207448 TCTCTCCTTCCT
1 TCT-TTCTT-TT
207460 TC-TT-TTTT
1 TCTTTCTTTT
207468 TCTTTCTTTT
1 TCTTTCTTTT
207478 TCCTTTCTTTCT
1 T-CTTTCTTT-T
207490 TCT
1 TCT
207493 CCTTTCCTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
8 3 0.07
9 4 0.09
10 18 0.41
11 14 0.32
12 5 0.11
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
TCTTTCTTTT
Found at i:207486 original size:15 final size:15
Alignment explanation
Indices: 207417--207490 Score: 61
Period size: 14 Copynumber: 5.3 Consensus size: 15
207407 TCCCCGACCA
*
207417 TCTTTTTCCTCTCTT
1 TCTTTTTCCTTTCTT
*
207432 T-TTTTTTCTTTCTT
1 TCTTTTTCCTTTCTT
* *
207446 T-TTCTCTCC-TTCCT
1 TCTT-TTTCCTTTCTT
207460 TC-TTTT--TTTCTT
1 TCTTTTTCCTTTCTT
207472 TCTTTTTCCTTTCTT
1 TCTTTTTCCTTTCTT
207487 TCTT
1 TCTT
207491 CTCCTTTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
12 6 0.13
13 6 0.13
14 20 0.43
15 14 0.30
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TCTTTTTCCTTTCTT
Found at i:207492 original size:22 final size:22
Alignment explanation
Indices: 207428--207492 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
207418 CTTTTTCCTC
*
207428 TCTTTTT-TTTTCTTTCTT-TT
1 TCTTTTTCCTTTCTTTCTTCTT
* *
207448 TCTCTCCTTCC-TTCTTTTTTTCTT
1 TCT-T-TTTCCTTTC-TTTCTTCTT
207472 TCTTTTTCCTTTCTTTCTTCT
1 TCTTTTTCCTTTCTTTCTTCT
207493 CCTTTCCTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
20 3 0.09
21 1 0.03
22 16 0.47
23 9 0.26
24 5 0.15
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (22 bp):
TCTTTTTCCTTTCTTTCTTCTT
Found at i:207492 original size:30 final size:30
Alignment explanation
Indices: 207423--207492 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
207413 ACCATCTTTT
*
207423 TCCTCTCTT-TTTTTTTCTTTCTTTTTCTC
1 TCCTTTCTTCTTTTTTTCTTTCTTTTTCTC
*
207452 TCCTTCCTTCTTTTTTTCTTTCTTTTTC-C
1 TCCTTTCTTCTTTTTTTCTTTCTTTTTCTC
*
207481 TTTCTTTCTTCT
1 -TCCTTTCTTCT
207493 CCTTTCCTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.23
30 27 0.77
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (30 bp):
TCCTTTCTTCTTTTTTTCTTTCTTTTTCTC
Found at i:207652 original size:20 final size:19
Alignment explanation
Indices: 207627--207667 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
207617 AATAAAGATA
*
207627 AATTATATCATAAAAAATTT
1 AATTATACCAT-AAAAATTT
*
207647 AATTATACCCTAAAAATTT
1 AATTATACCATAAAAATTT
207666 AA
1 AA
207668 ACCAGCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTATACCATAAAAATTT
Found at i:207811 original size:25 final size:25
Alignment explanation
Indices: 207747--207821 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
207737 TTAATTTGAC
* * *
207747 AAATAAAAATAAATCATA-TCTTA-
1 AAATAAAAATAAATTAAATTTTTAT
207770 AAAT-AAAATAAATTTAAATTTTTAT
1 AAATAAAAATAAA-TTAAATTTTTAT
207795 AAATAAAAATAAATTAAATTTTTAT
1 AAATAAAAATAAATTAAATTTTTAT
207820 AA
1 AA
207822 TTATATCGAC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
22 8 0.18
23 7 0.16
24 4 0.09
25 18 0.40
26 8 0.18
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (25 bp):
AAATAAAAATAAATTAAATTTTTAT
Found at i:208231 original size:71 final size:76
Alignment explanation
Indices: 208087--208234 Score: 180
Period size: 75 Copynumber: 2.0 Consensus size: 76
208077 TTTTTGTAAT
* ** *
208087 TTAAATTTTTTTATTTTATTAAAAATTAATAATTAATATTTTAATTTTTCAATATAAAATTTTTA
1 TTAAATTTTTTTATTTTATTAAAAATAAATAATTAATATCATAATTTTTCAACATAAAATTTTTA
208152 ATTAAATTAAA
66 ATTAAATTAAA
* * * *
208163 TTAAA-TTTTTTATTTTATTAAAAATAAATAATTTATA-CATGA-TTTT-AACAT-GATTTTTTA
1 TTAAATTTTTTTATTTTATTAAAAATAAATAATTAATATCATAATTTTTCAACATAAAATTTTTA
*
208223 ATTTAATTAAA
66 ATTAAATTAAA
208234 T
1 T
208235 ATTTTTAATT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
71 18 0.29
72 4 0.06
73 4 0.06
74 2 0.03
75 30 0.48
76 5 0.08
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (76 bp):
TTAAATTTTTTTATTTTATTAAAAATAAATAATTAATATCATAATTTTTCAACATAAAATTTTTA
ATTAAATTAAA
Found at i:208372 original size:12 final size:14
Alignment explanation
Indices: 208341--208387 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
208331 TAGATTTATA
208341 AAAAAATATATTTT
1 AAAAAATATATTTT
208355 AAAAAATAT-TTTT
1 AAAAAATATATTTT
** *
208368 CAAAAACCATAATTT
1 -AAAAAATATATTTT
208383 AAAAA
1 AAAAA
208388 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 4 0.14
14 21 0.75
15 3 0.11
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAAAATATATTTT
Found at i:210190 original size:7 final size:7
Alignment explanation
Indices: 210178--210209 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
210168 ACATGAGCTA
210178 AATTGGG
1 AATTGGG
210185 AATTGGG
1 AATTGGG
210192 AATTGGG
1 AATTGGG
*
210199 AATTGAG
1 AATTGGG
210206 AATT
1 AATT
210210 TAGGTTGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (7 bp):
AATTGGG
Found at i:210658 original size:2 final size:2
Alignment explanation
Indices: 210612--210641 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
210602 ATAGGGTACA
*
210612 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
210642 CTCTCTCTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:213236 original size:2 final size:2
Alignment explanation
Indices: 213231--213267 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
213221 GCAATGTAAA
213231 AG AG AG AG AG CA- AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG -AG AG AG AG AG AG AG AG AG AG AG AG AG A
213268 TGGGTGATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 31 0.94
3 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:213898 original size:20 final size:21
Alignment explanation
Indices: 213872--213926 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
213862 AATACTATAG
213872 GTTTATTAAACATGTATT-GT
1 GTTTATTAAACATGTATTCGT
* * *
213892 TTTTATTACAC-TGTTTTCGT
1 GTTTATTAAACATGTATTCGT
213912 GTTTATTAAACATGT
1 GTTTATTAAACATGT
213927 CATGTTTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 5 0.18
20 20 0.71
21 3 0.11
ACGTcount: A:0.25, C:0.09, G:0.13, T:0.53
Consensus pattern (21 bp):
GTTTATTAAACATGTATTCGT
Found at i:215864 original size:27 final size:28
Alignment explanation
Indices: 215822--215882 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
215812 GAGGCCAAAT
215822 GAGG-TACCGTTAAAAAGGTGACTCGAC
1 GAGGATACCGTTAAAAAGGTGACTCGAC
215849 GAGGATACCGTTAAAAAGGTGACTCGAC
1 GAGGATACCGTTAAAAAGGTGACTCGAC
215877 GAGGAT
1 GAGGAT
215883 GGATTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.18
Consensus pattern (28 bp):
GAGGATACCGTTAAAAAGGTGACTCGAC
Found at i:217806 original size:20 final size:20
Alignment explanation
Indices: 217777--217851 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
217767 AAAAAGACAT
*
217777 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTAAAG
* * *
217797 AATATATCGATACATTCATG
1 AATGTATCGATACATTAAAG
* * *
217817 CATGTATCGATATATTAAAA
1 AATGTATCGATACATTAAAG
217837 AATGTATCGATACAT
1 AATGTATCGATACAT
217852 CTGGGTAAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTAAAG
Found at i:218102 original size:20 final size:20
Alignment explanation
Indices: 218077--218127 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
218067 ATTTTAACTA
218077 GATGTATCGATACATTATTC
1 GATGTATCGATACATTATTC
218097 GATGTATCGATACATTATTC
1 GATGTATCGATACATTATTC
*
218117 AATGTATCGAT
1 GATGTATCGAT
218128 GCATCTAGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (20 bp):
GATGTATCGATACATTATTC
Found at i:218177 original size:20 final size:20
Alignment explanation
Indices: 218148--218222 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
218138 AAAAAGACAT
*
218148 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTAAAG
* * *
218168 AATATATCGATACATTCATG
1 AATGTATCGATACATTAAAG
* * *
218188 CATGTATCGATATATTAAAA
1 AATGTATCGATACATTAAAG
218208 AATGTATCGATACAT
1 AATGTATCGATACAT
218223 CTGGGTAAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTAAAG
Found at i:220860 original size:32 final size:32
Alignment explanation
Indices: 220819--220882 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
220809 TAAAAAAAGA
220819 AAGAACTTTCACAGAAGAAAATGATGTAGGTT
1 AAGAACTTTCACAGAAGAAAATGATGTAGGTT
220851 AAGAACTTTCACAGAAGAAAATGATGTAGGTT
1 AAGAACTTTCACAGAAGAAAATGATGTAGGTT
220883 CCATATGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (32 bp):
AAGAACTTTCACAGAAGAAAATGATGTAGGTT
Found at i:225232 original size:81 final size:82
Alignment explanation
Indices: 225002--225262 Score: 330
Period size: 82 Copynumber: 3.2 Consensus size: 82
224992 TACCTATCCG
* * * *
225002 CTAAAGGTCTTCATCACTACCATGTTATCATAACGCCGAAAATACAAGGTTAGAGGCAATTATTT
1 CTAAAGATCTTCATCACTACGATGTTATCATAACCCCGAAAATACAAGGTTAGAGCCAATTATTT
* *
225067 CCTTGTTGACGTCACGA
66 CCTTGTCGACGTCACCA
* * * * *
225084 CTAAATATCTTCGTCACTATGATGTTTACCCATAACCTCC-AAAATACAAGGCTAG-GTCCAATT
1 CTAAAGATCTTCATCACTACGATG-TTA-TCATAACC-CCGAAAATACAAGGTTAGAG-CCAATT
**
225147 ATTTCCTCATCGAC-TCACCA
62 ATTTCCTTGTCGACGTCACCA
*
225167 CTAAAGATCTTCATCACTACGATGTTATCATAACCCCGAAAATACAAGGTTAGAGCCAATCATTT
1 CTAAAGATCTTCATCACTACGATGTTATCATAACCCCGAAAATACAAGGTTAGAGCCAATTATTT
*
225232 CCTTGTCGACGTCGCCA
66 CCTTGTCGACGTCACCA
225249 CTAAAGATCTTCAT
1 CTAAAGATCTTCAT
225263 TGGTTTCCAT
Statistics
Matches: 150, Mismatches: 22, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
80 2 0.01
81 38 0.25
82 42 0.28
83 30 0.20
84 36 0.24
85 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (82 bp):
CTAAAGATCTTCATCACTACGATGTTATCATAACCCCGAAAATACAAGGTTAGAGCCAATTATTT
CCTTGTCGACGTCACCA
Found at i:228915 original size:21 final size:20
Alignment explanation
Indices: 228876--228917 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
228866 AAATTATAAT
**
228876 TTTATTATTTTTATTTTTTA
1 TTTATTATTTTTACCTTTTA
228896 TTTATTAATTTTTACCTTTTA
1 TTTATT-ATTTTTACCTTTTA
228917 T
1 T
228918 AAATAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTATTATTTTTACCTTTTA
Found at i:229134 original size:22 final size:22
Alignment explanation
Indices: 229109--229155 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
229099 ATTTATTTAA
*
229109 AAATAAATTATTAATAATAA-AT
1 AAATAAATAATTAA-AATAATAT
229131 AAATAAATAATTAAAATAATAT
1 AAATAAATAATTAAAATAATAT
229153 AAA
1 AAA
229156 ACCTAGTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATAAATAATTAAAATAATAT
Found at i:229141 original size:18 final size:17
Alignment explanation
Indices: 229106--229155 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
229096 AAAATTTATT
* *
229106 TAAAAATAAATTATTAA
1 TAAAAATAAATAAATAA
229123 TAATAAATAAATAAATAA
1 TAA-AAATAAATAAATAA
*
229141 TTAAAATAATATAAA
1 TAAAAATAA-ATAAA
229156 ACCTAGTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAATAAATAAATAA
Found at i:229493 original size:31 final size:31
Alignment explanation
Indices: 229415--229493 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 31
229405 TTAAAAATTA
* *
229415 ATTTTTAAATAAAATTAATTTTTAATTTTTTT
1 ATTTTTAAATAATATT-ATTTTTAATTATTTT
*
229447 ATTTTTAAACT--TATTATTTTTTA-TATTTT
1 ATTTTTAAA-TAATATTATTTTTAATTATTTT
229476 ATTTTTATAATAATATTA
1 ATTTTTA-AATAATATTA
229494 AATATTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
29 13 0.32
30 9 0.22
31 8 0.20
32 9 0.22
33 1 0.03
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTTTAAATAATATTATTTTTAATTATTTT
Found at i:239391 original size:34 final size:36
Alignment explanation
Indices: 239345--239419 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 36
239335 ATGATTGAAC
* * *
239345 TTATA-TAT-TTAAACTTCTT-AAAAGGTTATAATT
1 TTATACTATGTTAAACCTCTTAAAAAAGTGATAATT
239378 TT-TACTATGTTAAACCTCTTAAAAAAGTGATAATT
1 TTATACTATGTTAAACCTCTTAAAAAAGTGATAATT
239413 TTATACT
1 TTATACT
239420 TAGTCTCTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 2 0.06
33 5 0.14
34 10 0.29
35 14 0.40
36 4 0.11
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (36 bp):
TTATACTATGTTAAACCTCTTAAAAAAGTGATAATT
Found at i:239658 original size:16 final size:15
Alignment explanation
Indices: 239628--239661 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
239618 ATGTGACCTT
*
239628 AATATCAACAATGTG
1 AATATCAAAAATGTG
239643 AATATGCAAAAATGTG
1 AATAT-CAAAAATGTG
239659 AAT
1 AAT
239662 GATTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (15 bp):
AATATCAAAAATGTG
Found at i:245614 original size:16 final size:16
Alignment explanation
Indices: 245590--245634 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
245580 TGATATTAAT
*
245590 AATAAAAAATAAATAA
1 AATATAAAATAAATAA
*
245606 AATATAAAAT-AAGAA
1 AATATAAAATAAATAA
245621 AATATAAAA-AAATA
1 AATATAAAATAAATA
245635 TATGCATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
AATATAAAATAAATAA
Found at i:245643 original size:26 final size:26
Alignment explanation
Indices: 245587--245636 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
245577 ATTTGATATT
*
245587 AATAATAAAAAATAAATAAAATATAA
1 AATAAGAAAAAATAAATAAAATATAA
*
245613 AATAAGAAAATATAAA-AAAATATA
1 AATAAGAAAAAATAAATAAAATATA
245637 TGCATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (26 bp):
AATAAGAAAAAATAAATAAAATATAA
Found at i:246077 original size:44 final size:44
Alignment explanation
Indices: 246027--246250 Score: 138
Period size: 44 Copynumber: 5.1 Consensus size: 44
246017 GGTTAAACTT
* * * *
246027 TTCTCATTTCAGTCTGACATATAGTTACCACCCTAGTCAGATTC
1 TTCTCATTTCAGTTTGACATATGGTTACCACCCTAGTCAAATCC
*
246071 TTCTCATTT-TGATTTGA-AGTATGGTTACCACCCTAGTCAAATCC
1 TTCTCATTTCAG-TTTGACA-TATGGTTACCACCCTAGTCAAATCC
* * * * *
246115 TTTTCCTTTCTA-TTTGACGTATGGTTACCATCCTAGTCAAATCT
1 TTCTCATTTC-AGTTTGACATATGGTTACCACCCTAGTCAAATCC
* * ** * * *
246159 TTTTCCTTTCTA-TTTGATGTATAGTTACCACCCTGGTTAAATCCCC
1 TTCTCATTTC-AGTTTGACATATGGTTACCACCCTAGTCAAAT--CC
* * * * *
246205 TTC-C-TTTCTA-TTTGGCATATGGTTACTACCTTGGTCAAACCC
1 TTCTCATTTC-AGTTTGACATATGGTTACCACCCTAGTCAAATCC
246247 TTCT
1 TTCT
246251 AACCCTTTGA
Statistics
Matches: 146, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
42 5 0.03
43 2 0.01
44 135 0.92
45 1 0.01
46 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (44 bp):
TTCTCATTTCAGTTTGACATATGGTTACCACCCTAGTCAAATCC
Found at i:246243 original size:88 final size:88
Alignment explanation
Indices: 246041--246230 Score: 231
Period size: 88 Copynumber: 2.2 Consensus size: 88
246031 CATTTCAGTC
* * * * * *
246041 TGACATATAGTTACCACCCTAGTCAGAT-TCTTCTCATTT-TGATTTGAAGTATGGTTACCACCC
1 TGACATATGGTTACCATCCTAGTCAAATCT-TTTTCCTTTCT-ATTTGAAGTATAGTTACCACCC
**
246104 TAGTCAAATCCTTTTCCTTTCTATT
64 TAGTCAAATCCCCTTCCTTTCTATT
* * *
246129 TGACGTATGGTTACCATCCTAGTCAAATCTTTTTCCTTTCTATTTGATGTATAGTTACCACCCTG
1 TGACATATGGTTACCATCCTAGTCAAATCTTTTTCCTTTCTATTTGAAGTATAGTTACCACCCTA
*
246194 GTTAAATCCCCTTCCTTTCTATT
66 GTCAAATCCCCTTCCTTTCTATT
*
246217 TGGCATATGGTTAC
1 TGACATATGGTTAC
246231 TACCTTGGTC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
88 84 0.98
89 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.42
Consensus pattern (88 bp):
TGACATATGGTTACCATCCTAGTCAAATCTTTTTCCTTTCTATTTGAAGTATAGTTACCACCCTA
GTCAAATCCCCTTCCTTTCTATT
Found at i:246410 original size:42 final size:41
Alignment explanation
Indices: 246359--246483 Score: 160
Period size: 42 Copynumber: 3.0 Consensus size: 41
246349 AACTTCTTTA
* *
246359 CTTACTTTTAGTCTGCCTGACGGCTTTGACCCTAGAGACTT
1 CTTACTTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTT
*
246400 CTTAACTTTTAGTCTGCTTGTCGGCTTTGACCTTAGAGACTTT
1 CTT-ACTTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGAC-TT
* * * * *
246443 CTTACCTTCAGTTTGCTTGTTGGCTTTGATCCTAGAGACTT
1 CTTACTTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTT
246484 TTTTCTCTTC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 5 0.07
42 63 0.86
43 5 0.07
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (41 bp):
CTTACTTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTT
Found at i:246484 original size:42 final size:42
Alignment explanation
Indices: 246368--246500 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 42
246358 ACTTACTTTT
* * * *
246368 AGTCTGCCTGACGGCTTTGACCCTAGAGAC-TTCTTAACTTTT
1 AGTCTGCTTGTCGGCTTTGA-CCTAGAGACTTTCTTAACCTTC
246410 AGTCTGCTTGTCGGCTTTGACCTTAGAGACTTTCTT-ACCTTC
1 AGTCTGCTTGTCGGCTTTGACC-TAGAGACTTTCTTAACCTTC
* * *
246452 AGTTTGCTTGTTGGCTTTGATCCTAGAGACTTT-TT-TCTCTTC
1 AGTCTGCTTGTCGGCTTTGA-CCTAGAGACTTTCTTAAC-CTTC
246494 AGTCTGC
1 AGTCTGC
246501 CTATTGACTT
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
41 5 0.06
42 67 0.85
43 7 0.09
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.41
Consensus pattern (42 bp):
AGTCTGCTTGTCGGCTTTGACCTAGAGACTTTCTTAACCTTC
Found at i:246555 original size:84 final size:84
Alignment explanation
Indices: 246467--246624 Score: 183
Period size: 84 Copynumber: 1.9 Consensus size: 84
246457 GCTTGTTGGC
* * * *
246467 TTTGATCCTAGAGACTTT-TTTCTCTTCAGTCTGCCTATTGACTTTAACCATGGAGACTGCCTCA
1 TTTGATCCTAGAAACTTTCTTAC-CTTCAATCTGCCTATTGACTTTAACCATGGAAACTGCCTCA
246531 TCTCAAGTCTACCTGTCGGT
65 TCTCAAGTCTACCTGTCGGT
* * * * * * * * *
246551 TTTGATCTTGGAAACTTTCTTACCTTTAATTTGCTTGTTGGCTTTTACCCTGGAAACTGCCTCAT
1 TTTGATCCTAGAAACTTTCTTACCTTCAATCTGCCTATTGACTTTAACCATGGAAACTGCCTCAT
246616 CTCAAGTCT
66 CTCAAGTCT
246625 GCCCGTTGGC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
84 57 0.95
85 3 0.05
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.41
Consensus pattern (84 bp):
TTTGATCCTAGAAACTTTCTTACCTTCAATCTGCCTATTGACTTTAACCATGGAAACTGCCTCAT
CTCAAGTCTACCTGTCGGT
Found at i:247201 original size:15 final size:16
Alignment explanation
Indices: 247181--247217 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
247171 TAAAAAATAA
*
247181 ATAAAAAT-ATAAAAT
1 ATAAAAATAAGAAAAT
247196 AT-AAAATAAGAAAAT
1 ATAAAAATAAGAAAAT
247211 ATAAAAA
1 ATAAAAA
247218 AATATATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 10 0.53
16 4 0.21
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
ATAAAAATAAGAAAAT
Found at i:247201 original size:24 final size:22
Alignment explanation
Indices: 247169--247216 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
247159 TGACATTAAT
247169 AATAAAAAATAAATAAAAATATAA
1 AATAAAAAAT-AA-AAAAATATAA
* *
247193 AATATAAAATAAGAAAATATAA
1 AATAAAAAATAAAAAAATATAA
247215 AA
1 AA
247217 AAATATATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.50
23 2 0.09
24 9 0.41
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (22 bp):
AATAAAAAATAAAAAAATATAA
Found at i:247218 original size:24 final size:25
Alignment explanation
Indices: 247169--247223 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
247159 TGACATTAAT
* *
247169 AATAAAAAATAAATAAAAAT-ATAA
1 AATATAAAATAAATAAAAATAAAAA
*
247193 AATATAAAATAAGA-AAATATAAAAA
1 AATATAAAATAA-ATAAAAATAAAAA
247218 AATATA
1 AATATA
247224 TGCATAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (25 bp):
AATATAAAATAAATAAAAATAAAAA
Found at i:247590 original size:32 final size:32
Alignment explanation
Indices: 247549--247616 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
247539 TAAACATGGA
**
247549 GCAAACGAAGAAAGAACAAACAGCAAAACCAT
1 GCAAACGAAGAAAGAACAAACAAAAAAACCAT
247581 GCAAACGAAGAAAGAACAAACAAAAAAACCAT
1 GCAAACGAAGAAAGAACAAACAAAAAAACCAT
247613 GCAA
1 GCAA
247617 CAAATAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.62, C:0.21, G:0.15, T:0.03
Consensus pattern (32 bp):
GCAAACGAAGAAAGAACAAACAAAAAAACCAT
Found at i:247982 original size:14 final size:14
Alignment explanation
Indices: 247963--248012 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
247953 GCAGTAAACA
247963 AAGCAAACAGTAAC
1 AAGCAAACAGTAAC
* * *
247977 AAGCAAGCTGATATAA
1 AAGCAAACAG-TA-AC
247993 AAGCAAACAGTAAC
1 AAGCAAACAGTAAC
248007 AAGCAA
1 AAGCAA
248013 GCTGATATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 15 0.54
15 4 0.14
16 9 0.32
ACGTcount: A:0.56, C:0.18, G:0.16, T:0.10
Consensus pattern (14 bp):
AAGCAAACAGTAAC
Found at i:247997 original size:30 final size:30
Alignment explanation
Indices: 247962--248030 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
247952 TGCAGTAAAC
247962 AAAGCAAACAGTAACAAGCAAGCTGATATA
1 AAAGCAAACAGTAACAAGCAAGCTGATATA
247992 AAAGCAAACAGTAACAAGCAAGCTGATATA
1 AAAGCAAACAGTAACAAGCAAGCTGATATA
248022 AAAGCAAAC
1 AAAGCAAAC
248031 CAACAGCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.55, C:0.17, G:0.16, T:0.12
Consensus pattern (30 bp):
AAAGCAAACAGTAACAAGCAAGCTGATATA
Found at i:248028 original size:16 final size:16
Alignment explanation
Indices: 247977--248028 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
247967 AAACAGTAAC
247977 AAGCAAGCTGATATAA
1 AAGCAAGCTGATATAA
* * *
247993 AAGCAAACAG-TA-AC
1 AAGCAAGCTGATATAA
248007 AAGCAAGCTGATATAA
1 AAGCAAGCTGATATAA
248023 AAGCAA
1 AAGCAA
248029 ACCAACAGCA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 9 0.32
15 4 0.14
16 15 0.54
ACGTcount: A:0.54, C:0.15, G:0.17, T:0.13
Consensus pattern (16 bp):
AAGCAAGCTGATATAA
Found at i:252357 original size:7 final size:7
Alignment explanation
Indices: 252345--252378 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
252335 ATGGATTTTC
252345 AAAAAAG
1 AAAAAAG
252352 AAAAAAG
1 AAAAAAG
*
252359 AAAAAAA
1 AAAAAAG
252366 AAGAAAAG
1 AA-AAAAG
252374 AAAAA
1 AAAAA
252379 TTCAGATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:252365 original size:15 final size:15
Alignment explanation
Indices: 252345--252378 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
252335 ATGGATTTTC
*
252345 AAAAAAGAA-AAAAG
1 AAAAAAAAAGAAAAG
252359 AAAAAAAAAGAAAAG
1 AAAAAAAAAGAAAAG
252374 AAAAA
1 AAAAA
252379 TTCAGATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAG
Found at i:254157 original size:39 final size:39
Alignment explanation
Indices: 254110--254187 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
254100 CATTTGTATC
254110 ATTTCATGTGAATTTTTTTATTATTGATCACTACATTTG
1 ATTTCATGTGAATTTTTTTATTATTGATCACTACATTTG
254149 ATTTCATGTGAATTTTTTTATTATTGATCACTACATTTG
1 ATTTCATGTGAATTTTTTTATTATTGATCACTACATTTG
254188 CATCATTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (39 bp):
ATTTCATGTGAATTTTTTTATTATTGATCACTACATTTG
Found at i:254709 original size:89 final size:88
Alignment explanation
Indices: 254542--254759 Score: 204
Period size: 89 Copynumber: 2.4 Consensus size: 88
254532 TTCAAGGAAA
* * * * * *
254542 ACACATTTCCTAATCATATCCCCTTCACTCAACCCTTAAATGGTATTGGTGCATCCCAAAGCTTG
1 ACACA-TTCCTAATCATATTCCCTTTA-TCAACCATTAGATGGTATTGATGCATCACAAAGCTTG
* * * *
254607 ATTTCATGGGGGCAAGGTGTAGCCC
64 ATTTCATGAGGGCAAAGTGCAACCC
* * * * * *
254632 ATATATTCCGAATCATATTCCCTTTATGCAACCATTAGATGGTATTGATGCATCATAAGGTTTGA
1 ACACATTCCTAATCATATTCCCTTTAT-CAACCATTAGATGGTATTGATGCATCACAAAGCTTGA
* *
254697 TTTCCTTAGGGCAAAGTGCAACCC
65 TTTCATGAGGGCAAAGTGCAACCC
* * *
254721 ACACATTCTTAATCATA-TCCTTTTATTCAACCACTAGAT
1 ACACATTCCTAATCATATTCCCTTTA-TCAACCATTAGAT
254760 AGTACTAGTG
Statistics
Matches: 102, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
88 19 0.19
89 80 0.78
90 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (88 bp):
ACACATTCCTAATCATATTCCCTTTATCAACCATTAGATGGTATTGATGCATCACAAAGCTTGAT
TTCATGAGGGCAAAGTGCAACCC
Found at i:254979 original size:47 final size:47
Alignment explanation
Indices: 254905--255710 Score: 769
Period size: 47 Copynumber: 17.2 Consensus size: 47
254895 TCTTACCAAA
* * * * *
254905 CAAACTCTT-TCTACCCTCGTTTGACTGTAGTAGCGTTAGGACTTGGT
1 CAAACTCTTCT-TATCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
* * * *
254952 CAAACTCTTCTTATTCTCATTTAACTGTATTAGCATTAGGACCTGGT
1 CAAACTCTTCTTATCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
* * * *
254999 CAAACTCTTTTTATCCTAGTTTGACTGTATTGGCATTAGGACGTGAT
1 CAAACTCTTCTTATCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
* * ** * *
255046 CAAACTCTTCTTATCCTTGTTTAACTGTATTGGTGTTAGAACTTGGT
1 CAAACTCTTCTTATCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
* * *
255093 TAAACTCTTCTTATCCTGGTTTGACTGTATTGGCATTAGAACCTGGT
1 CAAACTCTTCTTATCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
* ** * *
255140 CAAA-TCTTCTTATTCTTATTTGTCTGTATTGGCATTAGGACCTAGT
1 CAAACTCTTCTTATCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
* * * *
255186 CAAACTCTTCTCA-CATTCGTTTGACTGTATTCG-AGTTAGGACCTGAT
1 CAAACTCTTCTTATC-CTCGTTTGACTGTATTGGCA-TTAGGACCTGGT
* * * * *
255233 CAAACTCTTCTCA-CATTCATTTGACTGTATTGGCGTTAGGACCTTGT
1 CAAACTCTTCTTATC-CTCGTTTGACTGTATTGGCATTAGGACCTGGT
* **
255280 CAAACTCTTCTTATCCTCGTTTAACTGTATTGGTGTTAGGACCTGGT
1 CAAACTCTTCTTATCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
*
255327 CAAACTCTTCTTATCCTGGTTTGACTGTATTGGCATTAGGACCTGGT
1 CAAACTCTTCTTATCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
* * *
255374 CAAACTCTTTTTATTCTCGTTTGACTGTATTGGCATTAGGACCTGAT
1 CAAACTCTTCTTATCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
* * * * **
255421 CAAACTCTTCTCA-CATTCGTTTGATTGTACTGGCATTAGGACCTCAT
1 CAAACTCTTCTTATC-CTCGTTTGACTGTATTGGCATTAGGACCTGGT
** *
255468 CAAACTCTTCTTATCCTTATTTGACTGTATTAGCATTAGGACCTGGT
1 CAAACTCTTCTTATCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
* * * * * *
255515 CAAACTCTTCTCA-CATTTGTTTGATTGTATTAGAATTAGGACCTGGT
1 CAAACTCTTCTTATC-CTCGTTTGACTGTATTGGCATTAGGACCTGGT
* * *
255562 CAAAC-CTT-TT-T--TTGTTTGACTGTATTGAG-GTTAAGACCTGGT
1 CAAACTCTTCTTATCCTCGTTTGACTGTATTG-GCATTAGGACCTGGT
* * * * * *
255604 CAAACTCTT-TTCCATACTTGTTTAACTGTATTAGCGTTAGGATCTGGT
1 CAAACTCTTCTT--ATCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
* * *
255652 CAAACTGTT-TTCCATTCTCGTTTGACTGTATTGGCATTAGGACCTAGT
1 CAAACTCTTCTT--ATCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
*
255700 CAAACTTTTCT
1 CAAACTCTTCT
255711 CATTTTAGTG
Statistics
Matches: 637, Mismatches: 103, Indels: 36
0.82 0.13 0.05
Matches are distributed among these distances:
42 30 0.05
43 6 0.01
45 1 0.00
46 46 0.07
47 477 0.75
48 76 0.12
49 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.40
Consensus pattern (47 bp):
CAAACTCTTCTTATCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
Found at i:255747 original size:44 final size:44
Alignment explanation
Indices: 255694--256367 Score: 327
Period size: 44 Copynumber: 15.2 Consensus size: 44
255684 GGCATTAGGA
* *
255694 CCTAGTCAAACTTTTCTCATTTTAGTGTGATGTATGGTTACCAC
1 CCTAGTCAAACTTTTCTCATTTTAGTTTGACGTATGGTTACCAC
*
255738 CCTAGTCAAA-TTCTTCTCATTTT-GATTTGATGTATGGTTACCAC
1 CCTAGTCAAACTT-TTCTCATTTTAG-TTTGACGTATGGTTACCAC
* * * * * **
255782 CTTAGTCAAA----TC-CCTTTCCTCGTATAACTGTATTGGCGTTAGGA-
1 CCTAGTCAAACTTTTCTCATTT--TAGTTTGAC-GTA-T-G-GTTACCAC
* ** * * **
255826 CCTGGTCAAACTCTTTC-CACCCTTA-TTTAACTATATTGGTGTTAGGA-
1 CCTAGTCAAACT-TTTCTCA-TTTTAGTTTGAC-GTA-T-G-GTTACCAC
* * * *
255873 CCTAGTTAAACTTTTCTTATTTTAGTCTGACATATGGTTACCAC
1 CCTAGTCAAACTTTTCTCATTTTAGTTTGACGTATGGTTACCAC
** * ** * * *
255917 GTTGGTCGGA-TTCTTCTCATTTT-GATTTG-CCTATGGTCACTAC
1 CCTAGTCAAACTT-TTCTCATTTTAG-TTTGACGTATGGTTACCAC
* * * *
255960 CCTGGTCAAATCCCTTTC-C-TTTTTGTTTGACGTATGGTTACTAC
1 CCTAGTCAAA--CTTTTCTCATTTTAGTTTGACGTATGGTTACCAC
** * * * *
256004 TTTAGTCAAACTTTTCTCATTTCAATATGACATATGGTTACCAC
1 CCTAGTCAAACTTTTCTCATTTTAGTTTGACGTATGGTTACCAC
* * * *
256048 CCTAGTCAGA-TTCTTCTCATTTTAATTTGACATATGATTACCAC
1 CCTAGTCAAACTT-TTCTCATTTTAGTTTGACGTATGGTTACCAC
* * * *
256092 CATGGTTAAATCCTTTT-T--TTTTCTGTTTGACGTATGGTTACCAC
1 CCTAGTCAAA--CTTTTCTCATTTT-AGTTTGACGTATGGTTACCAC
* * * * *
256136 CTTGGTCAAACTTTTCTCATTTCAGTTTGGCGTATGGATACCAC
1 CCTAGTCAAACTTTTCTCATTTTAGTTTGACGTATGGTTACCAC
* * * * *
256180 CTTGGTCAAACTTTTCTTATTTCAGTTTGATGTATGGTTACCAC
1 CCTAGTCAAACTTTTCTCATTTTAGTTTGACGTATGGTTACCAC
* *
256224 CCTAGTCAGA-TTCTTCTCATTTT-GATTTGAAGTATGGTTACCAC
1 CCTAGTCAAACTT-TTCTCATTTTAG-TTTGACGTATGGTTACCAC
** *
256268 CCTAGTCAAATCCTTTTTCTTTTTTTA-TTTGACGTATGGTTATCAC
1 CCTAGTCAAA--C-TTTTCTCATTTTAGTTTGACGTATGGTTACCAC
* *
256314 CCTAGTCAAATCTTTT-TCCTTTTTA-TTTGACGTATAGTTACCAC
1 CCTAGTCAAA-CTTTTCT-CATTTTAGTTTGACGTATGGTTACCAC
*
256358 CCTGGTCAAA
1 CCTAGTCAAA
256368 TCCTCTTCCT
Statistics
Matches: 493, Mismatches: 94, Indels: 86
0.73 0.14 0.13
Matches are distributed among these distances:
39 4 0.01
40 2 0.00
41 4 0.01
42 14 0.03
43 49 0.10
44 315 0.64
45 14 0.03
46 40 0.08
47 44 0.09
48 3 0.01
49 3 0.01
50 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.42
Consensus pattern (44 bp):
CCTAGTCAAACTTTTCTCATTTTAGTTTGACGTATGGTTACCAC
Found at i:255932 original size:179 final size:179
Alignment explanation
Indices: 255626--255979 Score: 449
Period size: 179 Copynumber: 2.0 Consensus size: 179
255616 CATACTTGTT
* * ** * * *
255626 TAACTGTATTAGCGTTAGGATCTGGTCAAACTGTTTTCCATTCTCGTTTGACTGTATTGGCATTA
1 TAACTGTATTAGCGTTAGGACCTGGTCAAACTGCTTTCCACCCTCATTTAACTATATTGGCATTA
* **
255691 GGACCTAGTCAAACTTTTCTCATTTTAGTGTGATGTATGGTTACCACCCTAGTCAAATTCTTCTC
66 GGACCTAGTCAAACTTTTCTCATTTTAGTCTGACATATGGTTACCACCCTAGTCAAATTCTTCTC
** * *
255756 ATTTTGATTTGATGTATGGTTACCACCTTAGTCAAATCCCTTTCCTCGTA
131 ATTTTGATTTG-CCTATGGTCACCACCCTAGTCAAATCCCTTTCCTCGTA
* * **
255806 TAACTGTATTGGCGTTAGGACCTGGTCAAACT-CTTTCCACCCTTATTTAACTATATTGGTGTTA
1 TAACTGTATTAGCGTTAGGACCTGGTCAAACTGCTTTCCACCCTCATTTAACTATATTGGCATTA
* * ** * **
255870 GGACCTAGTTAAACTTTTCTTATTTTAGTCTGACATATGGTTACCACGTTGGTCGGATTCTTCTC
66 GGACCTAGTCAAACTTTTCTCATTTTAGTCTGACATATGGTTACCACCCTAGTCAAATTCTTCTC
* *
255935 ATTTTGATTTGCCTATGGTCACTACCCTGGTCAAATCCCTTTCCT
131 ATTTTGATTTGCCTATGGTCACCACCCTAGTCAAATCCCTTTCCT
255980 TTTTGTTTGA
Statistics
Matches: 147, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
178 28 0.19
179 89 0.61
180 30 0.20
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (179 bp):
TAACTGTATTAGCGTTAGGACCTGGTCAAACTGCTTTCCACCCTCATTTAACTATATTGGCATTA
GGACCTAGTCAAACTTTTCTCATTTTAGTCTGACATATGGTTACCACCCTAGTCAAATTCTTCTC
ATTTTGATTTGCCTATGGTCACCACCCTAGTCAAATCCCTTTCCTCGTA
Found at i:256157 original size:132 final size:131
Alignment explanation
Indices: 255875--256159 Score: 356
Period size: 131 Copynumber: 2.2 Consensus size: 131
255865 TGTTAGGACC
* * * * * ** * *
255875 TAGTTAAACTTTTCTTATTTTAGTCTGACATATGGTTACCACGTTGGTCGGATTCTTCTCATTTT
1 TAGTCAAACTTTTCTCATTTCAATATGACATATGGTTACCACCCTAGTCAGATTCTTCTCATTTT
* * * * * * *
255940 GATTTGCCTATGGTCACTACCCTGGTCAAATCCCTTTCCTTTTTGTTTGACGTATGGTTACTACT
66 AATTTGCATATGATCACCACCATGGTCAAATCCCTTTCCTTTTTGTTTGACGTATGGTTACCACC
256005 T
131 T
256006 TAGTCAAACTTTTCTCATTTCAATATGACATATGGTTACCACCCTAGTCAGATTCTTCTCATTTT
1 TAGTCAAACTTTTCTCATTTCAATATGACATATGGTTACCACCCTAGTCAGATTCTTCTCATTTT
* * **
256071 AATTTGACATATGATTACCACCATGGTTAAAT-CCTTTTTTTTTCTGTTTGACGTATGGTTACCA
66 AATTTG-CATATGATCACCACCATGGTCAAATCCCTTTCCTTTT-TGTTTGACGTATGGTTACCA
256135 CCT
129 CCT
*
256138 TGGTCAAACTTTTCTCATTTCA
1 TAGTCAAACTTTTCTCATTTCA
256160 GTTTGGCGTA
Statistics
Matches: 131, Mismatches: 21, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
131 70 0.53
132 61 0.47
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (131 bp):
TAGTCAAACTTTTCTCATTTCAATATGACATATGGTTACCACCCTAGTCAGATTCTTCTCATTTT
AATTTGCATATGATCACCACCATGGTCAAATCCCTTTCCTTTTTGTTTGACGTATGGTTACCACC
T
Found at i:256172 original size:132 final size:131
Alignment explanation
Indices: 255875--256401 Score: 434
Period size: 132 Copynumber: 4.0 Consensus size: 131
255865 TGTTAGGACC
* * * * ** * *
255875 TAGTTAAACTTTTCTTATTTTAGTCTGACATATGGTTACCACGTTGGTCGGATTCTTCTCATTTT
1 TAGTCAAACTTTTCTCATTTCAGTTTGACATATGGTTACCACCCTAGTCAGATTCTTCTCATTTT
* * * * * * *
255940 GATTTG-CCTATGGTCACTACCCTGGTCAAATCCCTTTCCTTTTTGTTTGACGTATGGTTACTAC
66 AATTTGACGTATGATTACCACCCTGGTCAAAT-CCTTTTCTTTTTGTTTGACGTATGGTTACCAC
*
256004 TT
130 CT
* *
256006 TAGTCAAACTTTTCTCATTTCAATATGACATATGGTTACCACCCTAGTCAGATTCTTCTCATTTT
1 TAGTCAAACTTTTCTCATTTCAGTTTGACATATGGTTACCACCCTAGTCAGATTCTTCTCATTTT
* * * *
256071 AATTTGACATATGATTACCACCATGGTTAAATCCTTTTTTTTTCTGTTTGACGTATGGTTACCAC
66 AATTTGACGTATGATTACCACCCTGGTCAAATCCTTTTCTTTT-TGTTTGACGTATGGTTACCAC
256136 CT
130 CT
* * * * * * * *
256138 TGGTCAAACTTTTCTCATTTCAGTTTGGCGTATGGATACCACCTTGGTCAAACTT-TTCTTATTT
1 TAGTCAAACTTTTCTCATTTCAGTTTGACATATGGTTACCACCCTAGTCAGA-TTCTTCTCATTT
* * * * * * * * * *
256202 CAGTTTGATGTATGGTTACCACCCTAGTCAGATTCTTCTCATTTTGATTTGAAGTATGGTTACCA
65 TAATTTGACGTATGATTACCACCCTGGTCAAATCCTTTTCTTTTTG-TTTGACGTATGGTTACCA
*
256267 CCC
129 CCT
** * * * * * *
256270 TAGTCAAATCCTTTTTCTTTTTTTA-TTTGACGTATGGTTATCACCCTAGTCA-AATCTTTTTCC
1 TAGTCAAA--C-TTTTCTCATTTCAGTTTGACATATGGTTACCACCCTAGTCAGATTC-TTCTCA
* * * * **
256333 TTTTTATTTGACGTAT-AGTTACCACCCTGGTCAAATCCTCTTCCTTTCTATTTGGTGTATGGTT
62 TTTTAATTTGACGTATGA-TTACCACCCTGGTCAAATCCT-TTTCTTTTTGTTTGACGTATGGTT
256397 ACCAC
125 ACCAC
256402 TCTGGTTAAA
Statistics
Matches: 312, Mismatches: 73, Indels: 19
0.77 0.18 0.05
Matches are distributed among these distances:
131 72 0.23
132 149 0.48
133 3 0.01
134 73 0.23
135 15 0.05
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (131 bp):
TAGTCAAACTTTTCTCATTTCAGTTTGACATATGGTTACCACCCTAGTCAGATTCTTCTCATTTT
AATTTGACGTATGATTACCACCCTGGTCAAATCCTTTTCTTTTTGTTTGACGTATGGTTACCACC
T
Found at i:256319 original size:90 final size:89
Alignment explanation
Indices: 256031--256401 Score: 360
Period size: 88 Copynumber: 4.2 Consensus size: 89
256021 CATTTCAATA
* * *
256031 TGACATATGGTTACCACCCTAGTCAGATTCTTCTCATTTTAATTTGACA-TATGATTACCACCAT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTCTCATTTTAATTTGA-AGTATGGTTACCACCCT
* * *
256095 GGTTAAATCCTTTT-TTTTTCTGTT
65 GGTCAAATCCTTTTCTTTTTTTATT
* * * * * ** * *
256119 TGACGTATGGTTACCACCTTGGTCAAACTT-TTCTCATTTCAGTTTGGCGTATGGATACCACCTT
1 TGACGTATGGTTACCACCCTAGTCAGA-TTCTTCTCATTTTAATTTGAAGTATGGTTACCACCCT
* *
256183 GGTCAAA--CTTTTCTTATTTCAGTT
65 GGTCAAATCCTTTTCTTTTTTTA-TT
* * *
256207 TGATGTATGGTTACCACCCTAGTCAGATTCTTCTCATTTTGATTTGAAGTATGGTTACCACCCTA
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTCTCATTTTAATTTGAAGTATGGTTACCACCCTG
256272 GTCAAATCCTTTTTCTTTTTTTATT
66 GTCAAATCC-TTTTCTTTTTTTATT
* * * * * * *
256297 TGACGTATGGTTATCACCCTAGTCA-AATCTTTTTCCTTTTTATTTGACGTATAGTTACCACCCT
1 TGACGTATGGTTACCACCCTAGTCAGATTC-TTCTCATTTTAATTTGAAGTATGGTTACCACCCT
* * *
256361 GGTCAAATCCTCTTC-CTTTCTATT
65 GGTCAAATCCTTTTCTTTTTTTATT
**
256385 TGGTGTATGGTTACCAC
1 TGACGTATGGTTACCAC
256402 TCTGGTTAAA
Statistics
Matches: 229, Mismatches: 45, Indels: 18
0.78 0.15 0.06
Matches are distributed among these distances:
86 5 0.02
87 6 0.03
88 134 0.59
89 9 0.04
90 64 0.28
91 11 0.05
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (89 bp):
TGACGTATGGTTACCACCCTAGTCAGATTCTTCTCATTTTAATTTGAAGTATGGTTACCACCCTG
GTCAAATCCTTTTCTTTTTTTATT
Found at i:256607 original size:42 final size:42
Alignment explanation
Indices: 256546--257151 Score: 266
Period size: 42 Copynumber: 14.5 Consensus size: 42
256536 GTGTGCTTAA
* * * * *
256546 CGGCTTTGACCTTAAAGACTTTCTGACTTTTATTCTACCTGT
1 CGGCTTTGACCCTAGAGACTTTCTTACCTTTATTCTGCCTGT
* *
256588 CGGCTTTGACCCTAGAGACTTTCTTA-CTTTCAGTT-TTCCTAT
1 CGGCTTTGACCCTAGAGACTTTCTTACCTTT-A-TTCTGCCTGT
* * * * * *
256630 CAGCTTTGACCTTGGAGAATTTCTTACATTTAGTT-TGCTTGT
1 CGGCTTTGACCCTAGAGACTTTCTTACCTTTA-TTCTGCCTGT
** ** ** * * * *
256672 CGATTTTGACCCGGGAGACTACCTCATCTTAAGTCTGCCTGT
1 CGGCTTTGACCCTAGAGACTTTCTTACCTTTATTCTGCCTGT
* * *
256714 CGGCTTTGACCTTAGAGACTTTCTTACCTATAGTT-TGCCTAT
1 CGGCTTTGACCCTAGAGACTTTCTTACCTTTA-TTCTGCCTGT
* * * * * * * *
256756 CGGCTTTAACCTTAGAAACTTCCTTTCCCTTTAGTCTACCTAT
1 CGGCTTTGACCCTAGAGACTTTC-TTACCTTTATTCTGCCTGT
* * * * * * *
256799 CGGCTTTGACCCTGGAAACTTTTTTCCCTTCAGTCTACCTGT
1 CGGCTTTGACCCTAGAGACTTTCTTACCTTTATTCTGCCTGT
* * * *
256841 CGACTTTGACCCTGGAGACTTTCTTACCTTCAATCTGCCTGT
1 CGGCTTTGACCCTAGAGACTTTCTTACCTTTATTCTGCCTGT
* * * * * * * *
256883 CAGCTTTGA-CTTGGGAGACTATCTCATCTTAAGTT-TGCTTGT
1 CGGCTTTGACCCT-AGAGACTTTCTTACCTTTA-TTCTGCCTGT
** * * * * *
256925 CGGCTTTGACCCTAGAGACTGCCTCATCTTAAGTCT-CCATAT
1 CGGCTTTGACCCTAGAGACTTTCTTACCTTTATTCTGCC-TGT
* * ** * * * * *
256967 CAGTTTTGACTTTGGAGACTTTTTTACCTTCAATCTGCTTGT
1 CGGCTTTGACCCTAGAGACTTTCTTACCTTTATTCTGCCTGT
* * ** ** *
257009 CGACTTTGACCCTAAAGACTACCTT-CTCTCAAGTCTGCCTGT
1 CGGCTTTGACCCTAGAGACTTTCTTAC-CTTTATTCTGCCTGT
* *
257051 CGGCTTTGACCCTAGAGACTTTCTTA-C---AGTCTGCTTGT
1 CGGCTTTGACCCTAGAGACTTTCTTACCTTTATTCTGCCTGT
* * * * *
257089 TGGCTTTGACCCTAGAGAC-TGCTTCATCTTAAGTCTGCCTGT
1 CGGCTTTGACCCTAGAGACTTTCTT-ACCTTTATTCTGCCTGT
* *
257131 CGGCTTTGACCTTGGAGACTT
1 CGGCTTTGACCCTAGAGACTT
257152 CTTTTCACTT
Statistics
Matches: 426, Mismatches: 117, Indels: 41
0.73 0.20 0.07
Matches are distributed among these distances:
37 4 0.01
38 29 0.07
39 1 0.00
41 10 0.02
42 340 0.80
43 42 0.10
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.38
Consensus pattern (42 bp):
CGGCTTTGACCCTAGAGACTTTCTTACCTTTATTCTGCCTGT
Found at i:256673 original size:84 final size:84
Alignment explanation
Indices: 256548--257403 Score: 417
Period size: 84 Copynumber: 10.2 Consensus size: 84
256538 GTGCTTAACG
** * * * * * *
256548 GCTTTGACCTTAAAGACTTTCTGACTTTTATTCTACCTGTCGGCTTTGACCCTAGAGACTTTCTT
1 GCTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCCTT
* *
256613 ACTTTCAGTTTTCCTATCA
66 ACTTTCAGTCTGCCTATCA
* * * ** ** * *
256632 GCTTTGACCTTGGAGAATTTCTTACATTTAGTTTGCTTGTCGATTTTGACCCGGGAGACTACCTC
1 GCTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCCTT
* * *
256697 A-TCTTAAGTCTGCCTGTCG
66 ACT-TTCAGTCTGCCTATCA
* * * * * * * *
256716 GCTTTGACCTTAGAGACTTTCTTACCTATAGTTTGCCTATCGGCTTTAACCTTAGAAACTTCCTT
1 GCTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCC-T
* * *
256781 TCCCTTT-AGTCTACCTATCG
65 T-ACTTTCAGTCTGCCTATCA
* * * * * * * * * *
256801 GCTTTGACCCTGGAAACTTTTTTCCCTTCAGTCTACCTGTCGACTTTGACCCTGGAGACTTTCTT
1 GCTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCCTT
* * *
256866 ACCTTCAATCTGCCTGTCA
66 ACTTTCAGTCTGCCTATCA
* * * * * *
256885 GCTTTGA-CTTGGGAGACTATCTCATCTTAAGTTTGCTTGTCGGCTTTGACCCTAGAGACTGCCT
1 GCTTTGACCTT-GGAGACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCCT
* *
256949 CA-TCTTAAGTCT-CCATATCA
65 TACT-TTCAGTCTGCC-TATCA
* * * * * * * *
256969 GTTTTGACTTTGGAGACTTTTTTACCTTCAATCTGCTTGTCGACTTTGACCCTAAAGACTACCTT
1 GCTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCCTT
* * *
257034 -CTCTCAAGTCTGCCTGTCG
66 ACTTTC-AGTCTGCCTATCA
* * * *
257053 GCTTTGACCCTAGAGACTTTCTTA-C---AGTCTGCTTGTTGGCTTTGACCCTAGAGAC-TGCTT
1 GCTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCCTT
* * *
257113 -CATCTTAAGTCTGCCTGTCG
66 AC-T-TTCAGTCTGCCTATCA
* * * * * * * * * *
257133 GCTTTGACCTTGGAGAC-TTCTTTTCACTTTAGTGTGCCTATCGACTTTAACCTTGGATACTTTC
1 GCTTTGACCTTGGAGACTTTC-TTAC-CTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCC
* * ** **
257197 TTCCCTTCAGTCTGCCCGTTG
64 TTACTTTCAGTCTGCCTATCA
* * ** * * ** * * *
257218 GCTTTGATCTTGAAGACTACCTCATCTCAAGTTTGCTTGTCGACTTTGACCCTAGAGACTTTCTT
1 GCTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCCTT
* * * **
257283 CCCTTCAATCTGCCTATTG
66 ACTTTCAGTCTGCCTATCA
* * * * * ** * * * * **
257302 GCTTTAACCCTGGAGA-TTACCTCATCTCAAGTCTACTTGTCGGCTTTGATCTTGGAGACTTTAT
1 GCTTTGACCTTGGAGACTT-TCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCCT
* * *
257366 TACCTTCAGTTTGCCTATTA
65 TACTTTCAGTCTGCCTATCA
*
257386 GCTTTGACCTTAGAGACT
1 GCTTTGACCTTGGAGACT
257404 GCCTCATCTC
Statistics
Matches: 581, Mismatches: 166, Indels: 49
0.73 0.21 0.06
Matches are distributed among these distances:
79 7 0.01
80 57 0.10
81 1 0.00
82 1 0.00
83 11 0.02
84 381 0.66
85 114 0.20
86 7 0.01
87 2 0.00
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.39
Consensus pattern (84 bp):
GCTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCCTT
ACTTTCAGTCTGCCTATCA
Found at i:257983 original size:10 final size:9
Alignment explanation
Indices: 257963--258018 Score: 53
Period size: 10 Copynumber: 6.1 Consensus size: 9
257953 ATTTGACATT
257963 AATAATAAAA
1 AATAA-AAAA
257973 AATAAATAAA
1 AATAAA-AAA
257983 AAT-AAAAA
1 AATAAAAAA
*
257991 AA-GAAAAA
1 AATAAAAAA
257999 AATAAGAAAA
1 AATAA-AAAA
*
258009 TATAAAAAA
1 AATAAAAAA
258018 A
1 A
258019 TATGCATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 12 0.31
9 8 0.21
10 19 0.49
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (9 bp):
AATAAAAAA
Found at i:257992 original size:18 final size:17
Alignment explanation
Indices: 257969--258020 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
257959 CATTAATAAT
257969 AAAAAATAAATAAAAATA
1 AAAAAATAAA-AAAAATA
*
257987 AAAAAA-GAAAAAAATA
1 AAAAAATAAAAAAAATA
*
258003 AGAAAATATAAAAAAATA
1 AAAAAATA-AAAAAAATA
258021 TGCATAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 12 0.41
17 2 0.07
18 15 0.52
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (17 bp):
AAAAAATAAAAAAAATA
Found at i:258008 original size:8 final size:8
Alignment explanation
Indices: 257969--258020 Score: 59
Period size: 8 Copynumber: 6.0 Consensus size: 8
257959 CATTAATAAT
257969 AAAAAATAA
1 AAAAAAT-A
257978 ATAAAAATA
1 A-AAAAATA
*
257987 AAAAAAGA
1 AAAAAATA
257995 AAAAAATA
1 AAAAAATA
258003 AGAAAATATA
1 A-AAAA-ATA
258013 AAAAAATA
1 AAAAAATA
258021 TGCATAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 17 0.45
9 11 0.29
10 10 0.26
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (8 bp):
AAAAAATA
Found at i:258013 original size:26 final size:26
Alignment explanation
Indices: 257969--258018 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
257959 CATTAATAAT
257969 AAAAAATAAATAAAAATAAAAAAAGA
1 AAAAAATAAATAAAAATAAAAAAAGA
*
257995 AAAAAATAAGA-AAATATAAAAAAA
1 AAAAAATAA-ATAAAAATAAAAAAA
258019 TATGCATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.84, C:0.00, G:0.04, T:0.12
Consensus pattern (26 bp):
AAAAAATAAATAAAAATAAAAAAAGA
Found at i:258029 original size:19 final size:18
Alignment explanation
Indices: 257966--258020 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
257956 TGACATTAAT
257966 AATAA-AAAATA-AATAAA
1 AATAAGAAAATATAA-AAA
*
257983 AATAA-AAAA-AGAAAAA
1 AATAAGAAAATATAAAAA
257999 AATAAGAAAATATAAAAA
1 AATAAGAAAATATAAAAA
258017 AATA
1 AATA
258021 TGCATAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
16 9 0.26
17 15 0.44
18 10 0.29
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.15
Consensus pattern (18 bp):
AATAAGAAAATATAAAAA
Found at i:258883 original size:28 final size:25
Alignment explanation
Indices: 258814--258861 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
258804 AAATTGCAGT
*
258814 AAAA-GAAAGAAAAAGAAAAAAATC
1 AAAACGAAGGAAAAAGAAAAAAATC
258838 AAAACGAAGGAAAAAGAAAAAAAT
1 AAAACGAAGGAAAAAGAAAAAAAT
258862 ACAGAAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.04
Consensus pattern (25 bp):
AAAACGAAGGAAAAAGAAAAAAATC
Found at i:264000 original size:20 final size:21
Alignment explanation
Indices: 263961--264005 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
263951 ACATTATATC
* *
263961 AATATAATATGACCTCGTATT
1 AATACAATATGACATCGTATT
263982 AATACAATA-GACATCGTATT
1 AATACAATATGACATCGTATT
264002 AATA
1 AATA
264006 TGGCTTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.33
Consensus pattern (21 bp):
AATACAATATGACATCGTATT
Found at i:264889 original size:56 final size:54
Alignment explanation
Indices: 264819--265303 Score: 190
Period size: 56 Copynumber: 8.7 Consensus size: 54
264809 TTACTTTAAC
* *
264819 CAACTAC-ATTAGGCTTTCCATATTGGTGCTAATTTCAACTAGGATGAAACCTAT
1 CAACTACTCTTAGGCTTTCCAT-TTGGTGCCAATTTCAACTAGGATGAAACCTAT
* * * * *
264873 CAAACTATTCTTAGGCTTTTTCATTTATGTGCCAATTTC-AGTGGGATGAAACCTAT
1 C-AACTACTCTTAGGC-TTTCCATTT-GGTGCCAATTTCAACTAGGATGAAACCTAT
* * * **
264929 CAACTGCTC-TAGGGCTTTCTCATTTGGTGCCAATTTCAAATAGAGCT-ATGCCTAT
1 CAACTACTCTTA-GGCTTTC-CATTTGGTGCCAATTTCAACTAG-GATGAAACCTAT
** * * * * *
264984 CAGTTACTCTTAGGTTTTTTTCTC-TTCGATGCCAATTTCAACTAGAATGAAACTTAT
1 CAACTACTCTTAGG---CTTTC-CATTTGGTGCCAATTTCAACTAGGATGAAACCTAT
* * * * * * * *
265041 CAGCTACTCTTGGGCTTTTTCATTTTAGTGCCAATTTCAACTAAGATAAAACTTAC
1 CAACTACTCTTAGGC-TTTCCA-TTTGGTGCCAATTTCAACTAGGATGAAACCTAT
* * * ** ** * * **
265097 CAGCTATTCTTGGGCTTTTTAATTTCAATGTCAATTTCAACTAGGATAAAAGTTAT
1 CAACTACTCTTAGGC-TTTCCATTT-GGTGCCAATTTCAACTAGGATGAAACCTAT
*** * * ** ** * * * *
265153 TTGCTATTCTCAAGTTTTTTGATTTGGTGCCAATTTCATCTAGTATAAAACGTAT
1 CAACTACTCT-TAGGCTTTCCATTTGGTGCCAATTTCAACTAGGATGAAACCTAT
* * * * *
265208 CAACTACTCCTAGGCTTTTTCTC-TTCGATGCCAATGTCAACTAGGATGAAACCTAC
1 CAACTACTCTTAGGC--TTTC-CATTTGGTGCCAATTTCAACTAGGATGAAACCTAT
** * * *
265264 CTGCTACTCTTTGGCTTTTTCATTTTGGTGTCAATTTCAA
1 CAACTACTCTTAGGC-TTTCCA-TTTGGTGCCAATTTCAA
265304 TTGGAACAAA
Statistics
Matches: 321, Mismatches: 87, Indels: 44
0.71 0.19 0.10
Matches are distributed among these distances:
54 21 0.07
55 74 0.23
56 168 0.52
57 52 0.16
58 6 0.02
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (54 bp):
CAACTACTCTTAGGCTTTCCATTTGGTGCCAATTTCAACTAGGATGAAACCTAT
Found at i:265269 original size:111 final size:112
Alignment explanation
Indices: 265000--265303 Score: 299
Period size: 111 Copynumber: 2.7 Consensus size: 112
264990 CTCTTAGGTT
* * ***
265000 TTTTTCTCTTCGATGCCAATTTCAACTAGAATGAAACTTATCAGCTACTCTTGGGCTTTTTCATT
1 TTTTTCTCTTCGATGCCAATTTCAACTAGGATGAAACTTATCTGCTACTCTCAAGCTTTTTCATT
* * * * *
265065 TTAGTGCCAATTTCAACTAAGATAAAACTTACCAGCTATTCTTGGGC
66 TTAGTGCCAATTTCAACTAAGATAAAACGTACCAACTACTCCTAGGC
* * * * * * * * *
265112 TTTTTAAT-TTCAATGTCAATTTCAACTAGGATAAAAGTTATTTGCTATTCTCAAGTTTTTTGA-
1 TTTTT-CTCTTCGATGCCAATTTCAACTAGGATGAAACTTATCTGCTACTCTCAAGCTTTTTCAT
* * *
265175 TTTGGTGCCAATTTCATCT-AGTATAAAACGTATCAACTACTCCTAGGC
65 TTTAGTGCCAATTTCAACTAAG-ATAAAACGTACCAACTACTCCTAGGC
* * * ***
265223 TTTTTCTCTTCGATGCCAATGTCAACTAGGATGAAACCTACCTGCTACTCTTTGGCTTTTTCATT
1 TTTTTCTCTTCGATGCCAATTTCAACTAGGATGAAACTTATCTGCTACTCTCAAGCTTTTTCATT
* *
265288 TTGGTGTCAATTTCAA
66 TTAGTGCCAATTTCAA
265304 TTGGAACAAA
Statistics
Matches: 149, Mismatches: 39, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
110 3 0.02
111 83 0.56
112 62 0.42
113 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.40
Consensus pattern (112 bp):
TTTTTCTCTTCGATGCCAATTTCAACTAGGATGAAACTTATCTGCTACTCTCAAGCTTTTTCATT
TTAGTGCCAATTTCAACTAAGATAAAACGTACCAACTACTCCTAGGC
Found at i:265919 original size:2 final size:2
Alignment explanation
Indices: 265912--265945 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
265902 CTTGCTTAAG
*
265912 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
265946 GCCAACTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:271108 original size:15 final size:15
Alignment explanation
Indices: 271065--271116 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
271055 TTTGACTAAC
* *
271065 ATTTTTTTCATTTTC
1 ATTTTTTCCATTTTT
*
271080 A-TTTTTCCTTTTTT
1 ATTTTTTCCATTTTT
271094 ATTTTTTCCATTTTT
1 ATTTTTTCCATTTTT
271109 GATTTTTT
1 -ATTTTTT
271117 TATGTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 11 0.35
15 13 0.42
16 7 0.23
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.75
Consensus pattern (15 bp):
ATTTTTTCCATTTTT
Found at i:273067 original size:57 final size:58
Alignment explanation
Indices: 272963--273082 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 58
272953 AAAATGACTT
* * * * **
272963 AAATTGTATAAAAGTCCCTAGATCGTAAAAAATTACCTAAATAACCCTAGCATACATG
1 AAATTGTATAAAAGTCCATAAAACATAAAAAATTACCTAAATAACCCTAAAATACATG
* *
273021 AAATTGTAT-AAAGTCCATAAAACATGAAAAATTA-CTAAAGTGACCCTAAAATACATG
1 AAATTGTATAAAAGTCCATAAAACATAAAAAATTACCTAAA-TAACCCTAAAATACATG
273078 AAATT
1 AAATT
273083 ACACAAATGG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
56 5 0.09
57 39 0.74
58 9 0.17
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (58 bp):
AAATTGTATAAAAGTCCATAAAACATAAAAAATTACCTAAATAACCCTAAAATACATG
Found at i:282123 original size:10 final size:9
Alignment explanation
Indices: 282097--282122 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
282087 CAAAATGAAA
282097 AGAAAAAAC
1 AGAAAAAAC
282106 AGAAAAAAC
1 AGAAAAAAC
282115 AGAAAAAA
1 AGAAAAAA
282123 AAAGTGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.08, G:0.12, T:0.00
Consensus pattern (9 bp):
AGAAAAAAC
Found at i:284897 original size:3 final size:3
Alignment explanation
Indices: 284889--284928 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
284879 CCAAAACGAA
284889 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
284929 GGAAAGAGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:291294 original size:110 final size:109
Alignment explanation
Indices: 291065--291449 Score: 339
Period size: 110 Copynumber: 3.5 Consensus size: 109
291055 CCTATTTATG
* *
291065 CTTAGGAAAAT-GGGCCATGTATCCTATTAGTTTTGAAACTTTTAAGCCAACAATATCAAATTTG
1 CTTAGGAAAATAAGG-CATGTATCCTATCAGTTTTGAAA-TTTTAAGCCAACAATATCAAATTTG
* * ** * * **
291129 -CTTATTTTTCAAAGAAATTCATGGTTTATATAGTTGAATCTATTTATA
64 TC-TAATTTT-AAAAAAATTCATATTTTATACAATTG-ATCTATTCGTA
** * * *
291177 CAAAGGAAAAT-AGG-ATCTATCCTATCAATTTTGAAATTTTAAGCCAACAATATCAAATGTGTC
1 CTTAGGAAAATAAGGCATGTATCCTATCAGTTTTGAAATTTTAAGCCAACAATATCAAATTTGTC
* *
291240 TAATTTATAAAAAAAATTCATATTTTATACAATCTGATCCATCCGTA
66 TAATTT-T-AAAAAAATTCATATTTTATACAAT-TGATCTATTCGTA
* * ** * * **
291287 CTTAGGAAAATAAGGGCATATATCCTATTAGTTTTGATGCTTTTAAGCTAGCAGCATCAAATTTG
1 CTTAGGAAAATAA-GGCATGTATCCTATCAGTTTTGA-AATTTTAAGCCAACAATATCAAATTTG
* *
291352 TC-AGATTTTCAAAAAATTCATATTTTATACGATTTGATCTATTCGTA
64 TCTA-ATTTTAAAAAAATTCATATTTTATAC-AATTGATCTATTCGTA
** * *
291399 CTTAGGAAAATGGGGCATGTATCCTATCAGTTTTTAAATTTTCGAGCCAAC
1 CTTAGGAAAATAAGGCATGTATCCTATCAGTTTTGAAATTTT-AAGCCAAC
291450 CAAAAATTTT
Statistics
Matches: 219, Mismatches: 44, Indels: 21
0.77 0.15 0.07
Matches are distributed among these distances:
109 29 0.13
110 60 0.27
111 28 0.13
112 55 0.25
113 21 0.10
114 26 0.12
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.37
Consensus pattern (109 bp):
CTTAGGAAAATAAGGCATGTATCCTATCAGTTTTGAAATTTTAAGCCAACAATATCAAATTTGTC
TAATTTTAAAAAAATTCATATTTTATACAATTGATCTATTCGTA
Found at i:292023 original size:88 final size:88
Alignment explanation
Indices: 291917--292374 Score: 379
Period size: 88 Copynumber: 5.2 Consensus size: 88
291907 TCTACAACTC
* * * *
291917 TAGATGACATTGACATTTGCATCATTTTATATGCATTTCCCACTTTATTGATGCTTACAGTTGCA
1 TAGATAACATTGGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTACAGTTGCA
* * *
291982 TCGTTTCATGCATATTTGCATTT
66 TCATTTCACGCATATTTGCACTT
** * * *
292005 TAGATAATGTTGGCATTTGCATCATTTCATGTGTATTTG-CATCTTTATTGATGCTTGCAGTTGC
1 TAGATAACATTGGCATTTGCATCATTTCATATGCATTTGCCA-CTTTATTGATGCTTACAGTTGC
** * *
292069 ATTTTTTCATG-A-ACTTCTGCACGT
65 ATCATTTCACGCATA-TT-TGCACTT
* * * * ** *
292093 TACATAACATTGGCATTTGCATTATTTCATATGCATTTTCCA-TTTATTAATGCTTGTATTTGCA
1 TAGATAACATTGGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTACAGTTGCA
*
292157 TCATTTCACGCATATTTGTACTT
66 TCATTTCACGCATATTTGCACTT
* * * * * * * * *
292180 TAGATGACCTTGGTAATGGCATCATATCATATGCATTTGCCACTTTATTGAAGC-TAGCATTTGT
1 TAGATAACATTGGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTA-CAGTTGC
* * * *
292244 ATTATTTCACGCACATCTACACTT
65 ATCATTTCACGCATATTTGCACTT
* * * * * *
292268 TAGATGACATTGGTATTAGCATCATTTCATATACATTTGCCACTTTATTGATGCTTGCA-TTACA
1 TAGATAACATTGGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTACAGTTGCA
* ** * *
292332 TCATTTTACATACATATGCACTT
66 TCATTTCACGCATATTTGCACTT
** *
292355 TAGAGGACATTGGTATTTGC
1 TAGATAACATTGGCATTTGC
292375 CTTGTTTTAA
Statistics
Matches: 297, Mismatches: 64, Indels: 19
0.78 0.17 0.05
Matches are distributed among these distances:
86 1 0.00
87 108 0.36
88 184 0.62
89 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (88 bp):
TAGATAACATTGGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTACAGTTGCA
TCATTTCACGCATATTTGCACTT
Found at i:292069 original size:44 final size:44
Alignment explanation
Indices: 291933--292079 Score: 129
Period size: 44 Copynumber: 3.3 Consensus size: 44
291923 ACATTGACAT
* * * * *
291933 TTGCATCATTTTATATGCATTTCCCA-CTTTATTGATGCTTACAG
1 TTGCATCATTTCATGTGTATTT-GCATCTTTATTGATGCTTGCAG
* ** * * *
291977 TTGCATCGTTTCATGCATATTTGCAT-TTTAGATAATG-TTGGCAT
1 TTGCATCATTTCATGTGTATTTGCATCTTTA-TTGATGCTT-GCAG
292021 TTGCATCATTTCATGTGTATTTGCATCTTTATTGATGCTTGCAG
1 TTGCATCATTTCATGTGTATTTGCATCTTTATTGATGCTTGCAG
**
292065 TTGCATTTTTTCATG
1 TTGCATCATTTCATG
292080 AACTTCTGCA
Statistics
Matches: 79, Mismatches: 19, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
43 8 0.10
44 65 0.82
45 6 0.08
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (44 bp):
TTGCATCATTTCATGTGTATTTGCATCTTTATTGATGCTTGCAG
Done.