Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold172
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: 1975206
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.26
Warning! 344189 characters in sequence are not A, C, G, or T
File 7 of 11
Found at i:887437 original size:13 final size:13
Alignment explanation
Indices: 887419--887444 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
887409 TACAGCAAGT
887419 ATGTATCGATACA
1 ATGTATCGATACA
887432 ATGTATCGATACA
1 ATGTATCGATACA
887445 CAAAAAATTG
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:888990 original size:20 final size:20
Alignment explanation
Indices: 888965--889022 Score: 84
Period size: 19 Copynumber: 3.0 Consensus size: 20
888955 CTGCCAGTTT
*
888965 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGTA
*
888985 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTA
889004 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
889023 TCGATACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 18 0.53
20 15 0.44
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:889024 original size:13 final size:13
Alignment explanation
Indices: 889006--889030 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
888996 ACAATGAACA
889006 TGTATCGATACAT
1 TGTATCGATACAT
889019 TGTATCGATACA
1 TGTATCGATACA
889031 AAGCATAATG
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:889047 original size:33 final size:32
Alignment explanation
Indices: 888987--889051 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
888977 CAATTGTGCA
*
888987 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
889019 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
889052 CAGGATGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:893125 original size:28 final size:29
Alignment explanation
Indices: 893075--893155 Score: 80
Period size: 28 Copynumber: 2.9 Consensus size: 29
893065 ATTGAAAAAT
* * *
893075 AAGAAAGATC-AAGGAAGTGAAATCAA-C
1 AAGAAATATCAAAGGAAATAAAATCAAGC
*
893102 AAGAAATATGAAAGGAAATAAAAT-AAGC
1 AAGAAATATCAAAGGAAATAAAATCAAGC
* *
893130 AAGATATTTCAAAGGAAA-AAAATCAA
1 AAGAAATATCAAAGGAAATAAAATCAA
893156 TAAAAAAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
27 15 0.34
28 29 0.66
ACGTcount: A:0.60, C:0.07, G:0.17, T:0.15
Consensus pattern (29 bp):
AAGAAATATCAAAGGAAATAAAATCAAGC
Found at i:899099 original size:20 final size:20
Alignment explanation
Indices: 899057--899108 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
899047 TTATACAATT
* * *
899057 TGTATCGACACAACAAGTTAA
1 TGTATCGATAC-ATAAGTGAA
*
899078 TGTATTGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
899098 TGTATCGATAC
1 TGTATCGATAC
899109 TCGACCTTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:900621 original size:390 final size:390
Alignment explanation
Indices: 899898--900677 Score: 1434
Period size: 390 Copynumber: 2.0 Consensus size: 390
899888 AGCTTAATTT
* *
899898 TAACCTTTGAAAGGAGGTAAACAAGCTGTATTGCTTGTCCAAACCAACCAATAAGCCTAGACTAC
1 TAACCTTTAAAAGGAGGTAAACAAGCTATATTGCTTGTCCAAACCAACCAATAAGCCTAGACTAC
899963 TTTATTAGTATACTTTCTGAACTTATCACTTTCATTTGTTGTTTTTGTTATTCTTATCCTTTTAG
66 TTTATTAGTATACTTTCTGAACTTATCACTTTCATTTGTTGTTTTTGTTATTCTTATCCTTTTAG
* **
900028 TGATCCCATCATGTTTTAATACCCTTTTAACATCATCATGCATTATTATGGCCTTGGATGTGGTA
131 TGATCCCATCATGTTTCAATACCCTTTTAACATCATCATGCATTATTATGGCCTTGGATGTAATA
*
900093 GTTTTAGGATTGTTTTGATGTCTTGATGTTATTTGTGTGATTAAAATGCCATGTTCATCTTAACA
196 GTTTTAGGATTGTTTTGATGTCTAGATGTTATTTGTGTGATTAAAATGCCATGTTCATCTTAACA
*
900158 GCCCATGTTCATGCATTTTGTGCCATGCTCCATGCATTTTAACATGTCCAATCTATAGTTAATGT
261 GCCCATGTTCATGCATTTTGTGCCATGCTCCATGCATTTTAACATCTCCAATCTATAGTTAATGT
900223 TCAAGCTAGCATCTCATAAGCATGTTCATACATCAATTTGTGTTTTGGCATGATCCATGCTATGA
326 TCAAGCTAGCATCTCATAAGCATGTTCATACATCAATTTGTGTTTTGGCATGATCCATGCTATGA
900288 TAACCTTTAAAAGGAGGTAAACAAGCTATATTGCTTGTCCAAACCAACCAATAAGCCTAGACTAC
1 TAACCTTTAAAAGGAGGTAAACAAGCTATATTGCTTGTCCAAACCAACCAATAAGCCTAGACTAC
* *
900353 TTTATTAGTATACTTTTTGAACTTGTCACTTTCATTTGTTGTTTTTGTTATTCTTATCCTTTTAG
66 TTTATTAGTATACTTTCTGAACTTATCACTTTCATTTGTTGTTTTTGTTATTCTTATCCTTTTAG
*
900418 TGATCCCATCATGTTTCAATACCCTTTTAAGATCATCATGCATTATTATGGCCTTGGATGTAATA
131 TGATCCCATCATGTTTCAATACCCTTTTAACATCATCATGCATTATTATGGCCTTGGATGTAATA
*
900483 GTTTTAGGATTGTTTTGATGTGTAGATGTTATTTGTGTGATTAAAATGCCATGTTCATCTTAACA
196 GTTTTAGGATTGTTTTGATGTCTAGATGTTATTTGTGTGATTAAAATGCCATGTTCATCTTAACA
* *
900548 GTCCATGTTCATGCATTTTGTGCCATGTTCCATGCATTTTAACATCTCCAATCTATAGTTAATGT
261 GCCCATGTTCATGCATTTTGTGCCATGCTCCATGCATTTTAACATCTCCAATCTATAGTTAATGT
*
900613 TTAAGCTAGCATCTCATAAGCATGTTCATACATCAATTTGTGTTTTGGCATGATCCATGCTATGA
326 TCAAGCTAGCATCTCATAAGCATGTTCATACATCAATTTGTGTTTTGGCATGATCCATGCTATGA
900678 AATGTTGCCA
Statistics
Matches: 376, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
390 376 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (390 bp):
TAACCTTTAAAAGGAGGTAAACAAGCTATATTGCTTGTCCAAACCAACCAATAAGCCTAGACTAC
TTTATTAGTATACTTTCTGAACTTATCACTTTCATTTGTTGTTTTTGTTATTCTTATCCTTTTAG
TGATCCCATCATGTTTCAATACCCTTTTAACATCATCATGCATTATTATGGCCTTGGATGTAATA
GTTTTAGGATTGTTTTGATGTCTAGATGTTATTTGTGTGATTAAAATGCCATGTTCATCTTAACA
GCCCATGTTCATGCATTTTGTGCCATGCTCCATGCATTTTAACATCTCCAATCTATAGTTAATGT
TCAAGCTAGCATCTCATAAGCATGTTCATACATCAATTTGTGTTTTGGCATGATCCATGCTATGA
Found at i:903329 original size:25 final size:26
Alignment explanation
Indices: 903272--903329 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
903262 GGTTTGGTCT
*
903272 AAACACGGCACCTACATCCTCTCTCC
1 AAACACGGCACCTACATCCTCTCTAC
*
903298 ATGACACGGCACCTACATCCTCT-TAC
1 A-AACACGGCACCTACATCCTCTCTAC
903324 AAACAC
1 AAACAC
903330 AAGGATCAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.14
26 4 0.14
27 20 0.71
ACGTcount: A:0.31, C:0.41, G:0.09, T:0.19
Consensus pattern (26 bp):
AAACACGGCACCTACATCCTCTCTAC
Found at i:905973 original size:20 final size:20
Alignment explanation
Indices: 905948--906001 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
905938 ATTTGAGACA
905948 ATGTATCGATACAAT-T-CTTC
1 ATGTATCGATACAATGTGC--C
905968 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
905988 ATGTATCGATACAA
1 ATGTATCGATACAA
906002 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:906088 original size:13 final size:13
Alignment explanation
Indices: 906070--906096 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
906060 TACATTGATC
906070 ATGTATCGATACA
1 ATGTATCGATACA
906083 ATGTATCGATACA
1 ATGTATCGATACA
906096 A
1 A
906097 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:907334 original size:154 final size:149
Alignment explanation
Indices: 906812--907768 Score: 634
Period size: 153 Copynumber: 6.3 Consensus size: 149
906802 ATGTTATTCA
* * * * **
906812 TATCATTTTTTAGTCTTTTAAGGTTACCAAGATA-TTTTATGTTAAAAGTATACCCTACGGGCAT
1 TATCATTTTTAAGTCTTTTAGGGTTACCAAGATACTTTCATATT-AAAGTATA-CC-AAAGGCAT
* * * * *
906876 TTTGATAATTTTCTT---A-GAGTTTGATATTGTCATCGAGATGCTTTCATGTCAAAGGTGTGCA
63 TTTGGTAATTTT-TTAGAATGAGTTTGATATAGTCA-CTAGATGCTTTTATGCCAAAGGTGTGCA
* * *
906937 TTTAAGATAGGTTCACCCTTTTAT
126 TTTAGGATAGGTTCACCTTTTTTT
* ** * * *
906961 GATCATTTTCT-AGTCTTTTAAAGTTACCGAA-ATACTTTTATATCAAAGGTATACCTTAAAGGT
1 TATCATTTT-TAAGTCTTTTAGGGTTACC-AAGATACTTTCATATTAAA-GTATACC--AAAGGC
* * ** *
907024 ATTTTGGTAATTTTATTAGAATGAAGTTTGATGTAATCACTGAGATTTTTTTTTGCCAAAGGTGT
61 ATTTTGGTAATTTT-TTAGAATG-AGTTTGATATAGTCACT-AGATGCTTTTATGCCAAAGGTGT
*
907089 GCATTTAGGATAGTTTCACC--TTTTT
123 GCATTTAGGATAGGTTCACCTTTTTTT
** * * * ** * * *
907114 TATCATTTTCGAGTCCTTTAAGGTTATCGGGATACTTTTATGTTAAAGATATACCCTAAGGGCAT
1 TATCATTTTTAAGTCTTTTAGGGTTACCAAGATACTTTCATATTAAAG-TATA-CC-AAAGGCAT
* * * * *
907179 TTTGGTAATTTTTT-GAAATAAAGTCTAATATAGTCACCATGATG-TTTTATGTCAAAGGTGTGC
63 TTTGGTAATTTTTTAG-AAT-GAGTTTGATATAGTCACTA-GATGCTTTTATGCCAAAGGTGTGC
907242 ATTTAGGATAGGTTCACGCTTTTTTT
125 ATTTAGGATAGGTTCAC-CTTTTTTT
* *
907268 TATCATTTTTAAGTCTTTTAGGGTTACCAAGATACTTTCACATTGAAAGTATATCCGAAGGCCAT
1 TATCATTTTTAAGTCTTTTAGGGTTACCAAGATACTTTCATATT-AAAGTATA-CCAAAGG-CAT
* * * **
907333 TTTGGTAATTTTCGTAGAACTGAGTTTGATATAGCCACTAGAATGCTTTTTATGCCAAAAGTGAA
63 TTTGGTAATTTT-TTAGAA-TGAGTTTGATATAGTCACTAG-ATGC-TTTTATGCCAAAGGTGTG
* *
907398 TATTTAGGATAGGTTCA-CTCTTTTT
124 CATTTAGGATAGGTTCACCTTTTTTT
* * * * * * * * * *
907423 GATCACTTTCAAGTCCTTTATGGTTACCAAGATACTTTCATGTTGAAGGTTTACCCAAGGGTATT
1 TATCATTTTTAAGTCTTTTAGGGTTACCAAGATACTTTCATATT-AAAGTATA-CCAAAGGCATT
** * * * * *
907488 TTCATACTTTTTTAGAATTGAGTCTAATACAAT-ACTAGGATGCTTTTATGCCAAAGGTGTGCAT
64 TTGGTAATTTTTTAGAA-TGAGTTTGATATAGTCACTA-GATGCTTTTATGCCAAAGGTGTGCAT
* * * *
907552 TAAGAATAGGTTCACCCTTGTTT
127 TTAGGATAGGTTCACCTTTTTTT
* * * * *
907575 TATTATTTTTGAGTAC-TTTAGGGTTACCGACATGCTTTCATATTAAAGGTATACCCAAAGGCAT
1 TATCATTTTTAAGT-CTTTTAGGGTTACCAAGATACTTTCATATTAAA-GTATA-CCAAAGGCAT
** * * * ***
907639 TTTCATAATTTTTTTAGAATCGAGTTTGATATAGTCACAAGGATGCTTTTGTGTCAAAGGTACAC
63 TTTGGTAA-TTTTTTAGAAT-GAGTTTGATATAGTCACTA-GATGCTTTTATGCCAAAGGTGTGC
*
907704 A-TTAGGGATAGGTTCA--TTCTTTTA
125 ATTTA-GGATAGGTTCACCTT-TTTTT
* * * * *
907728 AATTATTTTTAAGCCTTTTAGGGTTATCGAGATACTTTCAT
1 TATCATTTTTAAGTCTTTTAGGGTTACCAAGATACTTTCAT
907769 GTCGAAGGTA
Statistics
Matches: 634, Mismatches: 135, Indels: 74
0.75 0.16 0.09
Matches are distributed among these distances:
149 32 0.05
150 34 0.05
151 66 0.10
152 90 0.14
153 142 0.22
154 110 0.17
155 128 0.20
156 2 0.00
157 30 0.05
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (149 bp):
TATCATTTTTAAGTCTTTTAGGGTTACCAAGATACTTTCATATTAAAGTATACCAAAGGCATTTT
GGTAATTTTTTAGAATGAGTTTGATATAGTCACTAGATGCTTTTATGCCAAAGGTGTGCATTTAG
GATAGGTTCACCTTTTTTT
Found at i:907344 original size:307 final size:302
Alignment explanation
Indices: 906812--907671 Score: 846
Period size: 307 Copynumber: 2.8 Consensus size: 302
906802 ATGTTATTCA
** * *
906812 TATCATTTTTTAGTCTTTTAAGGTTACCAAGATA-TTTTATGTTAAA-AGTATACCCTACGGGCA
1 TATCATTTTCAAGTCCTTTAAGGTTACCAAGATACTTTTATGTTAAAGA-TATACCCTAAGGGCA
* * * * * *
906875 TTTTGATAATTTTCT---TAGAGTTTGATATTGTCATCGAGATGCTTTCATGTCAAAGGTGTGCA
65 TTTTGATAATTTTTTAAATAGAGTCTAATATAGTCA-CCAGATGCTTTTATGTCAAAGGTGTGCA
* * * ** *
906937 TTTAAGATAGGTTCACCCTTTTATGATCATTTTCTAGTCTTTTAAAGTTACCGAAATACTTTTAT
129 TTTAGGATAGGTTCACCCTTTTTTTATCATTTT-TAGTCTTTTAGGGTTACC-AAATACTTTCAT
* * * *
907002 ATCAAAGGTATACCTTAAAGGTATTTTGGTAATTTTATTAGAATGAAGTTTGATGTAATCACT-G
192 ATTAAAGGTATACC--AAAGGCATTTTGGTAATTTTATTAGAATG-AGTTTGATATAACCACTAG
* * * ** *
907066 AGAT-TTTTTTTTGCCAAAGGTGTGCATTTAGGATAGTTTCAC-CTTTTT
254 A-ATGCTTTTTATGCCAAAAGTGAACATTTAGGATAGGTTCACTCTTTTT
* * **
907114 TATCATTTTCGAGTCCTTTAAGGTTATCGGGATACTTTTATGTTAAAGATATACCCTAAGGGCAT
1 TATCATTTTCAAGTCCTTTAAGGTTACCAAGATACTTTTATGTTAAAGATATACCCTAAGGGCAT
* *
907179 TTTGGTAATTTTTTGAAATAAAGTCTAATATAGTCACCATGATG-TTTTATGTCAAAGGTGTGCA
66 TTTGATAATTTTTT-AAATAGAGTCTAATATAGTCACCA-GATGCTTTTATGTCAAAGGTGTGCA
*
907243 TTTAGGATAGGTTCACGCTTTTTTTTATCATTTTTAAGTCTTTTAGGGTTACCAAGATACTTTCA
129 TTTAGGATAGGTTCAC-CCTTTTTTTATCATTTTT-AGTCTTTTAGGGTTACCAA-ATACTTTCA
* * ** *
907308 CATTGAAA-GTATATCCGAAGGCCATTTTGGTAATTTTCGTAGAACTGAGTTTGATATAGCCACT
191 TATT-AAAGGTATA-CCAAAGG-CATTTTGGTAATTTTATTAGAA-TGAGTTTGATATAACCACT
*
907372 AGAATGCTTTTTATGCCAAAAGTGAATATTTAGGATAGGTTCACTCTTTTT
252 AGAATGCTTTTTATGCCAAAAGTGAACATTTAGGATAGGTTCACTCTTTTT
* * * * * * * *
907423 GATCACTTTCAAGTCCTTTATGGTTACCAAGATACTTTCATGTTGAAGGTTTACCC-AAGGGTAT
1 TATCATTTTCAAGTCCTTTAAGGTTACCAAGATACTTTTATGTTAAAGATATACCCTAAGGGCAT
* * * * * * *
907487 TTTCATACTTTTTTAGAATTGAGTCTAATACAAT-ACTAGGATGCTTTTATGCCAAAGGTGTGCA
66 TTTGATAATTTTTTA-AATAGAGTCTAATATAGTCACCA-GATGCTTTTATGTCAAAGGTGTGCA
* * * * * *
907551 TTAAGAATAGGTTCACCCTTGTTTTATTATTTTTGAGTAC-TTTAGGGTTACCGACATGCTTTCA
129 TTTAGGATAGGTTCACCCTTTTTTTATCATTTTT-AGT-CTTTTAGGGTTACC-AAATACTTTCA
** *
907615 TATTAAAGGTATACCCAAAGGCATTTTCATAATTTTTTTAGAATCGAGTTTGATATA
191 TATTAAAGGTATA-CCAAAGGCATTTTGGTAATTTTATTAGAAT-GAGTTTGATATA
907672 GTCACAAGGA
Statistics
Matches: 460, Mismatches: 75, Indels: 42
0.80 0.13 0.07
Matches are distributed among these distances:
302 28 0.06
303 39 0.08
304 1 0.00
305 1 0.00
306 76 0.17
307 157 0.34
308 107 0.23
309 51 0.11
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (302 bp):
TATCATTTTCAAGTCCTTTAAGGTTACCAAGATACTTTTATGTTAAAGATATACCCTAAGGGCAT
TTTGATAATTTTTTAAATAGAGTCTAATATAGTCACCAGATGCTTTTATGTCAAAGGTGTGCATT
TAGGATAGGTTCACCCTTTTTTTATCATTTTTAGTCTTTTAGGGTTACCAAATACTTTCATATTA
AAGGTATACCAAAGGCATTTTGGTAATTTTATTAGAATGAGTTTGATATAACCACTAGAATGCTT
TTTATGCCAAAAGTGAACATTTAGGATAGGTTCACTCTTTTT
Found at i:908248 original size:16 final size:16
Alignment explanation
Indices: 908226--908282 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
908216 TTTAGGTTTT
*
908226 TTCGGGTTCGGGGTTA
1 TTCGGGTTCGGGCTTA
* *
908242 TTTGGGTTTGGGCTTA
1 TTCGGGTTCGGGCTTA
*
908258 TTCGGGTTCGAGCTTA
1 TTCGGGTTCGGGCTTA
*
908274 TTCGAGTTC
1 TTCGGGTTC
908283 AGGTTCAGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.09, C:0.14, G:0.35, T:0.42
Consensus pattern (16 bp):
TTCGGGTTCGGGCTTA
Found at i:908519 original size:18 final size:18
Alignment explanation
Indices: 908480--908519 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
908470 ATTGAAAAAT
*
908480 ATAAAATTAATTTGTTAT
1 ATAAAATTAATTTGTTAA
908498 ATAAAATTAATTT-TTCAA
1 ATAAAATTAATTTGTT-AA
908516 ATAA
1 ATAA
908520 TTTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (18 bp):
ATAAAATTAATTTGTTAA
Found at i:908915 original size:17 final size:17
Alignment explanation
Indices: 908875--908915 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
908865 CATAAAGAGT
*
908875 TAATAAAATTTTATTTA
1 TAATAATATTTTATTTA
*
908892 TAATAATATTTTTTTTA
1 TAATAATATTTTATTTA
*
908909 TATTAAT
1 TAATAAT
908916 TCGTAAGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATAATATTTTATTTA
Found at i:909212 original size:15 final size:16
Alignment explanation
Indices: 909192--909221 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
909182 ATGTTAACTT
909192 TATATT-CTATTTTAC
1 TATATTGCTATTTTAC
909207 TATATTGCTATTTTA
1 TATATTGCTATTTTA
909222 AGTGTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (16 bp):
TATATTGCTATTTTAC
Found at i:909777 original size:16 final size:16
Alignment explanation
Indices: 909758--909795 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
909748 AGTTTTTTTG
909758 GGTTTGAGCTTTCTCA
1 GGTTTGAGCTTTCTCA
* *
909774 GGTTCGAGCTTTCTCG
1 GGTTTGAGCTTTCTCA
909790 GGTTTG
1 GGTTTG
909796 GGCTATTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.18, G:0.32, T:0.42
Consensus pattern (16 bp):
GGTTTGAGCTTTCTCA
Found at i:909808 original size:16 final size:16
Alignment explanation
Indices: 909787--909830 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
909777 TCGAGCTTTC
909787 TCGGGTTTGGGCT-ATT
1 TCGGGTTTGGG-TAATT
* *
909803 TTGGGTTCGGGTAATT
1 TCGGGTTTGGGTAATT
909819 TCGGGTTTGGGT
1 TCGGGTTTGGGT
909831 TTTTGACTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.07, C:0.09, G:0.41, T:0.43
Consensus pattern (16 bp):
TCGGGTTTGGGTAATT
Found at i:910884 original size:33 final size:33
Alignment explanation
Indices: 910842--910912 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
910832 AGATATATCG
*
910842 ATACAATGTATCGATACATTTCTCATTGTGACA
1 ATACAATGTATCGATACATTTCTAATTGTGACA
*
910875 ATACAATGTATCGATACATTTCTAATTGTGTCA
1 ATACAATGTATCGATACATTTCTAATTGTGACA
910908 ATACA
1 ATACA
910913 TTCAGGCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (33 bp):
ATACAATGTATCGATACATTTCTAATTGTGACA
Found at i:913398 original size:80 final size:80
Alignment explanation
Indices: 913272--913664 Score: 317
Period size: 79 Copynumber: 5.0 Consensus size: 80
913262 TCATTGATGT
* * ** * * * *
913272 TTTTATTTCTAAAATATCAATTTTCCACCATTGGGGATACTCCAACCCCGTTATTTTCGAAGGAA
1 TTTTATTTCTAAAACATCGATTTTCCATTATCGAGGATACTCCAACCCTGTTATTTTCGAAGGGA
913337 TACTCTAACCCTAG-
66 TACTCTAACCCTAGA
* ** * *
913351 TTTTATTCCTAAAACATCGATTTGTCCATTATTAAGGATGCTCCAACCCTGTTA-TTTCTAAAGG
1 TTTTATTTCTAAAACATCGATTT-TCCATTATCGAGGATACTCCAACCCTGTTATTTTC-GAAGG
913415 GATACT-TCAACCCT-GA
64 GATACTCT-AACCCTAGA
* * * * * * * *
913431 TTTTATTTTTAAAATATCGATTTTCTATCATCGGGGATACTCTAATCCTGTTA-TTCCG-AGTGG
1 TTTTATTTCTAAAACATCGATTTTCCATTATCGAGGATACTCCAACCCTGTTATTTTCGAAG-GG
*
913494 ATACTCTAA-CTTAG-
65 ATACTCTAACCCTAGA
* * * *
913508 TTTTATTTTTAAAACATCAATTTTTTCATTATCGAGGATACTCCAA-CCTCGTTATTTTTG-AGG
1 TTTTATTTCTAAAACATCGA-TTTTCCATTATCGAGGATACTCCAACCCT-GTTATTTTCGAAGG
* * *
913571 CAATACTCCAACCC-CGA
64 -GATACTCTAACCCTAGA
* * * *
913588 TTTTATTTCTAAAACA-CTGATTTTCCACTATCGA-GATACTCTAACCTTGTTATTTTCGAGGGG
1 TTTTATTTCTAAAACATC-GATTTTCCATTATCGAGGATACTCCAACCCTGTTATTTTCGAAGGG
*
913651 ATACTCCAACCCTA
65 ATACTCTAACCCTA
913665 TTATTTTTGA
Statistics
Matches: 249, Mismatches: 48, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
77 25 0.10
78 65 0.26
79 83 0.33
80 76 0.31
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (80 bp):
TTTTATTTCTAAAACATCGATTTTCCATTATCGAGGATACTCCAACCCTGTTATTTTCGAAGGGA
TACTCTAACCCTAGA
Found at i:913562 original size:157 final size:156
Alignment explanation
Indices: 913272--913664 Score: 411
Period size: 157 Copynumber: 2.5 Consensus size: 156
913262 TCATTGATGT
* * * * *
913272 TTTTATTTCTAAAATATCAATTTTCCACCATTGGGGATACTCCAACCCCGTTATTTTCGAAGGAA
1 TTTTATTTCTAAAATATCGATTTTCCA-CATCGGGGATACTCTAA-CCTGTTATTTTCG-AGGGA
* * *
913337 TACTCTAACCCTAGTTTTATTCCTAAAACATCGATTTGTCCATTATTAAGGATGCTCCAACCCTG
63 TACTCTAACCCTAGTTTTATTCCTAAAACATCAATTTGTCCATTATCAAGGATACTCCAACCCTG
* * *
913402 TTATTTCTAAAGG-GATACTTCAACCCTGA
128 TTATTT-TAAAGGCAATACTCCAACCCCGA
* * *
913431 TTTTATTTTTAAAATATCGATTTTCTATCATCGGGGATACTCTAATCCTGTTA-TTCCGAGTGGA
1 TTTTATTTCTAAAATATCGATTTTCCA-CATCGGGGATACTCTAA-CCTGTTATTTTCGAG-GGA
* ** * * *
913495 TACTCTAA-CTTAGTTTTATTTTTAAAACATCAATTTTTTCATTATCGAGGATACTCCAA-CCTC
63 TACTCTAACCCTAGTTTTATTCCTAAAACATCAATTTGTCCATTATCAAGGATACTCCAACCCT-
**
913558 GTTATTTTTGAGGCAATACTCCAACCCCGA
127 GTTATTTTAAAGGCAATACTCCAACCCCGA
* *
913588 TTTTATTTCTAAAACA-CTGATTTTCCACTATC-GAGATACTCTAACCTTGTTATTTTCGAGGGG
1 TTTTATTTCTAAAATATC-GATTTTCCAC-ATCGGGGATACTCTAACC-TGTTATTTTCGA-GGG
*
913651 ATACTCCAACCCTA
62 ATACTCTAACCCTA
913665 TTATTTTTGA
Statistics
Matches: 194, Mismatches: 31, Indels: 19
0.80 0.13 0.08
Matches are distributed among these distances:
155 2 0.01
156 25 0.13
157 104 0.54
158 18 0.09
159 45 0.23
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (156 bp):
TTTTATTTCTAAAATATCGATTTTCCACATCGGGGATACTCTAACCTGTTATTTTCGAGGGATAC
TCTAACCCTAGTTTTATTCCTAAAACATCAATTTGTCCATTATCAAGGATACTCCAACCCTGTTA
TTTTAAAGGCAATACTCCAACCCCGA
Found at i:913612 original size:78 final size:78
Alignment explanation
Indices: 913272--913662 Score: 301
Period size: 80 Copynumber: 5.0 Consensus size: 78
913262 TCATTGATGT
* * ** * * * *
913272 TTTTATTTCTAAAATATCAATTTTCCACCATTGGGGATACTCCAACCCCGTTATTTTCGAAGGAA
1 TTTTATTTCTAAAACATCGATTTTCCATTATCGAGGATACTCCAACCTCGTTATTTTCG-AGGGA
* *
913337 TACTCTAA-CCCTA
65 TACTCCAACCCCGA
* ** * **
913350 GTTTTATTCCTAAAACATCGATTTGTCCATTATTAAGGATGCTCCAACC-CTGTTATTTCTAAAG
1 -TTTTATTTCTAAAACATCGATTT-TCCATTATCGAGGATACTCCAACCTC-GTTATTT-TCGAG
* *
913414 GGATACTTCAACCCTGA
62 GGATACTCCAACCCCGA
* * * * * * *
913431 TTTTATTTTTAAAATATCGATTTTCTATCATCGGGGATACTCTAATCCT-GTTA-TTCCGAGTGG
1 TTTTATTTCTAAAACATCGATTTTCCATTATCGAGGATACTCCAA-CCTCGTTATTTTCGAG-GG
* ***
913494 ATACTCTAACTTAG-
64 ATACTCCAACCCCGA
* * * * *
913508 TTTTATTTTTAAAACATCAATTTTTTCATTATCGAGGATACTCCAACCTCGTTATTTTTGAGGCA
1 TTTTATTTCTAAAACATCGA-TTTTCCATTATCGAGGATACTCCAACCTCGTTATTTTCGAGG-G
913573 ATACTCCAACCCCGA
64 ATACTCCAACCCCGA
* * *
913588 TTTTATTTCTAAAACA-CTGATTTTCCACTATCGA-GATACTCTAACCTTGTTATTTTCGAGGGG
1 TTTTATTTCTAAAACATC-GATTTTCCATTATCGAGGATACTCCAACCTCGTTATTTTCGA-GGG
913651 ATACTCCAACCC
64 ATACTCCAACCC
913663 TATTATTTTT
Statistics
Matches: 243, Mismatches: 55, Indels: 29
0.74 0.17 0.09
Matches are distributed among these distances:
77 23 0.09
78 72 0.30
79 70 0.29
80 74 0.30
81 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (78 bp):
TTTTATTTCTAAAACATCGATTTTCCATTATCGAGGATACTCCAACCTCGTTATTTTCGAGGGAT
ACTCCAACCCCGA
Found at i:913655 original size:28 final size:28
Alignment explanation
Indices: 913622--913692 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
913612 CCACTATCGA
913622 GATACTCTAACCTTGTTATTTTCGAGGG
1 GATACTCTAACCTTGTTATTTTCGAGGG
* * * *
913650 GATACTCCAACCCTATTATTTTTGAGGG
1 GATACTCTAACCTTGTTATTTTCGAGGG
*
913678 GATACTTTAACCTTG
1 GATACTCTAACCTTG
913693 GTTTTATTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (28 bp):
GATACTCTAACCTTGTTATTTTCGAGGG
Found at i:913669 original size:106 final size:106
Alignment explanation
Indices: 913543--913875 Score: 339
Period size: 107 Copynumber: 3.1 Consensus size: 106
913533 TCATTATCGA
**
913543 GGATACTCCAA-CCTCGTTATTTTTGAGGCAATACTCCAACCCCGATTTTATTTCTAAAACACTG
1 GGATACTCCAACCCT-GTTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTG
*
913607 ATTTTCCACTATCGAGATACTCTAACCTTGTTATTTTCGAGG
65 ATTTTCCACCATCGAGATACTCTAACCTTGTTATTTTCGAGG
* ** ** *
913649 GGATACTCCAACCCTATTATTTTTGAGGGGATACTTTAACCTTGGTTTTATTTCTAAAACACTGA
1 GGATACTCCAACCCTGTTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTGA
* * * * *
913714 TTTTTCACCATTAGAGATA-TTTCAACCCTATTATTTTCGAGG
66 TTTTCCACCA-TCGAGATACTCT-AACCTTGTTATTTTCGAGG
* * **** * * *
913756 GGATACTCCAACCTTGCTATTCCCAAGGGGATACTCCAACCCCGATTTAATTTC-AAAAGAATCG
1 GGATACTCCAACCCTGTTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACT-G
* * * * *
913820 ATTTTCCACCATCGGGGATACTCCAACCTCGTTAGTTCCGAGG
65 ATTTTCCACCATC-GAGATACTCTAACCTTGTTATTTTCGAGG
*
913863 GGATACTTCAACC
1 GGATACTCCAACC
913876 TTGATTTTGT
Statistics
Matches: 181, Mismatches: 40, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
106 70 0.39
107 110 0.61
108 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (106 bp):
GGATACTCCAACCCTGTTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTGA
TTTTCCACCATCGAGATACTCTAACCTTGTTATTTTCGAGG
Found at i:914909 original size:20 final size:20
Alignment explanation
Indices: 914884--914989 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
914874 TTTTACCCAG
*
914884 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
914904 ATGTATCGATACATTTATCTTTTACCCA
1 ATGTATCGATAC----AT-TTTT---CA
*
914932 GATGTATCGATATATTTTTCA
1 -ATGTATCGATACATTTTTCA
*
914953 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
* *
914973 ATATATCAATACATTTT
1 ATGTATCGATACATTTT
914990 GTCTTTTTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
20 44 0.63
21 2 0.03
24 6 0.09
25 6 0.09
28 1 0.01
29 11 0.16
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:914937 original size:49 final size:49
Alignment explanation
Indices: 914874--914967 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
914864 AAAGTCACAT
*
914874 TTTTACCCAGATGTATCGATACATTTTTTAATGTATCGATACATTTATC
1 TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTTATC
*
914923 TTTTACCCAGATGTATCGATATATTTTTCAATGTATCGATACATT
1 TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATT
914968 CTTCAATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.45
Consensus pattern (49 bp):
TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTTATC
Found at i:914950 original size:24 final size:24
Alignment explanation
Indices: 914872--914950 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
914862 GAAAAGTCAC
*
914872 ATTTTTACCCAGATGTATCGATAC
1 ATTTTTACCCAGATGTATCGATAT
*
914896 ATTTTT---TA-ATGTATCGATACATTT
1 ATTTTTACCCAGATGTATCGAT--A--T
914920 ATCTTTTACCCAGATGTATCGATAT
1 AT-TTTTACCCAGATGTATCGATAT
914945 ATTTTT
1 ATTTTT
914951 CAATGTATCG
Statistics
Matches: 43, Mismatches: 3, Indels: 18
0.67 0.05 0.28
Matches are distributed among these distances:
20 10 0.23
21 1 0.02
22 1 0.02
24 12 0.28
25 7 0.16
27 1 0.02
28 1 0.02
29 10 0.23
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (24 bp):
ATTTTTACCCAGATGTATCGATAT
Found at i:917977 original size:43 final size:43
Alignment explanation
Indices: 917912--918052 Score: 156
Period size: 43 Copynumber: 3.1 Consensus size: 43
917902 TAAGATGGTA
** *
917912 AAAGGTGCCGATATGCTGATTCAAGGCCAACGATATTGGACTT
1 AAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * * *
917955 AAAGGTGCTAATGTGCTAATTCAAGGCCAGCAACATTGGTCTTAAAGAT
1 AAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T
918004 AAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTT
918047 AAAGGT
1 AAAGGT
918053 ACCACAGAGT
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
43 40 0.51
44 1 0.01
48 1 0.01
49 37 0.47
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (43 bp):
AAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:918026 original size:49 final size:49
Alignment explanation
Indices: 917817--918050 Score: 223
Period size: 49 Copynumber: 4.9 Consensus size: 49
917807 ATTGGGCTTA
* * * * *
917817 TGCCAATGTGTTGATTCATGGCCAGCGACATTGGTCTTAAA-A-ACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATA-AAGG
* * *
917865 TGCCAATATGCTGATTCAAGGCCTGCGATATTGGGCTTAAGATGGTAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-A-GAT-AAAGG
* *
917917 TGCCGATATGCTGATTCAAGGCCAACGATATTGGAC-T-----TAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGG
* * * * * *
917960 TGCTAATGTGCTAATTCAAGGCCAGCAACATTGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGG
*
918009 TGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
918051 GTACCACAGA
Statistics
Matches: 151, Mismatches: 24, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
43 33 0.22
44 2 0.01
48 34 0.23
49 44 0.29
51 1 0.01
52 36 0.24
53 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGG
Found at i:918032 original size:92 final size:95
Alignment explanation
Indices: 917861--918052 Score: 264
Period size: 92 Copynumber: 2.1 Consensus size: 95
917851 TCTTAAAAAC
* * * * * *
917861 AAGGTGCCAATATGCTGATTCAAGGCCTGCGATATTGGGCTTAAGATGGTAAAAGGTGCCGATAT
1 AAGGTGCCAATATGCTAATTCAAGGCCAGCAACATTGGGCTTAAGATGATAAAAGGTGCCAATAT
917926 GCTGATTCAAGGCCAACGATATTGGACTTA
66 GCTGATTCAAGGCCAACGATATTGGACTTA
* * * *
917956 AAGGTGCTAATGTGCTAATTCAAGGCCAGCAACATTGGTCTTAA-A-GAT-AAAGGTGCTAATAT
1 AAGGTGCCAATATGCTAATTCAAGGCCAGCAACATTGGGCTTAAGATGATAAAAGGTGCCAATAT
*
918018 GCTGATTCAAGGCCAGCGATATTGGACTTA
66 GCTGATTCAAGGCCAACGATATTGGACTTA
918048 AAGGT
1 AAGGT
918053 ACCACAGAGT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
92 46 0.53
93 2 0.02
94 1 0.01
95 37 0.43
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (95 bp):
AAGGTGCCAATATGCTAATTCAAGGCCAGCAACATTGGGCTTAAGATGATAAAAGGTGCCAATAT
GCTGATTCAAGGCCAACGATATTGGACTTA
Found at i:918183 original size:33 final size:33
Alignment explanation
Indices: 918047--918851 Score: 562
Period size: 34 Copynumber: 24.9 Consensus size: 33
918037 TATTGGACTT
* * *
918047 AAAGGTACCACAGAGTTGTGGACTTACAA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
918079 AAAGGGATACCACAGAGGTGTGGGCTTAAAAGGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA-GGAA
* * ** *
918115 AAGGGTGTCACGGAGTCATGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* ***
918147 AAAGGTGCTACGGAGTTAAAGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
918180 AAAGGTGCCAGGGAGTTGTGCACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
** * * *
918213 AAAAATACCACGGAGGTGTGGGCTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GGAA
* ** *
918247 AAGGGTGCCACGGAGTCATGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
918279 AAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* *
918313 AAAGGTGCCACGAAGTTGTGGACCTTAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGA-CTTAAAAGGAA
* * * *
918347 AAGGGATGCCACAGAGGTGTAGACTTAAAAGGAA
1 AAAGG-TGCCACGGAGTTGTGGACTTAAAAGGAA
* *
918381 AAAGAGTGCCACGAAGGTGTGGACTTAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
*
918415 AAAGAGTGCCACGGAGTTGTAGG-CTTTAAAGAGAA
1 AAAG-GTGCCACGGAGTTGT-GGACTTAAAAG-GAA
*
918450 AAAGGTGCCATGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
**
918480 ---GGTGCCACAAAGTTGTGGACTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* * * **
918511 AAAGGTACCACAGAGTCGTGGACTT--TGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
918542 AAAGATGCCACGAAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
918572 ---GGTGCCACGGAGTTATGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* ** * * *
918602 AAAGATGCCATAGAGTCGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* *
918636 AAAGGTGCCATGAAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
918666 ---GGTGCCACAGAGTTGTAGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
918696 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
918731 AAAGGTGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
918761 ---GGTGCCACAGAGTTGTGGATTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGA-CTT-AAAAGGAA
* ** **
918792 AAAGGTGCCACAGAGTCATGGACTT-TGA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* **
918823 AAAGATGCCACTCAGTTGTGGACTTAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA
918852 AAGTGCCACA
Statistics
Matches: 607, Mismatches: 119, Indels: 94
0.74 0.15 0.11
Matches are distributed among these distances:
27 80 0.13
28 6 0.01
29 10 0.02
31 47 0.08
32 52 0.09
33 95 0.16
34 273 0.45
35 39 0.06
36 5 0.01
ACGTcount: A:0.38, C:0.13, G:0.31, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:918415 original size:68 final size:66
Alignment explanation
Indices: 918047--918935 Score: 574
Period size: 61 Copynumber: 13.9 Consensus size: 66
918037 TATTGGACTT
* * * * * * *
918047 AAAGGTACCACAGAGTTGTGGACTTACAAGAAAAAGGGATACCACAGAGGTGTGGGCTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA-GGATGCCACAGAGTTGTGGACTTAAAA-G
918112 GAA
64 GAA
* * ** * * * ***
918115 AAGGGTGTCACGGAGTCATGGACTTAAAAAGAAAAGG-TGCTACGGAGTTAAAGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGA
918179 A
66 A
* * ** * * * *
918180 AAAGGTGCCAGGGAGTTGTGCACTTAAAAGGAAAAAAATACCACGGAGGTGTGGGCTTAAAAGGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACAGAGTTGTGGACTTAAAA-GG
918245 AA
65 AA
* ** * * *
918247 AAGGGTGCCACGGAGTCATGGACTTAAAAAGAAAAGG-TGCCACAGAGTTGTGGGCTTTAAAAAG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACAGAGTTGTGGAC-TTAAAAGG
918311 AA
65 AA
* * * *
918313 AAAGGTGCCACGAAGTTGTGGACCTTAAAGGGAAAAGGGATGCCACAGAGGTGTAGACTTAAAAG
1 AAAGGTGCCACGGAGTTGTGGA-CTTAAAAGGAAAA-GGATGCCACAGAGTTGTGGACTTAAAAG
918378 GAA
64 GAA
* * * * *
918381 AAAGAGTGCCACGAAGGTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTAGG-CTTTAAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGA-TGCCACAGAGTTGT-GGACTTAAAA
918445 GAGAA
63 G-GAA
* *
918450 AAAGGTGCCATGGAGTTGTGGACTTAAAA-G----GG-TGCCACAAAGTTGTGGACTTTGAAAA-
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACAGAGTTGTGGAC-TT-AAAAG
918508 GAA
64 GAA
* * * ** *
918511 AAAGGTACCACAGAGTCGTGGACTT--TGGGAAAAAGATGCCAC-GAAGTTGTGGACTTAAAA-G
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACAG-AGTTGTGGACTTAAAAGG
918572 --
65 AA
* * * * * *
918572 ---GGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATGCCATAGAGTCGTGGGCTTTAAAAAG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACAGAGTTGTGGAC-TTAAAAGG
918634 AA
65 AA
* * *
918636 AAAGGTGCCATGAAGTTGTGGACTTAAAA-G----GG-TGCCACAGAGTTGTAGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGA
918695 A
66 A
* * *
918696 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG-TGCCACGGAGTTGTGGACTTAAAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAGGATGCCACAGAGTTGTGGACTTAAAA
918760 -G--
63 GGAA
* * * ** **
918761 ---GGTGCCACAGAGTTGTGGATTTTGAAAAGAAAAAGG-TGCCACAGAGTCATGGACTT-TGA-
1 AAAGGTGCCACGGAGTTGTGGA-CTT-AAAAGGAAAAGGATGCCACAGAGTTGTGGACTTAAAAG
918820 GAA
64 GAA
* ** *
918823 AAAGATGCCACTCAGTTGTGGACTT--AA--AAAA-G-TGCCACAGAGTTGTAGACTT-AAA--A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGA
918879 A
66 A
* * * * ** * *
918880 AGAGATGCCACTGAGTTGTAGACTTTGAA-GAAAA-GATGCCACTGAGTCGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACAGAGTTGTGGACTT
918936 TGGGACAAGA
Statistics
Matches: 648, Mismatches: 125, Indels: 103
0.74 0.14 0.12
Matches are distributed among these distances:
57 24 0.04
58 37 0.06
59 6 0.01
60 45 0.07
61 140 0.22
62 7 0.01
63 13 0.02
64 5 0.01
65 64 0.10
66 70 0.11
67 79 0.12
68 118 0.18
69 40 0.06
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (66 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGA
A
Found at i:918486 original size:27 final size:27
Alignment explanation
Indices: 918448--918779 Score: 133
Period size: 27 Copynumber: 10.9 Consensus size: 27
918438 CTTTAAAGAG
* *
918448 AAAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
**
918475 AAAAGGGTGCCACAAAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * *
918503 GAAAAGAAAAAGGTACCACAGAGTCGTGGACTTT
1 -AAAAG-----GGTGCCACGGAGTTGTGGAC-TT
* * *
918537 GGGAAAAAGATGCCACGAAGTTGTGGACTT
1 ---AAAAGGGTGCCACGGAGTTGTGGACTT
*
918567 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
** * *
918594 AAAAGGAAAAAGATGCCATAGAGTCGTGGGCTTT
1 AAAAGG-----G-TGCCACGGAGTTGTGGAC-TT
* *
918628 AAAAAGAAAAAGGTGCCATGAAGTTGTGGACTT
1 -AAAAG-----GGTGCCACGGAGTTGTGGACTT
* *
918661 AAAAGGGTGCCACAGAGTTGTAGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
918688 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAA-G-----G-GTGCCACGGAGTTGTGGAC-TT
918723 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
1 -AAAAG-----GGTGCCACGGAGTTGTGGACTT
*
918756 AAAAGGGTGCCACAGAGTTGTGGA
1 AAAAGGGTGCCACGGAGTTGTGGA
918780 TTTTGAAAAG
Statistics
Matches: 239, Mismatches: 35, Indels: 62
0.71 0.10 0.18
Matches are distributed among these distances:
27 90 0.38
28 3 0.01
29 5 0.02
30 2 0.01
31 15 0.06
32 11 0.05
33 18 0.08
34 70 0.29
35 15 0.06
36 9 0.04
40 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:918532 original size:34 final size:33
Alignment explanation
Indices: 918475--918936 Score: 278
Period size: 34 Copynumber: 14.8 Consensus size: 33
918465 TTGTGGACTT
* *
918475 AAAAGGGTGCCACAAAGTTGTGGACTTTGAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTT-AAAAG
* * **
918509 AAAAAGGTACCACAGAGTCGTGGACTTT--GGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTAAAAG
*
918540 AAAAAGATGCCAC-GAAGTTGTGGAC-TTAAAAG
1 AAAAAGGTGCCACAG-AGTTGTGGACTTTAAAAG
* *
918572 -----GGTGCCACGGAGTTATGGAC-TTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTAAAA-G
* * * *
918600 AAAAAGATGCCATAGAGTCGTGGGCTTTAAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTT-AAAAG
*
918634 AAAAAGGTGCCA-TGAAGTTGTGGAC-TTAAAAG
1 AAAAAGGTGCCACAG-AGTTGTGGACTTTAAAAG
*
918666 -----GGTGCCACAGAGTTGTAGAC-TTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTAAAA-G
* *
918694 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACAGAGTTGTGGACTTT-AAAAG
*
918729 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTAAAAG
*
918761 -----GGTGCCACAGAGTTGTGGATTTTGAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTT-AAAAG
** *
918790 AAAAAGGTGCCACAGAGTCATGGACTTT--GAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTAAAAG
* **
918821 AAAAAGATGCCACTCAGTTGTGGAC-TT---A-
1 AAAAAGGTGCCACAGAGTTGTGGACTTTAAAAG
*
918849 AAAAA-GTGCCACAGAGTTGTAGAC-TT-AAA-
1 AAAAAGGTGCCACAGAGTTGTGGACTTTAAAAG
* * * * *
918878 AAAGAGATGCCACTGAGTTGTAGACTTT-GAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTAAAAG
* * *
918910 -AAAAGATGCCACTGAGTCGTGGACTTT
1 AAAAAGGTGCCACAGAGTTGTGGACTTT
918937 GGGACAAGAT
Statistics
Matches: 342, Mismatches: 51, Indels: 73
0.73 0.11 0.16
Matches are distributed among these distances:
27 79 0.23
28 11 0.03
29 11 0.03
30 22 0.06
31 71 0.21
32 11 0.03
33 20 0.06
34 100 0.29
35 13 0.04
36 4 0.01
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (33 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTTAAAAG
Found at i:918761 original size:95 final size:95
Alignment explanation
Indices: 918078--918878 Score: 641
Period size: 95 Copynumber: 8.3 Consensus size: 95
918068 ACTTACAAGA
* * * * * * *
918078 AAAAGGGATACCACAGAGGTGTGGGCTTAAAAGGGAAAAGGGTGTCACGGAGTCATGGAC-TTAA
1 AAAAGGG-TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTCGTGGACTTTAA
* ***
918142 AAAG-AAAAGGTGCTACGGAGTTAAAGACTT
65 AAAGAAAAAGGTGCCACGGAGTTGTGGACTT
** * * * *
918172 AAAAGGAAAAAGGTGCCAGGGAGTTGTGCACTTAAAAGGAAAAA-AATACCACGGAGGT-GTGGG
1 AAAA-G-----GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGA-GTCGTGGA
* * **
918235 C-TTAAAAGGGAAAAGGGTGCCACGGAGTCATGGACTT
59 CTTTAAAA-AGAAAAAGGTGCCACGGAGTTGTGGACTT
* * * *
918272 AAAAAGAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGAAGTTGTGGAC
1 -AAAAG----GGTGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTCGTGGAC
* ** * * * *
918336 CTTAAAGGGAAAAGGGATGCCACAGAGGTGTAGACTT
60 TTTAAAAAGAAAAAGG-TGCCACGGAGTTGTGGACTT
* *
918373 AAAAGGAAAAAGAGTGCCAC-GAAGGTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTAG
1 AAAA-G-----G-GTGCCACAG-AGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTCGT-G
* *
918437 G-CTTTAAAGAGAAAAAGGTGCCATGGAGTTGTGGACTT
57 GACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
918475 AAAAGGGTGCCACAAAGTTGTGGACTTTGAAAA-GAAAAAG-GTACCACAGAGTCGTGGACTTT-
1 AAAAGGGTGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACGGAGTCGTGGACTTTA
** * *
918537 --GGGAAAAAGATGCCACGAAGTTGTGGACTT
64 AAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
* * ** *
918567 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGA-TGCCATAGAGTCGTGGGCTTTAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTCGTGGACTTTAAA
* *
918631 AAGAAAAAGGTGCCATGAAGTTGTGGACTT
66 AAGAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
918661 AAAAGGGTGCCACAGAGTTGTAGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTCGTGGACTTTAAA
918726 AAGAAAAAGGTGCCACGGAGTTGTGGACTT
66 AAGAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
918756 AAAAGGGTGCCACAGAGTTGTGGATTTTGAAAA-GAAAAAG-GTGCCACAGAGTCATGGACTTT-
1 AAAAGGGTGCCACAGAGTTGTGGA-CTT-AAAAGGAAAAAGAGTGCCACGGAGTCGTGGACTTTA
* * **
918818 --GAGAAAAAGATGCCACTCAGTTGTGGACTT
64 AAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
** *
918848 AAAAAAGTGCCACAGAGTTGTAGACTTAAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAA
918879 AAGAGATGCC
Statistics
Matches: 588, Mismatches: 86, Indels: 70
0.79 0.12 0.09
Matches are distributed among these distances:
90 8 0.01
91 29 0.05
92 95 0.16
94 69 0.12
95 123 0.21
96 19 0.03
97 8 0.01
98 17 0.03
99 49 0.08
100 61 0.10
101 26 0.04
102 39 0.07
103 43 0.07
104 2 0.00
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.19
Consensus pattern (95 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTCGTGGACTTTAAA
AAGAAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:918874 original size:119 final size:117
Alignment explanation
Indices: 918729--918965 Score: 289
Period size: 119 Copynumber: 2.0 Consensus size: 117
918719 CTTTAAAAAG
* * * * * *
918729 AAAAAGGTGCCACGGAGTTGTGGACTT-AAAAG-GGTGCCACAGAGTTGTGGATTTTGAAAAGAA
1 AAAAAAGTGCCACAGAGTTGTAGACTTAAAAAGAGATGCCACAGAGTTGTAGACTTTG--AAG-A
* *
918792 AAAGGTGCCACAGAGTCATGGACTTTGAGAAAAAGATGCCACTCAGTTGTGGACTT
63 AAAGATGCCACAGAGTCATGGACTTTG-GAAAAAGATGCCACTCAGTCGTGGACTT
*
918848 AAAAAAGTGCCACAGAGTTGTAGACTTAAAAAAGAGATGCCACTGAGTTGTAGACTTTGAAGAAA
1 AAAAAAGTGCCACAGAGTTGTAGACTT-AAAAAGAGATGCCACAGAGTTGTAGACTTTGAAGAAA
* * * * *
918913 AGATGCCACTGAGTCGTGGACTTTGGGACAAGATGCCACTGAGTCGTGGACTT
65 AGATGCCACAGAGTCATGGACTTTGGAAAAAGATGCCACTCAGTCGTGGACTT
918966 TGAGAAGAGA
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
118 24 0.24
119 49 0.49
120 3 0.03
121 5 0.05
122 20 0.20
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (117 bp):
AAAAAAGTGCCACAGAGTTGTAGACTTAAAAAGAGATGCCACAGAGTTGTAGACTTTGAAGAAAA
GATGCCACAGAGTCATGGACTTTGGAAAAAGATGCCACTCAGTCGTGGACTT
Found at i:919030 original size:31 final size:31
Alignment explanation
Indices: 918763--919061 Score: 267
Period size: 31 Copynumber: 9.7 Consensus size: 31
918753 CTTAAAAGGG
* * * *
918763 TGCCACAGAGTTGTGGATTTTGAAAAGAAAAAGG
1 TGCCACTGAGTCGTGGACTTTG--AAG-AAAAGA
* *
918797 TGCCACAGAGTCATGGACTTTG-AGAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG-AAAAGA
* *
918828 TGCCACTCAGTTGTGGAC-TT-AA-AAAAG-
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* * * *
918855 TGCCACAGAGTTGTAGAC-TT-AAAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAA-AGA
* *
918885 TGCCACTGAGTTGTAGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
918916 TGCCACTGAGTCGTGGACTTTG-GGACAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
918946 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
918976 TTGCCACTGAGTCATGGACTTTGAAGAAAAGA
1 -TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
919008 TGCCACTAAGTCGTGGACTTTG-AGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
919038 TTGCCATTGAGTCGTGGATTTTGA
1 -TGCCACTGAGTCGTGGACTTTGA
919062 GAAGAGAGAT
Statistics
Matches: 227, Mismatches: 28, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
27 19 0.08
28 8 0.04
29 2 0.01
30 60 0.26
31 107 0.47
32 12 0.05
34 19 0.08
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
Found at i:921434 original size:13 final size:13
Alignment explanation
Indices: 921416--921441 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
921406 CTATTTATGA
921416 TGTATCGATACAC
1 TGTATCGATACAC
921429 TGTATCGATACAC
1 TGTATCGATACAC
921442 ACAAATATGT
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:921579 original size:22 final size:22
Alignment explanation
Indices: 921524--921579 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
921514 ACAGTGACCT
921524 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
921546 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
921567 ATGAACAGTGATG
1 ATGAACAGTGATG
921580 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:921586 original size:10 final size:10
Alignment explanation
Indices: 921567--921597 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
921557 GTATCGATAC
921567 ATGAACAGTG
1 ATGAACAGTG
*
921577 ATGAATAGTG
1 ATGAACAGTG
921587 ATGAACAGTG
1 ATGAACAGTG
921597 A
1 A
921598 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:921810 original size:21 final size:21
Alignment explanation
Indices: 921784--921824 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
921774 GTCAACCTTG
921784 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
921805 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
921825 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:936058 original size:15 final size:15
Alignment explanation
Indices: 936038--936067 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
936028 ATTCCGCCAA
936038 ATCCACCACAAAATC
1 ATCCACCACAAAATC
936053 ATCCACCACAAAATC
1 ATCCACCACAAAATC
936068 GTCGATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (15 bp):
ATCCACCACAAAATC
Found at i:941820 original size:13 final size:13
Alignment explanation
Indices: 941791--941836 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
941781 TTCTTCGTAC
**
941791 CAAAAAAAACCCA
1 CAAAAAAAACAAA
941804 -AAAAAAAACAAA
1 CAAAAAAAACAAA
*
941816 CAAAATAAACAAA
1 CAAAAAAAACAAA
941829 CAAAAAAA
1 CAAAAAAA
941837 GAAGGGTCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.80, C:0.17, G:0.00, T:0.02
Consensus pattern (13 bp):
CAAAAAAAACAAA
Found at i:943162 original size:28 final size:28
Alignment explanation
Indices: 943124--943629 Score: 555
Period size: 28 Copynumber: 17.5 Consensus size: 28
943114 ATACAACCCT
*
943124 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
943152 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
943180 TTCTAAAAGCCCACAAGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCC
*
943209 TTCTCAAAGCCCATAAGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCC
943238 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
943266 TTTCAAAGCCCACAAGTCAATGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
943294 TTCTCAAAGCCCACAAGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCC
943323 TTCTCAAAGCCCACAAGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCC
* * * *
943352 TTCTTAAAGCCCACAAGTTAATGGCATTC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCC
* ** *
943381 TTCTCAAAGCCCACACAAATTGGTGGCAACC
1 TT-TCAAAG-CC-CACAAGTCAGTGGCATCC
* * * *
943412 TCTCTCAAAGTCCACAAGTCAGCGGTATCT
1 T-T-TCAAAGCCCACAAGTCAGTGGCATCC
* *
943442 TTTCAAAGCCTACACAAGTCGGTGGTAATCTC
1 TTTCAAAGCC--CACAAGTCAGTGG-CATC-C
* * *
943474 TCTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
943502 TTTTAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
943530 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
** * * *
943558 TTTTGAAGCCCAGAAATCAATGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
943586 TTTTAAAGCCCACAAGT-AGGTGGCAACC
1 TTTCAAAGCCCACAAGTCA-GTGGCATCC
943614 TTCTCTAAAGCCCACA
1 TT-TC-AAAGCCCACA
943630 CAAGTTGGTG
Statistics
Matches: 415, Mismatches: 51, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.00
28 188 0.45
29 145 0.35
30 46 0.11
31 18 0.04
32 17 0.04
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:943324 original size:114 final size:114
Alignment explanation
Indices: 943124--943629 Score: 597
Period size: 114 Copynumber: 4.4 Consensus size: 114
943114 ATACAACCCT
*
943124 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTAAAAG
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAG
*
943189 CCCACAAGTCAGTGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCATCC
66 CCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCC
* *
943238 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAG
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAG
943303 CCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCC
66 CCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCC
* * * * ** *
943352 TTCTTAAAGCCCACAAGTTAATGGCATTCTTCTCAAAGCCCACACAAATTGGTGGCAACCTCTCT
1 TT-TCAAAGCCCACAAGTTAGTGGCATCCTT-TCAAAG-CC-CACAAGTCAGTGGCATCCT-TCT
* * * * * *
943417 CAAAGTCCACAAGTCAGCGGTAT-CTTTTCAAAGCCTACACAAGTCGGTGGTAATCTC
61 CAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCC--CACAAGTCAGTGG-CATC-C
* * * * *
943474 TCTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGCACCCTT-TCAAAG
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAG
* * ** * * *
943538 CCCACAAGTTAGTGGCACCCTT-TTGAAGCCCAGAAATCAATGGCATCC
66 CCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCC
* *
943586 TTTTAAAGCCCACAAG-TAGGTGGCAACCTTCTCTAAAGCCCACA
1 TTTCAAAGCCCACAAGTTA-GTGGCATCCTT-TC-AAAGCCCACA
943630 CAAGTTGGTG
Statistics
Matches: 335, Mismatches: 44, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
111 2 0.01
112 25 0.07
113 4 0.01
114 131 0.39
115 24 0.07
116 31 0.09
117 6 0.02
118 41 0.12
119 25 0.07
120 17 0.05
121 27 0.08
122 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (114 bp):
TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAG
CCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:943448 original size:60 final size:57
Alignment explanation
Indices: 943121--943647 Score: 485
Period size: 58 Copynumber: 9.1 Consensus size: 57
943111 TCAATACAAC
* * *
943121 CCTTTTCAAAGCCCACAAGTTAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCAT
1 CCTTCTCAAAGCCCACAAGTCAGTGGCAT-CTTCTCAAAGCCCACAAGTCAGTGGCAA
* * *
943178 CCTTCTAAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCAT
1 CCTTCTCAAAGCCCACAAGTCAGTGGCAT-CTTCTCAAAGCCCACAAGTCAGTGGCAA
* *
943236 CCTT-TCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAATGGCAT
1 CCTTCTCAAAGCCCACAAGTCAGTGGCAT-CTTCTCAAAGCCCACAAGTCAGTGGCAA
*
943292 CCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTCTCAAAGCCCACAAGTCAGTGGCAT-CTTCTCAAAGCCCACAAGTCAGTGGCAA
* * * * **
943350 CCTTCTTAAAGCCCACAAGTTAATGGCATTCTTCTCAAAGCCCACACAAATTGGTGGCAA
1 CCTTCTCAAAGCCCACAAGTCAGTGGCA-TCTTCTCAAAG-CC-CACAAGTCAGTGGCAA
* * * * * *
943410 CCTCTCTCAAAGTCCACAAGTCAGCGGTATCTTTTCAAAGCCTACACAAGTCGGTGGTAA
1 CCT-TCTCAAAGCCCACAAGTCAGTGGCATCTTCTCAAAGCC--CACAAGTCAGTGGCAA
* * * * * *
943470 TCTCTCTCAAAGCCCACAAGTTAGTGGCACCCTT-TTAAAGCCCACAAGTTAGTGGCAC
1 CCT-TCTCAAAGCCCACAAGTCAGTGGCA-TCTTCTCAAAGCCCACAAGTCAGTGGCAA
* * ** * * * *
943528 CCTT-TCAAAGCCCACAAGTTAGTGGCACCCTT-TTGAAGCCCAGAAATCAATGGCAT
1 CCTTCTCAAAGCCCACAAGTCAGTGGCA-TCTTCTCAAAGCCCACAAGTCAGTGGCAA
* * **
943584 CCTT-TTAAAGCCCACAAGT-AGGTGGCAACCTTCTCTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTCAAAGCCCACAAGTCA-GTGGC-ATCTTCTC-AAAG-CC-CACAAGTCAGTGGCAA
943644 CCTT
1 CCTT
943648 TCTAAACCCA
Statistics
Matches: 403, Mismatches: 52, Indels: 27
0.84 0.11 0.06
Matches are distributed among these distances:
55 1 0.00
56 99 0.25
57 88 0.22
58 102 0.25
59 7 0.02
60 84 0.21
61 22 0.05
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (57 bp):
CCTTCTCAAAGCCCACAAGTCAGTGGCATCTTCTCAAAGCCCACAAGTCAGTGGCAA
Found at i:943483 original size:32 final size:32
Alignment explanation
Indices: 943382--943490 Score: 95
Period size: 30 Copynumber: 3.6 Consensus size: 32
943372 ATGGCATTCT
* * * * *
943382 TCTCAAAGCCCACACAAATTGGTGGCAACCTC
1 TCTCAAAGCCTACACAAGTCGGTGGTAATCTC
* * *
943414 TCTCAAAG--TCCACAAGTCAGCGGT-ATCT-
1 TCTCAAAGCCTACACAAGTCGGTGGTAATCTC
*
943442 TTTCAAAGCCTACACAAGTCGGTGGTAATCTC
1 TCTCAAAGCCTACACAAGTCGGTGGTAATCTC
943474 TCTCAAAGCC--CACAAGT
1 TCTCAAAGCCTACACAAGT
943491 TAGTGGCACC
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
28 7 0.12
29 3 0.05
30 29 0.48
31 4 0.07
32 17 0.28
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (32 bp):
TCTCAAAGCCTACACAAGTCGGTGGTAATCTC
Found at i:944567 original size:20 final size:20
Alignment explanation
Indices: 944542--944665 Score: 90
Period size: 20 Copynumber: 5.8 Consensus size: 20
944532 TTTTACCTAG
944542 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
944562 ATGTATCGATAGATTCTGTCTTCTACCCA
1 ATGTATCGATACA---T-T-TT-T---CA
944591 AATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * *
944612 ATGTATCAATACA-TGTTGA
1 ATGTATCGATACATTTTTCA
944631 ATGTATCGATACATTCTTT-A
1 ATGTATCGATACATT-TTTCA
*
944651 ATGTATCAATACATT
1 ATGTATCGATACATT
944666 CTATTTTTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
19 16 0.19
20 40 0.48
21 4 0.05
23 1 0.01
24 2 0.02
25 4 0.05
26 2 0.02
27 1 0.01
29 2 0.02
30 12 0.14
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:944666 original size:20 final size:20
Alignment explanation
Indices: 944591--944667 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
944581 CTTCTACCCA
*
944591 AATGTATCGATACATT-TTT
1 AATGTATCAATACATTCTTT
* *
944610 CAATGTATCAATACA-TGTTG
1 -AATGTATCAATACATTCTTT
*
944630 AATGTATCGATACATTCTTT
1 AATGTATCAATACATTCTTT
944650 AATGTATCAATACATTCT
1 AATGTATCAATACATTCT
944668 ATTTTTTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 14 0.29
20 35 0.71
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (20 bp):
AATGTATCAATACATTCTTT
Found at i:947842 original size:42 final size:42
Alignment explanation
Indices: 947787--947905 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
947777 TTCTTCTCTC
* *
947787 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
947829 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
947871 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
947906 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:947846 original size:12 final size:11
Alignment explanation
Indices: 947820--947895 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
947810 TCTATTATCT
*
947820 CTCCTGTCTCTC
1 CTCCTATCTC-C
947832 CTCCTATCATCC
1 CTCCTATC-TCC
947844 CTCCTATCT--
1 CTCCTATCTCC
*
947853 CTACTATCT--
1 CTCCTATCTCC
*
947862 CTCCTGTCTCTC
1 CTCCTATCTC-C
947874 CTCCTATCATCC
1 CTCCTATC-TCC
*
947886 CTCCTCTCTC
1 CTCCTATCTC
947896 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:947847 original size:24 final size:24
Alignment explanation
Indices: 947811--947896 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
947801 CCTCCTCTCT
* *
947811 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
947835 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
947856 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
947877 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
947897 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:947871 original size:18 final size:18
Alignment explanation
Indices: 947802--947872 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
947792 CCTGTCATCC
* *
947802 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
947820 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
947842 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
947862 CTCCTGTCTCT
1 CTCCTGTCTCT
947873 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:949245 original size:16 final size:16
Alignment explanation
Indices: 949224--949258 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
949214 TAAACCCAAA
*
949224 TAACAAGTTTTTATGC
1 TAACAAGTTTTTATCC
949240 TAACAAGTTTTTATCC
1 TAACAAGTTTTTATCC
949256 TAA
1 TAA
949259 TTCAATCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (16 bp):
TAACAAGTTTTTATCC
Found at i:957465 original size:21 final size:21
Alignment explanation
Indices: 957439--957480 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
957429 TCCTACCATC
*
957439 CCTCCTGTCTCTACTATCTCT
1 CCTCCTATCTCTACTATCTCT
* *
957460 CCTCCTATCTCTTCTTTCTCT
1 CCTCCTATCTCTACTATCTCT
957481 TTGAGGGCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.43, G:0.02, T:0.48
Consensus pattern (21 bp):
CCTCCTATCTCTACTATCTCT
Found at i:959488 original size:26 final size:27
Alignment explanation
Indices: 959430--959488 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
959420 AATGGAGTGG
*
959430 GTGGTTAGTTGCTGCCAGCAGCTGAAG
1 GTGGTTAGTTGCTGCCAGCAGCTGAAA
* *
959457 GTGGTTAGTTGCTGCC-GCTGTTGAAA
1 GTGGTTAGTTGCTGCCAGCAGCTGAAA
959483 GTGGTT
1 GTGGTT
959489 GCCACCATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.15, C:0.15, G:0.37, T:0.32
Consensus pattern (27 bp):
GTGGTTAGTTGCTGCCAGCAGCTGAAA
Found at i:960682 original size:101 final size:104
Alignment explanation
Indices: 960450--960699 Score: 301
Period size: 101 Copynumber: 2.4 Consensus size: 104
960440 CCTACGACAC
* *
960450 TAGTTTTAGAGATGACAAAGGTGCCAATGTGCTAATCCAAGGCCAGCAACATTGGTCTTAAAAAT
1 TAGTTTTAGAAATGACAAAGGTGCCAATGTGCTAATCCAAGGCCAGCAACATTGGTATTAAAAAT
* *
960515 GACAAAGGTGTTAATGTGCTGATCCAAGGCCAACGATAT
66 GACAAAGGTGCTAATGTGCTAATCCAAGGCCAACGATAT
** * * * * ** *
960554 TAGACTTA-AATATGATAAAAGCGCCAATGTG-T-AT-CAAGGCTAGTGACATTGGTATTAGAAA
1 TAGTTTTAGAA-ATGACAAAGGTGCCAATGTGCTAATCCAAGGCCAGCAACATTGGTATTAAAAA
* * *
960615 TGACAAAGGTGCTAATGTGTTAATCCAAGGCTAATGATAT
65 TGACAAAGGTGCTAATGTGCTAATCCAAGGCCAACGATAT
* *
960655 TGGTTTTAGAAATGACAAAGGTACCAATGTGCTAATCCAAGGCCA
1 TAGTTTTAGAAATGACAAAGGTGCCAATGTGCTAATCCAAGGCCA
960700 ATGATATTAA
Statistics
Matches: 117, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
101 78 0.67
102 5 0.04
103 4 0.03
104 30 0.26
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (104 bp):
TAGTTTTAGAAATGACAAAGGTGCCAATGTGCTAATCCAAGGCCAGCAACATTGGTATTAAAAAT
GACAAAGGTGCTAATGTGCTAATCCAAGGCCAACGATAT
Found at i:960703 original size:52 final size:52
Alignment explanation
Indices: 960455--960707 Score: 253
Period size: 52 Copynumber: 4.9 Consensus size: 52
960445 GACACTAGTT
* *** *
960455 TTAGAGATGACAAAGGTGCCAATGTGCTAATCCAAGGCCAGCAACATTGGTC
1 TTAGAAATGACAAAGGTGCCAATGTGCTAATCCAAGGCCAATGATATTGGTC
* ** * * * *
960507 TTAAAAATGACAAAGGTGTTAATGTGCTGATCCAAGGCCAACGATATTAGAC
1 TTAGAAATGACAAAGGTGCCAATGTGCTAATCCAAGGCCAATGATATTGGTC
* * * * * * *
960559 TTA-AATATGATAAAAGCGCCAATGTG-T-AT-CAAGGCTAGTGACATTGGTA
1 TTAGAA-ATGACAAAGGTGCCAATGTGCTAATCCAAGGCCAATGATATTGGTC
* * * *
960608 TTAGAAATGACAAAGGTGCTAATGTGTTAATCCAAGGCTAATGATATTGGTT
1 TTAGAAATGACAAAGGTGCCAATGTGCTAATCCAAGGCCAATGATATTGGTC
*
960660 TTAGAAATGACAAAGGTACCAATGTGCTAATCCAAGGCCAATGATATT
1 TTAGAAATGACAAAGGTGCCAATGTGCTAATCCAAGGCCAATGATATT
960708 AAGCTTTGAC
Statistics
Matches: 163, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 32 0.20
50 5 0.03
51 5 0.03
52 121 0.74
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (52 bp):
TTAGAAATGACAAAGGTGCCAATGTGCTAATCCAAGGCCAATGATATTGGTC
Found at i:960918 original size:80 final size:81
Alignment explanation
Indices: 960834--961005 Score: 240
Period size: 81 Copynumber: 2.1 Consensus size: 81
960824 ACATAGACAG
*
960834 GGTGCCAATGTGCTGATTCAAGGCTAGCGACATTAAGC-TT-GAGAAGAAGATTAAGACAGATGC
1 GGTGCCAATGTGCTGATTCAAGGCTAGCAACATTAAGCTTTAGAGAAGAAGATT-AGACAGATGC
* *
960897 CGCATGACTCAGTGCAA
65 CACATGACTCAGGGCAA
* ** * *
960914 GGTGCCAATGAGCTGATTCAAGGCTAGCAACATTGGGCTTTAGTGAAGAAGATTTGACAGATGCC
1 GGTGCCAATGTGCTGATTCAAGGCTAGCAACATTAAGCTTTAGAGAAGAAGATTAGACAGATGCC
*
960979 ACATGACTTAGGGCAA
66 ACATGACTCAGGGCAA
960995 GGTGCCAATGT
1 GGTGCCAATGT
961006 AATCAATTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 34 0.43
81 35 0.44
82 11 0.14
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (81 bp):
GGTGCCAATGTGCTGATTCAAGGCTAGCAACATTAAGCTTTAGAGAAGAAGATTAGACAGATGCC
ACATGACTCAGGGCAA
Found at i:961018 original size:81 final size:82
Alignment explanation
Indices: 960834--961026 Score: 207
Period size: 81 Copynumber: 2.4 Consensus size: 82
960824 ACATAGACAG
* * * * ** *
960834 GGTGCCAATGTGCTGATTCAAGGCTAGCGACATTAAGC-TT-GAGAAGAAGATTAAGACAGATGC
1 GGTGCCAATGAGCTAATTCAAGGCCAGCAACATTGGGCTTTAGTGAAGAAGATTAAGACAGATGC
* *
960897 CGCATGACTCAGTGCAA
66 CACATGACTCAGGGCAA
* * *
960914 GGTGCCAATGAGCTGATTCAAGGCTAGCAACATTGGGCTTTAGTGAAGAAGATT-TGACAGATGC
1 GGTGCCAATGAGCTAATTCAAGGCCAGCAACATTGGGCTTTAGTGAAGAAGATTAAGACAGATGC
*
960978 CACATGACTTAGGGCAA
66 CACATGACTCAGGGCAA
*
960995 GGTGCCAATGTA-ATCAATT-AAGGCCAGCAACA
1 GGTGCCAATG-AGCT-AATTCAAGGCCAGCAACA
961027 CTAGCTTAGA
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
80 34 0.35
81 48 0.49
82 15 0.15
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (82 bp):
GGTGCCAATGAGCTAATTCAAGGCCAGCAACATTGGGCTTTAGTGAAGAAGATTAAGACAGATGC
CACATGACTCAGGGCAA
Found at i:961099 original size:78 final size:79
Alignment explanation
Indices: 961012--961179 Score: 221
Period size: 79 Copynumber: 2.1 Consensus size: 79
961002 ATGTAATCAA
* *
961012 TTAAGGCCAGCAACACTA-GCTTAGAATGAAGGTTTTGACAAATCCCACCTAACTAAGGCAGAAT
1 TTAAGGCCAGCAACACTAGGCTTAGAAGGAAGGTTTTGACAAATCCCACATAACTAAGGCAGAAT
* *
961076 GTCAATGTGCTGAT
66 GCCAATGTGCTAAT
* * * * * * *
961090 TTAAGGCCAGCAACATTAGGCTTAGAAGGAAGGTTTTGATAAATGCCATATGACTAGGGTAGAAT
1 TTAAGGCCAGCAACACTAGGCTTAGAAGGAAGGTTTTGACAAATCCCACATAACTAAGGCAGAAT
961155 GCCAATGTGCTAAT
66 GCCAATGTGCTAAT
*
961169 TCAAGGCCAGC
1 TTAAGGCCAGC
961180 GGTGTGTGGG
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
78 17 0.22
79 60 0.78
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.24
Consensus pattern (79 bp):
TTAAGGCCAGCAACACTAGGCTTAGAAGGAAGGTTTTGACAAATCCCACATAACTAAGGCAGAAT
GCCAATGTGCTAAT
Found at i:961466 original size:31 final size:31
Alignment explanation
Indices: 961431--961569 Score: 140
Period size: 31 Copynumber: 4.4 Consensus size: 31
961421 ACTTGTGCAA
961431 ACTTTGGAAAGGATGCCATCAGCTTGTGTGG
1 ACTTTGGAAAGGATGCCATCAGCTTGTGTGG
* * * * *
961462 ACTTTGCAAAAGATGCCACCAACTCGTGTGG
1 ACTTTGGAAAGGATGCCATCAGCTTGTGTGG
**
961493 ACTTT-GACTGGGATTGTGCCATC-GACTTGTGTGG
1 ACTTTGGA-AAGGA---TGCCATCAG-CTTGTGTGG
961527 ACTTTGGAAAGGATGCCA-CAAGCTTGTGTGG
1 ACTTTGGAAAGGATGCCATC-AGCTTGTGTGG
961558 ACTTTGGAAAGG
1 ACTTTGGAAAGG
961570 TTTGGATACC
Statistics
Matches: 86, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
30 2 0.02
31 59 0.69
32 1 0.01
34 22 0.26
35 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (31 bp):
ACTTTGGAAAGGATGCCATCAGCTTGTGTGG
Found at i:961523 original size:96 final size:96
Alignment explanation
Indices: 961323--961563 Score: 261
Period size: 96 Copynumber: 2.4 Consensus size: 96
961313 CACCAGCTCA
* * *
961323 TGCAAGCTTTGAGAAAGGATGCCACCAGCTTGTGTGGACTTTGAAAAAGGTTTGGTTGCCACCGA
1 TGCAAACTTTG-GAAAGGATGCCA-CAGCTTGTGTGGACTTTGAAAAA-----GGATGCCACCAA
* *
961388 CTTGTGTGGACTTTGAAAAGGTTTGTGCCACTAACTTG
59 CTCGTGTGGACTTTGAAAAGGATTGTGCCACTAACTTG
*
961426 TGCAAACTTTGGAAAGGATGCCATCAGCTTGTGTGGACTTTGCAAAA-GATGCCACCAACTCGTG
1 TGCAAACTTTGGAAAGGATGCCA-CAGCTTGTGTGGACTTTGAAAAAGGATGCCACCAACTCGTG
*** *
961490 TGGACTTTGACTGGGATTGTGCCA-TCGACTTG
65 TGGACTTTGAAAAGGATTGTGCCACT-AACTTG
***
961522 TGTGGACTTTGGAAAGGATGCCACAAGCTTGTGTGGACTTTG
1 TGCAAACTTTGGAAAGGATGCCAC-AGCTTGTGTGGACTTTG
961564 GAAAGGTTTG
Statistics
Matches: 122, Mismatches: 14, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
95 2 0.02
96 76 0.62
102 34 0.28
103 10 0.08
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (96 bp):
TGCAAACTTTGGAAAGGATGCCACAGCTTGTGTGGACTTTGAAAAAGGATGCCACCAACTCGTGT
GGACTTTGAAAAGGATTGTGCCACTAACTTG
Found at i:961660 original size:36 final size:36
Alignment explanation
Indices: 961607--962009 Score: 202
Period size: 36 Copynumber: 11.8 Consensus size: 36
961597 TTGAATGGGG
*
961607 TGCCACCAACTCGTGTGGGCTTTGAAAAGGTTTGAT
1 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGAT
* * ** *
961643 TGCCACCGACTCATGTGGACTTTG--AA---TCAAG
1 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGAT
* * **
961674 TGCCACCGACTTGTGTGGACTTT-AACTGG---GA-
1 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGAT
* *
961705 TACCACCAACTCGTGTGGACTTTGAAAAGGTTTGGT
1 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGAT
*
961741 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGGT
1 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGAT
** * ** ** *
961777 TGCCACTGACTCATGTAAAC-TTGAATGGGTTTGGT
1 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGAT
* ** * ** * *
961812 TACCACTGACTCGTGTGAACTTTG-ACTGTTTTTGGT
1 TGCCACCAACTCGTGTGGACTTTGAAAAG-GTTTGAT
* * * *
961848 TGCCACCAACTTGTTTGGACTTTG-AATGG---G-G
1 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGAT
* **
961879 TGCCACCAACTCATGTGGACTTT-AACTGG---GA-
1 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGAT
* *
961910 TACCACCAACTCGTGTGGACTTTGAAAAGGTTTGGT
1 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGAT
* * * * * **
961946 TGCCACCGACTTGTATGGATTTTGGAAAGGTTTGGC
1 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGAT
** * *
961982 TGCCACTGACTTGTGTGAACTTTGAAAA
1 TGCCACCAACTCGTGTGGACTTTGAAAA
962010 AGATTGACAA
Statistics
Matches: 288, Mismatches: 61, Indels: 36
0.75 0.16 0.09
Matches are distributed among these distances:
31 89 0.31
32 10 0.03
34 2 0.01
35 34 0.12
36 153 0.53
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (36 bp):
TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGAT
Found at i:961883 original size:31 final size:32
Alignment explanation
Indices: 961848--961935 Score: 117
Period size: 31 Copynumber: 2.8 Consensus size: 32
961838 TGTTTTTGGT
* * *
961848 TGCCACCAACTTGTTTGGACTTTGAA-TGGGG
1 TGCCACCAACTCGTGTGGACTTTGAACTGGGA
*
961879 TGCCACCAACTCATGTGGACTTT-AACTGGGA
1 TGCCACCAACTCGTGTGGACTTTGAACTGGGA
*
961910 TACCACCAACTCGTGTGGACTTTGAA
1 TGCCACCAACTCGTGTGGACTTTGAA
961936 AAGGTTTGGT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
30 2 0.04
31 45 0.92
32 2 0.04
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (32 bp):
TGCCACCAACTCGTGTGGACTTTGAACTGGGA
Found at i:961959 original size:98 final size:97
Alignment explanation
Indices: 961591--961952 Score: 357
Period size: 98 Copynumber: 3.6 Consensus size: 97
961581 TTGATTTGTA
* * * * * *
961591 TGGACTTTGAATGGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGGTTTGATTGCCACCGACTCA
1 TGGACTTT-AATGGGATACCACCAACTCGTGTGGACTTTGAAAAGGTTTGGTTGCCACCAACTCG
*** **
961656 TGTGGACTTTGAATCAAGTGCCACCGACTTGTG
65 TGTGGACTTTGAATGGGGTGCCACCGACTCATG
961689 TGGACTTTAACTGGGATACCACCAACTCGTGTGGACTTTGAAAAGGTTTGGTTGCCACCAACTCG
1 TGGACTTTAA-TGGGATACCACCAACTCGTGTGGACTTTGAAAAGGTTTGGTTGCCACCAACTCG
* *
961754 TGTGGACTTTGAAAAGGTTTGGTTGCCACTGACTCATG
65 TGTGGACTTTG-AATGG---GG-TGCCACCGACTCATG
** * * ** * ** *
961792 TAAACTTGAATGGGTTTGGTTACCACTGACTCGTGTGAACTTTG-ACTGTTTTTGGTTGCCACCA
1 TGGACTTTAAT--G---GGATACCACCAACTCGTGTGGACTTTGAAAAG-GTTTGGTTGCCACCA
* * *
961856 ACTTGTTTGGACTTTGAATGGGGTGCCACCAACTCATG
60 ACTCGTGTGGACTTTGAATGGGGTGCCACCGACTCATG
961894 TGGACTTTAACTGGGATACCACCAACTCGTGTGGACTTTGAAAAGGTTTGGTTGCCACC
1 TGGACTTTAA-TGGGATACCACCAACTCGTGTGGACTTTGAAAAGGTTTGGTTGCCACC
961953 GACTTGTATG
Statistics
Matches: 212, Mismatches: 38, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
97 2 0.01
98 103 0.49
99 4 0.02
101 1 0.00
102 22 0.10
103 22 0.10
104 1 0.00
106 6 0.03
107 51 0.24
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (97 bp):
TGGACTTTAATGGGATACCACCAACTCGTGTGGACTTTGAAAAGGTTTGGTTGCCACCAACTCGT
GTGGACTTTGAATGGGGTGCCACCGACTCATG
Found at i:963102 original size:20 final size:20
Alignment explanation
Indices: 963074--963148 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
963064 TTTTACCCTG
963074 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
963094 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
963114 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
*
963134 ATGTATCAATACATT
1 ATGTATCGATACATT
963149 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:963146 original size:40 final size:39
Alignment explanation
Indices: 963074--963151 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
963064 TTTTACCCTG
* * *
963074 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCAATACAT-TATGA
* *
963114 ATGTATCGATATATTCTACAATGTATCAATACATTATG
1 ATGTATCGATACATTCTACAATATATCAATACATTATG
963152 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCAATACATTATGA
Found at i:970118 original size:23 final size:24
Alignment explanation
Indices: 970066--970111 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
970056 CCTTTAAATG
*
970066 ACAAAAAAAGTCAAAAGCAAAAGC
1 ACAAAAAAAGTCAAAAGAAAAAGC
*
970090 ACAAAAAAA-TGAAAAGAAAAAG
1 ACAAAAAAAGTCAAAAGAAAAAG
970112 TGCAAAAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.72, C:0.11, G:0.13, T:0.04
Consensus pattern (24 bp):
ACAAAAAAAGTCAAAAGAAAAAGC
Found at i:970410 original size:9 final size:9
Alignment explanation
Indices: 970396--970420 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
970386 CTAATCCTAA
970396 AAAAAAACC
1 AAAAAAACC
970405 AAAAAAACC
1 AAAAAAACC
970414 AAAAAAA
1 AAAAAAA
970421 AAACCTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACC
Found at i:971511 original size:27 final size:27
Alignment explanation
Indices: 971469--971768 Score: 377
Period size: 27 Copynumber: 10.9 Consensus size: 27
971459 TGGCATTTCT
*
971469 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
971497 TTTTAAGTCCACAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
971524 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
971552 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
971579 TTTTAAAGTCCACAACTCCGTGGCA-CC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
971606 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
971634 TTTTAAGTCCACAACTCCGTGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
971661 TTTTAAGTCTACAACTCTGTAGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
971688 TTTTAAGTCCACAAGTCAGTGGCACTCC
1 TTTTAAGTCCACAACTCCGTGGCAC-CC
** * *
971716 TTCAAAGTCCACAAGTCAGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * * *
971743 TTTCAAAGCCCACAAGTCAGTGGCAC
1 TTT-TAAGTCCACAACTCCGTGGCAC
971769 TCTTCTCAAA
Statistics
Matches: 251, Mismatches: 16, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
27 149 0.59
28 102 0.41
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:971538 original size:55 final size:55
Alignment explanation
Indices: 971469--971767 Score: 408
Period size: 55 Copynumber: 5.5 Consensus size: 55
971459 TGGCATTTCT
* *
971469 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
971524 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
971579 TTTTAAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * *
971634 TTTT-AAGTCCACAACTCCGTGGCA-CCTTTTTAAGTCTACAACTCTGTAGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCACCC
* * ** * *
971688 TTTT-AAGTCCACAAGTCAGTGGCACTCCTTCAAAGTCCACAAGTCAGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCA-TCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * *
971743 TTTCAAAGCCCACAAGTCAGTGGCA
1 TTTTAAAGTCCACAACTCCGTGGCA
971768 CTCTTCTCAA
Statistics
Matches: 224, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
54 70 0.31
55 133 0.59
56 21 0.09
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (55 bp):
TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
Found at i:971571 original size:82 final size:81
Alignment explanation
Indices: 971469--971804 Score: 395
Period size: 82 Copynumber: 4.0 Consensus size: 81
971459 TGGCATTTCT
*
971469 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAAGTC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCA-CCTTTTAAAGTC
971534 CACAACTCCGTGGCATCC
64 CACAACTCCGTGGCATCC
*
971552 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTAAAGTCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCTGTGGCACCTTTTAAAGTCC
*
971617 ACAACTCCGTGGCACCC
65 ACAACTCCGTGGCATCC
* * *
971634 TTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCTACAACTCTGTAGCACCCTTTT-AAGTCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCA-CCTTTTAAAGTCC
* *
971698 ACAAGTCAGTGGCACTCC
65 ACAACTCCGTGGCA-TCC
** * * * * * * * *
971716 TTCAAAGTCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTCTCAAAGC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCTGTGGCAC-CTT-TTAAAGT
* *
971781 CAACACAAGTCAGTGGCATCC
63 C--CACAACTCCGTGGCATCC
971802 TTT
1 TTT
971805 CAAAGCCCAC
Statistics
Matches: 220, Mismatches: 24, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
81 35 0.16
82 119 0.54
83 41 0.19
84 1 0.00
85 4 0.02
86 5 0.02
87 15 0.07
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (81 bp):
TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTTTAAAGTCCA
CAACTCCGTGGCATCC
Found at i:971768 original size:28 final size:28
Alignment explanation
Indices: 971473--973152 Score: 817
Period size: 28 Copynumber: 57.4 Consensus size: 28
971463 ATTTCTTTTT
* * * *
971473 AAAGTCCACAACTCCGTGGCATCCTTT-
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * * * * *
971500 TAAGTCCACAACTCTGTGGCATCCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * * *
971528 AAAGTCCACAACTCCGTGGCATCCTTT-
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * * * *
971555 TAAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * * *
971583 AAAGTCCACAACTCCGTGGCA-CCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
971610 AAAGTCCACAACTCCGTGGCACCCTTT-
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * * * *
971637 TAAGTCCACAACTCCGTGGCA-CCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * * * * *
971664 TAAGTCTACAACTCTGTAGCACCCTTT-
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* *
971691 TAAGTCCACAAGTCAGTGGCACTCC-TTC
1 AAAGCCCACAAGTCAGTGGCAC-CCTTTC
*
971719 AAAGTCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
*
971747 AAAGCCCACAAGTCAGTGGCACTCTTCTC
1 AAAGCCCACAAGTCAGTGGCACCCTT-TC
*
971776 AAAGCCAACACAAGTCAGTGGCATCCTTTC
1 AAAGCC--CACAAGTCAGTGGCACCCTTTC
*
971806 AAAGCCCACACAAGTCAATGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ACCC-TTTC
* ** * ** *
971838 AATGTTCACAAGTCGGTGGCTTCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
*
971866 AAAGCCCACAAGTCAGTGGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* *
971894 AAAGCCCACGAGTCAGTGGCACTCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
971922 AAAGCCCACAAGTTAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* *
971950 AAGGCCCACGCAAGTCAGTGGCACCTTTTC
1 AAAGCCCA--CAAGTCAGTGGCACCCTTTC
* *
971980 AAA-CCCACGAGTCAGTGGCACTCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* *
972007 AAAGCCCACAAGTTAGTGGCA-TC-TTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
** * *
972033 AAAGCCCACACAAGTTGGGGGCAACTCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-AC-CCTTTC
* * *
972065 AAAGCCCACACAAGTCGGGGGCAACTCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-AC-CCTTTC
* * *
972097 AAAGCCCACACAAGTCGGGGGCAACTCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-AC-CCTTTC
**
972129 AAAGCCCACACAAGTTGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ACCC-TTTC
** **
972161 AAAGCCCACACAAGTTGGTGGCAACTTATTTC
1 AAAG-CC-CACAAGTCAGTGGC-AC-CCTTTC
** * *
972193 AAAGCCCACACAAGTTGGTGGCAACCTATTTT
1 AAAG-CC-CACAAGTCAGTGGC-ACC-CTTTC
** ***
972225 AAAGCCTACACAAGTTGGTGGCAAGTTATTTC
1 AAAGCC--CACAAGTCAGTGGC-A-CCCTTTC
** *
972257 AAAGCCCACACAAGTTGGTGGCAACCCACTTC
1 AAAG-CC-CACAAGTCAGTGGC-ACCC-TTTC
** * *
972289 AAAGCCCACACAAGTTGGTGGCAACTTACTTC
1 AAAG-CC-CACAAGTCAGTGGCACCCT--TTC
** * *
972321 AAAGCCCACACAAGTTGGTGGCAACTTACTTC
1 AAAG-CC-CACAAGTCAGTGGCACCCT--TTC
** * * *
972353 AAAGCCCACACAAGTTGGTAGCAACTCATTTG
1 AAAG-CC-CACAAGTCAGTGGC-AC-CCTTTC
**
972385 AAAGCCCACACAAGTTGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ACCC-TTTC
** **
972417 AAAGCCCACACAAGTTGGTGGCAACTTATTTC
1 AAAG-CC-CACAAGTCAGTGGC-AC-CCTTTC
** *
972449 AAAGCCCAGACAAGTTGGTGGCAACCCATTTT
1 AAAGCCC--ACAAGTCAGTGGC-ACCC-TTTC
** * *
972481 AAAGCCTACACAAGTTGGTGGCAAGTCATTTC
1 AAAGCC--CACAAGTCAGTGGC-A-CCCTTTC
** *
972513 AAAGCCCACACAAGTTGGTGGCAACCTATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ACC-CTTTC
** *
972545 AAAGCCCACACAAGTTGGTGGCAACCCATTTG
1 AAAG-CC-CACAAGTCAGTGGC-ACCC-TTTC
* *
972577 AAAGCCCATACAAGTCAGTGGGAACTCATTTC
1 AAAGCCC--ACAAGTCAGT-GGCAC-CCTTTC
*
972609 AAAGCCCACACAAGGT-GGTGGCAACCCATTTC
1 AAAG-CC-CACAA-GTCAGTGGC-ACCC-TTTC
* * *
972641 AAAGCCCACACAAGTCGGTGGCATCTTTTC
1 AAAG-CC-CACAAGTCAGTGGCACCCTTTC
* *
972671 AAAGCCCACAAGTCAGTGGTATCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
** * *
972699 AAAGCCCGTAAGTCTGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
*
972727 AAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-ACCC-TTTC
* * ** *
972759 AAAGCTCACAAGTCGGTGGCTTCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
972787 AAAGCCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
*
972815 AAAGGCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* *
972843 CAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
972871 CAAG--C-C----CA-TGGCAACTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
972891 AAAGCCCACGAGTCAGTAGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
972919 AAAGCCCACAAGTCGGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
*
972947 AAAGCCCACAAGTTAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * * * *
972975 AAAACCCACAAGTCAATGGTATCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * * *
973003 CAAGCCCATAAGTCAGTGGCAACTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
** * *
973031 AAAGCCCATGAGTCAGTGGCAACTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * * *
973059 AAAGCCCCCGAGTCAGTGGCATCCTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
*
973087 AAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* *
973115 AAAGCCCACAAGTCAGTGGCA-TCTCTTG
1 AAAGCCCACAAGTCAGTGGCACCCT-TTC
973143 AAAGCCCACA
1 AAAGCCCACA
973153 GAAGTTAGTG
Statistics
Matches: 1418, Mismatches: 167, Indels: 135
0.82 0.10 0.08
Matches are distributed among these distances:
20 13 0.01
21 2 0.00
22 1 0.00
23 1 0.00
25 1 0.00
26 13 0.01
27 165 0.12
28 549 0.39
29 19 0.01
30 87 0.06
31 45 0.03
32 505 0.36
33 13 0.01
34 4 0.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTC
Found at i:971838 original size:32 final size:32
Alignment explanation
Indices: 971697--972852 Score: 950
Period size: 32 Copynumber: 38.1 Consensus size: 32
971687 CTTTTAAGTC
* * *
971697 CACAAGTCAGTGGC-ACTC-CTTCAAAG-TC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
971725 CACAAGTCAGTGGC-AC-CCTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
971753 CACAAGTCAGTGGC-ACTC-TTCTCAAAGCCAA
1 CACAAGTCGGTGGCAACTCATT-TCAAAGCCCA
* *
971784 CACAAGTCAGTGGC-A-TCCTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
** * * **
971814 CACAAGTCAATGGCAACCCATTTCAATG--TT
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
971844 CACAAGTCGGTGGC--TTCTTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * *
971872 CACAAGTCAGTGGC-AC-CCTTTTAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
971900 CACGAGTCAGTGGC-ACTC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
** * *
971928 CACAAGTTAGTGGC-A-TCTTTTCAAGGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * *
971958 CGCAAGTCAGTGGC-AC-CTTTTCAAA--CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
971985 CACGAGTCAGTGGC-ACTC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
**
972013 CACAAGTTAGTGGC-A-TC--TTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
972041 CACAAGTTGGGGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
*
972073 CACAAGTCGGGGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
*
972105 CACAAGTCGGGGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
972137 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
972169 CACAAGTTGGTGGCAACTTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * *
972201 CACAAGTTGGTGGCAAC-CTATTTTAAAGCCTA
1 CACAAGTCGGTGGCAACTC-ATTTCAAAGCCCA
* * *
972233 CACAAGTTGGTGGCAAGTTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * *
972265 CACAAGTTGGTGGCAACCCACTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * *
972297 CACAAGTTGGTGGCAACTTACTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * *
972329 CACAAGTTGGTGGCAACTTACTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * *
972361 CACAAGTTGGTAGCAACTCATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
972393 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
972425 CACAAGTTGGTGGCAACTTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * * * *
972457 GACAAGTTGGTGGCAACCCATTTTAAAGCCTA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
972489 CACAAGTTGGTGGCAAGTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
*
972521 CACAAGTTGGTGGCAAC-CTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTC-ATTTCAAAGCCCA
* * *
972553 CACAAGTTGGTGGCAACCCATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * *
972585 TACAAGTCAGTGGGAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
*
972617 CACAAGGT-GGTGGCAACCCATTTCAAAGCCCA
1 CACAA-GTCGGTGGCAACTCATTTCAAAGCCCA
*
972649 CACAAGTCGGTGGC-A-TCTTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * *
972677 CACAAGTCAGTGG-TA-TCCTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
** * *
972705 CGTAAGTCTGTGGC-A-TCCTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
972735 CACAAGTCGGTGGCAACCCATTTCAAAG--CT
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
972765 CACAAGTCGGTGGC--TTCTTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * *
972793 CACAAGTCAGTGGC-AC-CCTTTCAAAG-GC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * *
972821 CACAAGTCAGTGGC-AC-CCTTTCCAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
972851 CA
1 CA
972853 AGTCAGTGGC
Statistics
Matches: 982, Mismatches: 107, Indels: 76
0.84 0.09 0.07
Matches are distributed among these distances:
26 7 0.01
27 28 0.03
28 251 0.26
29 17 0.02
30 97 0.10
31 23 0.02
32 556 0.57
33 3 0.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
Found at i:972882 original size:20 final size:20
Alignment explanation
Indices: 972859--972898 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
972849 CACAAGTCAG
* *
972859 TGGCATCCTTTCCAAGCCCA
1 TGGCAACCTTTCAAAGCCCA
*
972879 TGGCAACTTTTCAAAGCCCA
1 TGGCAACCTTTCAAAGCCCA
972899 CGAGTCAGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.25
Consensus pattern (20 bp):
TGGCAACCTTTCAAAGCCCA
Found at i:972965 original size:104 final size:104
Alignment explanation
Indices: 972781--973094 Score: 306
Period size: 104 Copynumber: 2.9 Consensus size: 104
972771 TCGGTGGCTT
* * *
972781 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGGCCACAAGTCAGTGGCACCCTTTCCAA
1 CTTTTCAAAGCCCACAAGTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
*
972846 GCCCACAAGTCAGTGGCATCCTTTCCAAGCCCATGGCAA
66 GCCCACAAGTCAGTGGCACCCTTTCCAAGCCCATGGCAA
* * * * *
972885 CTTTTCAAAGCCCACGAGTCAGTAGCATCCTTTCAAAGCCCACAAGTCGGTGGCATCTTTTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* * * * *
972950 GCCCACAAGTTAGTGGCACCCTTTCAAAACCCACAAGTCAATGGTAT
66 GCCCACAAGTCAGTGGCACCCTTT-------C-CAAGCCCATGGCAA
* * * * * ** * *
972997 CTTTTCCAAGCCCATAAGTCAGTGGCAACTTTTCAAAGCCCATGAGTCAGTGGCAACTTTTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* * *
973062 GCCCCCGAGTCAGTGGCATCC-TTCCAAAGCCCA
66 GCCCACAAGTCAGTGGCACCCTTTCC-AAGCCCA
973095 CAAGTCAGTG
Statistics
Matches: 171, Mismatches: 30, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
103 1 0.01
104 85 0.50
111 3 0.02
112 82 0.48
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.23
Consensus pattern (104 bp):
CTTTTCAAAGCCCACAAGTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
GCCCACAAGTCAGTGGCACCCTTTCCAAGCCCATGGCAA
Found at i:978240 original size:42 final size:42
Alignment explanation
Indices: 978185--978303 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
978175 TTCTTCTCTC
* *
978185 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
978227 CTCCTCCTATCATCCCTTCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
978269 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
978304 TTGAGGGCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.08, C:0.45, G:0.03, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:980009 original size:45 final size:45
Alignment explanation
Indices: 979958--980166 Score: 165
Period size: 45 Copynumber: 4.5 Consensus size: 45
979948 AAATCCGATA
* * *
979958 TCGCTGGCATTGAATCAGCATATTGGCACCTTTATTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCACCTTTATTAGCTCAATG
* * * *
980003 TCGCTGGCCTTGAAACAGCACATTTTCGA-TTTTCCCTTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTC-ACCTTT--ATTAGCTCAATG
* * *
980050 TTGCTGGCCTTGAATCAGCACATTGTC-CACTTTACTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCAC-CTTTATTAGCTCAATG
* * * *
980095 TCACTGGCCTTG-ATCAGCACATTAGTCCACTTTTCCCTTAG-TCCAAAG
1 TCGCTGGCCTTGAATCAGCACATT-GT-CACCTTT--ATTAGCT-CAATG
**
980143 TCGCTGGCCTTGAATTGGCACATT
1 TCGCTGGCCTTGAATCAGCACATT
980167 AGTAATCGTC
Statistics
Matches: 128, Mismatches: 24, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
44 11 0.09
45 46 0.36
46 5 0.04
47 39 0.30
48 18 0.14
49 9 0.07
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (45 bp):
TCGCTGGCCTTGAATCAGCACATTGTCACCTTTATTAGCTCAATG
Found at i:980056 original size:47 final size:47
Alignment explanation
Indices: 979992--980166 Score: 196
Period size: 47 Copynumber: 3.7 Consensus size: 47
979982 GGCACCTTTA
* * *
979992 TTAGCTCAATGTCGCTGGCCTTGAAACAGCACATTTTCGATTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCATTTTCCC
* * *
980039 TTAGCTCAATGTTGCTGGCCTTGAATCAGCACATTGTCCACTTT-AC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCATTTTCCC
* *
980085 -TAGCCCAATGTCACTGGCCTTG-ATCAGCACATTAGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATT-GTCCA-TTTTCCC
* **
980132 TTAG-TCCAAAGTCGCTGGCCTTGAATTGGCACATT
1 TTAGCT-CAATGTCGCTGGCCTTGAATCAGCACATT
980167 AGTAATCGTC
Statistics
Matches: 106, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
44 11 0.10
45 24 0.23
46 4 0.04
47 40 0.38
48 18 0.17
49 9 0.08
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.33
Consensus pattern (47 bp):
TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCATTTTCCC
Found at i:980164 original size:93 final size:92
Alignment explanation
Indices: 979958--980166 Score: 244
Period size: 92 Copynumber: 2.3 Consensus size: 92
979948 AAATCCGATA
* * * * * *
979958 TCGCTGGCATTGAATCAGCATATTG-GCACCTTTATTAGCTCAATGTCGCTGGCCTTGAAACAGC
1 TCGCTGGCCTTGAATCAGCACATTGTCCA-CTTTACTAGCCCAATGTCACTGGCCTTGAAACAGC
* * *
980022 ACATTTTCGATTTTCCCTTAGCTCAATG
65 ACATTGTCCATTTTCCCTTAGCTCAAAG
* *
980050 TTGCTGGCCTTGAATCAGCACATTGTCCACTTTACTAGCCCAATGTCACTGGCCTTG-ATCAGCA
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTACTAGCCCAATGTCACTGGCCTTGAAACAGCA
980114 CATTAGTCCACTTTTCCCTTAG-TCCAAAG
66 CATT-GTCCA-TTTTCCCTTAGCT-CAAAG
**
980143 TCGCTGGCCTTGAATTGGCACATT
1 TCGCTGGCCTTGAATCAGCACATT
980167 AGTAATCGTC
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
91 10 0.10
92 51 0.52
93 38 0.38
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (92 bp):
TCGCTGGCCTTGAATCAGCACATTGTCCACTTTACTAGCCCAATGTCACTGGCCTTGAAACAGCA
CATTGTCCATTTTCCCTTAGCTCAAAG
Found at i:980573 original size:20 final size:20
Alignment explanation
Indices: 980545--980619 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
980535 TTTTACCCTG
980545 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
980565 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
980585 ATGTATCGATATATTCTGCA
1 ATGTATCGATACATTTTTCA
980605 ATGTATCGATACATT
1 ATGTATCGATACATT
980620 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:980612 original size:40 final size:39
Alignment explanation
Indices: 980545--980622 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
980535 TTTTACCCTG
* *
980545 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTGCAATATATCGATACAT-TATGA
* *
980585 ATGTATCGATATATTCTGCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTGCAATATATCGATACATTATG
980623 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTGCAATATATCGATACATTATGA
Found at i:986759 original size:31 final size:31
Alignment explanation
Indices: 986716--986836 Score: 125
Period size: 31 Copynumber: 3.7 Consensus size: 31
986706 TATGGTTAGT
*
986716 TGCCAACAACTCGTGTGGACTTTAACTAGGA
1 TGCCACCAACTCGTGTGGACTTTAACTAGGA
* * * *
986747 TGCCACCCACTCGTGTAGACTTTAATTGGGA
1 TGCCACCAACTCGTGTGGACTTTAACTAGGA
* * *
986778 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGGT
1 TGCCACCAACTCGTGTGGACTTT---AA--CTAGGA
986814 TGCCACCAACTCGTGTGGACTTT
1 TGCCACCAACTCGTGTGGACTTT
986837 GAAAAAGGTT
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
31 47 0.62
34 2 0.03
36 27 0.36
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (31 bp):
TGCCACCAACTCGTGTGGACTTTAACTAGGA
Found at i:986825 original size:36 final size:37
Alignment explanation
Indices: 986778--986848 Score: 135
Period size: 36 Copynumber: 1.9 Consensus size: 37
986768 TTAATTGGGA
986778 TGCCACCAACTCGTGTGGACTTTG-AAAAGGTTTGGT
1 TGCCACCAACTCGTGTGGACTTTGAAAAAGGTTTGGT
986814 TGCCACCAACTCGTGTGGACTTTGAAAAAGGTTTG
1 TGCCACCAACTCGTGTGGACTTTGAAAAAGGTTTG
986849 ACATTGGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 24 0.71
37 10 0.29
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (37 bp):
TGCCACCAACTCGTGTGGACTTTGAAAAAGGTTTGGT
Found at i:993189 original size:155 final size:156
Alignment explanation
Indices: 992944--993227 Score: 392
Period size: 155 Copynumber: 1.8 Consensus size: 156
992934 TCCTAGTAAC
* *
992944 CCTATCCTAATTGCACAACTTTGGCATAAAAGCATCCAAGTGACAACCTAAGACTCAATTCTAAG
1 CCTATCCTAAATGCACAACTTTAGCATAAAAGCATCCAAGTGACAACCTAAGACTCAATTCTAAG
** * *
993009 AAAATTACAAAAATGCCTTTGGGGTATG-C-TTGACATGAAAGTATCCCAATAACCCTAAAGGAG
66 AAAATTACAAAAATGCCCCTAGGGTATGCCTTTGACATGAAAGTACCCCAATAACCCTAAAGGAG
993072 TTTAAAATGATCATAAATAGGATGAA
131 TTTAAAATGATCATAAATAGGATGAA
* ** *** *
993098 CCTATCCTAAATGCACACCTTTAGCATAAAAAGCATCCTGGTGACAACCTAAGACTTGGTTCTAG
1 CCTATCCTAAATGCACAACTTTAGCAT-AAAAGCATCCAAGTGACAACCTAAGACTCAATTCTAA
** * *
993163 GAAAATTATGAAAATGCCCCTAGGGTATGCCTTTGACATGAAATTACCCCGATAACCCTAAAGGA
65 GAAAATTACAAAAATGCCCCTAGGGTATGCCTTTGACATGAAAGTACCCCAATAACCCTAAAGGA
993228 CTTAATATAA
Statistics
Matches: 110, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
154 24 0.22
155 55 0.50
156 1 0.01
157 30 0.27
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (156 bp):
CCTATCCTAAATGCACAACTTTAGCATAAAAGCATCCAAGTGACAACCTAAGACTCAATTCTAAG
AAAATTACAAAAATGCCCCTAGGGTATGCCTTTGACATGAAAGTACCCCAATAACCCTAAAGGAG
TTTAAAATGATCATAAATAGGATGAA
Found at i:993709 original size:165 final size:164
Alignment explanation
Indices: 993362--993818 Score: 614
Period size: 165 Copynumber: 2.8 Consensus size: 164
993352 TGAAAAACCA
* * * *
993362 AGAGGATACGAAGAGTCTTGAAAATTTCTATACTCTTATGGAAGGCCAT-GAGAATAATAGAAAT
1 AGAGGATACGAAAAGTTTTGAAAATTTCTTTAC-CTTACGGAAGGCCATAG-GAATAATAGAAAT
* *
993426 CTTTAAAAATGACTAAAATGATGATTTTACCTCTAAAAACTAAAATTTGCTATTTAATCCTTAAA
64 CTTTAAAAATGACTAAAATGATGATTTTACCT-TTAAAACTAAAATTTGCTATTTAATCCCTAAA
* * ** *
993491 CTTTTGAAAATTTCATTTCTTACCCGATGGAAAATTG
128 CTTTTAAAAATTTCATTTCTTACCCAACAGAAAACTG
* * *
993528 AGAAGATACGAAAAGTTTTAAAAATTTCTTTATCCTTACGAAAGGCCATAGGAATAATAGAAATC
1 AGAGGATACGAAAAGTTTTGAAAATTTCTTTA-CCTTACGGAAGGCCATAGGAATAATAGAAATC
* * * * *
993593 ATTATAAATGACTAAAATGTTGATTTTATCTTTAAAACTAAAATTTGGTATTTAATCCCTAAACT
65 TTTAAAAATGACTAAAATGATGATTTTACCTTTAAAACTAAAATTTGCTATTTAATCCCTAAACT
**
993658 TTTAAAAATTTCATTT-TGTACTTAACAGAAAACTG
130 TTTAAAAATTTCATTTCT-TACCCAACAGAAAACTG
* *
993693 AGAGGATATGAAAAGTTTTGAAAATTT-TTGTACCCCTACGGAAGGCCATAGGAATAATAGAAAT
1 AGAGGATACGAAAAGTTTTGAAAATTTCTT-TA-CCTTACGGAAGGCCATAGGAATAATAGAAAT
993757 CTTTAAAAATGACTAAAATGATGATTTTACCTTTAAAAACTAAAATTTGCTATTTAATCCCT
64 CTTTAAAAATGACTAAAATGATGATTTTACCTTT-AAAACTAAAATTTGCTATTTAATCCCT
993819 GGTGTTTGGC
Statistics
Matches: 254, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
164 3 0.01
165 142 0.56
166 107 0.42
167 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (164 bp):
AGAGGATACGAAAAGTTTTGAAAATTTCTTTACCTTACGGAAGGCCATAGGAATAATAGAAATCT
TTAAAAATGACTAAAATGATGATTTTACCTTTAAAACTAAAATTTGCTATTTAATCCCTAAACTT
TTAAAAATTTCATTTCTTACCCAACAGAAAACTG
Found at i:1000760 original size:18 final size:19
Alignment explanation
Indices: 1000739--1000795 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
1000729 TCTTCTCCTC
1000739 CTATCATCTCTC-ATCTCT
1 CTATCATCTCTCTATCTCT
*
1000757 CTATTATCTCTCCTATCTCT
1 CTATCATCTCT-CTATCTCT
1000777 ACTATC-TCTC-CTATCTCT
1 -CTATCATCTCTCTATCTCT
1000795 C
1 C
1000796 CCTCCTATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
17 1 0.03
18 18 0.53
19 1 0.03
20 10 0.29
21 4 0.12
ACGTcount: A:0.16, C:0.39, G:0.00, T:0.46
Consensus pattern (19 bp):
CTATCATCTCTCTATCTCT
Found at i:1000766 original size:9 final size:9
Alignment explanation
Indices: 1000754--1000794 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
1000744 ATCTCTCATC
*
1000754 TCTCTATTA
1 TCTCTACTA
*
1000763 TCTCTCCTA
1 TCTCTACTA
1000772 TCTCTACTA
1 TCTCTACTA
*
1000781 TCTCTCCTA
1 TCTCTACTA
1000790 TCTCT
1 TCTCT
1000795 CCCTCCTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.15, C:0.37, G:0.00, T:0.49
Consensus pattern (9 bp):
TCTCTACTA
Found at i:1000774 original size:27 final size:31
Alignment explanation
Indices: 1000735--1000804 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
1000725 CTTCTCTTCT
1000735 CCTCCTATCATCT-CTCATCTCT-CTAT-TATC
1 CCTCCTATC-TCTACT-ATCTCTCCTATCTATC
* *
1000765 TCTCCTATCTCTACTATCTCTCCTATCTCTC
1 CCTCCTATCTCTACTATCTCTCCTATCTATC
1000796 CCTCCTATC
1 CCTCCTATC
1000805 ATCCCTCCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 9 0.26
30 14 0.41
31 11 0.32
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (31 bp):
CCTCCTATCTCTACTATCTCTCCTATCTATC
Found at i:1000795 original size:9 final size:9
Alignment explanation
Indices: 1000761--1000796 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
1000751 ATCTCTCTAT
1000761 TATCTCTCC
1 TATCTCTCC
*
1000770 TATCTCTAC
1 TATCTCTCC
1000779 TATCTCTCC
1 TATCTCTCC
1000788 TATCTCTCC
1 TATCTCTCC
1000797 CTCCTATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.14, C:0.42, G:0.00, T:0.44
Consensus pattern (9 bp):
TATCTCTCC
Found at i:1000811 original size:12 final size:13
Alignment explanation
Indices: 1000778--1000817 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
1000768 CCTATCTCTA
*
1000778 CTATCTCTCCTAT
1 CTATCCCTCCTAT
*
1000791 CTCTCCCTCCTAT
1 CTATCCCTCCTAT
1000804 C-ATCCCTCCTAT
1 CTATCCCTCCTAT
1000816 CT
1 CT
1000818 CTTCTTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.12, C:0.47, G:0.00, T:0.40
Consensus pattern (13 bp):
CTATCCCTCCTAT
Found at i:1004116 original size:42 final size:42
Alignment explanation
Indices: 1004062--1004184 Score: 176
Period size: 42 Copynumber: 2.9 Consensus size: 42
1004052 AAGAGAAAGA
* * *
1004062 AGAGAGAAGAGGGATGATAGGAGGAGAGACAGGAGAGATAGT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAAGAGAGATAAT
*
1004104 AGAGATAGGAGGGATGATAGGAGGAGAGACAAGAGAGATAAT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAAGAGAGATAAT
* *
1004146 AGAGAGAGGAGGGATGACAGGAGGAGGAGAGAAGA-AGAT
1 AGAGAGAGGAGGGATGATAGGAGGA-GAGACAAGAGAGAT
1004185 GGAAGAGTGA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 65 0.89
43 8 0.11
ACGTcount: A:0.44, C:0.02, G:0.45, T:0.09
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGATAGGAGGAGAGACAAGAGAGATAAT
Found at i:1010408 original size:20 final size:19
Alignment explanation
Indices: 1010364--1010438 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
1010354 TTCTATAATT
* *
1010364 TGTATCGATATAAACAGTAAA
1 TGTATCGATA-CAA-AGTGAA
1010385 TGTATCGATACATAAGTGAA
1 TGTATCGATACA-AAGTGAA
* * *
1010405 TGTATCAATACAATGAGATA
1 TGTATCGATACAAAGTGA-A
1010425 TGTATCGATACAAA
1 TGTATCGATACAAA
1010439 ACCACCCTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.09
20 30 0.67
21 11 0.24
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (19 bp):
TGTATCGATACAAAGTGAA
Found at i:1010868 original size:89 final size:89
Alignment explanation
Indices: 1010717--1010897 Score: 362
Period size: 89 Copynumber: 2.0 Consensus size: 89
1010707 GGCAAAGAGG
1010717 ATAAAGGAAGACCTAGAGAAGATGGTTGCTGGCCTATTTGAAAGTAGACCCAATTTGGAGTTAGA
1 ATAAAGGAAGACCTAGAGAAGATGGTTGCTGGCCTATTTGAAAGTAGACCCAATTTGGAGTTAGA
1010782 AGAGCCCAAGCTAGTTAATTGCAT
66 AGAGCCCAAGCTAGTTAATTGCAT
1010806 ATAAAGGAAGACCTAGAGAAGATGGTTGCTGGCCTATTTGAAAGTAGACCCAATTTGGAGTTAGA
1 ATAAAGGAAGACCTAGAGAAGATGGTTGCTGGCCTATTTGAAAGTAGACCCAATTTGGAGTTAGA
1010871 AGAGCCCAAGCTAGTTAATTGCAT
66 AGAGCCCAAGCTAGTTAATTGCAT
1010895 ATA
1 ATA
1010898 TTTGGAAGAT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 92 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
ATAAAGGAAGACCTAGAGAAGATGGTTGCTGGCCTATTTGAAAGTAGACCCAATTTGGAGTTAGA
AGAGCCCAAGCTAGTTAATTGCAT
Found at i:1012357 original size:12 final size:11
Alignment explanation
Indices: 1012340--1012410 Score: 51
Period size: 12 Copynumber: 6.5 Consensus size: 11
1012330 GAAAGAAGAG
1012340 AGGAGGGATGAT
1 AGGAGGGA-GAT
*
1012352 AGGAGGAGAGAC
1 AGGAGG-GAGAT
1012364 AGGA--GAGAT
1 AGGAGGGAGAT
*
1012373 AGTA--GAGAT
1 AGGAGGGAGAT
1012382 AGGAGGGATGAT
1 AGGAGGGA-GAT
*
1012394 AGGAGGAGAGAC
1 AGGAGG-GAGAT
1012406 AGGAG
1 AGGAG
1012411 AGATAATAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
9 15 0.31
11 2 0.04
12 28 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.48, T:0.10
Consensus pattern (11 bp):
AGGAGGGAGAT
Found at i:1012391 original size:42 final size:42
Alignment explanation
Indices: 1012336--1012443 Score: 189
Period size: 42 Copynumber: 2.6 Consensus size: 42
1012326 AAGAGAAAGA
*
1012336 AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAGTAG
1 AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAG
*
1012378 AGATAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAG
1 AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAG
*
1012420 AGAGAGGAGGGATGACAGGAGGAG
1 AGAGAGGAGGGATGATAGGAGGAG
1012444 GAGAGAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.41, C:0.03, G:0.47, T:0.09
Consensus pattern (42 bp):
AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAG
Found at i:1020452 original size:18 final size:18
Alignment explanation
Indices: 1020425--1020495 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
1020415 CTAGTCATCC
*
1020425 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTATTATCT
*
1020443 CTCCTGTCTCTCCTCTTATCAT
1 CTCCTG--TCT-CTATTATC-T
* *
1020465 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTATTATCT
1020485 CTCCTGTCTCT
1 CTCCTGTCTCT
1020496 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.42, G:0.03, T:0.45
Consensus pattern (18 bp):
CTCCTGTCTCTATTATCT
Found at i:1020469 original size:42 final size:42
Alignment explanation
Indices: 1020409--1020528 Score: 177
Period size: 42 Copynumber: 2.8 Consensus size: 42
1020399 TTCTTCTCTC
*
1020409 CTCCTCCTAGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTA-TCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
1020452 CTCCTCTTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* * *
1020494 CTCCTCCTATCATCCCCCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1020529 TTGAGGGCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
42 61 0.88
43 8 0.12
ACGTcount: A:0.09, C:0.46, G:0.03, T:0.42
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1023681 original size:90 final size:89
Alignment explanation
Indices: 1023529--1023710 Score: 355
Period size: 90 Copynumber: 2.0 Consensus size: 89
1023519 GGCAAAGAGG
1023529 ATAAAGGAAGACCTAGAGAAGATGGTTGCTGGCCTATTTGAAAGTAGACCCAATTTGGAGTTAGA
1 ATAAAGGAAGACCTAGAGAAGATGGTTGCTGGCCTATTTGAAAGTAGACCCAATTTGGAGTTAGA
1023594 AGAGCCCAAGCTAGTTAATTGCAT
66 AGAGCCCAAGCTAGTTAATTGCAT
1023618 ATAAAGGAAGACCTAGAGAAGATGGTTGCTAGGCCTATTTGAAAGTAGACCCAATTTGGAGTTAG
1 ATAAAGGAAGACCTAGAGAAGATGGTTGCT-GGCCTATTTGAAAGTAGACCCAATTTGGAGTTAG
1023683 AAGAGCCCAAGCTAGTTAATTGCAT
65 AAGAGCCCAAGCTAGTTAATTGCAT
1023708 ATA
1 ATA
1023711 TTTGGAAGAT
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 30 0.33
90 62 0.67
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
ATAAAGGAAGACCTAGAGAAGATGGTTGCTGGCCTATTTGAAAGTAGACCCAATTTGGAGTTAGA
AGAGCCCAAGCTAGTTAATTGCAT
Found at i:1026015 original size:234 final size:233
Alignment explanation
Indices: 1025607--1026073 Score: 693
Period size: 234 Copynumber: 2.0 Consensus size: 233
1025597 CCAAAACCAA
*
1025607 CCCCTTGTTTTTACCTTGTTCCAAGCTAGCAGCACAGCAGTCTTGGTTTCAAAAATCATTTTAAA
1 CCCCTTGTTTTTACCCTGTTCCAAGCTAGCAGCACAGCAGTCTTGGTTTCAAAAATCATTTTAAA
** ** *
1025672 ATACCAAATGTTTTTTTTTAATTTATAATATTTTTCCTTGAAATTGTGTCAAAATACCTTTTCGA
66 ATACCAAACCTTTTTTTTTAATTTATAATATTTTTCCTTGAAATTGTCCCAAAATACCTTTTCAA
*
1025737 CAGTGTCTTATTTTCCCATGAACAATTCCAGATGAGGGAGTTATGATATTTCGAACCTAAGCTAT
131 CAGTGTCTTATTTTCCCATGAACAATTCCAGATGAGGGAGTTATGATATTTCAAACCTAAGCTAT
* * * * *
1025802 CTAGAACC-CTTGGAATTAGCGAAATGCATTCTGGTTGG
196 CCAAAACCTC-TGGAATCAACGAAATGCATTCTAGTTGG
* *
1025840 CCCCTTGTTTTTACCCTGTTCCAAGCTGGCAGCATAGCAGTCTTGGTTTCAAAAATCATTTTAAA
1 CCCCTTGTTTTTACCCTGTTCCAAGCTAGCAGCACAGCAGTCTTGGTTTCAAAAATCATTTTAAA
* * *
1025905 ATACTAAACCTTTTTTTTTAATTTTCTAATATTTTTTCTTGAAATTGTCCCAAAATACCTTTTCA
66 ATACCAAACCTTTTTTTTTAA-TTTATAATATTTTTCCTTGAAATTGTCCCAAAATACCTTTTCA
* * ** * *
1025970 ACGGTGTCTTATTTTCCCTTGAACAATTCTGGATGAGGGAGTTATGATTTTTCAAACCTAAGCTG
130 ACAGTGTCTTATTTTCCCATGAACAATTCCAGATGAGGGAGTTATGATATTTCAAACCTAAGCTA
*
1026035 TCCAAAAGCTCTGGAATCAACGAAATGCATTCTAGTTGG
195 TCCAAAACCTCTGGAATCAACGAAATGCATTCTAGTTGG
1026074 ACTGTTTAGG
Statistics
Matches: 208, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
233 80 0.38
234 127 0.61
235 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (233 bp):
CCCCTTGTTTTTACCCTGTTCCAAGCTAGCAGCACAGCAGTCTTGGTTTCAAAAATCATTTTAAA
ATACCAAACCTTTTTTTTTAATTTATAATATTTTTCCTTGAAATTGTCCCAAAATACCTTTTCAA
CAGTGTCTTATTTTCCCATGAACAATTCCAGATGAGGGAGTTATGATATTTCAAACCTAAGCTAT
CCAAAACCTCTGGAATCAACGAAATGCATTCTAGTTGG
Found at i:1026858 original size:28 final size:28
Alignment explanation
Indices: 1026822--1026878 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
1026812 TCTATTTTGG
1026822 AGTTCAATTAATCGAAGAATCTAGATAA
1 AGTTCAATTAATCGAAGAATCTAGATAA
1026850 AGTTCAATTAATCGAAGAATCTAGATAA
1 AGTTCAATTAATCGAAGAATCTAGATAA
1026878 A
1 A
1026879 CCTCTAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (28 bp):
AGTTCAATTAATCGAAGAATCTAGATAA
Found at i:1027678 original size:12 final size:12
Alignment explanation
Indices: 1027658--1027692 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
1027648 AAGAGAAAGA
1027658 AGAGATAGGAGG
1 AGAGATAGGAGG
1027670 -GATGATAGGAGG
1 AGA-GATAGGAGG
1027682 AGAGATAGGAG
1 AGAGATAGGAG
1027693 AGATAGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.49, T:0.11
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:1027693 original size:9 final size:9
Alignment explanation
Indices: 1027679--1027725 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
1027669 GGATGATAGG
1027679 AGGAGAGAT
1 AGGAGAGAT
1027688 AGGAGAGAT
1 AGGAGAGAT
*
1027697 AGTAGAGAT
1 AGGAGAGAT
1027706 AGGAGAGAT
1 AGGAGAGAT
**
1027715 AATAGAGAT
1 AGGAGAGAT
1027724 AG
1 AG
1027726 AAGGGATGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.47, C:0.00, G:0.38, T:0.15
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:1027705 original size:18 final size:18
Alignment explanation
Indices: 1027682--1027725 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
1027672 TGATAGGAGG
*
1027682 AGAGATAGGAGAGATAGT
1 AGAGATAGGAGAGATAAT
1027700 AGAGATAGGAGAGATAAT
1 AGAGATAGGAGAGATAAT
1027718 AGAGATAG
1 AGAGATAG
1027726 AAGGGATGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (18 bp):
AGAGATAGGAGAGATAAT
Found at i:1035038 original size:28 final size:28
Alignment explanation
Indices: 1035004--1035068 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
1034994 TTCTTCTTTA
* *
1035004 TTGATTTCTTTTCCTTTGAAATTTCTTGG
1 TTGATTTCATTTCCTTTCAAATTTCTT-G
*
1035033 TT-ATTTCATTTCCTTTCATATTTCTTG
1 TTGATTTCATTTCCTTTCAAATTTCTTG
1035060 TTGATTTCA
1 TTGATTTCA
1035069 CTTCTTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 3 0.09
28 27 0.84
29 2 0.06
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.60
Consensus pattern (28 bp):
TTGATTTCATTTCCTTTCAAATTTCTTG
Found at i:1035083 original size:27 final size:28
Alignment explanation
Indices: 1035014--1035085 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
1035004 TTGATTTCTT
* * *
1035014 TTCCTTTGAAATTTCTTGGTTATTTCAT
1 TTCCTTTCATATTTCTTGGTTATTTCAC
1035042 TTCCTTTCATATTTCTT-GTTGATTTCAC
1 TTCCTTTCATATTTCTTGGTT-ATTTCAC
* *
1035070 TT-CTTTGATCTTTCTT
1 TTCCTTTCATATTTCTT
1035086 ATTTTTCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 15 0.39
28 23 0.61
ACGTcount: A:0.14, C:0.18, G:0.08, T:0.60
Consensus pattern (28 bp):
TTCCTTTCATATTTCTTGGTTATTTCAC
Found at i:1037359 original size:12 final size:11
Alignment explanation
Indices: 1037337--1037412 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1037327 AGAGAAAGAA
*
1037337 GAGAGAGGAGG
1 GAGATAGGAGG
1037348 GATGATAGGAGG
1 GA-GATAGGAGG
*
1037360 AGAGACAGGA--
1 -GAGATAGGAGG
*
1037370 GAGATAGTA--
1 GAGATAGGAGG
1037379 GAGATAGGAGG
1 GAGATAGGAGG
1037390 GATGATAGGAGG
1 GA-GATAGGAGG
*
1037402 AGAGACAGGAG
1 -GAGATAGGAG
1037413 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1037369 original size:24 final size:24
Alignment explanation
Indices: 1037336--1037421 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1037326 AAGAGAAAGA
*
1037336 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1037360 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1037378 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
1037402 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1037422 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1037388 original size:42 final size:42
Alignment explanation
Indices: 1037327--1037445 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1037317 TAGCCCTCAA
* *
1037327 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1037369 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1037411 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1037446 GAGAAAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1052666 original size:61 final size:61
Alignment explanation
Indices: 1052281--1053191 Score: 919
Period size: 62 Copynumber: 14.6 Consensus size: 61
1052271 CCACTTTTAG
* * * * *
1052281 CCTTTTAGTCCTCAAAAAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCTACACGAGTTGGTGGCA
* * * * * *
1052343 CCTTTTAGTCCTCAAAGAGCAAGTCACTTTTTTCTTTTCAAAG-CTCACATGAGTTGGTAGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCT-ACACGAGTTGGTGGCA
* * * *
1052405 CCTTTTAGTCCTCAAAGAGTAAGATGCCTTTTTCTTTTCAAAGCCTAAACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCTACACGAGTTGGTGGCA
* * *
1052467 CCTTTTAGTCCTTAAAGAGCAGGACGCCTTTTTTCTTTTTAAAAGCCGACACTAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCC-TTTTTC-TTTT-AAAGCCTACACGAGTTGGTGGCA
* * * * * * *
1052531 CCTTTTAGTCCTCAAAGAGTAAGACACCTTTTTCTTTTTGAAGCCCATATGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCTACACGAGTTGGTGGCA
* ** *
1052593 CCTTTTAGTCCTCAAAGAGTAGGATACCTTTTTCTTTTAAAGCCTACATGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCTACACGAGTTGGTGGCA
* * * * *
1052654 CTTTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTATTTAAATCCTACATGATTTGGTGGCAA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCT-TTTAAAGCCTACACGAGTTGGTGGC-A
* *
1052717 CC-TTTAGTCCTTAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCTACACGAGTTGGTGGCA
* * * * *
1052777 CCTTTTAGTCCACAAAGAGCAGGATGCCTTTTCCTTTTAAAACCCACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCTACACGAGTTGGTGGCA
* * * * * * *
1052838 CTTTTTAGTCCTCAAAAAGCAGG-CGCCTCTTTCTTTTAAAGCCCATAGGAGTTGGTGACA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCTACACGAGTTGGTGGCA
* * * * *
1052898 CCTTTTAGTCCTCAAAGAGCAAGATGCCTCTTTCTTTTAAGGCCTACACGAGTTGGTGACA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCTACACGAGTTGGTGGCA
* ** * * * * *
1052959 CCTTTTAGTCATCAAAGAATAAGACACTTTTTTCTTTTTAAAGCCTATACGAGTTGGTGACA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCTACACGAGTTGGTGGCA
* * * ** * * *
1053021 CCTTTCAATTCTCAAAGAGTGGGACGCCTTTTTCTGTTCAAAGCCCACATGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCT-TTTAAAGCCTACACGAGTTGGTGGCA
* * * * * *
1053083 CCTTTTAGTCCTCAAAAAGCTGGACACTTCCTTTTTTTTCCTTTAAAAGCCTACACAAGCTGGTG
1 CCTTTTAGTCCTCAAAGAGCAGG--AC-GCC---TTTTT-CTTTTAAAGCCTACACGAGTTGGTG
1053148 GCA
59 GCA
*
1053151 CCTTTTAGTCCTCAAAGAGCATGACGTACCTTATTTCTTTT
1 CCTTTTAGTCCTCAAAGAGCAGGACG--CCTT-TTTCTTTT
1053192 TTTTCTTTGT
Statistics
Matches: 711, Mismatches: 118, Indels: 38
0.82 0.14 0.04
Matches are distributed among these distances:
60 53 0.07
61 209 0.29
62 315 0.44
63 21 0.03
64 56 0.08
65 5 0.01
66 2 0.00
67 2 0.00
68 46 0.06
69 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCTACACGAGTTGGTGGCA
Found at i:1052711 original size:123 final size:122
Alignment explanation
Indices: 1052281--1053171 Score: 942
Period size: 123 Copynumber: 7.2 Consensus size: 122
1052271 CCACTTTTAG
* * *
1052281 CCTTTTAGTCCTCAAAAAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCT
* * * * *
1052346 TTTAGTCCTCAAAGAGCAAGTCACTTTTTTCTTTTCAAAG-CTCACATGAGTTGGTAGCA
65 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTT-AAAGCCT-ACACGAGTTGGTGGCA
* * * *
1052405 CCTTTTAGTCCTCAAAGAGTAAGATGCCTTTTTCTTTTCAAAGCCTAAACGAGTTGGTGGCACCT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCT
* * * *
1052470 TTTAGTCCTTAAAGAGCAGGACGCCTTTTTTCTTTTTAAAAGCCGACACTAGTTGGTGGCA
65 TTTAGTCCTCAAAGAGCAGGACACC-TTTTTC-TTTT-AAAGCCTACACGAGTTGGTGGCA
* * ** * * *
1052531 CCTTTTAGTCCTCAAAGAGTAAGACACCTTTTTCTTTTTGAAGCCCATATGAGTTGGTGGCACCT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCT
* * *
1052596 TTTAGTCCTCAAAGAGTAGGATACCTTTTTCTTTTAAAGCCTACATGAGTTGGTGGCA
65 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTAAAGCCTACACGAGTTGGTGGCA
* ** * * * *
1052654 CTTTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTATTTAAATCCTACATGATTTGGTGGCAACC
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCT-TTTAAAGCCCACACGAGTTGGTGGC-ACC
* * *
1052719 -TTTAGTCCTTAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCTACACAAGTTGGTGGCA
64 TTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTAAAGCCTACACGAGTTGGTGGCA
* * * *
1052777 CCTTTTAGTCCACAAAGAGCAGGATGCCTTTTCCTTTTAAAACCCACACGAGTTGGTGGCACTTT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTT
* * * * * * *
1052842 TTAGTCCTCAAAAAGCAGG-CGCCTCTTTCTTTTAAAGCCCATAGGAGTTGGTGACA
66 TTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTAAAGCCTACACGAGTTGGTGGCA
* * * * *
1052898 CCTTTTAGTCCTCAAAGAGCAAGATGCCTCTTTCTTTTAAGGCCTACACGAGTTGGTGACACCTT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTT
* ** * * * *
1052963 TTAGTCATCAAAGAATAAGACACTTTTTTCTTTTTAAAGCCTATACGAGTTGGTGACA
66 TTAGTCCTCAAAGAGCAGGACACCTTTTTC-TTTTAAAGCCTACACGAGTTGGTGGCA
* * * ** * * *
1053021 CCTTTCAATTCTCAAAGAGTGGGACGCCTTTTTCTGTTCAAAGCCCACATGAGTTGGTGGCACCT
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCT-TTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * *
1053086 TTTAGTCCTCAAAAAGCTGGACACTTCCTTTTTTTTCCTTTAAAAGCCTACACAAGCTGGTGGCA
65 TTTAGTCCTCAAAGAGCAGGACA---CC---TTTTT-CTTTTAAAGCCTACACGAGTTGGTGGCA
1053151 CCTTTTAGTCCTCAAAGAGCA
1 CCTTTTAGTCCTCAAAGAGCA
1053172 TGACGTACCT
Statistics
Matches: 641, Mismatches: 109, Indels: 28
0.82 0.14 0.04
Matches are distributed among these distances:
121 103 0.16
122 47 0.07
123 205 0.32
124 128 0.20
125 12 0.02
126 96 0.15
127 6 0.01
130 43 0.07
131 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (122 bp):
CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTT
TTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTAAAGCCTACACGAGTTGGTGGCA
Found at i:1053229 original size:42 final size:42
Alignment explanation
Indices: 1053158--1053549 Score: 243
Period size: 42 Copynumber: 9.4 Consensus size: 42
1053148 GCACCTTTTA
* * * * *
1053158 GTCCTCAAAGAGCATGACGTACCTTATTTCTTTTTTTTCTTT
1 GTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTTTCCTTT
* * *
1053200 GTCCTCAAAGAGCAAGAAGCACTTCATTTCCGTTTTTTCTTTT
1 GTCCTCAAAGAGCAAGACGCACTTTATTTCC-TTTTTTCCTTT
* * *
1053243 GTCCTCAAAGAGCAAGACACATTTTATTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTTTCCTTT
* * * * * *
1053285 TTCTTCAAAGAGCAGGATGCA-TTTTTTTCCCTTTTTCCTTT
1 GTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTTTCCTTT
* * *
1053326 ATCTTCAAAGAGCAAGACGCACTTTATTTTC-TTTTTCCTTT
1 GTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTTTCCTTT
* * * * *
1053367 GACCTCAAGGAGTAGGACCCA-TTTCATTCTCCTTTTTTTTCCTTT
1 GTCCTCAAAGAGCAAGACGCACTTT-ATT-TCC--TTTTTTCCTTT
* * *
1053412 GTCCCCGAAGAGCAAGACG-----TA-TTCC-TTTTCCTCTTT
1 GTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTTTC-CTTT
* * * * *
1053448 GTCCTCAAGGAGC-AGA-ACACTTTCCTTT-CTCCTTTTCTCATT
1 GTCCTCAAAGAGCAAGACGCACTTT-ATTTCCT-TTTTTC-CTTT
* * * * ** *
1053490 ATCCTCAAAGAGTAGGACACTTTTCTTTTTCCTTTTTTCCTTT
1 GTCCTCAAAGAGCAAGACGCACTT-TATTTCCTTTTTTCCTTT
1053533 GTCCTCAAAGAGCAAGA
1 GTCCTCAAAGAGCAAGA
1053550 GGCCCCCTCC
Statistics
Matches: 266, Mismatches: 63, Indels: 41
0.72 0.17 0.11
Matches are distributed among these distances:
35 8 0.03
36 14 0.05
38 3 0.01
39 2 0.01
40 5 0.02
41 65 0.24
42 77 0.29
43 55 0.21
44 12 0.05
45 25 0.09
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.41
Consensus pattern (42 bp):
GTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTTTCCTTT
Found at i:1053296 original size:85 final size:82
Alignment explanation
Indices: 1053152--1053549 Score: 238
Period size: 85 Copynumber: 4.8 Consensus size: 82
1053142 CTGGTGGCAC
* * * * *
1053152 CTTTTAGTCCTCAAAGAGCATGACGTACCTTATTTCTTTTTTTTCTTTGTCCTCAAAGAGCAAGA
1 CTTTT-GTCCTCAAAGAGCAAGACGCACTTTATTTC-CTTTTTCCTTTGTCCTCAAAGAGCAAGA
*
1053217 AGCACTTCATTTCCGTTTTTT
64 AGCA-TTCATTTCC-CTTTTT
* * * * * *
1053238 CTTTTGTCCTCAAAGAGCAAGACACATTTTATTTCCTTTTCTCCTTTTTCTTCAAAGAGCAGGAT
1 CTTTTGTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTT-TCCTTTGTCCTCAAAGAGCAAGAA
**
1053303 GCATTTTTTTCCCTTTTT
65 GCATTCATTTCCCTTTTT
* * * * * * * * **
1053321 CCTTTATCTTCAAAGAGCAAGACGCACTTTATTTTCTTTTTCCTTTGACCTCAAGGAGTAGGACC
1 CTTTTGTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGAAG
*
1053386 CATTTCATTCTCCTTTTTTTT
66 CA-TTCATT-TCC--CTTTTT
* * * * *
1053407 CCTTTGTCCCCGAAGAGCAAGACG-----TA-TTCCTTTTCCTCTTTGTCCTCAAGGAGC-AGAA
1 CTTTTGTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTTC-CTTTGTCCTCAAAGAGCAAGAA
*
1053465 -CACTTTCCTTTCTCC-TTTT
65 GCA--TTCATTTC-CCTTTTT
* * * * * ** *
1053484 CTCATTATCCTCAAAGAGTAGGACACTTTTCTTTTTCCTTTTTTCCTTTGTCCTCAAAGAGCAAG
1 CT-TTTGTCCTCAAAGAGCAAGACGCACTT-TATTTCC-TTTTTCCTTTGTCCTCAAAGAGCAAG
1053549 A
63 A
1053550 GGCCCCCTCC
Statistics
Matches: 241, Mismatches: 53, Indels: 36
0.73 0.16 0.11
Matches are distributed among these distances:
77 5 0.02
78 15 0.06
79 4 0.02
80 17 0.07
81 17 0.07
82 20 0.08
83 43 0.18
84 15 0.06
85 67 0.28
86 38 0.16
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (82 bp):
CTTTTGTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGAAG
CATTCATTTCCCTTTTT
Found at i:1053331 original size:41 final size:40
Alignment explanation
Indices: 1053190--1053366 Score: 158
Period size: 41 Copynumber: 4.2 Consensus size: 40
1053180 CTTATTTCTT
* * * * **
1053190 TTTTTTCTTTGTCCTCAAAGAGCAAGAAGCACTTCATTTCC
1 TTTTTCCTTTATCTTCAAAGAGCAAGACGCA-TTTTTTTCC
* * * *
1053231 GTTTTTTCTTTTGTCCTCAAAGAGCAAGACACATTTTATTTCC
1 --TTTTTCCTTTATCTTCAAAGAGCAAGACGCATTTT-TTTCC
* * *
1053274 TTTTCTCCTTTTTCTTCAAAGAGCAGGATGCATTTTTTTCCC
1 TTTT-TCCTTTATCTTCAAAGAGCAAGACGCATTTTTTT-CC
1053316 TTTTTCCTTTATCTTCAAAGAGCAAGACGCACTTTATTTT-C
1 TTTTTCCTTTATCTTCAAAGAGCAAGACGCA-TTT-TTTTCC
1053357 TTTTTCCTTT
1 TTTTTCCTTT
1053367 GACCTCAAGG
Statistics
Matches: 114, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
41 42 0.37
42 36 0.32
43 36 0.32
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.46
Consensus pattern (40 bp):
TTTTTCCTTTATCTTCAAAGAGCAAGACGCATTTTTTTCC
Found at i:1057033 original size:78 final size:79
Alignment explanation
Indices: 1056780--1057046 Score: 342
Period size: 80 Copynumber: 3.4 Consensus size: 79
1056770 AAAATATCAA
** *
1056780 TTTTCCACCATCGGGGATACTCCAA-CATTGTTATTTCCAAGGGGATACTCTAACCCTAGTTTTA
1 TTTTCCACCATCGGGGATACTCCAATC-CCGTTATTTCCGAGGGGATACTCTAACCC-AGTTTTA
1056844 TTCCTAAAACACTGAT
64 TTCCTAAAACACTGAT
* * * * *
1056860 TTTTCCACTATCGGAGATACTCCAATCCCGTTATTTCTGAAGGGATACTCTAACCCTGATTTTAT
1 TTTTCCACCATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCTAACCCAG-TTTTAT
* ** *
1056925 TTCTAAAGTATTGA-
65 TCCTAAAACACTGAT
*
1056939 TTTTCCACCATCGGGGATACTCCAATCCCGTTA-TTCCGAGGGGATACTCTAACTCAGTTTTATT
1 TTTTCCACCATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCTAACCCAGTTTTATT
1057003 CCTAAAACACTGAT
66 CCTAAAACACTGAT
* * *
1057017 TTTTCCACTATTGGGGATACTCCAACCCCG
1 TTTTCCACCATCGGGGATACTCCAATCCCG
1057047 ATTTTATTTC
Statistics
Matches: 159, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
77 16 0.10
78 47 0.30
79 32 0.20
80 63 0.40
81 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (79 bp):
TTTTCCACCATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCTAACCCAGTTTTATT
CCTAAAACACTGAT
Found at i:1057060 original size:52 final size:50
Alignment explanation
Indices: 1056978--1057094 Score: 146
Period size: 52 Copynumber: 2.3 Consensus size: 50
1056968 GTTATTCCGA
* * * *
1056978 GGGGATACTCTAACTCAGTTTTATTCCTAAAACACTGATTTTTCCACTATT
1 GGGGATACTCCAACCCAGTTTTATTCCTAAAACACTAATTTTT-CACCATT
* *
1057029 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTTCACCATT
1 GGGGATACTCCAACCCAG-TTTTATTCCTAAAACACTAATTTTTCACCATT
*
1057080 -GAGATACTCCAACCC
1 GGGGATACTCCAACCC
1057095 TGTTATTTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
50 14 0.24
51 21 0.36
52 23 0.40
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (50 bp):
GGGGATACTCCAACCCAGTTTTATTCCTAAAACACTAATTTTTCACCATT
Found at i:1057103 original size:52 final size:52
Alignment explanation
Indices: 1056996--1057094 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
1056986 TCTAACTCAG
* * *
1056996 TTTTATTCCTAAAACACTGATTTTTCCACTATTGGGGATACTCCAACCCCGA
1 TTTTATTCCTAAAACACTAATTTTTCCACCATTGGAGATACTCCAACCCCGA
*
1057048 TTTTATTTCTAAAACACTAATTTTT-CACCATT-GAGATACTCCAACCC
1 TTTTATTCCTAAAACACTAATTTTTCCACCATTGGAGATACTCCAACCC
1057095 TGTTATTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 14 0.33
51 6 0.14
52 23 0.53
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.36
Consensus pattern (52 bp):
TTTTATTCCTAAAACACTAATTTTTCCACCATTGGAGATACTCCAACCCCGA
Found at i:1057111 original size:78 final size:78
Alignment explanation
Indices: 1057029--1057279 Score: 317
Period size: 79 Copynumber: 3.2 Consensus size: 78
1057019 TTCCACTATT
* *
1057029 GGGGATACTCCAACCCCGATTTTATTTCTAAAACA-CTAATTTTTCACCATTGAGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATC-GATTTTTCACCATAGAGATACTCCAAC
* *
1057093 CCTGTTATTTTCGA
65 CCTATTATTTTTGA
* *
1057107 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACCATAAGGGATACTCTAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACCAT-AGAGATACTCCAAC
*
1057172 CTTATTATTTTTGA
65 CCTATTATTTTTGA
* * * * ** *
1057186 GGAGATACTTCAA-CCCTAGTTTTATTTCTAAAACATCGATTTTCCACCACCGAGGATATTCCAA
1 GGGGATACTCCAACCCCGA-TTTTATTTCTAAAACATCGATTTTTCACCATAGA-GATACTCCAA
1057250 CCCTATTATTTTTGA
64 CCCTATTATTTTTGA
*
1057265 GGGGATACTCTAACC
1 GGGGATACTCCAACC
1057280 TTGCTATTCC
Statistics
Matches: 148, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
78 52 0.35
79 95 0.64
80 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACCATAGAGATACTCCAACC
CTATTATTTTTGA
Found at i:1057163 original size:129 final size:129
Alignment explanation
Indices: 1056899--1057172 Score: 331
Period size: 129 Copynumber: 2.1 Consensus size: 129
1056889 GTTATTTCTG
* ** * * *
1056899 AAGGGATACTCTAACCCTGATTTTATTTCTAAAGTATTGATTTTCCACCATCGGGGATACTCCAA
1 AAGGGATACTCTAACCCCGATTTTATTTCTAAAACACTAATTTTCCACCATCGGAGATACTCCAA
* * *
1056964 TCCCGTTATTCCGAGGGGATACTCTAACTCAGTTTTATTCCTAAAACACTGATTTTTCCACTAT
66 TCCCGTTATTCCGAGGGGATACTCCAACCCAGTTTTATTCCTAAAACACTGATTTTTCCACCAT
** * * *
1057028 TGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTTCACCAT-TGAGATACTCCAA
1 AAGGGATACTCTAACCCCGATTTTATTTCTAAAACACTAATTTTCCACCATCGGAGATACTCCAA
* * *
1057092 -CCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACA-TCGATTTTT-CAC
66 TCCC-GTTA-TTCCGAGGGGATACTCCAACCCAG-TTTTATTCCTAAAACACT-GATTTTTCCAC
1057154 CAT
127 CAT
1057157 AAGGGATACTCTAACC
1 AAGGGATACTCTAACC
1057173 TTATTATTTT
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
127 3 0.02
128 15 0.12
129 81 0.67
130 22 0.18
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (129 bp):
AAGGGATACTCTAACCCCGATTTTATTTCTAAAACACTAATTTTCCACCATCGGAGATACTCCAA
TCCCGTTATTCCGAGGGGATACTCCAACCCAGTTTTATTCCTAAAACACTGATTTTTCCACCAT
Done.